Query         gi|254780170|ref|YP_003064583.1| cationic amino acid ABC transporter, periplasmic binding protein [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 342
No_of_seqs    256 out of 2355
Neff          6.3 
Searched_HMMs 39220
Date          Mon May 23 14:37:35 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780170.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 TIGR01096 3A0103s03R lysine-ar 100.0       0       0  529.0  20.5  288   22-314    15-333 (333)
  2 PRK10797 glutamate and asparta 100.0       0       0  407.6  23.3  225   21-247    27-255 (302)
  3 PRK11917 bifunctional adhesin/ 100.0       0       0  374.8  25.2  239    2-247     4-245 (259)
  4 PRK11260 cystine transporter s 100.0       0       0  343.1  23.0  238    1-249     4-245 (264)
  5 PRK09495 glnH glutamine ABC tr 100.0 6.4E-43       0  292.2  21.8  224    1-245     1-225 (247)
  6 COG0834 HisJ ABC-type amino ac 100.0 2.1E-33 5.3E-38  231.9  22.6  221   26-251    26-252 (275)
  7 cd00134 PBPb Bacterial peripla 100.0 1.2E-33 2.9E-38  233.6  19.9  207   36-253     1-209 (218)
  8 smart00062 PBPb Bacterial peri 100.0 3.4E-32 8.6E-37  224.3  20.6  211   35-254     1-211 (219)
  9 pfam00497 SBP_bac_3 Bacterial  100.0 4.9E-31 1.2E-35  216.9  19.5  205   36-250     1-210 (224)
 10 PRK10859 putative transglycosy  99.9 2.1E-24 5.3E-29  174.9  23.1  229    4-242     8-246 (507)
 11 TIGR02995 ectoine_ehuB ectoine  99.9 8.7E-26 2.2E-30  183.6  14.0  245   10-263    10-275 (285)
 12 PRK09959 hybrid sensory histid  99.9 1.3E-21 3.3E-26  157.2  18.9  217   29-258   297-516 (1197)
 13 PRK09959 hybrid sensory histid  99.8 1.9E-18 4.9E-23  137.1  21.1  246    1-258     1-273 (1197)
 14 COG4623 Predicted soluble lyti  99.7 2.8E-16 7.2E-21  123.4  15.9  218   24-255    13-236 (473)
 15 PRK11553 alkanesulfonate trans  99.7 1.5E-14 3.8E-19  112.5  16.5  182    1-205     1-191 (314)
 16 TIGR03431 PhnD phosphonate ABC  99.5 1.9E-12 4.9E-17   99.1  14.8  227    1-247     1-248 (288)
 17 COG3221 PhnD ABC-type phosphat  99.4 1.2E-11 3.1E-16   94.1  13.3  236    1-246     1-256 (299)
 18 PRK11480 tauA taurine transpor  99.3 5.6E-11 1.4E-15   89.8  12.8  153   35-205    24-184 (320)
 19 TIGR01098 3A0109s03R phosphona  99.2 4.4E-09 1.1E-13   77.9  17.1  233    1-245     1-296 (299)
 20 pfam09084 NMT1 NMT1/THI5 like.  99.1   3E-09 7.7E-14   78.9  12.7  120   76-197    21-147 (216)
 21 COG0715 TauA ABC-type nitrate/  99.1 3.1E-09 7.9E-14   78.8  10.9  178   77-257    62-252 (335)
 22 TIGR03427 ABC_peri_uca ABC tra  99.0 1.6E-09 4.1E-14   80.6   9.0  167   34-218     2-178 (328)
 23 KOG1052 consensus               99.0 1.2E-07 3.2E-12   68.7  18.1  258   32-305   214-605 (656)
 24 KOG1053 consensus               99.0 1.1E-09 2.8E-14   81.7   5.9  185   57-245   466-788 (1258)
 25 COG3181 Uncharacterized protei  98.6 4.2E-06 1.1E-10   59.0  14.0  245   58-312    41-314 (319)
 26 COG2358 Imp TRAP-type uncharac  98.6 4.7E-07 1.2E-11   65.0   8.4  153   34-197    26-193 (321)
 27 COG4521 TauA ABC-type taurine   98.5 2.9E-06 7.4E-11   60.0  11.5  175    6-204    10-191 (334)
 28 KOG4440 consensus               98.5 6.8E-07 1.7E-11   64.0   8.1  188   57-257   463-796 (993)
 29 pfam03401 Bug Tripartite trica  98.3 4.7E-06 1.2E-10   58.7   8.5  223   64-311     2-270 (274)
 30 KOG1054 consensus               98.2 2.2E-06 5.7E-11   60.7   5.1  104   27-134   411-531 (897)
 31 TIGR01729 taurine_ABC_bnd taur  98.2 6.7E-06 1.7E-10   57.7   7.2  158   36-205     1-166 (304)
 32 COG1638 DctP TRAP-type C4-dica  98.1 7.2E-05 1.8E-09   51.2  10.2  146   52-206    37-221 (332)
 33 TIGR01728 SsuA_fam ABC transpo  98.0 5.2E-05 1.3E-09   52.0   8.4  176   75-254    31-226 (311)
 34 smart00079 PBPe Eukaryotic hom  98.0 4.1E-05 1.1E-09   52.7   7.7  109  136-256     1-123 (134)
 35 pfam00060 Lig_chan Ligand-gate  97.8 0.00017 4.3E-09   48.8   8.4  165  128-304    91-269 (270)
 36 pfam03480 SBP_bac_7 Bacterial   97.8 0.00029 7.4E-09   47.3   9.5  138   59-205    13-188 (285)
 37 pfam04069 OpuAC Substrate bind  97.7 0.00049 1.3E-08   45.9   9.6  131   63-199    19-178 (256)
 38 PRK00489 hisG ATP phosphoribos  97.5  0.0011 2.9E-08   43.6   9.6  197   77-295    45-250 (287)
 39 PRK11119 proX glycine betaine   97.5   0.005 1.3E-07   39.5  12.3  176    1-199     2-212 (332)
 40 PRK09861 cytoplasmic membrane   97.4   0.013 3.3E-07   36.8  13.6  194   14-235    18-239 (272)
 41 PRK12681 cysB transcriptional   97.3   0.015 3.8E-07   36.5  13.1  217   32-277    91-316 (324)
 42 PRK12679 cbl transcriptional r  97.2   0.022 5.5E-07   35.5  15.6  204   32-264    91-303 (316)
 43 PRK12683 transcriptional regul  97.1   0.026 6.7E-07   34.9  12.1  180   32-235    91-279 (308)
 44 COG1464 NlpA ABC-type metal io  97.0  0.0098 2.5E-07   37.6   9.5  228    1-278     1-257 (268)
 45 COG1910 Periplasmic molybdate-  97.0   0.011 2.7E-07   37.4   9.6  151   78-240    20-192 (223)
 46 PRK09501 potD spermidine/putre  96.9   0.037 9.4E-07   34.0  16.8  240    1-277     1-304 (348)
 47 PRK12680 transcriptional regul  96.9   0.038 9.7E-07   33.9  18.1  220   32-297    91-320 (327)
 48 COG2113 ProX ABC-type proline/  96.9   0.037 9.4E-07   34.0  11.6  117   63-181    45-181 (302)
 49 pfam03466 LysR_substrate LysR   96.9   0.041 1.1E-06   33.7  15.0  190   32-245     4-205 (209)
 50 PRK11063 metQ DL-methionine tr  96.9   0.016   4E-07   36.4   9.6  206    1-235     3-238 (271)
 51 PRK12682 transcriptional regul  96.4   0.079   2E-06   31.9  10.7  182   32-237    91-281 (309)
 52 PRK11242 DNA-binding transcrip  96.4   0.086 2.2E-06   31.6  13.1  177   32-235    89-275 (292)
 53 PRK12684 transcriptional regul  96.3   0.096 2.4E-06   31.4  12.4  181   32-236    91-280 (313)
 54 TIGR03414 ABC_choline_bnd chol  96.3   0.083 2.1E-06   31.8  10.0  130   61-196    24-178 (290)
 55 COG1732 OpuBC Periplasmic glyc  96.2   0.074 1.9E-06   32.0   9.6  198   32-254    31-275 (300)
 56 COG0725 ModA ABC-type molybdat  96.2    0.11 2.9E-06   30.9  12.3  212    1-235     1-228 (258)
 57 TIGR00212 hemC porphobilinogen  96.0   0.043 1.1E-06   33.5   7.4  136   87-242    62-217 (312)
 58 PRK10677 modA molybdate transp  96.0    0.15 3.8E-06   30.2  15.3  176    1-198     1-195 (257)
 59 COG4663 FcbT1 TRAP-type mannit  95.9   0.066 1.7E-06   32.4   7.9  145   33-194    34-218 (363)
 60 pfam09084 NMT1 NMT1/THI5 like.  95.7   0.025 6.4E-07   35.1   5.4   76  162-240    14-91  (216)
 61 COG0040 HisG ATP phosphoribosy  95.7   0.051 1.3E-06   33.1   6.6  179   78-277    45-237 (290)
 62 PRK01686 hisG ATP phosphoribos  95.3   0.059 1.5E-06   32.7   6.0  131   77-224    46-180 (212)
 63 pfam03180 Lipoprotein_9 NLPA l  95.2    0.28   7E-06   28.4  11.7  158   64-234    17-202 (236)
 64 PRK09791 putative DNA-binding   95.1     0.3 7.6E-06   28.2  14.3  182   32-235    93-281 (302)
 65 TIGR02424 TF_pcaQ pca operon t  94.5    0.42 1.1E-05   27.3   9.4  164   76-249   122-295 (300)
 66 TIGR02122 TRAP_TAXI TRAP trans  94.3    0.14 3.5E-06   30.4   5.8  184    1-203     1-199 (319)
 67 pfam01634 HisG ATP phosphoribo  94.3    0.44 1.1E-05   27.2   8.3  123   87-224     5-133 (161)
 68 pfam01379 Porphobil_deam Porph  94.2    0.44 1.1E-05   27.2   8.1  145   87-241    61-212 (213)
 69 CHL00180 rbcR LysR transcripti  94.0    0.55 1.4E-05   26.6  12.3  188   27-235    86-287 (307)
 70 PRK00072 hemC porphobilinogen   93.9    0.56 1.4E-05   26.5   8.6  146   86-242    63-216 (300)
 71 PRK10682 putrescine transporte  93.6    0.63 1.6E-05   26.2  17.8  232    2-262     5-320 (370)
 72 PRK01066 porphobilinogen deami  93.4    0.68 1.7E-05   26.0  10.6  141   88-242    81-227 (234)
 73 PRK11480 tauA taurine transpor  93.3    0.41 1.1E-05   27.3   6.7   23  249-271   251-273 (320)
 74 TIGR03339 phn_lysR aminoethylp  93.0    0.78   2E-05   25.6  11.0  172   33-234    86-266 (279)
 75 TIGR02285 TIGR02285 conserved   92.9    0.82 2.1E-05   25.4   9.5  202   35-241    20-260 (293)
 76 PRK09986 DNA-binding transcrip  92.7    0.87 2.2E-05   25.3  11.8  177   32-234    79-264 (278)
 77 TIGR00787 dctP TRAP transporte  92.7   0.097 2.5E-06   31.3   2.7  189   53-255     7-244 (267)
 78 PRK10341 DNA-binding transcrip  92.5    0.91 2.3E-05   25.2  12.9  159   76-245   126-291 (312)
 79 cd00494 HMBS Hydroxymethylbila  92.4    0.93 2.4E-05   25.1   9.0  146   86-242    59-212 (292)
 80 pfam03180 Lipoprotein_9 NLPA l  92.0    0.18 4.7E-06   29.6   3.5   91  147-240     2-112 (236)
 81 PRK11151 DNA-binding transcrip  91.6     1.2 2.9E-05   24.5  16.1  179   33-235    90-277 (305)
 82 TIGR03427 ABC_peri_uca ABC tra  90.9    0.39 9.9E-06   27.5   4.2   60   47-110    99-164 (328)
 83 PRK11233 nitrogen assimilation  90.8     1.4 3.5E-05   24.0  16.9  181   32-235    89-275 (305)
 84 COG0181 HemC Porphobilinogen d  90.0     1.6 4.1E-05   23.6   7.4  146   86-242    62-215 (307)
 85 smart00094 TR_FER Transferrin.  90.0    0.73 1.9E-05   25.8   5.0  188   62-256    12-280 (332)
 86 PRK09861 cytoplasmic membrane   90.0    0.42 1.1E-05   27.3   3.7   94  144-240    32-146 (272)
 87 PRK13583 hisG ATP phosphoribos  89.9     1.7 4.2E-05   23.5   7.5  134   77-219    46-195 (226)
 88 PRK09906 DNA-binding transcrip  89.3     1.9 4.7E-05   23.2  14.2  178   31-234    87-275 (296)
 89 PRK11716 DNA-binding transcrip  88.7       2 5.2E-05   22.9  11.4  179   33-234    66-253 (269)
 90 PRK10523 lipoprotein involved   87.6    0.94 2.4E-05   25.1   4.2   57    1-57      2-70  (234)
 91 PRK10852 thiosulfate transport  87.5     2.4 6.1E-05   22.5  11.0  181  119-318   115-327 (338)
 92 TIGR00070 hisG ATP phosphoribo  87.2     1.8 4.6E-05   23.3   5.5  187   76-277    44-262 (317)
 93 COG4588 AcfC Accessory coloniz  87.1     2.5 6.5E-05   22.3  13.2  130   61-197    36-191 (252)
 94 PRK09508 leuO leucine transcri  86.9     2.6 6.6E-05   22.3  10.3  141   76-229   141-288 (314)
 95 COG0001 HemL Glutamate-1-semia  84.9     1.5 3.8E-05   23.8   4.1  115   54-197    89-207 (432)
 96 PRK11898 prephenate dehydratas  84.8       2 5.1E-05   23.0   4.7  131   63-205    13-157 (285)
 97 TIGR00713 hemL glutamate-1-sem  83.6     2.7 6.9E-05   22.1   5.0  116   54-197    84-207 (434)
 98 PRK11062 nhaR transcriptional   83.4     3.8 9.6E-05   21.3  10.8  145   33-195    92-241 (296)
 99 PRK13584 hisG ATP phosphoribos  83.2     3.6 9.2E-05   21.4   5.5  107   77-196    44-150 (204)
100 PRK10622 pheA bifunctional cho  83.2     2.9 7.3E-05   22.0   4.9  137   46-197   105-255 (386)
101 PRK11899 prephenate dehydratas  81.1     4.3 0.00011   20.9   5.2  130   48-196     8-150 (284)
102 PRK09701 D-allose transporter   81.1     4.6 0.00012   20.7  14.4   82    1-103     1-89  (311)
103 pfam00800 PDT Prephenate dehyd  81.0     2.5 6.5E-05   22.3   4.0  118   65-195    12-145 (181)
104 PRK11873 arsM arsenite S-adeno  76.7     6.2 0.00016   19.9   6.9  132   51-189    96-240 (258)
105 TIGR03227 PhnS 2-aminoethylpho  76.2     6.4 0.00016   19.8  16.5  181   64-250    58-295 (367)
106 PRK11013 DNA-binding transcrip  75.5     6.7 0.00017   19.7  14.1  178   32-235    92-278 (309)
107 TIGR02294 nickel_nikA nickel A  75.2       5 0.00013   20.5   4.1   80  170-249   199-284 (513)
108 COG4939 Major membrane immunog  74.3     2.1 5.4E-05   22.8   2.0   69    1-69      1-86  (147)
109 PRK07377 hypothetical protein;  72.6     6.7 0.00017   19.7   4.2   67   29-103    70-137 (185)
110 PRK10959 outer membrane protei  71.1     3.8 9.6E-05   21.2   2.7   24    1-24      1-24  (212)
111 PRK10137 predicted glycosyl hy  70.7     3.9   1E-04   21.2   2.7   29    1-29      1-29  (781)
112 PRK06934 flavodoxin; Provision  70.4       8  0.0002   19.2   4.2   35   47-81     60-94  (221)
113 PRK09408 ompX outer membrane p  67.7       9 0.00023   18.9   4.0   35    1-43      1-35  (171)
114 PRK10877 thiol:disulfide inter  67.5      10 0.00026   18.5   5.3   35    1-35      1-35  (232)
115 PRK11482 putative DNA-binding   67.4      10 0.00026   18.5  12.5  157   77-248    94-262 (266)
116 pfam06649 DUF1161 Protein of u  65.6     8.6 0.00022   19.0   3.6   35    1-35      1-40  (75)
117 COG2107 Predicted periplasmic   64.4      12  0.0003   18.1   6.1   49  143-195    93-141 (272)
118 pfam06551 DUF1120 Protein of u  63.2     2.6 6.6E-05   22.3   0.5   39    1-39      1-39  (145)
119 TIGR03261 phnS2 putative 2-ami  62.4      13 0.00032   17.9  15.0  179   62-245    37-271 (334)
120 COG1511 Predicted membrane pro  61.5      13 0.00034   17.8   5.3   72   23-102    36-107 (780)
121 pfam02621 DUF178 Putative peri  61.1      13 0.00034   17.8   6.7  169   76-265    25-206 (248)
122 PRK09755 putative binding prot  60.5      14 0.00035   17.7   6.4   73  171-246   242-317 (535)
123 PRK04405 prsA peptidylprolyl i  60.1     5.9 0.00015   20.0   1.9   46  155-206   129-179 (298)
124 pfam10613 Lig_chan-Glu_bd Liga  60.0      10 0.00026   18.5   3.2   20   53-72     15-34  (65)
125 TIGR02977 phageshock_pspA phag  59.9     6.9 0.00018   19.6   2.2   26  235-276     5-31  (222)
126 PRK13861 type IV secretion sys  59.6     6.3 0.00016   19.8   2.0   22    1-22      1-22  (293)
127 TIGR01286 nifK nitrogenase mol  58.8     5.4 0.00014   20.2   1.6  229   27-281   165-441 (526)
128 pfam11432 DUF3197 Protein of u  57.6      13 0.00034   17.7   3.4   28  220-247    44-72  (113)
129 pfam04076 BOF Bacterial OB fol  55.9      16 0.00042   17.2   5.3   17    1-17      1-17  (126)
130 TIGR00735 hisF imidazoleglycer  55.7       7 0.00018   19.6   1.7   97  134-246    95-221 (312)
131 cd06325 PBP1_ABC_uncharacteriz  55.3      17 0.00043   17.2   8.3  145   47-198    37-192 (281)
132 COG4851 CamS Protein involved   55.3      11 0.00027   18.4   2.5  147    1-156     1-181 (382)
133 PRK07239 bifunctional uroporph  54.8      17 0.00043   17.1   4.5  122   77-198    41-209 (381)
134 TIGR01054 rgy reverse gyrase;   54.4      17 0.00044   17.1   4.8  140  152-311   374-519 (1843)
135 pfam02642 consensus             54.3      17 0.00044   17.1   7.4  103  142-253    90-202 (259)
136 PRK03147 thiol-disulfide oxido  54.1     9.9 0.00025   18.6   2.3   49    1-57      2-55  (176)
137 cd01423 MGS_CPS_I_III Methylgl  53.9      18 0.00045   17.0   4.3   46  145-196    26-77  (116)
138 COG4134 ABC-type uncharacteriz  53.7      18 0.00045   17.0   5.9   20  178-197   244-263 (384)
139 PRK03094 hypothetical protein;  53.6      15 0.00038   17.5   3.1   40  146-196     2-41  (80)
140 PRK10159 outer membrane phosph  53.5     7.9  0.0002   19.2   1.7   22    1-22      1-22  (351)
141 PRK10752 sulfate transporter s  53.3      18 0.00046   17.0   8.2  183  119-317   109-320 (329)
142 COG0077 PheA Prephenate dehydr  53.3      18 0.00046   17.0   3.8  122   68-199    19-154 (279)
143 PRK00031 lolA outer-membrane l  53.2      14 0.00036   17.6   2.9   25    1-25      1-25  (201)
144 PRK10002 outer membrane protei  53.2     8.6 0.00022   19.0   1.8   22    1-22      2-23  (362)
145 PRK03757 hypothetical protein;  53.1      10 0.00026   18.5   2.2   22    1-22      1-22  (191)
146 PRK08206 diaminopropionate amm  52.7      18 0.00047   16.9   5.6  203   67-281   113-351 (379)
147 pfam00405 Transferrin Transfer  52.7      18 0.00047   16.9   6.2  160   62-225    12-233 (328)
148 PRK01326 prsA foldase protein   52.6      14 0.00036   17.6   2.8   46  155-206   130-181 (310)
149 pfam03698 UPF0180 Uncharacteri  51.4      17 0.00044   17.1   3.1   40  146-196     2-41  (80)
150 PRK09706 transcriptional repre  51.3      11 0.00028   18.3   2.1   12  303-314   115-126 (135)
151 PRK10554 outer membrane porin   50.7     9.4 0.00024   18.7   1.7   22    1-22      1-22  (373)
152 PRK00830 consensus              49.9      20 0.00052   16.6   3.8   12   60-71     66-77  (273)
153 COG0687 PotD Spermidine/putres  49.8      20 0.00052   16.6  16.3  209   34-261    32-312 (363)
154 pfam11588 DUF3243 Protein of u  49.5     6.7 0.00017   19.7   0.8   54  273-333    10-63  (81)
155 COG4143 TbpA ABC-type thiamine  49.5      21 0.00053   16.6  13.2  177    1-198     1-224 (336)
156 COG4690 PepD Dipeptidase [Amin  49.1     5.1 0.00013   20.4   0.1   12   46-57    149-160 (464)
157 TIGR00971 3a0106s03 sulfate AB  49.0      21 0.00053   16.5   3.4  182  118-316   102-313 (320)
158 PRK10693 response regulator of  48.9      21 0.00054   16.5   6.5   40   61-104    67-110 (337)
159 PRK10355 xylF D-xylose transpo  48.0      22 0.00056   16.4   6.1   83    1-103     1-88  (330)
160 PRK12450 foldase protein PrsA;  48.0      15 0.00038   17.5   2.3   24    1-24      4-27  (309)
161 pfam06535 RGM_N Repulsive guid  47.1      22 0.00057   16.3   3.5   35   34-69     31-65  (207)
162 PRK03095 prsA peptidylprolyl i  46.8      19 0.00047   16.9   2.7   24    1-25      1-24  (287)
163 PRK01045 ispH 4-hydroxy-3-meth  45.8      24  0.0006   16.2   4.5  153   23-196    42-216 (304)
164 PHA01976 helix-turn-helix prot  45.2      16 0.00041   17.2   2.2   52  238-297    11-62  (67)
165 PRK10837 putative DNA-binding   44.9      24 0.00062   16.1  11.8  179   33-235    88-274 (291)
166 TIGR03061 pip_yhgE_Nterm YhgE/  44.4      25 0.00063   16.1   5.7   67   27-102    35-102 (164)
167 PRK07060 short chain dehydroge  44.2      25 0.00063   16.1   8.3   14   94-107    75-88  (245)
168 COG0107 HisF Imidazoleglycerol  44.1      18 0.00045   17.0   2.3   15   55-69     27-41  (256)
169 PRK09967 putative outer membra  43.5      24 0.00061   16.2   2.8   21    1-22      1-21  (160)
170 cd01424 MGS_CPS_II Methylglyox  42.1      27 0.00068   15.9   3.7   46  145-196    26-73  (110)
171 pfam08085 Entericidin Enterici  41.3      25 0.00063   16.1   2.6   34    1-34      1-35  (42)
172 PRK05579 bifunctional phosphop  40.9      28 0.00071   15.7   5.6   58  140-197   181-272 (392)
173 PRK01659 consensus              38.0      31 0.00079   15.5   3.9   20  177-196   207-226 (252)
174 TIGR01829 AcAcCoA_reduct aceto  38.0      19 0.00048   16.8   1.6   17   94-112    77-93  (244)
175 PRK09620 hypothetical protein;  37.9      31 0.00079   15.4   5.0   41  157-198   133-182 (229)
176 PRK11627 hypothetical protein;  37.5      32  0.0008   15.4   2.7   22    1-24      1-22  (192)
177 smart00851 MGS MGS-like domain  37.3      32 0.00081   15.4   4.0   48  145-198    13-63  (90)
178 PRK10808 outer membrane protei  37.0      30 0.00076   15.6   2.5   23    1-23      1-23  (347)
179 pfam06510 DUF1102 Protein of u  36.7      32 0.00083   15.3   4.7   10   46-55     52-61  (183)
180 PRK10329 glutaredoxin-like pro  36.2      33 0.00084   15.3   3.9   39   25-71     38-76  (81)
181 KOG1759 consensus               35.7      34 0.00086   15.2   2.9   36   52-88     12-47  (115)
182 PRK04281 consensus              35.4      34 0.00087   15.2   3.8   19  178-196   209-227 (254)
183 PRK09319 bifunctional 3,4-dihy  35.3      22 0.00055   16.4   1.6   43  128-170   140-192 (552)
184 TIGR01916 F420_puta_dedox F420  34.8      31 0.00078   15.5   2.3  119   63-192    65-221 (260)
185 PRK11622 putative ABC transpor  34.7      35 0.00089   15.1   6.1   32  175-206   249-281 (401)
186 pfam07091 FmrO Ribosomal RNA m  34.6      35 0.00089   15.1   4.3  129   36-178   109-243 (248)
187 smart00475 53EXOc 5'-3' exonuc  34.6      35  0.0009   15.1   4.4   51  252-312   165-215 (259)
188 PRK03002 prsA peptidylprolyl i  34.2      36 0.00091   15.1   2.8   45  155-206   124-171 (285)
189 pfam01381 HTH_3 Helix-turn-hel  34.0      31 0.00078   15.5   2.2   40  250-295    15-54  (55)
190 COG3883 Uncharacterized protei  33.9      36 0.00092   15.0   3.2   29    1-29      1-31  (265)
191 PRK09934 putative fimbrial pro  33.9      34 0.00088   15.2   2.4   19    1-19      1-19  (171)
192 pfam12262 Lipase_bact_N Bacter  33.9      28 0.00072   15.7   2.0   20    1-20      1-20  (269)
193 KOG4254 consensus               33.8      14 0.00036   17.7   0.4   97  207-306   412-510 (561)
194 PRK05866 short chain dehydroge  33.2      37 0.00094   15.0   6.9   35   37-71     26-60  (290)
195 cd01302 Cyclic_amidohydrolases  33.0      37 0.00095   15.0   2.8   86  177-284   206-291 (337)
196 pfam09403 FadA Adhesion protei  32.1      33 0.00085   15.2   2.1   21    1-21      1-21  (126)
197 PRK05752 uroporphyrinogen-III   32.0      39 0.00099   14.8   6.3   99  100-201    88-193 (255)
198 TIGR00506 ribB 3,4-dihydroxy-2  31.4      36 0.00092   15.0   2.2   34  177-212   119-152 (230)
199 pfam05968 Bacillus_PapR Bacill  31.4      29 0.00075   15.6   1.7   18    1-18      1-18  (48)
200 pfam05175 MTS Methyltransferas  31.1      40   0.001   14.8   2.7   72   34-110    34-112 (170)
201 smart00530 HTH_XRE Helix-turn-  31.1      36 0.00092   15.0   2.1   40  250-295    16-55  (56)
202 PRK01033 imidazole glycerol ph  31.0      40   0.001   14.7   4.4   13  177-189    84-96  (253)
203 cd00093 HTH_XRE Helix-turn-hel  30.8      38 0.00096   14.9   2.2   40  250-295    18-57  (58)
204 pfam12276 DUF3617 Protein of u  30.4      36 0.00091   15.1   2.0   26    1-26      1-26  (149)
205 pfam10566 Glyco_hydro_97 Glyco  30.4      24 0.00061   16.2   1.1   60    1-62      1-68  (643)
206 TIGR00631 uvrb excinuclease AB  30.2      41  0.0011   14.7   3.6   20   89-111   490-509 (667)
207 PTZ00334 trans-sialidase; Prov  30.2      39   0.001   14.8   2.2   22    1-22     39-60  (780)
208 TIGR02747 TraV type IV conjuga  30.2      36 0.00092   15.0   2.0   22    1-22      1-22  (174)
209 COG1198 PriA Primosomal protei  30.1      42  0.0011   14.6   5.7   52  145-197   482-541 (730)
210 PRK03353 ribB 3,4-dihydroxy-2-  29.9      26 0.00066   16.0   1.2   12  225-236   144-155 (217)
211 PRK05928 hemD uroporphyrinogen  29.6      42  0.0011   14.6   4.8   64  142-205   123-195 (252)
212 TIGR01885 Orn_aminotrans ornit  29.1      23 0.00059   16.3   0.9  131   61-197    61-210 (426)
213 KOG4716 consensus               28.9      44  0.0011   14.5   3.2   49   55-105   232-280 (503)
214 cd01579 AcnA_Bact_Swivel Bacte  28.4      45  0.0011   14.5   3.2   31  283-315    56-93  (121)
215 pfam02402 Lysis_col Lysis prot  28.4      25 0.00063   16.1   0.9   22    1-23      1-22  (46)
216 PRK13893 conjugal transfer pro  28.3      42  0.0011   14.6   2.1   24    1-24      1-24  (193)
217 PRK09733 putative fimbrial pro  27.8      38 0.00096   14.9   1.8   15    1-15      2-16  (181)
218 TIGR00363 TIGR00363 lipoprotei  27.8      40   0.001   14.8   1.9  191   31-242    20-237 (264)
219 TIGR00580 mfd transcription-re  27.8      46  0.0012   14.4   3.1  143  123-285   719-879 (997)
220 TIGR03502 lipase_Pla1_cef extr  27.7      45  0.0012   14.4   2.2   29    1-30      1-29  (792)
221 pfam02401 LYTB LytB protein. T  27.5      46  0.0012   14.4   3.7  153   23-196    40-214 (280)
222 PRK00050 mraW S-adenosyl-methy  27.0      47  0.0012   14.3   4.1  104   51-168    46-156 (309)
223 PRK02145 consensus              26.8      47  0.0012   14.3   3.8   19  178-196   212-230 (257)
224 PRK05963 3-oxoacyl-(acyl carri  26.7      48  0.0012   14.3   3.9   70  231-308   217-287 (327)
225 TIGR02329 propionate_PrpR prop  26.7      35 0.00089   15.1   1.4  124   63-198    18-153 (658)
226 PRK11814 cysteine desulfurase   26.7      27 0.00068   15.9   0.8  177   54-254    31-233 (484)
227 CHL00085 ycf24 putative ABC tr  26.5      28 0.00072   15.7   1.0  184   47-254    22-234 (485)
228 KOG2951 consensus               26.4      48  0.0012   14.2   5.6   63  136-198   149-217 (279)
229 cd06309 PBP1_YtfQ_like Peripla  26.1      49  0.0012   14.2   6.4   29  171-199   215-243 (273)
230 pfam07996 T4SS Type IV secreti  25.9      39 0.00098   14.9   1.5   20    1-20      1-20  (217)
231 COG3636 Predicted transcriptio  25.8      44  0.0011   14.5   1.9   53  227-279    28-84  (100)
232 PRK06922 hypothetical protein;  25.8      50  0.0013   14.2   4.4   22  297-318   634-655 (679)
233 pfam02602 HEM4 Uroporphyrinoge  25.5      50  0.0013   14.1   5.7   58  142-199   111-175 (229)
234 PRK01909 pdxA 4-hydroxythreoni  24.9      31  0.0008   15.4   0.9  126  175-302    92-230 (329)
235 PRK07424 bifunctional sterol d  24.5      33 0.00084   15.3   1.0   57  122-183   159-217 (410)
236 PRK01742 tolB translocation pr  23.8      54  0.0014   13.9   4.9   58    1-71      3-64  (430)
237 pfam08671 SinI Anti-repressor   23.8      54  0.0014   13.9   2.6   26  234-266     2-27  (30)
238 pfam07659 DUF1599 Domain of Un  23.7      51  0.0013   14.1   1.8   18  233-250    43-60  (61)
239 TIGR03070 couple_hipB transcri  23.6      54  0.0014   13.9   2.0   27  251-277    22-48  (58)
240 TIGR00392 ileS isoleucyl-tRNA   23.6      54  0.0014   13.9   1.9   90   25-125   434-532 (938)
241 COG5510 Predicted small secret  23.6      54  0.0014   13.9   2.4   34    1-34      2-36  (44)
242 COG0603 Predicted PP-loop supe  23.3      55  0.0014   13.9   3.5   65   26-102    18-84  (222)
243 PRK09726 DNA-binding transcrip  23.2      54  0.0014   13.9   1.9   29  249-277    30-58  (88)
244 PRK02083 imidazole glycerol ph  23.1      56  0.0014   13.8   4.1   20  177-196   207-226 (253)
245 TIGR00543 isochor_syn isochori  23.1      56  0.0014   13.8   2.1   93  209-321   215-311 (371)
246 COG4594 FecB ABC-type Fe3+-cit  22.7      57  0.0014   13.8   3.8   23    1-23      3-25  (310)
247 COG5633 Predicted periplasmic   22.6      53  0.0014   14.0   1.7   46    1-49      1-51  (123)
248 COG1427 Predicted periplasmic   22.4      57  0.0015   13.8   8.3  146   78-238    25-183 (252)
249 PRK12696 flgH flagellar basal   22.3      58  0.0015   13.7   2.2   18    1-18      1-18  (238)
250 PRK05567 inositol-5'-monophosp  22.2      54  0.0014   13.9   1.7   49  176-229   340-388 (486)
251 pfam07437 YfaZ YfaZ precursor.  22.0      59  0.0015   13.7   3.6  130    1-145     1-136 (180)
252 PRK10449 heat-inducible protei  21.7      59  0.0015   13.7   4.9   10    1-10      1-10  (140)
253 pfam11131 PhrC_PhrF Rap-phr ex  21.4      29 0.00073   15.7   0.2   35    1-35      1-36  (37)
254 TIGR03525 GldK gliding motilit  21.3      60  0.0015   13.6   1.9   30    1-42      1-30  (449)
255 KOG3019 consensus               21.2      61  0.0016   13.6   2.5   18  239-256   219-236 (315)
256 TIGR01422 phosphonatase phosph  21.1      61  0.0016   13.6   2.8   57  189-260   117-174 (199)
257 PRK10765 nitroreductase A; Pro  20.8      26 0.00067   15.9  -0.1   13   25-37      3-15  (240)
258 COG3784 Uncharacterized protei  20.7      62  0.0016   13.5   2.0   32    1-35      3-34  (109)
259 PRK02621 consensus              20.6      62  0.0016   13.5   3.9   20  177-196   208-227 (254)
260 pfam10626 TraO Conjugative tra  20.6      37 0.00095   15.0   0.6   42    1-45      1-43  (193)
261 pfam07901 DUF1672 Protein of u  20.5      56  0.0014   13.8   1.5   17  226-242   205-221 (304)
262 PRK05298 excinuclease ABC subu  20.3      63  0.0016   13.5   3.6   38  159-196   461-502 (657)

No 1  
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein; InterPro: IPR005768   Bacterial high affinity transport systems are involved in active transport of solutes across the cytoplasmic membrane. The protein components of these traffic systems include one or two transmembrane protein components, one or two membrane-associated ATP-binding proteins (ABC transporters; see IPR003439 from INTERPRO) and a high affinity periplasmic solute-binding protein. The later are thought to bind the substrate in the vicinity of the inner membrane, and to transfer it to a complex of inner membrane proteins for concentration into the cytoplasm.     In Gram-positive bacteria which are surrounded by a single membrane and have therefore no periplasmic region the equivalent proteins are bound to the membrane via an N-terminal lipid anchor. These homolog proteins do not play an integral role in the transport process per se, but probably serve as receptors to trigger or initiate translocation of the solute through the membrane by binding to external sites of the integral membrane proteins of the efflux system. In addition at least some solute-binding proteins function in the initiation of sensory transduction pathways.    On the basis of sequence similarities, the vast majority of these solute-binding proteins can be grouped into eight families of clusters, which generally correlate with the nature of the solute bound. Family 3 groups together specific amino acids and opine-binding periplasmic proteins and a periplasmic homolog with catalytic activity. ; GO: 0005215 transporter activity, 0006810 transport, 0030288 outer membrane-bounded periplasmic space.
Probab=100.00  E-value=0  Score=529.04  Aligned_cols=288  Identities=28%  Similarity=0.483  Sum_probs=274.1

Q ss_pred             CCCHHHHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCC----CEEEEEECCCCCCHHHHHCCCE
Q ss_conf             442168999857949998717898830688989880150999999999967982----2025998143100267743962
Q gi|254780170|r   22 TNASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDP----SKIQYLPLNAKERFLALQSKQI   97 (342)
Q Consensus        22 a~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~----~kVe~v~~~~~~rf~aL~sG~v   97 (342)
                      ..+++....+++|.|+||++++||||+++|++|+++|||||||++|+++|.+|+    .+++|++.+|+.|||+|++|||
T Consensus        15 ~~~a~~~a~~~~~~v~~gt~~~y~PF~~~~a~G~~~GFDvDl~~alc~~~~gD~GWdh~~c~~~~~~~~~liPsL~~k~~   94 (333)
T TIGR01096        15 SSAATAAAAKEKGSVRIGTETAYPPFEFKDADGKLVGFDVDLANALCKEMKGDPGWDHAKCKFVEQAFDGLIPSLKAKKV   94 (333)
T ss_pred             HHHCCHHHHHHCCCEEEEECCCCCCCCCCCCCCCEEEHHHHHHHHHHHHHCCCCCCCCCEEEEECCCHHHHHHHHHCCCE
T ss_conf             86215688852880799865787986551889545632678999999984589996431488842756652025453806


Q ss_pred             EEEEE-CCCCCCCCHHCCCCCCCCCCCCCCEEEEEECCCCC-CCHHH-----------------------HC-CCCEEEE
Q ss_conf             79981-24325320110278435322344023463021134-75364-----------------------17-8620343
Q gi|254780170|r   98 DILSR-NTDWTLLREISLGLAFRPITYFDGQGFIMHKKKGI-SSVSQ-----------------------LS-GASICVQ  151 (342)
Q Consensus        98 Dil~~-~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVrk~~~i-~s~~d-----------------------L~-G~~I~v~  151 (342)
                      |++++ +||||++|  ++.|+|+.|||+++++|||++++++ ++.++                       |+ |++|||+
T Consensus        95 Dai~an~~~It~~R--~~~i~F~~~yy~~~~~f~v~~~~~~~~~~~~~E~~~Ld~~A~~~K~~~d~~~~~L~nG~~~gV~  172 (333)
T TIGR01096        95 DAIMANAMSITDER--QKQIDFSDPYYATGAGFVVKKDSDLAKTLEDGENYSLDNQADAAKKEIDDVTKFLKNGKKVGVQ  172 (333)
T ss_pred             EEEEECCCCCCHHH--HHHHCCCCCCCCCCCEEEEECCCCCCCCHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEEC
T ss_conf             89972665546656--6321144300004430222248875431453303672000379899899899985275489862


Q ss_pred             ECCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCCCCEEEECC
Q ss_conf             13426999999998629985078747989999998739602998250479999983678001002564442371010002
Q gi|254780170|r  152 AGTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDIISKSPLAPAII  231 (342)
Q Consensus       152 ~GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~iskEPlg~avr  231 (342)
                      .|||+|+++.++++.+++.++++.|++.+++..+|.+|||||+++|.+.|...+.+.+++.||.++++.++.|||||+.+
T Consensus       173 ~GTT~~~~~~~~~~~~Nl~v~~~~Y~~~~~~~~dL~~GR~Da~~~D~~~l~~~~~~~~~gkd~~~~g~~~~~~PLGP~~~  252 (333)
T TIGR01096       173 SGTTHEQYLKDEFKPKNLGVDIVEYDSYDNANMDLKAGRIDAVLADASVLAEGFLKPPNGKDLKFVGPKVTDEPLGPVKY  252 (333)
T ss_pred             CCCCHHHHHHHHCCCCCCEEEEEEECCHHHHHHHHHCCCCEEEECCHHHHHHHHHCCCCCCCEEECCCCCCCCCCCCCCC
T ss_conf             68848999986244337426666408867999997579621774365888888737898886377283226889898555


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCCCHHHHHHHCCCCCCC-CHHHCCCCHHHHHHHHHHCCCHHHHH
Q ss_conf             77757999988774433112123301520898862267177887623588765-03337998679999999718699987
Q gi|254780170|r  232 QGDTEWYNIVSWTHYAMVTAEELGITQKNINQVSKDTTNPDVQRFLGIDKSSN-IGEALGLTKDWTYRIIRHMGNYGEMF  310 (342)
Q Consensus       232 ~gD~~w~d~V~W~~~ali~Aee~git~~nv~~~~~~s~~p~i~r~lg~~~~~~-~g~~lgl~~~~~~~~i~~vGNYgei~  310 (342)
                      .||.+|+|||+|+.||||.|||+||+..++|++.+ |.||+|+||||.|  ++ +|+.|....|+|.+.|++.|+|.+||
T Consensus       253 FG~g~W~DiV~W~~YAL~~A~E~Gig~rk~de~~~-s~Np~i~r~lg~~--~Dt~G~eL~~~~n~Al~~~~adGtY~~i~  329 (333)
T TIGR01096       253 FGDGYWFDIVRWSAYALVAAEEVGIGLRKVDEVKA-STNPEIKRLLGSE--GDTIGKELKAKFNKALKAIRADGTYQKIS  329 (333)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHC-CCCCCHHHHHCCC--CCHHHHHHHHHHHHHHHHHHHCCCHHHHH
T ss_conf             78883001214466777634432125345588851-8883023220455--65121899999999999998658746888


Q ss_pred             HHHC
Q ss_conf             8864
Q gi|254780170|r  311 DRNL  314 (342)
Q Consensus       311 ~rnl  314 (342)
                      ++||
T Consensus       330 ~kwf  333 (333)
T TIGR01096       330 KKWF  333 (333)
T ss_pred             HHCC
T ss_conf             6519


No 2  
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=100.00  E-value=0  Score=407.56  Aligned_cols=225  Identities=20%  Similarity=0.275  Sum_probs=210.4

Q ss_pred             CCCCHHHHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCC----CCEEEEEECCCCCCHHHHHCCC
Q ss_conf             244216899985794999871789883068898988015099999999996798----2202599814310026774396
Q gi|254780170|r   21 STNASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDD----PSKIQYLPLNAKERFLALQSKQ   96 (342)
Q Consensus        21 aa~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd----~~kVe~v~~~~~~rf~aL~sG~   96 (342)
                      ++.++||++|+++|+|+||++.++|||+|.|++|+++|||||+|++||+++..+    ..+|+|++++|++||++|++|+
T Consensus        27 ~a~~~tL~~Ik~~G~l~vG~~~~~pPf~~~d~~g~~vGfdvDla~~ia~~l~~~l~~~~~~v~~v~~~~~~rip~L~~gk  106 (302)
T PRK10797         27 PAAGSTLDKIAKNGVIVVGHRESSVPFSYYDNQQKVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIPITSQNRIPLLQNGT  106 (302)
T ss_pred             CCCCCHHHHHHHCCEEEEEECCCCCCCEEECCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEECCHHHHHHHHHCCC
T ss_conf             53227199998699899998999899716899998515417999999999987744677349999757888779997898


Q ss_pred             EEEEEECCCCCCCCHHCCCCCCCCCCCCCCEEEEEECCCCCCCHHHHCCCCEEEEECCCHHHHHHHHHHHCCCCCCEEEE
Q ss_conf             27998124325320110278435322344023463021134753641786203431342699999999862998507874
Q gi|254780170|r   97 IDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMHKKKGISSVSQLSGASICVQAGTTTELTLADYFKAHNMKYHPIVF  176 (342)
Q Consensus        97 vDil~~~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVrk~~~i~s~~dL~G~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~~  176 (342)
                      +|++|+++|+|++|+  +.|+||.|||+++++++||++++|++++||+||+|||++|||+|..+.++.....++++++.|
T Consensus       107 ~Di~~~~~t~T~eR~--k~vdFS~pY~~~~~~llv~k~s~Iks~~DL~GK~V~V~~GTt~e~~~~~~~~~~~~~~~iv~~  184 (302)
T PRK10797        107 FDFECGSTTNNLERQ--KQAAFSDTIFVVGTRLLTKKGGDIKDFADLKGKAVVVTSGTTSEVLLNKLNEEQKMNMRIISA  184 (302)
T ss_pred             CCEEEECCCCCHHHH--CCEEECCCCEECCEEEEEECCCCCCCHHHHCCCEEEEECCCHHHHHHHHHHHHHCCCCEEEEC
T ss_conf             088973575697774--124214662771468999778866675660899799967873999999866750677237850


Q ss_pred             CCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHH
Q ss_conf             79899999987396029982504799999836780010025644423710100027775799998877443
Q gi|254780170|r  177 ERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDIISKSPLAPAIIQGDTEWYNIVSWTHYA  247 (342)
Q Consensus       177 ~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~iskEPlg~avr~gD~~w~d~V~W~~~a  247 (342)
                      +++.+++.+|.+||+||++.|.+.|++.....++|+.+.|+++.++.||||+++||||++|++.|+..+..
T Consensus       185 ~~~~~a~~~L~~GrvDA~~~D~~~l~~~~~~~~~~~~~~iv~~~~~~e~ygia~rKgd~~L~~~Vn~aL~~  255 (302)
T PRK10797        185 KDHGDSFRTLESGRAVAFMMDDALLAGERAKAKKPDNWEIVGKPQSQEAYGCMLRKDDPQFKKLMDDTIAQ  255 (302)
T ss_pred             CCHHHHHHHHHCCCCCEEEECHHHHHHHHHHCCCCCCEEEECCCCCCCCEEEEEECCCHHHHHHHHHHHHH
T ss_conf             88899999998599509981229888999863699754993786777607999968999999999999999


No 3  
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=100.00  E-value=0  Score=374.82  Aligned_cols=239  Identities=24%  Similarity=0.307  Sum_probs=210.4

Q ss_pred             HHHHHHHHHHHHHH--HHHHCCCCCHHHHHHHHCCEEEEEEECCCCCCEEECC-CCCEEEEHHHHHHHHHHHHCCCCCEE
Q ss_conf             13899999999999--9840124421689998579499987178988306889-89880150999999999967982202
Q gi|254780170|r    2 YKDFFVSILCLIIL--FFTSFSTNASILGDIKKRGFLKCGINTGLVGFAEVKA-NGDWKGFDVDFCRALSSAIFDDPSKI   78 (342)
Q Consensus         2 ~K~~l~~~l~l~~~--~~~~~aa~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~-~G~~~GfDVDl~raiAaal~gd~~kV   78 (342)
                      +|+++...+.++.+  +.+++++.+++|++|++||+|+||++.++|||+|.|+ +|+++|||||+|++||+.++|+..++
T Consensus         4 ~~~l~~~~~~~l~~~~~~~~~~a~~~~l~~I~~~G~L~vg~~~~~pPf~~~d~~~g~~~GfDvDla~~iAk~llg~~~~v   83 (259)
T PRK11917          4 RKSLLKLAVFALGACVAFSNANAAEGKLESIKSKGQLIVGVKNDVPHYALLDQATGEIKGFEIDVAKLLAKSILGDDKKI   83 (259)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCHHHHCHHHHHHHCCEEEEEECCCCCCCCEEECCCCCEEEEEHHHHHHHHHHHCCCCCEE
T ss_conf             79999999999999986345211144199998599899998789788620567999678887999999999965998569


Q ss_pred             EEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCCCCCCEEEEEECCCCCCCHHHHCCCCEEEEECCCHHH
Q ss_conf             59981431002677439627998124325320110278435322344023463021134753641786203431342699
Q gi|254780170|r   79 QYLPLNAKERFLALQSKQIDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMHKKKGISSVSQLSGASICVQAGTTTEL  158 (342)
Q Consensus        79 e~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVrk~~~i~s~~dL~G~~I~v~~GTT~e~  158 (342)
                      ||++++|.+|+|+|++|++|+++++||+|++|  .+.++||.|||++++.++||+++++++++||+|++|||+.|||++.
T Consensus        84 ~~v~~~~~~~~p~L~~gkvD~i~~~~tiT~eR--~k~vdFS~PY~~~~~~ilv~k~~~i~~~~DL~gk~Vgv~~gst~~~  161 (259)
T PRK11917         84 KLVAVNAKTRGPLLDNGSVDAVIATFTITPER--KRIYNFSEPYYQDAIGLLVLKEKNYKSLADMKGANIGVAQAATTKK  161 (259)
T ss_pred             EEEEECHHHHHHHHHCCCEEEEEECCCCCCCH--HCCEEECCCEEEEEEEEEEECCCCCCCHHHHCCCCEEEEECCCHHH
T ss_conf             99970678776898779855998664767654--3057622476996559999899999998995898179992784699


Q ss_pred             HHHHHHHHCCCCCCEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCCCCEEEECCCCCHHHH
Q ss_conf             99999986299850787479899999987396029982504799999836780010025644423710100027775799
Q gi|254780170|r  159 TLADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDIISKSPLAPAIIQGDTEWY  238 (342)
Q Consensus       159 ~l~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~iskEPlg~avr~gD~~w~  238 (342)
                      .+.+..+..++.++++.|++.++++.+|.+|||||++.|.+.+.+...     ....++++.++.||+|+++|+||++|.
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~grvDa~~~d~~~~~~~~~-----~~~~~~~~~~~~~~~giavrKgd~~l~  236 (259)
T PRK11917        162 AIGEAAKKIGIDVKFSEFPDYPSIKAALDAKRVDAFSVDKSILLGYVD-----DKSEILPDSFEPQSYGIVTKKDDPAFA  236 (259)
T ss_pred             HHHHHHHHCCCCEEEEECCCHHHHHHHHHCCCEEEEECCHHHHHHHHH-----CCCCCCCCCCCCCEEEEEEECCCHHHH
T ss_conf             999988860885169964999999999984980299826999999986-----198016888875258999948998999


Q ss_pred             HHHHHHHHH
Q ss_conf             998877443
Q gi|254780170|r  239 NIVSWTHYA  247 (342)
Q Consensus       239 d~V~W~~~a  247 (342)
                      +.|+..+..
T Consensus       237 ~~vn~~i~~  245 (259)
T PRK11917        237 KYVDDFVKE  245 (259)
T ss_pred             HHHHHHHHH
T ss_conf             999999999


No 4  
>PRK11260 cystine transporter subunit; Provisional
Probab=100.00  E-value=0  Score=343.06  Aligned_cols=238  Identities=19%  Similarity=0.227  Sum_probs=206.0

Q ss_pred             CHHHHHHHHHHHHHHHH--HHCCCCCHHHHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEE
Q ss_conf             91389999999999998--4012442168999857949998717898830688989880150999999999967982202
Q gi|254780170|r    1 MYKDFFVSILCLIILFF--TSFSTNASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKI   78 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~--~~~aa~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kV   78 (342)
                      |.|+.++++++++++..  .++++++++|++|++||+|+||++.++|||+|.|++|+++|||||++++||+.++   .++
T Consensus         4 ~~~~~~~~~l~~~~~~~~~~~~~a~~~~L~~I~~~G~L~Vg~~~~~pPf~~~d~~G~~~GfdvDl~~~ia~~lg---~~~   80 (264)
T PRK11260          4 LGRQALMGVMAVALVAGMSVKSFADEGLLNKVKERGTLLVGLEGTYPPFSFQGEDGKLTGFEVEFAEALAKHLG---VKA   80 (264)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHCCEEEEEECCCCCCCEEECCCCCEEEEEHHHHHHHHHHHC---CCE
T ss_conf             67999999999999998357654342439999869989999778988936899999988871999999999849---956


Q ss_pred             EEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCCCCCCEEEEEECCC--CCCCHHHHCCCCEEEEECCCH
Q ss_conf             599814310026774396279981243253201102784353223440234630211--347536417862034313426
Q gi|254780170|r   79 QYLPLNAKERFLALQSKQIDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMHKKK--GISSVSQLSGASICVQAGTTT  156 (342)
Q Consensus        79 e~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVrk~~--~i~s~~dL~G~~I~v~~GTT~  156 (342)
                      +|++++|++++++|++|++|++++++|+|++|+.  .++||.|||+.++.++|++++  .|++++||+|++|||+.||+.
T Consensus        81 e~~~~~~~~~i~~L~~g~~Di~~~~~t~T~eR~~--~~~Fs~PY~~~~~~~~v~~~~~~~i~~~~dL~Gk~V~v~~gs~~  158 (264)
T PRK11260         81 SLKPTKWDGMLASLDSKRIDVVINQVTISDERKK--KYDFSTPYTVSGIQALVKKGNEGTIKTAADLKGKKVGVGLGTNY  158 (264)
T ss_pred             EEEECCHHHHHHHHHCCCCCEEECCCCCCHHHHH--HCCCCCCEEEEEEEEEEECCCCCCCCCHHHHCCCEEEEECCCHH
T ss_conf             9997888999999866994667257535888885--17767743774459999878976668978966871688569789


Q ss_pred             HHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCCCCEEEECCCCCHH
Q ss_conf             99999999862998507874798999999873960299825047999998367800100256444237101000277757
Q gi|254780170|r  157 ELTLADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDIISKSPLAPAIIQGDTE  236 (342)
Q Consensus       157 e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~iskEPlg~avr~gD~~  236 (342)
                      |..++    ++..+.+++.|++..+++++|.+||+||++.|...+.....  .+|+...+.+++++.+|+|+++|++|++
T Consensus       159 ~~~l~----~~~~~~~i~~~~~~~~~~~~l~~G~vDa~i~d~~~~~~~~~--~~~~~~~~~~~~~~~~~~~iav~k~~~~  232 (264)
T PRK11260        159 EEWLR----QNVQGVDVRTYDDDPTKYQDLRVGRIDAILVDRLAALDLVK--KTNDTLAVTGEAFSRQESGVALRKGNPD  232 (264)
T ss_pred             HHHHH----HHCCCCCEEEECCHHHHHHHHHCCCCCEEEECHHHHHHHHH--HCCCCEEECCCCCCCCEEEEEEECCCHH
T ss_conf             99998----60889816863661899999875986799945999999998--6899789806876665089999899999


Q ss_pred             HHHHHHHHHHHHH
Q ss_conf             9999887744331
Q gi|254780170|r  237 WYNIVSWTHYAMV  249 (342)
Q Consensus       237 w~d~V~W~~~ali  249 (342)
                      |.+.++..+..|.
T Consensus       233 L~~~in~~L~~l~  245 (264)
T PRK11260        233 LLKAVNNAIAEMQ  245 (264)
T ss_pred             HHHHHHHHHHHHH
T ss_conf             9999999999999


No 5  
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=100.00  E-value=6.4e-43  Score=292.17  Aligned_cols=224  Identities=21%  Similarity=0.219  Sum_probs=186.3

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEE
Q ss_conf             91389999999999998401244216899985794999871789883068898988015099999999996798220259
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQY   80 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~   80 (342)
                      |||.+.+++++++++++.++.++         .++|+||++.++|||+|. ++|+++|||||++++||+.++   .++||
T Consensus         1 mk~~~~~~~~~~~~~~~~~~~a~---------~~~l~Vg~~~~~pPf~f~-~~g~~~GfdvDl~~~ia~~lg---~~~e~   67 (247)
T PRK09495          1 MKSVLKVSLAALTLAFAVSSHAA---------DKELVVATDTAFVPFEFK-QGDKYVGFDVDLWAAIAKELK---LDYTL   67 (247)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHC---------CCEEEEEECCCCCCEEEC-CCCEEEEEHHHHHHHHHHHHC---CCEEE
T ss_conf             97799999999999998766514---------994999989987980576-799278829999999999969---94699


Q ss_pred             EECCCCCCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCCCCCCEEEEEECC-CCCCCHHHHCCCCEEEEECCCHHHH
Q ss_conf             981431002677439627998124325320110278435322344023463021-1347536417862034313426999
Q gi|254780170|r   81 LPLNAKERFLALQSKQIDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMHKK-KGISSVSQLSGASICVQAGTTTELT  159 (342)
Q Consensus        81 v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVrk~-~~i~s~~dL~G~~I~v~~GTT~e~~  159 (342)
                      ++++|++++++|++|++|++++++|+|++|+.  .++||.|||.+++.++++++ +.|++++||+|++|||+.||+++..
T Consensus        68 ~~~~~~~~i~~l~~g~~D~~~~~~~~T~eR~~--~~~FS~py~~~~~~i~v~~~~~~i~~~~dL~Gk~v~v~~Gs~~~~~  145 (247)
T PRK09495         68 KPMDFSGIIPALQTKNIDLALAGITITDERKK--AIDFSDGYYKSGLLVMVKANNNDIKSVKDLDGKVVAVKSGTGSVDY  145 (247)
T ss_pred             EECCHHHHHHHHHCCCCCEEECCCCCCHHHHH--HCCCCCCCEEEEEEEEEECCCCCCCCHHHCCCCEEEEECCCHHHHH
T ss_conf             97788999999976995636466014789984--3334777077246999989997779824548988998469589999


Q ss_pred             HHHHHHHCCCCCCEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCCCCEEEECCCCCHHHHH
Q ss_conf             99999862998507874798999999873960299825047999998367800100256444237101000277757999
Q gi|254780170|r  160 LADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDIISKSPLAPAIIQGDTEWYN  239 (342)
Q Consensus       160 l~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~iskEPlg~avr~gD~~w~d  239 (342)
                      +    +......+++.|++.++++.+|.+||+||++.|...+.......+ ...+.+++++++.+++|+++++|++ +.+
T Consensus       146 ~----~~~~~~~~i~~~~~~~~~~~aL~~GrvDa~v~d~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~ia~~k~~~-L~~  219 (247)
T PRK09495        146 A----KANIKTKDLRQFPNIDNAYLELGTGRADAVLHDTPNILYFIKTAG-NGQFKAVGDSLEAQQYGIAFPKGSD-LRE  219 (247)
T ss_pred             H----HHHCCCCCEEECCCHHHHHHHHHCCCEEEEEECHHHHHHHHHHCC-CCCEEEECCCCCCCEEEEEEECCHH-HHH
T ss_conf             9----963889866965988999998765873499956899999998489-9978994677776459999928829-999


Q ss_pred             HHHHHH
Q ss_conf             988774
Q gi|254780170|r  240 IVSWTH  245 (342)
Q Consensus       240 ~V~W~~  245 (342)
                      .++..+
T Consensus       220 ~in~aL  225 (247)
T PRK09495        220 KVNGAL  225 (247)
T ss_pred             HHHHHH
T ss_conf             999999


No 6  
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=100.00  E-value=2.1e-33  Score=231.90  Aligned_cols=221  Identities=27%  Similarity=0.352  Sum_probs=181.1

Q ss_pred             HHHHHHHCCEEEEEEECC-CCCCEEECCC-CCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEEC
Q ss_conf             689998579499987178-9883068898-98801509999999999679822025998143100267743962799812
Q gi|254780170|r   26 ILGDIKKRGFLKCGINTG-LVGFAEVKAN-GDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRN  103 (342)
Q Consensus        26 tLd~Vk~rG~L~vGv~~~-~ppfs~~d~~-G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~  103 (342)
                      .++.++.+|.++||+... .|||+|.+.. |+++|||||+|+++|+.++++. ++++++.+|..++++|++|++|+++++
T Consensus        26 ~~~~~~~~~~~~v~~~~~~~~p~~~~~~~~~~~~G~dvdl~~~ia~~l~~~~-~~~~~~~~~~~~~~~l~~g~~D~~~~~  104 (275)
T COG0834          26 LLDKIKARGKLRVGTEATYAPPFEFLDAKGGKLVGFDVDLAKAIAKRLGGDK-KVEFVPVAWDGLIPALKAGKVDIIIAG  104 (275)
T ss_pred             HHHHHHHCCEEEEEECCCCCCCCEEECCCCCEEEEEHHHHHHHHHHHHCCCC-CEEEEECCHHHHHHHHHCCCCCEEEEC
T ss_conf             7766644775999972688898410238887067652999999999846774-248850688776389877998889856


Q ss_pred             CCCCCCCHHCCCCCCCCCCCCCCEEEEEECCCC--CCCHHHHCCCCEEEEECCCHHHHHHHHHHHCCCCCCEEEECCHHH
Q ss_conf             432532011027843532234402346302113--475364178620343134269999999986299850787479899
Q gi|254780170|r  104 TDWTLLREISLGLAFRPITYFDGQGFIMHKKKG--ISSVSQLSGASICVQAGTTTELTLADYFKAHNMKYHPIVFERVEE  181 (342)
Q Consensus       104 ~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVrk~~~--i~s~~dL~G~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~~~~~~~  181 (342)
                      +++|++|.  ..++|+.||+..++.+++++++.  +++.+||+|++|||+.||+  .....+........+++.|++..+
T Consensus       105 ~~~t~~r~--~~~~fs~py~~~~~~~~~~~~~~~~~~~~~DL~gk~v~v~~gt~--~~~~~~~~~~~~~~~~~~~~~~~~  180 (275)
T COG0834         105 MTITPERK--KKVDFSDPYYYSGQVLLVKKDSDIGIKSLEDLKGKKVGVQLGTT--DEAEEKAKKPGPNAKIVAYDSNAE  180 (275)
T ss_pred             CCCCHHHH--HCCCCCCCEEECCEEEEEECCCCCCCCCHHHHCCCEEEEECCCH--HHHHHHHHHCCCCCEEEECCCHHH
T ss_conf             73687775--20056777365465899976885455898895897699966845--888877640467744998188899


Q ss_pred             HHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCC-CCEEEECCCCC-HHHHHHHHHHHHHHHHH
Q ss_conf             999987396029982504799999836780010025644423-71010002777-57999988774433112
Q gi|254780170|r  182 IDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDIISK-SPLAPAIIQGD-TEWYNIVSWTHYAMVTA  251 (342)
Q Consensus       182 a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~isk-EPlg~avr~gD-~~w~d~V~W~~~ali~A  251 (342)
                      ++++|.+||+||++.|.+.+........+++...+....... +|+++++++++ +++++.++..+..+..-
T Consensus       181 ~~~al~~Gr~Da~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~n~~l~~l~~~  252 (275)
T COG0834         181 ALLALKNGRADAVVSDSAVLAGLKLLKKNPGLYVLLVFPGLSVEYLGIALRKGDDPELLEAVNKALKELKAD  252 (275)
T ss_pred             HHHHHHCCCCCEEEECHHHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCCHHHHHHHHHHHHHHHHHC
T ss_conf             999998499889970688876666530155653211455665432000124685599999999999999819


No 7  
>cd00134 PBPb Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of  substrates, such as, amino acids, peptides, sugars, vitamins and inorganic ions. PBPs have two cell-membrane translocation functions: bind substrate, and interact with the membrane bound complex. A diverse group of periplasmic transport receptors for lysine/arginine/ornithine (LAO), glutamine, histidine, sulfate, phosphate, molybdate, and methanol are included in the PBPb CD.
Probab=100.00  E-value=1.2e-33  Score=233.55  Aligned_cols=207  Identities=26%  Similarity=0.307  Sum_probs=179.0

Q ss_pred             EEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHCCC
Q ss_conf             99987178988306889898801509999999999679822025998143100267743962799812432532011027
Q gi|254780170|r   36 LKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREISLG  115 (342)
Q Consensus        36 L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~  115 (342)
                      |+||++.++|||+|.|++|+++||++|+++++|+.++   .+++|++++|+.++.+|++|++|++++++++|++|+.  .
T Consensus         1 l~Vg~~~~~pP~~~~~~~G~~~G~~~dl~~~i~~~lg---~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~R~~--~   75 (218)
T cd00134           1 LTVGTAGTYPPFSFRDANGELTGFDVDLAKAIAKELG---VKVKFVEVDWDGLITALKSGKVDLIAAGMTITPERAK--Q   75 (218)
T ss_pred             CEEEECCCCCCCEEECCCCCEEEEHHHHHHHHHHHHC---CCEEEEECCHHHHHHHHHCCCCCEEEEEECCCHHHHC--C
T ss_conf             9899489989906899999788839999999999969---9669997588999999857997768885025856614--1


Q ss_pred             CCCCCCCCCCCEEEEEECCCCCCCHHHHCCCCEEEEECCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCCCEEEEE
Q ss_conf             84353223440234630211347536417862034313426999999998629985078747989999998739602998
Q gi|254780170|r  116 LAFRPITYFDGQGFIMHKKKGISSVSQLSGASICVQAGTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDAYT  195 (342)
Q Consensus       116 v~Fs~~~~~dgq~~lVrk~~~i~s~~dL~G~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA~~  195 (342)
                      ++|+.||+..+..+++++++.+++++||+|++|||..|++.+..+.+.    ....+++.|++.++++.+|.+||+|+++
T Consensus        76 ~~fs~p~~~~~~~~~~~~~~~~~~~~dl~g~~i~v~~g~~~~~~l~~~----~~~~~~~~~~~~~~~~~~l~~G~vD~~v  151 (218)
T cd00134          76 VDFSDPYYKSGQVILVKKGSPIKSVKDLKGKKVAVQKGSTAEKYLKKA----LPEAKVVSYDDNAEALAALENGRADAVI  151 (218)
T ss_pred             CCCCCCEECCCEEEEEECCCCCCCHHHHCCCEEEEECCCHHHHHHHHH----HCCCEEEEECCHHHHHHHHHCCCCEEEE
T ss_conf             455764441570799986899999899779626795898899999973----1575499969999999999859946999


Q ss_pred             ECCHHHHHHHHHCCCCHHHCCCCCCCCC--CCEEEECCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             2504799999836780010025644423--710100027775799998877443311212
Q gi|254780170|r  196 GDISALYALKLTNDRPSEHVILPDIISK--SPLAPAIIQGDTEWYNIVSWTHYAMVTAEE  253 (342)
Q Consensus       196 ~D~s~La~~~~~~~~p~~~~il~e~isk--EPlg~avr~gD~~w~d~V~W~~~ali~Aee  253 (342)
                      .|...+......  .+.++.+++..+..  .+++++++++++++.+.++..+..|..-.+
T Consensus       152 ~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~n~~l~~l~~~G~  209 (218)
T cd00134         152 VDEIALAALLKK--HPPELKIVGPSIDLEPLGFGVAVGKDNKELLDAVNKALKELRADGE  209 (218)
T ss_pred             ECHHHHHHHHHH--CCCCCEEECCCCCCCCEEEEEEECCCCHHHHHHHHHHHHHHHHCHH
T ss_conf             769999999986--7998199635667673489999749999999999999999986829


No 8  
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=100.00  E-value=3.4e-32  Score=224.26  Aligned_cols=211  Identities=26%  Similarity=0.338  Sum_probs=184.2

Q ss_pred             EEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHCC
Q ss_conf             49998717898830688989880150999999999967982202599814310026774396279981243253201102
Q gi|254780170|r   35 FLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREISL  114 (342)
Q Consensus        35 ~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~  114 (342)
                      +||||+++++|||+|.|++|+++||++|+++++++.++   .+++|+.++|..++.+|++|++|+++..+++|++|+.  
T Consensus         1 ~i~v~~~~~~pP~~~~~~~G~~~G~~~Dil~~~~~~lg---~~i~~~~~~~~r~~~~l~~g~~D~~~~~~~~~~~r~~--   75 (219)
T smart00062        1 TLRVGTNGDYPPFSFADEDGELTGFDVDLAKAIAKELG---LKVEFVEVSFDNLLTALKSGKIDVVAAGMTITPERAK--   75 (219)
T ss_pred             CEEEEECCCCCCEEEECCCCCEEEEHHHHHHHHHHHHC---CCEEEEECCHHHHHHHHHCCCCCEEEEECCCCHHHHH--
T ss_conf             98999789989927999999778829999999999979---9679998478999999975897705311357867750--


Q ss_pred             CCCCCCCCCCCCEEEEEECCCCCCCHHHHCCCCEEEEECCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCCCEEEE
Q ss_conf             78435322344023463021134753641786203431342699999999862998507874798999999873960299
Q gi|254780170|r  115 GLAFRPITYFDGQGFIMHKKKGISSVSQLSGASICVQAGTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDAY  194 (342)
Q Consensus       115 ~v~Fs~~~~~dgq~~lVrk~~~i~s~~dL~G~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA~  194 (342)
                      .+.|+.||+.....+++++++.+++++||+|++||+..|+..+..+    .......+++.+++.++++.+|.+||+|++
T Consensus        76 ~~~~s~p~~~~~~~~~~~~~~~~~~~~dL~g~~i~~~~g~~~~~~l----~~~~~~~~~~~~~~~~~~~~~l~~g~vD~~  151 (219)
T smart00062       76 QVDFSDPYYKSGQVILVRKDSPIKSLEDLKGKKVAVVAGTTGEELL----KKLYPEAKIVSYDSQAEALAALKAGRADAA  151 (219)
T ss_pred             CCCCCCCEECCCEEEEEECCCCCCCHHHHCCCEEEEECCCHHHHHH----HHHCCCCEEEEECCHHHHHHHHHCCCEEEE
T ss_conf             0222455002444799965899799799679779995798799999----972878528985999999999983987999


Q ss_pred             EECCHHHHHHHHHCCCCHHHCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             825047999998367800100256444237101000277757999988774433112123
Q gi|254780170|r  195 TGDISALYALKLTNDRPSEHVILPDIISKSPLAPAIIQGDTEWYNIVSWTHYAMVTAEEL  254 (342)
Q Consensus       195 ~~D~s~La~~~~~~~~p~~~~il~e~iskEPlg~avr~gD~~w~d~V~W~~~ali~Aee~  254 (342)
                      +.|...+.....+.+.++...+.+...+.+|+++++++++++|.+..+..+..|.+-.++
T Consensus       152 i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~n~~l~~l~~~G~l  211 (219)
T smart00062      152 VADAPALAALVKQHGLPELKIVGDPLDTPEGYAFAVRKGDPELLDKINKALKELKADGTL  211 (219)
T ss_pred             EECHHHHHHHHHHCCCCCEEEECCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHCCHH
T ss_conf             977999999998489998378346777764199999599999999999999999968099


No 9  
>pfam00497 SBP_bac_3 Bacterial extracellular solute-binding proteins, family 3.
Probab=100.00  E-value=4.9e-31  Score=216.91  Aligned_cols=205  Identities=25%  Similarity=0.374  Sum_probs=175.3

Q ss_pred             EEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHCCC
Q ss_conf             99987178988306889898801509999999999679822025998143100267743962799812432532011027
Q gi|254780170|r   36 LKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREISLG  115 (342)
Q Consensus        36 L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~  115 (342)
                      ||||++.++|||+|.|++|+++||++|+.++++..++   .+++|+.++|+.++.+|++|++|++++.+++|++|+.  .
T Consensus         1 l~v~~~~~~pP~~~~~~~G~~~G~~~dil~~i~~~lg---~~~~~~~~p~~~~~~~l~~g~~D~~~~~~~~t~~R~~--~   75 (224)
T pfam00497         1 LRVGTDADYPPFSYLDEDGKLVGFDVDLAKAIAKRLG---VKVEFVPVSWDGLIPALQSGKIDVIIAGMTITPERKK--K   75 (224)
T ss_pred             CEEEECCCCCCCEEECCCCCEEEEHHHHHHHHHHHHC---CCEEEEECCHHHHHHHHHCCCCCEEECCCCCCHHHHH--H
T ss_conf             9899589989915999999788829999999999979---9679998588999999976998766136778855510--2


Q ss_pred             CCCCCCCCCCCEEEEEECCC-----CCCCHHHHCCCCEEEEECCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCCC
Q ss_conf             84353223440234630211-----3475364178620343134269999999986299850787479899999987396
Q gi|254780170|r  116 LAFRPITYFDGQGFIMHKKK-----GISSVSQLSGASICVQAGTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYRAHR  190 (342)
Q Consensus       116 v~Fs~~~~~dgq~~lVrk~~-----~i~s~~dL~G~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr  190 (342)
                      ++|+.||+.....+++++++     .+++++||+|++||+..|+.++..+.+..   ....+++.+++..+++..|.+||
T Consensus        76 ~~~s~p~~~~~~~~~~~~~~~~~~~~~~~~~dL~~~~I~v~~g~~~~~~l~~~~---~~~~~i~~~~~~~~~l~~L~~gr  152 (224)
T pfam00497        76 VDFSDPYYYSGQVLVVRKDSPPKIKSIKDLADLKGKKVGVQKGTTQEDLLKELA---PKGAEIVLYDDQAEALQALAAGR  152 (224)
T ss_pred             HCCCCCEEECCEEEEEECCCCCCCCCCCCHHHHCCCEEEEECCCHHHHHHHHHC---CCCCEEEEECCHHHHHHHHHCCC
T ss_conf             125753440471799998987654565898997797799968977999998606---24451699542788888987497


Q ss_pred             EEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHH
Q ss_conf             029982504799999836780010025644423710100027775799998877443311
Q gi|254780170|r  191 CDAYTGDISALYALKLTNDRPSEHVILPDIISKSPLAPAIIQGDTEWYNIVSWTHYAMVT  250 (342)
Q Consensus       191 ~DA~~~D~s~La~~~~~~~~p~~~~il~e~iskEPlg~avr~gD~~w~d~V~W~~~ali~  250 (342)
                      ||+++.|...+.....+.  +.+..+++..++.+|++++++++++++.+.++-.+..|.+
T Consensus       153 ~D~~i~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~k~~~~l~~~~n~~l~~l~~  210 (224)
T pfam00497       153 VDAVVADSPVAAYLIKKN--PGLNLVVGEPLSGEPYGIAVRKGDPELLAAVNKALAELKA  210 (224)
T ss_pred             EEEEEECHHHHHHHHHHC--CCCEEEECCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHH
T ss_conf             689995799999999868--9972994367776149999979999999999999999996


No 10 
>PRK10859 putative transglycosylase; Provisional
Probab=99.94  E-value=2.1e-24  Score=174.90  Aligned_cols=229  Identities=15%  Similarity=0.146  Sum_probs=173.3

Q ss_pred             HHHHHHHHHHHHHHH--HC---CCCCHHHHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEE
Q ss_conf             899999999999984--01---2442168999857949998717898830688989880150999999999967982202
Q gi|254780170|r    4 DFFVSILCLIILFFT--SF---STNASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKI   78 (342)
Q Consensus         4 ~~l~~~l~l~~~~~~--~~---aa~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kV   78 (342)
                      -+++.++++++....  ++   ......|++|++||+|+|++..+.  -+|...+|++.||+-||+++.|..++   .++
T Consensus         8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~I~~rG~LrV~T~~sp--ttYy~~~~~~~GFEYELak~FA~~LG---V~L   82 (507)
T PRK10859          8 YLFIGIVTLLLAAALWPSIPWFGKQENQIAAIQARGELRVSTIHSP--LTYSTINGKPFGLDYELAKQFADYLG---VKL   82 (507)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHCCEEEEEEECCC--CEEEECCCCCCCHHHHHHHHHHHHCC---CEE
T ss_conf             1289999999999972058889984747999997896899997589--65994199647799999999999809---917


Q ss_pred             EEEEC-CCCCCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCCCCCCEEEEEECCCC-CCCHHHHCCCCEEEEECCCH
Q ss_conf             59981-43100267743962799812432532011027843532234402346302113-47536417862034313426
Q gi|254780170|r   79 QYLPL-NAKERFLALQSKQIDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMHKKKG-ISSVSQLSGASICVQAGTTT  156 (342)
Q Consensus        79 e~v~~-~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVrk~~~-i~s~~dL~G~~I~v~~GTT~  156 (342)
                      ++++. +.++.|++|++|+.|++++++|+|.+|  ...+.|+++|+...|.++.|+++. +++++||.|++|.|.+||++
T Consensus        83 ~i~~~~~~~el~~~L~~G~~DiaAAgLt~t~~R--~~~~~~~p~Y~~v~q~LVyr~g~~rP~~l~DL~G~~I~V~~gSsy  160 (507)
T PRK10859         83 KVTVRQNISQLFDDLDNGNADLLAAGLVYNSER--VKNYQPGPTYYSVSQQLVYRVGQYRPRTLGDLTGEQLTVAPGHVV  160 (507)
T ss_pred             EEEECCCHHHHHHHHHCCCCCEEECCCCCCHHH--HHCCCCCCCCCCEEEEEEEECCCCCCCCHHHCCCCEEEECCCCHH
T ss_conf             999749999999998679988895578778536--740435686503003999958998988977837986998179759


Q ss_pred             HHHHHHHHHHCCCCCC--EEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCCCCEEEECCCCC
Q ss_conf             9999999986299850--78747989999998739602998250479999983678001002564442371010002777
Q gi|254780170|r  157 ELTLADYFKAHNMKYH--PIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDIISKSPLAPAIIQGD  234 (342)
Q Consensus       157 e~~l~~~~~~~~~~~~--~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~iskEPlg~avr~gD  234 (342)
                      +..|...-+...+..+  ...--+.++.+..+.+|++|.-+.|...+...+.-.|+=   .+--+.-..+|++.++|+++
T Consensus       161 ~e~L~~Lk~~~~P~L~w~~~~~~~teeLL~~V~~g~IdyTVaDS~~~~l~qr~~P~L---~vaf~l~~~~~iaWa~~k~~  237 (507)
T PRK10859        161 VNDLQTLKETKFPELSWKVDDKKGSAELLEQVIEGKLDYTIADSVAISLFQRVHPEL---AVALDVTDEQPVTWFSPLDD  237 (507)
T ss_pred             HHHHHHHHHCCCCCEEEEECCCCCHHHHHHHHHCCCCCEEEECCHHHHHHHHHCCCH---HCCCCCCCCCCEEEEECCCC
T ss_conf             999999885348971599558999999999997598776885548899877648440---12245688751378845899


Q ss_pred             HH-HHHHHH
Q ss_conf             57-999988
Q gi|254780170|r  235 TE-WYNIVS  242 (342)
Q Consensus       235 ~~-w~d~V~  242 (342)
                      ++ ..+.++
T Consensus       238 d~sL~~al~  246 (507)
T PRK10859        238 DNTLSAALL  246 (507)
T ss_pred             CHHHHHHHH
T ss_conf             789999999


No 11 
>TIGR02995 ectoine_ehuB ectoine/hydroxyectoine ABC transporter solute-binding protein; InterPro: IPR014337   Members of this entry are the extracellular solute-binding proteins of ABC transporters and they closely resemble amino acid transporters. The member from Sinorhizobium meliloti (Rhizobium meliloti) is involved in ectoine uptake, both for osmoprotection and for catabolism. All other members of the seed alignment are found associated with ectoine catabolic genes..
Probab=99.94  E-value=8.7e-26  Score=183.65  Aligned_cols=245  Identities=18%  Similarity=0.236  Sum_probs=196.9

Q ss_pred             HHHHHHHHHHCCCCCHHHHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCH
Q ss_conf             99999998401244216899985794999871789883068898988015099999999996798220259981431002
Q gi|254780170|r   10 LCLIILFFTSFSTNASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERF   89 (342)
Q Consensus        10 l~l~~~~~~~~aa~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf   89 (342)
                      +++++.+.+..++++.|||++|+-|++|+|+-.. +||+|...||+-+|..-|++++|=+.||-  ..|.++-..|-..|
T Consensus        10 al~aia~~~~~aa~a~~LeelKeQG~~Ria~ANE-~Pf~y~g~DGkv~G~~PdvA~aifK~lGi--~dVn~~~te~G~lI   86 (285)
T TIGR02995        10 ALAAIAAVAVAAADALTLEELKEQGFVRIAIANE-VPFAYVGADGKVAGAAPDVARAIFKRLGI--KDVNASVTEYGALI   86 (285)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCC-CCCCCCCCCCCCCCCCHHHHHHHHHHCCC--EEEEEEECCCCCCC
T ss_conf             9999998757547552157552353047740067-86400268853136855789999985481--10000035640314


Q ss_pred             HHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCCCCCCEEEEEECCC--CCCCHHHHC---CCCEEEEECCCHHHHHHHHH
Q ss_conf             6774396279981243253201102784353223440234630211--347536417---86203431342699999999
Q gi|254780170|r   90 LALQSKQIDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMHKKK--GISSVSQLS---GASICVQAGTTTELTLADYF  164 (342)
Q Consensus        90 ~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVrk~~--~i~s~~dL~---G~~I~v~~GTT~e~~l~~~~  164 (342)
                      |.|++|++|.+.+++-++++|  =..|.|+.|.|.++.+|+|+|+.  +.+|.+|..   ..||++..|++.++    |.
T Consensus        87 PGL~AgRfDaiaAg~~i~PeR--CkqVaft~P~~~~~eallvkKGNPk~L~sY~DiAknP~~K~a~~~G~~e~~----~a  160 (285)
T TIGR02995        87 PGLKAGRFDAIAAGLFIKPER--CKQVAFTEPILSLAEALLVKKGNPKELKSYKDIAKNPEVKVAVVAGAVEVK----YA  160 (285)
T ss_pred             CCCCCCHHHHHHHCCCCCHHH--HHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCHHCCCCCEEEECCCCHHHH----HH
T ss_conf             541010256886115788566--646440688644755211258788887752020068231276124723789----99


Q ss_pred             HHCCCC-CCEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCC---CCCCCCCE-----EEECCCCCH
Q ss_conf             862998-507874798999999873960299825047999998367800100256---44423710-----100027775
Q gi|254780170|r  165 KAHNMK-YHPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILP---DIISKSPL-----APAIIQGDT  235 (342)
Q Consensus       165 ~~~~~~-~~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~---e~iskEPl-----g~avr~gD~  235 (342)
                      +..|.+ -+++.+++....++++++||+|+++.-.-.+-.+..+..+|+=-.+-|   ..+.-.|-     |.|+|++|.
T Consensus       161 r~~GVk~eqi~~vPd~~~~l~~vq~~RaDay~~t~Lt~~~La~K~gd~nVE~~~pfvdPvvkdaPv~i~ygg~AFRpeDk  240 (285)
T TIGR02995       161 REAGVKEEQIVVVPDTASALKAVQDKRADAYAATELTVKDLAKKAGDANVEVLAPFVDPVVKDAPVRINYGGLAFRPEDK  240 (285)
T ss_pred             HHCCCCCCEEEEECCCHHHHHHHHHHCCCEECCCCCCHHHHHHHCCCCCCEECCCCCCCCCCCCCCEECCCCCCCCCCCH
T ss_conf             86589866078824871678887740342200332347889853389762000432153105887341167201166667


Q ss_pred             HHHHHHHHHHHHHHHHHHH-------HCCHHHHHH
Q ss_conf             7999988774433112123-------301520898
Q gi|254780170|r  236 EWYNIVSWTHYAMVTAEEL-------GITQKNINQ  263 (342)
Q Consensus       236 ~w~d~V~W~~~ali~Aee~-------git~~nv~~  263 (342)
                      ++||.++--+.-+-..||+       |.+.+|+..
T Consensus       241 eLRDafn~~L~k~~~s~e~~Ki~apyGfs~~~~~~  275 (285)
T TIGR02995       241 ELRDAFNVELAKLKESDEFKKIVAPYGFSKKALAA  275 (285)
T ss_pred             HHHHHHHHHHHHHHCCCCCHHHHCCCCCCHHHHHH
T ss_conf             77879989999862465401122136888889987


No 12 
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.90  E-value=1.3e-21  Score=157.22  Aligned_cols=217  Identities=16%  Similarity=0.082  Sum_probs=166.1

Q ss_pred             HHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEE-CCCCCCHHHHHCCCEEEEEECCCCC
Q ss_conf             998579499987178988306889898801509999999999679822025998-1431002677439627998124325
Q gi|254780170|r   29 DIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLP-LNAKERFLALQSKQIDILSRNTDWT  107 (342)
Q Consensus        29 ~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~-~~~~~rf~aL~sG~vDil~~~~T~T  107 (342)
                      =+++.-++++++++++|||+|.|++|++.||.+|+.+.|....|   .++++++ -+|.+....|++|++|++ ..++.|
T Consensus       297 WL~~hP~irv~~~~~~aP~sf~D~~G~~~Gi~aD~L~lIs~rtG---L~Fe~v~~~~~~~~~~~l~~g~~D~l-~~~~~s  372 (1197)
T PRK09959        297 WIKQHPDLKVLENPYSPPYSMTDENGSVRGVMGDILNIITLQTG---LNFSPITVSHNIHAGTQLNPGGWDIL-PGAIYS  372 (1197)
T ss_pred             HHHHCCCEEEEECCCCCCEEEECCCCCCCCCHHHHHHHHHHHHC---CEEEEEECCCHHHHHHHHHCCCCHHC-CCCCCC
T ss_conf             99978975997179989945788899764327999999999879---66899836987999999876981220-323578


Q ss_pred             CCCHHCCCCCCCCCCCCCCEEEEEECCC-CCCCHHHHCCCCEEEEECCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHH
Q ss_conf             3201102784353223440234630211-347536417862034313426999999998629985078747989999998
Q gi|254780170|r  108 LLREISLGLAFRPITYFDGQGFIMHKKK-GISSVSQLSGASICVQAGTTTELTLADYFKAHNMKYHPIVFERVEEIDAAY  186 (342)
Q Consensus       108 ~~Rd~~~~v~Fs~~~~~dgq~~lVrk~~-~i~s~~dL~G~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al  186 (342)
                      .+|+  ..+.|+.||....-.+++|++. ...++.  .|++|++..|...+    ++++...++++++.+++..+++.++
T Consensus       373 ~~r~--~~l~fT~py~~~p~ViV~r~~~~~~~~l~--~gkrvai~~~~~~~----~~l~~~yP~i~~v~v~s~~~al~~v  444 (1197)
T PRK09959        373 EDRE--NNVLFAEAFITTPYVFVMQKAPDSEQTLK--KGMKVAIPYYYELH----SQLKEMYPEVEWIKVDNASAAFHKV  444 (1197)
T ss_pred             CCCC--CCCEECCCCCCCCEEEEEECCCCCCCCHH--CCCEEEECCCCCHH----HHHHHHCCCCEEEEECCHHHHHHHH
T ss_conf             5443--46554132356875999963786301142--19889991785068----9999868983499809999999999


Q ss_pred             HCCCEEEEEECCHHHHHHHHHCCCCHHHCCC-CCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCH
Q ss_conf             7396029982504799999836780010025-64442371010002777579999887744331121233015
Q gi|254780170|r  187 RAHRCDAYTGDISALYALKLTNDRPSEHVIL-PDIISKSPLAPAIIQGDTEWYNIVSWTHYAMVTAEELGITQ  258 (342)
Q Consensus       187 ~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il-~e~iskEPlg~avr~gD~~w~d~V~W~~~ali~Aee~git~  258 (342)
                      .+|++||++.....-.....+ --++..++. -......+++++|+++.++...|.+-++.++=..|-..|.+
T Consensus       445 ~~G~aDa~v~~l~~a~y~i~~-~~~~~L~~~~~~~~~~~~lafaV~~d~peL~sILnKaL~sIpp~E~~~I~~  516 (1197)
T PRK09959        445 KEGELDALVATQLNSRYMIDH-YYPNELYHFLIPGVPNASLSFAFPRGEPELKDIINKALNAIPPSEVLRLTE  516 (1197)
T ss_pred             HCCCCCEEEEHHHHHHHHHHH-HCCCCCEEEECCCCCCCCEEEEECCCCHHHHHHHHHHHHHCCHHHHHHHHH
T ss_conf             778876674244778999987-456650487415877632699987998899999999998399999999998


No 13 
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.84  E-value=1.9e-18  Score=137.13  Aligned_cols=246  Identities=12%  Similarity=0.072  Sum_probs=180.5

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCC----------------------HHHHHHHHCCEEEEEE-ECCCCCCEEECCCCCEE
Q ss_conf             913899999999999984012442----------------------1689998579499987-17898830688989880
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNA----------------------SILGDIKKRGFLKCGI-NTGLVGFAEVKANGDWK   57 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a----------------------~tLd~Vk~rG~L~vGv-~~~~ppfs~~d~~G~~~   57 (342)
                      ||+-.+..++|..+.+....++..                      +-+.=.+.|.+|++|+ .+++|||.+.++.+.+.
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~d~~WL~~~~~l~vgv~~pd~~Pf~~~~~~~~ye   80 (1197)
T PRK09959          1 MKFLPYIFLLCCGLWSTISFADEDYIEYRGISSNNRVTLDPLRLSNKELRWLASKKNLVIAVHKSQTATLLHTDSQQRVR   80 (1197)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHEEECCCCCCCCCCCCCCCCHHHHHHHHHCCEEEEEEECCCCCCEEEECCCCCCC
T ss_conf             96421699999888756766531044122456887132457789979999997388589971068899967727998646


Q ss_pred             EEHHHHHHHHHHHHCCCCCEEEEEE-CCCCCCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCCCCCCEEEEEECCCC
Q ss_conf             1509999999999679822025998-143100267743962799812432532011027843532234402346302113
Q gi|254780170|r   58 GFDVDFCRALSSAIFDDPSKIQYLP-LNAKERFLALQSKQIDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMHKKKG  136 (342)
Q Consensus        58 GfDVDl~raiAaal~gd~~kVe~v~-~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVrk~~~  136 (342)
                      |+..|+..-|+.+++   .+|+.+. -++..-+.||++|+||++.+..+-+..+  ..++.++.||+.+-..++++....
T Consensus        81 GI~ADYl~li~~~L~---~~i~v~~y~~r~~al~AL~~GeIDl~~~~~~~~~~~--~~~~~~s~p~~~~~p~~v~~~~~~  155 (1197)
T PRK09959         81 GINADYLNLLKRALN---IKLTLREYADHQKAMDALEEGEVDIVLSHLVASPPL--NDDIAATKPLIITFPALVTTLHDS  155 (1197)
T ss_pred             CCCHHHHHHHHHHHC---CCEEEEECCCHHHHHHHHHCCCCCEECCCCCCCCCC--CCCCCCCCCCCCCCCEEEEECCCC
T ss_conf             847999999999868---987999569999999999759975634544457642--346533685323675589973333


Q ss_pred             CCCHHHHCCCCEEEEECCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCC
Q ss_conf             47536417862034313426999999998629985078747989999998739602998250479999983678001002
Q gi|254780170|r  137 ISSVSQLSGASICVQAGTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVI  216 (342)
Q Consensus       137 i~s~~dL~G~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~i  216 (342)
                      .....++.+.+|+...+.-...    .+.+..++.+++.|++..+++.|+..|++|+|.+|...-.....+.. .....+
T Consensus       156 ~~~~~~~~~~~va~v~~y~~~~----~i~~~yP~a~i~~~~s~~~Al~AVa~G~aD~~igd~~s~~~li~~~~-~~~l~~  230 (1197)
T PRK09959        156 MRPLTSSKPVNIARVANYPPDE----VIHQSFPKATIISFTNLYQALASVSAGQNDYFIGSNIITSSMISRYF-THSLNV  230 (1197)
T ss_pred             CCCCCCCCCEEEEEECCCCCHH----HHHHHCCCCEEEECCCHHHHHHHHHCCCCCEEEECHHHHHHHHHHHC-CCCEEE
T ss_conf             5876567752799957889879----99985996669966899999999977998889602999999997440-268035


Q ss_pred             CCCCCCCCCE---EEECCCCCHHHHHHHHHHHHHHHHHHHHHCCH
Q ss_conf             5644423710---10002777579999887744331121233015
Q gi|254780170|r  217 LPDIISKSPL---APAIIQGDTEWYNIVSWTHYAMVTAEELGITQ  258 (342)
Q Consensus       217 l~e~iskEPl---g~avr~gD~~w~d~V~W~~~ali~Aee~git~  258 (342)
                      .  .+..+|.   ..++|+++..+.++++-++.++-..+..-|-+
T Consensus       231 ~--~~~~~~~~~~~f~~~~~~~~L~~~in~~L~~i~~~~~~~i~~  273 (1197)
T PRK09959        231 V--KYYNSPRQYNFFLTRKESVILNEVLNRFVDALTNEVRYEVSQ  273 (1197)
T ss_pred             E--ECCCCCCCCEEEEECCCCHHHHHHHHHHHHHCCHHHHHHHHH
T ss_conf             2--124577644157878875789999999998379667999997


No 14 
>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]
Probab=99.74  E-value=2.8e-16  Score=123.41  Aligned_cols=218  Identities=17%  Similarity=0.182  Sum_probs=160.5

Q ss_pred             CHHHHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCC-CCCHHHHHCCCEEEEEE
Q ss_conf             21689998579499987178988306889898801509999999999679822025998143-10026774396279981
Q gi|254780170|r   24 ASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNA-KERFLALQSKQIDILSR  102 (342)
Q Consensus        24 a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~-~~rf~aL~sG~vDil~~  102 (342)
                      ..-|+.|++||+|+|++...  |.+|--.+|.++|||.+++|++|.-++   .+.+.+|.+- ++.|++|++|++|++++
T Consensus        13 e~~l~~Iq~rGvLrV~tins--p~sy~~~~~~p~G~eYelak~Fa~yLg---V~Lki~~~~n~dqLf~aL~ng~~DL~Aa   87 (473)
T COG4623          13 ENDLAAIQARGVLRVSTINS--PLSYFEDKGGPTGLEYELAKAFADYLG---VKLKIIPADNIDQLFDALDNGNADLAAA   87 (473)
T ss_pred             CCHHHHHHHCCEEEEEEECC--CCCEECCCCCCCCHHHHHHHHHHHHHC---CEEEEEECCCHHHHHHHHHCCCCCEECC
T ss_conf             01289998668079984058--650000379865355999999999859---7689986677888999985799332426


Q ss_pred             CCCCCCCCHHCCCCCCCCCCCCCCEEEEEECCC-CCCCHHHHCCCCEEEEECCCHHHHHHHHHHHCCCC--CCEEEECCH
Q ss_conf             243253201102784353223440234630211-34753641786203431342699999999862998--507874798
Q gi|254780170|r  103 NTDWTLLREISLGLAFRPITYFDGQGFIMHKKK-GISSVSQLSGASICVQAGTTTELTLADYFKAHNMK--YHPIVFERV  179 (342)
Q Consensus       103 ~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVrk~~-~i~s~~dL~G~~I~v~~GTT~e~~l~~~~~~~~~~--~~~v~~~~~  179 (342)
                      +.+...+|  ...+.-+++||.-.|.++-|++. -.+++++|.|++|-+..|+....+++..-+...+.  ++.-.--+.
T Consensus        88 gl~~~~~~--l~~~~~gP~y~svs~qlVyRkG~~Rp~~l~~L~g~~i~v~~gs~~~~~l~~lk~~kyP~l~~k~d~~~~~  165 (473)
T COG4623          88 GLLYNSER--LKNFQPGPTYYSVSQQLVYRKGQYRPRSLGQLKGRQITVAKGSAHVEDLKLLKETKYPELIWKVDDKLGV  165 (473)
T ss_pred             CCCCCHHH--HCCCCCCCCEECCCHHHHHHCCCCCCCCHHHCCCCEEECCCCCHHHHHHHHHHHHHCCHHHHHHCCCCCH
T ss_conf             56679667--4046788720022588876528878788887367556406996888999999873163443020221269


Q ss_pred             HHHHHHHHCCCEEEEEECCHHHHHHHHHCCCC-HHHCCCCCCCCCCCEEEECCCCCH-HHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999987396029982504799999836780-010025644423710100027775-79999887744331121233
Q gi|254780170|r  180 EEIDAAYRAHRCDAYTGDISALYALKLTNDRP-SEHVILPDIISKSPLAPAIIQGDT-EWYNIVSWTHYAMVTAEELG  255 (342)
Q Consensus       180 ~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p-~~~~il~e~iskEPlg~avr~gD~-~w~d~V~W~~~ali~Aee~g  255 (342)
                      ++.+..+..|.+|-.+.|...++......|+- -++.+..+    .|++..+|.+|+ .....+.   .=|-.+.|-|
T Consensus       166 ~dLle~v~~Gkldytiads~~is~~q~i~P~laVafd~tde----~~v~Wy~~~~dd~tL~a~ll---~F~~~~~e~g  236 (473)
T COG4623         166 EDLLEMVAEGKLDYTIADSVEISLFQRVHPELAVAFDLTDE----QPVAWYLPRDDDSTLSAALL---DFLNEAKEDG  236 (473)
T ss_pred             HHHHHHHHCCCCCEEEECCHHHHHHHHHCCCCEEEEECCCC----CCCEEECCCCCHHHHHHHHH---HHHHHHHCCH
T ss_conf             99999996477661551618889898857222132201356----67346605896688999999---9998730520


No 15 
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=99.66  E-value=1.5e-14  Score=112.47  Aligned_cols=182  Identities=18%  Similarity=0.222  Sum_probs=121.7

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEE
Q ss_conf             91389999999999998401244216899985794999871789883068898988015099999999996798220259
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQY   80 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~   80 (342)
                      |+|-+..++.+++.++++++++.+.       ..+||+|...+..|+-..-+.|-           +.++.-  ..||+|
T Consensus         1 ~~~~l~~~la~~~~~~~~~~~~~~~-------~~~lrIgyq~~~~~~~~~~~~~~-----------~ek~~~--~~kV~w   60 (314)
T PRK11553          1 MRNIIKLALAGLLSVSTLAVAAESS-------PEALRIGYQKGSIGLVLAKSHQL-----------LEKRFP--QTKISW   60 (314)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHCC-------CCEEEEEECCCCHHHHHHHHCCH-----------HHHHCC--CCCEEE
T ss_conf             9779999999999998754443348-------97599996177415899985286-----------766178--983589


Q ss_pred             EECCC-CCCHHHHHCCCEEEEEECCCC-CCCCHHCCCCCCCCC----CCCCCEEEEEECCCCCCCHHHHCCCCEEEEECC
Q ss_conf             98143-100267743962799812432-532011027843532----234402346302113475364178620343134
Q gi|254780170|r   81 LPLNA-KERFLALQSKQIDILSRNTDW-TLLREISLGLAFRPI----TYFDGQGFIMHKKKGISSVSQLSGASICVQAGT  154 (342)
Q Consensus        81 v~~~~-~~rf~aL~sG~vDil~~~~T~-T~~Rd~~~~v~Fs~~----~~~dgq~~lVrk~~~i~s~~dL~G~~I~v~~GT  154 (342)
                      +..+. ...+.+|.+|.+|+...+-+. ...+  ..+.++.-.    ....++.++|+++++|++++||+||||++..||
T Consensus        61 ~~F~~G~~~~eAl~aG~iD~~~~g~~p~i~a~--a~G~~~~~va~~~~~~~~~~i~V~~~S~I~s~aDLkGKkVa~~~Gs  138 (314)
T PRK11553         61 VEFPAGPQMLEALNVGSIDLGSTGDIPPIFAQ--AAGADLVYVGVEPPKPKAEVILVAENSPIKTVADLKGHKVAFQKGS  138 (314)
T ss_pred             EECCCCHHHHHHHHCCCCCEEEECCHHHHHHH--HCCCCEEEEEEECCCCCCEEEEEECCCCCCCHHHHCCCEEEEECCC
T ss_conf             97897489999997699754511585899998--6699869999863788641899848987788889389989741797


Q ss_pred             CHHHHHHHHHHHCCCCC---CEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHH
Q ss_conf             26999999998629985---0787479899999987396029982504799999
Q gi|254780170|r  155 TTELTLADYFKAHNMKY---HPIVFERVEEIDAAYRAHRCDAYTGDISALYALK  205 (342)
Q Consensus       155 T~e~~l~~~~~~~~~~~---~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~  205 (342)
                      +.+..|...+++.|++.   +++.. ...++..+|.+|++||+..=.+.+....
T Consensus       139 ~~~~~l~~aL~~aGL~~~DV~~v~l-~p~d~~aAl~~G~VDA~~~w~P~~~~a~  191 (314)
T PRK11553        139 SSHNLLLRALRQAGLKFTDIQPTYL-TPADARAAFQQGNVDAWAIWDPYYSAAL  191 (314)
T ss_pred             HHHHHHHHHHHHCCCCHHHEEEEEC-CCHHHHHHHHCCCCCEEEECCHHHHHHH
T ss_conf             3799999999986998899189845-9388999996699788997567899998


No 16 
>TIGR03431 PhnD phosphonate ABC transporter, periplasmic phosphonate binding protein. Note that this model does not identify all phnD-subfamily genes with evident phosphonate context, but all sequences above the trusted context may be inferred to bind phosphonate compounds even in the absence of such context. Furthermore, there is ample evidence to suggest that many other members of the TIGR01098 subfamily have a different primary function.
Probab=99.50  E-value=1.9e-12  Score=99.10  Aligned_cols=227  Identities=14%  Similarity=0.107  Sum_probs=138.0

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEE
Q ss_conf             91389999999999998401244216899985794999871789883068898988015099999999996798220259
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQY   80 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~   80 (342)
                      |+|++++++++++++..++..+. +      .-.+|++|+-+...|-...   .+|.-    |.+.+.++++   .+||+
T Consensus         1 m~~r~l~~~~~~~~~~~~~a~a~-~------~p~~l~~gv~P~~~~~~~~---~~~~P----l~~yL~~~lg---~~Ve~   63 (288)
T TIGR03431         1 MLRRLILSLVAAFMLISSNAQAE-D------WPKELNFGIIPTENASDLK---QRWEP----LADYLSKKLG---VKVKL   63 (288)
T ss_pred             CCHHHHHHHHHHHHHHCCHHHHC-C------CCCEEEEEEECCCCHHHHH---HHHHH----HHHHHHHHHC---CCEEE
T ss_conf             90889999999999974322430-4------8836899980699999999---99999----9999999878---97899


Q ss_pred             EEC-CCCCCHHHHHCCCEEEEEECC-CCCCCCHHCCCC-CCCC-------CCCCCCEEEEEECCCCCCCHHHHCCCCEEE
Q ss_conf             981-431002677439627998124-325320110278-4353-------223440234630211347536417862034
Q gi|254780170|r   81 LPL-NAKERFLALQSKQIDILSRNT-DWTLLREISLGL-AFRP-------ITYFDGQGFIMHKKKGISSVSQLSGASICV  150 (342)
Q Consensus        81 v~~-~~~~rf~aL~sG~vDil~~~~-T~T~~Rd~~~~v-~Fs~-------~~~~dgq~~lVrk~~~i~s~~dL~G~~I~v  150 (342)
                      ++. +....+.+|.+|++|+..-+. ++-...+. .++ -+..       +.|+  -.|+||+|++|++++||+||+||.
T Consensus        64 ~~~~~y~~~~eal~~g~~Dia~~~p~~yv~a~~~-~~~~~la~~~~~~g~~~y~--s~iivr~Ds~i~sl~DLkGk~iaf  140 (288)
T TIGR03431        64 FFATDYAGVIEGMRFGKVDIAWYGPSSYAEAYQK-ANAEAFAIEVNADGSTGYY--SVLIVKKDSPIKSLEDLKGKTFGF  140 (288)
T ss_pred             EECCCHHHHHHHHHCCCCEEEEECCHHHHHHHHC-CCCEEEEEEECCCCCCCEE--EEEEEECCCCCCCHHHHCCCEEEE
T ss_conf             9689999999999859830999884788998652-5974889985158886457--999998999888778957987660


Q ss_pred             EE-CCCHHHHHH-HHH-HHCCCCC-----CEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHH-CCC-CHHHCCCCCC
Q ss_conf             31-342699999-999-8629985-----078747989999998739602998250479999983-678-0010025644
Q gi|254780170|r  151 QA-GTTTELTLA-DYF-KAHNMKY-----HPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLT-NDR-PSEHVILPDI  220 (342)
Q Consensus       151 ~~-GTT~e~~l~-~~~-~~~~~~~-----~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~-~~~-p~~~~il~e~  220 (342)
                      .. .||+--.+. .++ +..++..     ++....+++.+..++.+|.+||-......+...... .++ .++++|+-+.
T Consensus       141 ~~~~StSG~l~P~~~L~~~~g~~~~~~f~~v~~~gshd~~~~aV~~G~~Dag~~~~~~~~~~~~~~~~~~~~~lrvi~~S  220 (288)
T TIGR03431       141 VDPNSTSGFLVPSYYLFKKNGIKPKEYFKKVTFSGSHEAAILAVANGTVDAATTNDENLDRMIRKGQPDAMEDLRIIWKS  220 (288)
T ss_pred             CCCCCCHHHHHHHHHHHHHCCCCHHHHHHHEEECCCHHHHHHHHHCCCCCEEEECHHHHHHHHHCCCCCHHHCEEEEEEC
T ss_conf             28741111399999999865997254553133157878999999859932998338889999974796303136999867


Q ss_pred             CCCCCEEEECCCC-CHHHHHHHHHHHHH
Q ss_conf             4237101000277-75799998877443
Q gi|254780170|r  221 ISKSPLAPAIIQG-DTEWYNIVSWTHYA  247 (342)
Q Consensus       221 iskEPlg~avr~g-D~~w~d~V~W~~~a  247 (342)
                      -.--+..+++|++ |++.++.++-++..
T Consensus       221 ~~iP~~~~~v~~~l~~~~~~~i~~all~  248 (288)
T TIGR03431       221 PLIPNGPIVYRKDLPADLKAKIRKAFLN  248 (288)
T ss_pred             CCCCCCCEEEECCCCHHHHHHHHHHHHH
T ss_conf             8888771899699999999999999980


No 17 
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=99.40  E-value=1.2e-11  Score=94.08  Aligned_cols=236  Identities=13%  Similarity=0.092  Sum_probs=141.7

Q ss_pred             CHHHHHHHHHH-HHHHHHHHCCCCCHHHHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEE
Q ss_conf             91389999999-99999840124421689998579499987178988306889898801509999999999679822025
Q gi|254780170|r    1 MYKDFFVSILC-LIILFFTSFSTNASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQ   79 (342)
Q Consensus         1 M~K~~l~~~l~-l~~~~~~~~aa~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe   79 (342)
                      |+|+.++...+ ++++...+|+.+.+....-..-++|++|+.+..   +..+-...|.++.=.|++++    +   .+|+
T Consensus         1 m~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~l~~gi~p~e---~~~~~~~~~~pl~~~L~~~l----G---~~V~   70 (299)
T COG3221           1 MKKKKLLLASAAAVLALAGCCGSSESDAPAAEDPKELRVGIVPTE---NPTNLIPAWAPLADYLEKEL----G---IPVE   70 (299)
T ss_pred             CCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEECCCC---CHHHHHHHHHHHHHHHHHHH----C---CCEE
T ss_conf             942788999999999998632577454322268753599976888---86878876566998988986----9---9543


Q ss_pred             EE-ECCCCCCHHHHHCCCEEEEEECCC-CCCCCHHC-CCCCCCCCCCCCCE-----EEEEECCCCCCCHHHHCCCCEEEE
Q ss_conf             99-814310026774396279981243-25320110-27843532234402-----346302113475364178620343
Q gi|254780170|r   80 YL-PLNAKERFLALQSKQIDILSRNTD-WTLLREIS-LGLAFRPITYFDGQ-----GFIMHKKKGISSVSQLSGASICVQ  151 (342)
Q Consensus        80 ~v-~~~~~~rf~aL~sG~vDil~~~~T-~T~~Rd~~-~~v~Fs~~~~~dgq-----~~lVrk~~~i~s~~dL~G~~I~v~  151 (342)
                      +. ..+....+.+|.+|++|+.+-+-+ .....+.. ..-.|......||+     .|+|+++++|++++||+|||+|..
T Consensus        71 ~~~a~dy~~vieal~~g~~D~A~~~~~a~~~a~~~~~~~e~~~~~~~~dg~~~Y~S~~i~~~ds~i~sl~dlkgk~~af~  150 (299)
T COG3221          71 FFVATDYAAVIEALRAGQVDIAWLGPSAYVEAVDRALAGEPLAQTVQKDGSPGYYSVIIVRADSPIKSLEDLKGKRFAFG  150 (299)
T ss_pred             EEECCCHHHHHHHHHCCCEEEEECCCHHHHHHHHHCCCCCCEEEEECCCCCCCEEEEEEEECCCCCCHHHHHCCCEEECC
T ss_conf             57257689999998589610774185778998641245420133212589865178999927997433788269967636


Q ss_pred             ECCCHHHH-H-HHHHHHCC-C----CCCEEEECC-HHHHHHHHHCCCEEEEEECCHHHHHHHHHCCC--CHHHCCCCCCC
Q ss_conf             13426999-9-99998629-9----850787479-89999998739602998250479999983678--00100256444
Q gi|254780170|r  152 AGTTTELT-L-ADYFKAHN-M----KYHPIVFER-VEEIDAAYRAHRCDAYTGDISALYALKLTNDR--PSEHVILPDII  221 (342)
Q Consensus       152 ~GTT~e~~-l-~~~~~~~~-~----~~~~v~~~~-~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~--p~~~~il~e~i  221 (342)
                      .-+++-.. + ..++...+ +    .+..+.|.+ ++.++.++.+|++|+-+.+.+.........+.  .++.+|+-+.=
T Consensus       151 d~~StSG~l~P~~~L~~~g~~d~~~~f~~v~~~G~H~~a~~aV~nG~vDva~~~~~~~~~~~~~~~~~~~~~l~vi~~S~  230 (299)
T COG3221         151 DPDSTSGYLFPLYYLAKEGGIDPDKFFGEVIFSGGHDAAVLAVANGQVDVAAVNSSARGLLKKAAPEGVAEKLRVIWKSP  230 (299)
T ss_pred             CCCCCCHHHHHHHHHHHHCCCCHHHHHCEEECCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCHHHCEEEEECC
T ss_conf             99854124768999998438984654226503570799999997488308852288887776404334533426999558


Q ss_pred             CCCCEEEECCCC-CHHHHHHHHHHHH
Q ss_conf             237101000277-7579999887744
Q gi|254780170|r  222 SKSPLAPAIIQG-DTEWYNIVSWTHY  246 (342)
Q Consensus       222 skEPlg~avr~g-D~~w~d~V~W~~~  246 (342)
                      .--...+++|++ +++++.-++=.+.
T Consensus       231 ~iP~~pi~vr~~L~~~~k~kl~~af~  256 (299)
T COG3221         231 LIPNDPIAVRSDLPADLKEKLRDAFL  256 (299)
T ss_pred             CCCCCCEEEECCCCHHHHHHHHHHHH
T ss_conf             98999788837799999999999998


No 18 
>PRK11480 tauA taurine transporter substrate binding subunit; Provisional
Probab=99.32  E-value=5.6e-11  Score=89.83  Aligned_cols=153  Identities=17%  Similarity=0.106  Sum_probs=112.0

Q ss_pred             EEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCC-CCCHHHHHCCCEEEEEECCCCCCCCHHC
Q ss_conf             499987178988306889898801509999999999679822025998143-1002677439627998124325320110
Q gi|254780170|r   35 FLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNA-KERFLALQSKQIDILSRNTDWTLLREIS  113 (342)
Q Consensus        35 ~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~-~~rf~aL~sG~vDil~~~~T~T~~Rd~~  113 (342)
                      +||+|.....-|+.+...+|.+.           ++++   .+|+|+..+. ...+.+|.+|.+|+..-+.+... -..+
T Consensus        24 ~v~igYq~~~~p~~~aka~g~~e-----------k~~G---~kV~W~~F~sG~~~~eAlasG~vDig~~G~~P~~-~a~a   88 (320)
T PRK11480         24 NVTVAYQTSAEPAKVAQADNTFA-----------KESG---ATVDWRKFDSGASIVRALASGDVQIGNLGSSPLA-VAAS   88 (320)
T ss_pred             EEEEEEECCCCCHHHHHHCCCHH-----------HHCC---CCEEEEECCCHHHHHHHHHCCCCCEECCCCCHHH-HHHH
T ss_conf             59999806986289998638456-----------7519---8127997797599999996699756457784799-9986


Q ss_pred             CCCCC----CCCCCCCCEEEEEECCCCCCCHHHHCCCCEEEEECCCHHHHHHHHHHHCCCCC---CEEEECCHHHHHHHH
Q ss_conf             27843----53223440234630211347536417862034313426999999998629985---078747989999998
Q gi|254780170|r  114 LGLAF----RPITYFDGQGFIMHKKKGISSVSQLSGASICVQAGTTTELTLADYFKAHNMKY---HPIVFERVEEIDAAY  186 (342)
Q Consensus       114 ~~v~F----s~~~~~dgq~~lVrk~~~i~s~~dL~G~~I~v~~GTT~e~~l~~~~~~~~~~~---~~v~~~~~~~a~~al  186 (342)
                      .++++    ....+-++..++||+  +|++++||+||||+|..||+++-.|-..++..|++.   +++ .=...++..|+
T Consensus        89 ~g~~ik~v~i~~~~~~~ealvv~~--~I~s~~DLkGKkVav~~gS~~hy~ll~aL~~~Gl~~~dV~iv-~m~p~d~~aA~  165 (320)
T PRK11480         89 QQVPIEVFLLASKLGNSEALVVKK--TISKPEDLIGKRIAVPFISTTHYSLLAALKHWGIKPGQVEIV-NLQPPAIIAAW  165 (320)
T ss_pred             CCCCEEEEEEECCCCCCEEEEECC--CCCCHHHCCCCEEECCCCCCHHHHHHHHHHHCCCCHHHEEEE-ECCCHHHHHHH
T ss_conf             799859999854789743899568--999968849998960788731899999999859998990788-44928899999


Q ss_pred             HCCCEEEEEECCHHHHHHH
Q ss_conf             7396029982504799999
Q gi|254780170|r  187 RAHRCDAYTGDISALYALK  205 (342)
Q Consensus       187 ~~Gr~DA~~~D~s~La~~~  205 (342)
                      .+|.+||.+.=.+.|...+
T Consensus       166 ~~G~vDa~~~W~P~l~~l~  184 (320)
T PRK11480        166 QRGDIDGAYVWAPAVNALE  184 (320)
T ss_pred             HCCCCCEEEECCHHHHHHH
T ss_conf             7699787962677999998


No 19 
>TIGR01098 3A0109s03R phosphonate ABC transporter, periplasmic phosphonate-binding protein; InterPro: IPR005770    Bacterial binding protein-dependent transport systems ,  are multicomponent systems typically composed of a periplasmic substrate-binding protein, one or two reciprocally homologous integral inner-membrane proteins and one or two peripheral membrane ATP-binding proteins that couple energy to the active transport system. The integral inner-membrane proteins translocate the substrate across the membrane. It has been shown ,  that most of these proteins contain a conserved region located about 80 to 100 residues from their C-terminal extremity. This region seems  to be located in a cytoplasmic loop between two transmembrane domains. Apart from the conserved region, the sequence of these proteins is quite divergent, and they have a variable number of transmembrane helices.    This is a family of periplasmic proteins which are part of the transport system for alkylphosphonate uptake. ; GO: 0015604 phosphonate transmembrane transporter activity, 0015716 phosphonate transport, 0030288 outer membrane-bounded periplasmic space.
Probab=99.20  E-value=4.4e-09  Score=77.86  Aligned_cols=233  Identities=15%  Similarity=0.107  Sum_probs=141.7

Q ss_pred             CHHHHHHHHHHHHHHHHHHC----------CCCCHH-------HHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHH
Q ss_conf             91389999999999998401----------244216-------8999857949998717898830688989880150999
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSF----------STNASI-------LGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDF   63 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~----------aa~a~t-------Ld~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl   63 (342)
                      |||.+++.++++.++++++|          ...++.       +++-..-.+|++|+=++--+       .+...----|
T Consensus         1 mkr~~~~~~~~~~~~~~~~~~~S~~~~~~~~~~~~~~~~~~~~~~~~~~p~~l~~g~~P~e~~-------~~~~~~~~pL   73 (299)
T TIGR01098         1 MKRLLALLAALLVASLAAACGSSEIDNRDCAAKAADAADADADVEKSETPKELNFGILPGENA-------SNLARRWEPL   73 (299)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHCCCCHHHCCCCCCEEEEEEECCCCH-------HHHHHHHHHH
T ss_conf             947889999999999998754200145435655100101562121036777268998448875-------5777766899


Q ss_pred             HHHHHHHHCCCCCEEEEE-ECCCCCCHHHHHCCCEEEEEE-CCCCCCCCHHCCCCCCCCC----CCCCC-----EEEEEE
Q ss_conf             999999967982202599-814310026774396279981-2432532011027843532----23440-----234630
Q gi|254780170|r   64 CRALSSAIFDDPSKIQYL-PLNAKERFLALQSKQIDILSR-NTDWTLLREISLGLAFRPI----TYFDG-----QGFIMH  132 (342)
Q Consensus        64 ~raiAaal~gd~~kVe~v-~~~~~~rf~aL~sG~vDil~~-~~T~T~~Rd~~~~v~Fs~~----~~~dg-----q~~lVr  132 (342)
                      ...+-+.++   .||++. ..+....+.|+.+|++|+.+- +.|+-...+......|..+    ...+|     -.|+|+
T Consensus        74 ~~~Lek~Lg---~kV~~~~~~dY~a~IEamr~g~~D~a~~g~~sY~~A~~~~~~~~~a~~~~~~~~~~g~~~Y~S~~iv~  150 (299)
T TIGR01098        74 KDYLEKKLG---IKVELFVATDYSAVIEAMRFGRVDIAWFGPSSYVLAHRRANAEAFALTAIRYVSTDGSPGYYSVIIVK  150 (299)
T ss_pred             HHHHHHHCC---CCEEEEEECCCCCEEEEECCCCEEEEEECCCHHHEEEECCCCCHHHHHHHHHCCCCCCCCEEEEEEEC
T ss_conf             998887558---86799861683103342326807898347851232200138701213443311688898348999983


Q ss_pred             CCCCCCCHHH----HCCCCEEEE-ECCCHHHHHHH--HHHHCCC--C-------CCEEEECCHHHHHHHHHCCCEEEEEE
Q ss_conf             2113475364----178620343-13426999999--9986299--8-------50787479899999987396029982
Q gi|254780170|r  133 KKKGISSVSQ----LSGASICVQ-AGTTTELTLAD--YFKAHNM--K-------YHPIVFERVEEIDAAYRAHRCDAYTG  196 (342)
Q Consensus       133 k~~~i~s~~d----L~G~~I~v~-~GTT~e~~l~~--~~~~~~~--~-------~~~v~~~~~~~a~~al~~Gr~DA~~~  196 (342)
                      ++|+|++++|    |+||++|.. .-||+--.+-.  .+++.+.  +       ++++...+++....++.+|+|||-+.
T Consensus       151 ~dS~i~~~~DlL~~LKGK~~af~Dp~STSG~l~P~~~l~~~~~~~~~~~d~~~F~~~~~~G~Hd~~~~~V~nG~vDaA~~  230 (299)
T TIGR01098       151 ADSPIKSLKDLLKKLKGKTFAFGDPASTSGYLVPRYQLLKEGGLDADKDDDKFFSEVVFSGSHDASILAVANGKVDAATN  230 (299)
T ss_pred             CCCCCCCHHHHHHHCCCCEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCEEEEECCHHHHHHHHHHCCCCEEEE
T ss_conf             89996338999975079759850688751247788998765078988853452332688431589999988088545765


Q ss_pred             CCHHHHHHHHHC-CC-------------CHHHCCCCCC--CCCCCEEEECCCC-CH--HHHHHHHHHH
Q ss_conf             504799999836-78-------------0010025644--4237101000277-75--7999988774
Q gi|254780170|r  197 DISALYALKLTN-DR-------------PSEHVILPDI--ISKSPLAPAIIQG-DT--EWYNIVSWTH  245 (342)
Q Consensus       197 D~s~La~~~~~~-~~-------------p~~~~il~e~--iskEPlg~avr~g-D~--~w~d~V~W~~  245 (342)
                      ..+.+--..... ..             +.+++|+-+.  |=..  .+++|++ ++  ++++-++-++
T Consensus       231 ~~~~~~~~~~~~~~~~~~~~~~~g~~D~~~~~~vI~~S~~IPnd--p~~~R~~L~~yP~~k~ki~~~F  296 (299)
T TIGR01098       231 NSSAIERLKKRGPSDKFKKKVAKGATDLMKKVRVIWKSPLIPND--PIAVRSDLPPYPELKEKIRDAF  296 (299)
T ss_pred             CHHHHHHHHHCCCCCCCCEEECCCCCCCHHCEEEEEECCCCCCC--CEEEECCCCCCHHHHHHHHHHH
T ss_conf             30446656530323565155204776713701787523787787--5465257896677999999998


No 20 
>pfam09084 NMT1 NMT1/THI5 like. This family contains the NMT1 and THI5 proteins. These proteins are proposed to be required for the biosynthesis of the pyrimidine moiety of thiamine. They are regulated by thiamine.
Probab=99.11  E-value=3e-09  Score=78.86  Aligned_cols=120  Identities=16%  Similarity=0.144  Sum_probs=91.0

Q ss_pred             CEEEEEEC-CCCCCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCCCC---CCCCCEEEEEECCCCCCCHHHHCCCCEEEE
Q ss_conf             20259981-43100267743962799812432532011027843532---234402346302113475364178620343
Q gi|254780170|r   76 SKIQYLPL-NAKERFLALQSKQIDILSRNTDWTLLREISLGLAFRPI---TYFDGQGFIMHKKKGISSVSQLSGASICVQ  151 (342)
Q Consensus        76 ~kVe~v~~-~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~---~~~dgq~~lVrk~~~i~s~~dL~G~~I~v~  151 (342)
                      .+||+++. ++.+.+.+|.+|++|+.+.+.+... .....++++...   +-..+..++++++++|++++||+||+|++.
T Consensus        21 L~Ve~~~~~~~~~~~~al~sG~~D~a~~~~~~~~-~~~~~g~~~~~i~~~~~~~~~~~~v~~~~~i~s~~DLkGk~i~~~   99 (216)
T pfam09084        21 LDVEIVEPADPSDAVQLVAAGKADFGVSYQPSLL-LARAKGLPVVSVAALIQHPPNGLISLKDSGIKSPKDLKGKRIGYS   99 (216)
T ss_pred             CCEEEEECCCCHHHHHHHHCCCCCEEECCCHHHH-HHHHCCCEEEEEEECCCCCCEEEEEECCCCCCCHHHHCCCEEEEE
T ss_conf             8089996688278999997698677853719999-999789849999964358972899978889899789589889963


Q ss_pred             ECCCHHHHHHHHHHHCCCCC---CEEEECCHHHHHHHHHCCCEEEEEEC
Q ss_conf             13426999999998629985---07874798999999873960299825
Q gi|254780170|r  152 AGTTTELTLADYFKAHNMKY---HPIVFERVEEIDAAYRAHRCDAYTGD  197 (342)
Q Consensus       152 ~GTT~e~~l~~~~~~~~~~~---~~v~~~~~~~a~~al~~Gr~DA~~~D  197 (342)
                      .++++...+..+++++|++.   +++.. +..+..++|.+|++||++.-
T Consensus       100 ~~~~~~~~l~~~L~~~Gl~~~dv~~v~~-~~~~~~~al~~G~vDa~~~~  147 (216)
T pfam09084       100 GSPFEEALLKALLAKAGGDPSDVTLVNV-GGTSLSPALLTGKVDAAIGG  147 (216)
T ss_pred             CCCHHHHHHHHHHHHCCCCHHHEEEEEC-CHHHHHHHHHCCCCCEEEEC
T ss_conf             7972899999999985999899089967-84888889856995589962


No 21 
>COG0715 TauA ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]
Probab=99.05  E-value=3.1e-09  Score=78.81  Aligned_cols=178  Identities=15%  Similarity=0.108  Sum_probs=113.9

Q ss_pred             EEEEEEC-CCCCCHHHHHCCCEEEE--EECCCCC-CCCHHCCCCCCCCCCCCC--CEEEEEECCCCCCCHHHHCCCCEEE
Q ss_conf             0259981-43100267743962799--8124325-320110278435322344--0234630211347536417862034
Q gi|254780170|r   77 KIQYLPL-NAKERFLALQSKQIDIL--SRNTDWT-LLREISLGLAFRPITYFD--GQGFIMHKKKGISSVSQLSGASICV  150 (342)
Q Consensus        77 kVe~v~~-~~~~rf~aL~sG~vDil--~~~~T~T-~~Rd~~~~v~Fs~~~~~d--gq~~lVrk~~~i~s~~dL~G~~I~v  150 (342)
                      +|+++.. .|....++|.+|++|+.  ...++.- ..+.....+-.......+  ++.++++++++|++++||+||+|++
T Consensus        62 ~V~~~~~~~~~~~~~~l~~G~~D~a~~~~~~~~~~~~~~~g~pv~~va~~~~~~~~~~i~~~~~~~i~~~adlkGk~vg~  141 (335)
T COG0715          62 DVELVEFTGGAPVLEALAAGALDFAVYYTGDTPLIAAGAAGAPVKVVAALVQNGNGIALLVLKDSGIKSVADLKGKKVGV  141 (335)
T ss_pred             EEEEEECCCCHHHHHHHHCCCCCEEEECCCCHHHHHHHCCCCCEEEEEEEEECCCCEEEEECCCCCCCCHHHCCCCEEEE
T ss_conf             58997079845799999769988874237855999963569997999987437973299973887767713338998998


Q ss_pred             EECCC-HHHHHHHHHHHCCCCCCE--EEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCC-CCCC-CCC
Q ss_conf             31342-699999999862998507--874798999999873960299825047999998367800100256-4442-371
Q gi|254780170|r  151 QAGTT-TELTLADYFKAHNMKYHP--IVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILP-DIIS-KSP  225 (342)
Q Consensus       151 ~~GTT-~e~~l~~~~~~~~~~~~~--v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~-e~is-kEP  225 (342)
                      ..+++ ++..|..+++++|++..-  +..-...++.++|.+|++||++.=.+.......   .+..+.++. ..+- ..|
T Consensus       142 ~~~~~~~~~~l~~~L~~~Gl~~~dv~~v~~~~~~~~~al~~g~vda~~~~ep~~~~~~~---~~~~~~~~~~~~~~~~~~  218 (335)
T COG0715         142 PFGGSTSDFLLRYALAKAGLDPDDVELVNLPPADAVAALAAGQVDAFVVWEPWNAAAEG---EGGGRVLLDGADLWGNHP  218 (335)
T ss_pred             ECCCCCHHHHHHHHHHHCCCCHHHCEEEECCHHHHHHHHHCCCCCEEEECCHHHHHHHH---CCCCEEEEECCCCCCCCC
T ss_conf             18997079999999998699989946873692999999975986889966679899731---578579861566676674


Q ss_pred             EEEECCCCC--HHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             010002777--57999988774433112123301
Q gi|254780170|r  226 LAPAIIQGD--TEWYNIVSWTHYAMVTAEELGIT  257 (342)
Q Consensus       226 lg~avr~gD--~~w~d~V~W~~~ali~Aee~git  257 (342)
                      ...++.+.+  .+-.++|.-.+.++..|.++=..
T Consensus       219 ~~~~~~~~~~~~~~p~~~~~~v~a~~~a~~~~~~  252 (335)
T COG0715         219 ELVLVVRKEFIEANPEAVKAFLKALAKATAWANA  252 (335)
T ss_pred             EEEEEECHHHHHHCHHHHHHHHHHHHHHHHHHHH
T ss_conf             2699955887766999999999999999999997


No 22 
>TIGR03427 ABC_peri_uca ABC transporter periplasmic binding protein, urea carboxylase region. Members of this family are ABC transporter periplasmic binding proteins associated with the urea carboxylase/allophanate hydrolase pathway, an alternative to urease for urea degradation. The protein is restricted to bacteria with the pathway, with its gene close to the urea carboxylase and allophanate hydrolase genes. The substrate for this transporter therefore is likely to be urea or a compound from which urea is easily derived.
Probab=99.04  E-value=1.6e-09  Score=80.60  Aligned_cols=167  Identities=14%  Similarity=0.161  Sum_probs=112.9

Q ss_pred             CEEEEEEE--CCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEEC-CCCCCHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             94999871--789883068898988015099999999996798220259981-431002677439627998124325320
Q gi|254780170|r   34 GFLKCGIN--TGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPL-NAKERFLALQSKQIDILSRNTDWTLLR  110 (342)
Q Consensus        34 G~L~vGv~--~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~-~~~~rf~aL~sG~vDil~~~~T~T~~R  110 (342)
                      ..+++|.+  .++-|+.+-.++|-..        .-++.-+   .+|+++.. +..+.+.++.+|++|-.+.+..-+..-
T Consensus         2 ~~~kig~S~w~Gw~Pw~~A~e~Gifk--------Kw~~k~G---i~Vel~~f~dy~~si~a~~AG~~Dg~~~Tn~Dal~i   70 (328)
T TIGR03427         2 DKFKVCWSIYAGWMPWGYAAQQGIVD--------KWADKYG---ITIEVVQINDYVESINQYTAGKFDGCTMTNMDALTI   70 (328)
T ss_pred             CCEEEEEECCCCHHHHHHHHHCCCHH--------HHHHHCC---CEEEEEECCCHHHHHHHHHCCCCCEEEEECCHHHHH
T ss_conf             93399972685388899999749265--------5588759---737999828848889999758977477626156651


Q ss_pred             HHCCCCCCCCCC---CCCC-EEEEEECCCCCCCHHHHCCCCEEEEECCCHHHHHHHHHHHCCCCC---CEEEECCHHHHH
Q ss_conf             110278435322---3440-234630211347536417862034313426999999998629985---078747989999
Q gi|254780170|r  111 EISLGLAFRPIT---YFDG-QGFIMHKKKGISSVSQLSGASICVQAGTTTELTLADYFKAHNMKY---HPIVFERVEEID  183 (342)
Q Consensus       111 d~~~~v~Fs~~~---~~dg-q~~lVrk~~~i~s~~dL~G~~I~v~~GTT~e~~l~~~~~~~~~~~---~~v~~~~~~~a~  183 (342)
                      -...++++....   |-.| -++++|   ++++++||+||+|++..||+++-.|...+...|+..   ++|. -+..++.
T Consensus        71 ~aa~Gvd~~~vlv~D~SnG~D~Ivak---~~~slaDLKGKkVav~~~svshyLL~rALe~aGLs~~DV~vVn-~~~~d~~  146 (328)
T TIGR03427        71 PAAGGVDTTALIVGDFSNGNDGIVLK---GGKSLADLKGQKVNLVELSVSHYLLARALESVGLSEKDVKVVN-TSDADIV  146 (328)
T ss_pred             HHCCCCCEEEEEEECCCCCCCEEEEC---CCCCHHHHCCCEEECCCCCCHHHHHHHHHHHCCCCHHHEEEEE-CCCHHHH
T ss_conf             31179972899985257887479978---9988788489888324787079999999998699889907884-7954699


Q ss_pred             HHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCC
Q ss_conf             99873960299825047999998367800100256
Q gi|254780170|r  184 AAYRAHRCDAYTGDISALYALKLTNDRPSEHVILP  218 (342)
Q Consensus       184 ~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~  218 (342)
                      ++|.+|++||+++=.+.|.-.+.   .|+.+.|..
T Consensus       147 aAf~sg~VdA~vTWeP~ls~i~~---~~ga~~iF~  178 (328)
T TIGR03427       147 AAFITKDVTAVVTWNPQLSEIKA---QPGANEVFD  178 (328)
T ss_pred             HHHHCCCCCEEEEECHHHHHHHH---CCCCCEEEE
T ss_conf             99747998789997856899972---899826442


No 23 
>KOG1052 consensus
Probab=99.02  E-value=1.2e-07  Score=68.66  Aligned_cols=258  Identities=20%  Similarity=0.143  Sum_probs=163.4

Q ss_pred             HCCEEEEEEECCCCCCEEECC------CCCEEEEHHHHHHHHHHHHCCCCCEEEEEEC---------CCCCCHHHHHCCC
Q ss_conf             579499987178988306889------8988015099999999996798220259981---------4310026774396
Q gi|254780170|r   32 KRGFLKCGINTGLVGFAEVKA------NGDWKGFDVDFCRALSSAIFDDPSKIQYLPL---------NAKERFLALQSKQ   96 (342)
Q Consensus        32 ~rG~L~vGv~~~~ppfs~~d~------~G~~~GfDVDl~raiAaal~gd~~kVe~v~~---------~~~~rf~aL~sG~   96 (342)
                      ....++|++-...|-+.+...      ...+.||++|+.+++++.+.-+ ..+.+++.         +|++.+-.|.+|+
T Consensus       214 ~~~~l~v~~~~~~P~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~f~-~~~~~~~~~~g~~~~~g~~~g~v~~l~~~~  292 (656)
T KOG1052         214 NGKPLRVGVVTEPPFVDLVEDLAILNGNDRIEGFEIDLLQALAKRLNFS-YEIIFVPDGSGSRDPNGNWDGLVGQLVDGE  292 (656)
T ss_pred             CCCEEEEEEECCCCCEEEECCCCCCCCCCCCCEEEHHHHHHHHHHCCCE-EEEEECCCCCCCCCCCCCHHHHHHHHHCCC
T ss_conf             8953799877158952563043345777640126099999999876975-899962578888688887678999997181


Q ss_pred             EEEEEECCCCCCCCHHCCCCCCCCCCCCCCEEEEEECCCC----------------------------------------
Q ss_conf             2799812432532011027843532234402346302113----------------------------------------
Q gi|254780170|r   97 IDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMHKKKG----------------------------------------  136 (342)
Q Consensus        97 vDil~~~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVrk~~~----------------------------------------  136 (342)
                      +|+. +.+|+|.+|  ..-|||+.||...|.++++++...                                        
T Consensus       293 advg-~~~tit~~R--~~~vdfT~p~~~~~~~i~~~~~~~~~~~~~fl~Pf~~~vW~~i~~~~l~~~~~~~~~~~~~~~~  369 (656)
T KOG1052         293 ADVG-ADITITPER--SKYVDFTIPYLQFGIVIIVRKPDSRSKLWNFLAPFSPEVWLLILASLLLVGLLLWILERLSPYE  369 (656)
T ss_pred             EEEE-ECEEECCCH--HHCEEECCEEEECCEEEEEEECCCCCHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             3001-031760020--3005321328754579999826742017787466718999999999999999998775304411


Q ss_pred             ------------------------------------------------------------------------CCCHHHHC
Q ss_conf             ------------------------------------------------------------------------47536417
Q gi|254780170|r  137 ------------------------------------------------------------------------ISSVSQLS  144 (342)
Q Consensus       137 ------------------------------------------------------------------------i~s~~dL~  144 (342)
                                                                                              |+++.||.
T Consensus       370 ~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~p~~~~~Rll~~~w~~~~lil~ssYTa~L~a~Lt~~~~~~~i~~~~dL~  449 (656)
T KOG1052         370 LPPRQIVTSLFSLLNCLWLTVGSLLQQGSDEIPRSLSTRLLLGAWWLFVLILISSYTANLTAFLTVPRLRSPIDSLDDLA  449 (656)
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHEEEECCCCCCCCCCHHHHH
T ss_conf             35432312112366778998876551256546630779999999999999999875573230145156788735799998


Q ss_pred             ---CCCEEEEECCCHHHHHHHH-HHHCCCCC-CEEEECCHHHHHHHHHCCC--EEEEEECCHHHHHHHHHCCCCHHHCCC
Q ss_conf             ---8620343134269999999-98629985-0787479899999987396--029982504799999836780010025
Q gi|254780170|r  145 ---GASICVQAGTTTELTLADY-FKAHNMKY-HPIVFERVEEIDAAYRAHR--CDAYTGDISALYALKLTNDRPSEHVIL  217 (342)
Q Consensus       145 ---G~~I~v~~GTT~e~~l~~~-~~~~~~~~-~~v~~~~~~~a~~al~~Gr--~DA~~~D~s~La~~~~~~~~p~~~~il  217 (342)
                         +..++.+.|+-+...+.+- ..-+...- ..+.+.+.++....+..|.  --++..|...+.-..... ..-++.++
T Consensus       450 ~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~v~~~~~~~~~~~~~~~~~~~~~~~~-~~c~~~~v  528 (656)
T KOG1052         450 DQSNIPYGTQRGSFTRIYLEESEDMWAFKVSQRSVPLASPEEGVERVRKGPSGGYAFASDELYLAYLFLRD-EICDLTEV  528 (656)
T ss_pred             HHCCCCCEEECCCHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCCEEEEECHHHHHHHHHHC-CCCCEEEE
T ss_conf             75087710233605678776527765332146554568999999999669987679994137799998623-68624880


Q ss_pred             CCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCCCHHHHHHHCCCCCCCCHHHCCCCHHHHH
Q ss_conf             64442371010002777579999887744331121233015208988622671778876235887650333799867999
Q gi|254780170|r  218 PDIISKSPLAPAIIQGDTEWYNIVSWTHYAMVTAEELGITQKNINQVSKDTTNPDVQRFLGIDKSSNIGEALGLTKDWTY  297 (342)
Q Consensus       218 ~e~iskEPlg~avr~gD~~w~d~V~W~~~ali~Aee~git~~nv~~~~~~s~~p~i~r~lg~~~~~~~g~~lgl~~~~~~  297 (342)
                      ++.+...++| ++++ .+.+++.++-.+.-+.   |.|+-+..-+..... . +.   ..-... ..-...|+++.=|..
T Consensus       529 ~~~~~~~~~~-~~~~-~Spl~~~is~~Il~l~---e~g~l~~~~~kw~~~-~-~~---~~~~~~-~~~~~~l~~~~~~g~  597 (656)
T KOG1052         529 GEPFLYKGYG-AFPK-GSPLRSLISRAILKLQ---ETGILQKLKRKWFSK-K-PC---LPKCSQ-TEKTKALDLESFWGL  597 (656)
T ss_pred             CCCCCCCCEE-EECC-CCCCHHHHHHHHHHHH---HHHHHHHHHHHHHHC-C-CC---CCCCCC-CCCCCCCCHHHHHHH
T ss_conf             6645657645-7618-9834788749999856---517999999998525-7-76---765555-565553558999999


Q ss_pred             HHHHHCCC
Q ss_conf             99997186
Q gi|254780170|r  298 RIIRHMGN  305 (342)
Q Consensus       298 ~~i~~vGN  305 (342)
                      -+|-.+|-
T Consensus       598 F~i~~~g~  605 (656)
T KOG1052         598 FLILLVGY  605 (656)
T ss_pred             HHHHHHHH
T ss_conf             99999999


No 24 
>KOG1053 consensus
Probab=98.97  E-value=1.1e-09  Score=81.66  Aligned_cols=185  Identities=16%  Similarity=0.224  Sum_probs=125.1

Q ss_pred             EEEHHHHHHHHHHHHCCCCC--EE------EEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCCCCCCEE
Q ss_conf             01509999999999679822--02------59981431002677439627998124325320110278435322344023
Q gi|254780170|r   57 KGFDVDFCRALSSAIFDDPS--KI------QYLPLNAKERFLALQSKQIDILSRNTDWTLLREISLGLAFRPITYFDGQG  128 (342)
Q Consensus        57 ~GfDVDl~raiAaal~gd~~--kV------e~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~~dgq~  128 (342)
                      .||-||+.+.+|..+.-+.+  .|      +.+.-.|...+-.|--++.||.+.+.|++.+|  +..|||+.|++-+|-+
T Consensus       466 kGfCIDiLkKlA~~v~FtYDLYlVtnGKhGkk~ng~WnGmIGev~~~rA~MAVgSltINeeR--SevVDFSvPFveTgIs  543 (1258)
T KOG1053         466 KGFCIDILKKLARDVKFTYDLYLVTNGKHGKKINGVWNGMIGEVVYQRADMAVGSLTINEER--SEVVDFSVPFVETGIS  543 (1258)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEEEECCCCCCCEECCCCHHHHHHHHHHHHHEEEEEEEECHHH--HCCCCCCCCCCCCCEE
T ss_conf             05569999998865386368999527754530057310268998752001366556753123--1200222443004617


Q ss_pred             EEEECCCCCCCHH---------------------------------------HH-CCCC---------------------
Q ss_conf             4630211347536---------------------------------------41-7862---------------------
Q gi|254780170|r  129 FIMHKKKGISSVS---------------------------------------QL-SGAS---------------------  147 (342)
Q Consensus       129 ~lVrk~~~i~s~~---------------------------------------dL-~G~~---------------------  147 (342)
                      +||+..++.-+..                                       .| +|++                     
T Consensus       544 VmV~rsngtvspsAFLePfs~svWVmmFVm~livaai~vFlFEy~SPvgyn~~l~~gkkpggp~FtigkaiwllwaLvFn  623 (1258)
T KOG1053         544 VMVARSNGTVSPSAFLEPFSPSVWVMMFVMCLIVAAITVFLFEYFSPVGYNRNLANGKKPGGPSFTIGKAIWLLWALVFN  623 (1258)
T ss_pred             EEEEECCCCCCCHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCEEHHHHHHHHHHHHHC
T ss_conf             99981278658435307764579999999999999999988742075553644467778898630120679999999827


Q ss_pred             ----EEEEECCCHHH------------------HHHHHHHHC-------CCC---C-----C--E---------------
Q ss_conf             ----03431342699------------------999999862-------998---5-----0--7---------------
Q gi|254780170|r  148 ----ICVQAGTTTEL------------------TLADYFKAH-------NMK---Y-----H--P---------------  173 (342)
Q Consensus       148 ----I~v~~GTT~e~------------------~l~~~~~~~-------~~~---~-----~--~---------------  173 (342)
                          |-.-+|||+-.                  ||+.++-..       |+.   +     +  +               
T Consensus       624 nsVpv~nPKgtTskiMv~VWAfFavifLAsYTANLAAfMIqE~~~d~vSGlsD~KfqrP~dq~PpFRFGTVpngSTE~ni  703 (1258)
T KOG1053         624 NSVPVENPKGTTSKIMVLVWAFFAVIFLASYTANLAAFMIQEEYYDTVSGLSDPKFQRPHDQYPPFRFGTVPNGSTERNI  703 (1258)
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHH
T ss_conf             87688899731889999999999999999988778888763301212046674012686445898410047898446667


Q ss_pred             -----------E--EECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCC--CCCCCCCEEEECCCCCHHHH
Q ss_conf             -----------8--74798999999873960299825047999998367800100256--44423710100027775799
Q gi|254780170|r  174 -----------I--VFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILP--DIISKSPLAPAIIQGDTEWY  238 (342)
Q Consensus       174 -----------v--~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~--e~iskEPlg~avr~gD~~w~  238 (342)
                                 +  --...++++..|.+|+.|||+.|...|-.+...-.+ -+.+.+.  ..++.+=||++++| |+-|.
T Consensus       704 R~Nyp~MHeYM~kyNq~~v~dal~sLK~gKLDAFIyDaAVLnY~agkDeg-CKLvTIGsgKvFAttGYGIal~k-~Spwk  781 (1258)
T KOG1053         704 RSNYPEMHEYMVKYNQPGVEDALESLKNGKLDAFIYDAAVLNYMAGKDEG-CKLVTIGSGKVFATTGYGIALPK-NSPWK  781 (1258)
T ss_pred             HHCCHHHHHHHHHHCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCC-CEEEEECCCCEEEECCEEEECCC-CCCCH
T ss_conf             75509999999985667608899987616601677888887776335779-64898327735654020340389-99504


Q ss_pred             HHHHHHH
Q ss_conf             9988774
Q gi|254780170|r  239 NIVSWTH  245 (342)
Q Consensus       239 d~V~W~~  245 (342)
                      .-|.-.+
T Consensus       782 r~Idlal  788 (1258)
T KOG1053         782 RQIDLAL  788 (1258)
T ss_pred             HHHHHHH
T ss_conf             4678999


No 25 
>COG3181 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=98.58  E-value=4.2e-06  Score=58.97  Aligned_cols=245  Identities=18%  Similarity=0.189  Sum_probs=134.9

Q ss_pred             EEHHHHHHHHHHHH---CCCCCEEEEEECCCCC----CHHHHHCCCEEEEEECCCCCCC---CHHC--CC-CCCCCC--C
Q ss_conf             15099999999996---7982202599814310----0267743962799812432532---0110--27-843532--2
Q gi|254780170|r   58 GFDVDFCRALSSAI---FDDPSKIQYLPLNAKE----RFLALQSKQIDILSRNTDWTLL---REIS--LG-LAFRPI--T  122 (342)
Q Consensus        58 GfDVDl~raiAaal---~gd~~kVe~v~~~~~~----rf~aL~sG~vDil~~~~T~T~~---Rd~~--~~-v~Fs~~--~  122 (342)
                      |+|+ +||+++..+   ++.+..|+.+|-..-.    .+..-..|.-..++.+.+....   ....  +. =||.++  .
T Consensus        41 g~D~-~aR~~~~~l~k~lg~~v~V~N~pGagG~ia~~~va~a~pG~t~~l~~~~~~~~~~~~~~~~~~~~~~D~~pva~v  119 (319)
T COG3181          41 GTDQ-TARALAESLSKELGQPVVVDNKPGAGGAIAAGAVAKAAPGYTILLIAGSTPALLLPILGGLPYYKLKDFTPVASL  119 (319)
T ss_pred             HHHH-HHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHHCCCCCCEEEEECCCCCCCCHHHCCCCCCCHHHCEEHHHE
T ss_conf             5889-999999999998089779995588731688999984589984488734764322154426888854423003311


Q ss_pred             CCCCEEEEEECCCCCCCHHHHC-------CCCEEEEEC--CCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCCCEEE
Q ss_conf             3440234630211347536417-------862034313--4269999999986299850787479899999987396029
Q gi|254780170|r  123 YFDGQGFIMHKKKGISSVSQLS-------GASICVQAG--TTTELTLADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDA  193 (342)
Q Consensus       123 ~~dgq~~lVrk~~~i~s~~dL~-------G~~I~v~~G--TT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA  193 (342)
                      ..+...|+|++++.+++++||-       |..++-..|  |..+.....+++..+++++.|+|+...++..+|..|++|+
T Consensus       120 ~~~p~~l~v~~~s~~~t~~dlv~~~k~~p~~v~~~~~g~Gs~dhl~~~~~~k~~Gi~~~~Vpy~g~gea~taLlgg~v~a  199 (319)
T COG3181         120 VSDPGVLVVRADSPYKTLKDLVAYAKADPGSVIGGGSGLGSADHLAGALFAKAAGIKITYVPYKGGGEALTALLGGHVDA  199 (319)
T ss_pred             ECCCCEEEEECCCCCCCHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHCCCEEE
T ss_conf             13661599817887366999999998599808954788895889999999997389625774168648789986086654


Q ss_pred             EEECCHHHHHHHHHCCCCHHHCCCCCCCCCCCE--EEECCCCCHHHHHHHHHHHHHHHHHH---HHHCCHHHHHHHHHCC
Q ss_conf             982504799999836780010025644423710--10002777579999887744331121---2330152089886226
Q gi|254780170|r  194 YTGDISALYALKLTNDRPSEHVILPDIISKSPL--APAIIQGDTEWYNIVSWTHYAMVTAE---ELGITQKNINQVSKDT  268 (342)
Q Consensus       194 ~~~D~s~La~~~~~~~~p~~~~il~e~iskEPl--g~avr~gD~~w~d~V~W~~~ali~Ae---e~git~~nv~~~~~~s  268 (342)
                      .+++.+.+...-.    .++.+.|. .+|.|-+  -|-++-=.++=.+++ |...-.|.|-   .--+.+...+.+.+-.
T Consensus       200 ~~~~~se~~~~vk----sG~lr~La-v~s~eRl~~~pdvPT~~E~G~~~~-~~~wrgvfap~g~~~e~~~~~~~a~kk~l  273 (319)
T COG3181         200 GSTNLSELLSQVK----SGTLRLLA-VFSEERLPGLPDVPTLKEQGYDVV-MSIWRGVFAPAGTPDEIIAKLSAALKKAL  273 (319)
T ss_pred             EECCHHHHHHHHC----CCCEEEEE-EECHHHCCCCCCCCCHHHCCCCEE-EEEEEEEEECCCCCHHHHHHHHHHHHHHH
T ss_conf             4367124355630----57467877-534310677999998676387546-64435898079999999999999999986


Q ss_pred             CCHHHHHHHCCCCCCCCHHHCCCCHHHHHHHHHHCCCHHHHHHH
Q ss_conf             71778876235887650333799867999999971869998788
Q gi|254780170|r  269 TNPDVQRFLGIDKSSNIGEALGLTKDWTYRIIRHMGNYGEMFDR  312 (342)
Q Consensus       269 ~~p~i~r~lg~~~~~~~g~~lgl~~~~~~~~i~~vGNYgei~~r  312 (342)
                      .+|+.++.+--   ...-..--=+.+|...|=++.-.|+|++..
T Consensus       274 ~s~e~~~~~~~---~~~~~~~~~~eel~a~i~~~~~~~~~~~k~  314 (319)
T COG3181         274 ASPEWQKRLKE---LGLVPSYLTGEELKAYIEKEIARWGELVKA  314 (319)
T ss_pred             CCHHHHHHHHH---CCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf             39889999985---588875579899999999999999999986


No 26 
>COG2358 Imp TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=98.55  E-value=4.7e-07  Score=64.99  Aligned_cols=153  Identities=18%  Similarity=0.211  Sum_probs=96.6

Q ss_pred             CEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCC-CCHHHHHCCCEEEEEECCCCCC----
Q ss_conf             94999871789883068898988015099999999996798220259981431-0026774396279981243253----
Q gi|254780170|r   34 GFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAK-ERFLALQSKQIDILSRNTDWTL----  108 (342)
Q Consensus        34 G~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~-~rf~aL~sG~vDil~~~~T~T~----  108 (342)
                      ..+++|+...         .|.+-=+-..||+.+....-+  .+++-++...+ .-...+++|++|+.+-..-+-.    
T Consensus        26 ~~itigTG~~---------~G~YY~ig~~ia~~~~~~~~~--i~~~v~~tggSv~Nl~~i~~Ge~d~alvq~d~a~~ay~   94 (321)
T COG2358          26 KFITIGTGST---------GGVYYPIGGGLAQLLNKDEKG--IECSVVPTGGSVENLKLLASGEADLALVQSDVAYEAYN   94 (321)
T ss_pred             EEEEEEECCC---------CCEEEEHHHHHHHHHHCCCCC--EEEEEEECCCHHHHHHHHHCCCCCHHHHHHHHHHHHHH
T ss_conf             3799960699---------862230378999998514778--18999606542999986753762535666789999871


Q ss_pred             ------CCHHCCCCCCCCCCCCCCEEEEEECCCCCCCHHHHCCCCEEEE-ECCCHHHHHHHHHHHCCCCCCEEEE-CCH-
Q ss_conf             ------2011027843532234402346302113475364178620343-1342699999999862998507874-798-
Q gi|254780170|r  109 ------LREISLGLAFRPITYFDGQGFIMHKKKGISSVSQLSGASICVQ-AGTTTELTLADYFKAHNMKYHPIVF-ERV-  179 (342)
Q Consensus       109 ------~Rd~~~~v~Fs~~~~~dgq~~lVrk~~~i~s~~dL~G~~I~v~-~GTT~e~~l~~~~~~~~~~~~~v~~-~~~-  179 (342)
                            .....+.+....++|-.--.+++|++++|++++||+||||.+- .||.++.++...++..|+....... ... 
T Consensus        95 G~g~f~~~~~~~~lr~v~~lype~~~vv~r~d~~Ikti~DL~GKrV~iG~~gSgt~~~a~~il~a~Gi~~~~~~~~~~~~  174 (321)
T COG2358          95 GTGSFEGKGKDENLRAVAALYPEPFHVVTRKDAGIKTIADLKGKRVAIGPPGSGTEATARQILEALGITYDDYELDLGLG  174 (321)
T ss_pred             CCCCCCCCCCCCCHHHHEECCCCEEEEEEECCCCCCEEHHCCCCEEEECCCCCCCHHHHHHHHHHCCCCCCCHHHHHHCC
T ss_conf             85311456655143322130542089999668896560103898886269997408899999997399976245666337


Q ss_pred             -HHHHHHHHCCCEEEEEEC
Q ss_conf             -999999873960299825
Q gi|254780170|r  180 -EEIDAAYRAHRCDAYTGD  197 (342)
Q Consensus       180 -~~a~~al~~Gr~DA~~~D  197 (342)
                       .++..++.+|.+||++.=
T Consensus       175 ~a~~~~~l~~g~iDA~~~~  193 (321)
T COG2358         175 DAESADALKNGTIDAAFYV  193 (321)
T ss_pred             CHHHHHHHHCCCCCEEEEE
T ss_conf             3065787637963289981


No 27 
>COG4521 TauA ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=98.51  E-value=2.9e-06  Score=59.98  Aligned_cols=175  Identities=19%  Similarity=0.203  Sum_probs=112.4

Q ss_pred             HHHHHHHHHHHHHHCCCCCHHHHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCC
Q ss_conf             99999999999840124421689998579499987178988306889898801509999999999679822025998143
Q gi|254780170|r    6 FVSILCLIILFFTSFSTNASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNA   85 (342)
Q Consensus         6 l~~~l~l~~~~~~~~aa~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~   85 (342)
                      +..++++++..+++.++++-         .++||..+..-|+-....+|           +.++..+   .++.|...++
T Consensus        10 l~~~~aa~a~~l~~~~Aqa~---------~vtVgYQt~~eP~kvaqADg-----------~~aK~~g---atiDWRkFdS   66 (334)
T COG4521          10 LSSLLAALAFVLLAFAAQAV---------DVTVGYQTSAEPAKVAQADG-----------AFAKESG---ATIDWRKFDS   66 (334)
T ss_pred             HHHHHHHHHHHHHHHHHHCC---------EEEEEEEECCCCCCCCCCCC-----------HHHHHCC---CCCCHHHCCC
T ss_conf             88899999988767664223---------16886540357520213463-----------5677607---8545110475


Q ss_pred             -CCCHHHHHCCCEEEEEECCCC---CCCCHHCCCCCCCCCCCCCCEEEEEECCCCCCCHHHHCCCCEEEEECCCHHHHHH
Q ss_conf             -100267743962799812432---5320110278435322344023463021134753641786203431342699999
Q gi|254780170|r   86 -KERFLALQSKQIDILSRNTDW---TLLREISLGLAFRPITYFDGQGFIMHKKKGISSVSQLSGASICVQAGTTTELTLA  161 (342)
Q Consensus        86 -~~rf~aL~sG~vDil~~~~T~---T~~Rd~~~~v~Fs~~~~~dgq~~lVrk~~~i~s~~dL~G~~I~v~~GTT~e~~l~  161 (342)
                       .+.+.+|.||.+++---+.|.   -.+|..-..+-|..-..-....++||++++|..++||.||+|+|.-=||++--|-
T Consensus        67 G~~vv~AlASGdvqiG~iGSsplaaAaSr~vpie~f~~~~~ig~sEALVvr~gsgI~kpeDL~GK~iavPFvSTtHysLL  146 (334)
T COG4521          67 GASIVRALASGDVQIGNIGSSPLAAAASRQVPIEVFLLASQIGNSEALVVRKGSGIEKPEDLIGKRIAVPFVSTTHYSLL  146 (334)
T ss_pred             HHHHHHHHHCCCCCCCCCCCCHHHHHHHCCCCEEEEEHHHHCCCCCEEEEECCCCCCCHHHHCCCEECCCEEEHHHHHHH
T ss_conf             36899998628861046578566677635886588530121286310355237786985786467210424300089999


Q ss_pred             HHHHHCCCCC---CEEEECCHHHHHHHHHCCCEEEEEECCHHHHHH
Q ss_conf             9998629985---078747989999998739602998250479999
Q gi|254780170|r  162 DYFKAHNMKY---HPIVFERVEEIDAAYRAHRCDAYTGDISALYAL  204 (342)
Q Consensus       162 ~~~~~~~~~~---~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~  204 (342)
                      ..++.-+++-   +++- =...+..+|.+-|.+|+-..=.+.|-.+
T Consensus       147 aaLkhw~idp~~V~IlN-l~Pp~IaAAwqRGDIDgAyVW~PAl~el  191 (334)
T COG4521         147 AALKHWGIDPGQVEILN-LQPPAIAAAWQRGDIDGAYVWAPALSEL  191 (334)
T ss_pred             HHHHHCCCCCCCEEEEC-CCCHHHHHHHHCCCCCCEEECCHHHHHH
T ss_conf             99987187855246861-5978999998707877225446768888


No 28 
>KOG4440 consensus
Probab=98.50  E-value=6.8e-07  Score=63.97  Aligned_cols=188  Identities=18%  Similarity=0.204  Sum_probs=127.8

Q ss_pred             EEEHHHHHHHHHHHHC-------------CCCCEE----EEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCC
Q ss_conf             0150999999999967-------------982202----59981431002677439627998124325320110278435
Q gi|254780170|r   57 KGFDVDFCRALSSAIF-------------DDPSKI----QYLPLNAKERFLALQSKQIDILSRNTDWTLLREISLGLAFR  119 (342)
Q Consensus        57 ~GfDVDl~raiAaal~-------------gd~~kV----e~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs  119 (342)
                      .||-|||.-.++..+-             |....|    +-...+|...+-.|.+++.|++++..|+++||+  .-++|+
T Consensus       463 ~G~cIDLLi~Ls~~~Nftyd~~l~~dg~fg~~~~vnnsseT~~kew~G~iGEL~~~~ADMivaplTINpERa--~yieFs  540 (993)
T KOG4440         463 YGFCIDLLIKLSRTMNFTYDVHLVADGKFGTQERVNNSSETNKKEWNGMIGELLSGQADMIVAPLTINPERA--QYIEFS  540 (993)
T ss_pred             HHHHHHHHHHHHHHHCCEEEEEEEECCCCCCEEEEECCCCCCCCEEHHHHHHHHCCCCCEEEECEEECHHHH--HHEECC
T ss_conf             688999999998862563668886446565167640455323514111124440785553761101372245--442226


Q ss_pred             CCCCCCCEEEEEECCCCCCCHHH------------------------------------------------HC-------
Q ss_conf             32234402346302113475364------------------------------------------------17-------
Q gi|254780170|r  120 PITYFDGQGFIMHKKKGISSVSQ------------------------------------------------LS-------  144 (342)
Q Consensus       120 ~~~~~dgq~~lVrk~~~i~s~~d------------------------------------------------L~-------  144 (342)
                      .|+.|-|-.++.+|...-+++..                                                |+       
T Consensus       541 kPfkYqGitILeKk~~r~Stl~SFlQPfqstLW~lv~~SVhvVal~lYlLDrfSPFgRFk~~ds~~~ee~alnlssAmWF  620 (993)
T KOG4440         541 KPFKYQGITILEKKEIRRSTLDSFLQPFQSTLWLLVGLSVHVVALMLYLLDRFSPFGRFKVNDSEEEEEDALNLSSAMWF  620 (993)
T ss_pred             CCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEECCCCCCHHHHCCHHHHHHH
T ss_conf             75101566898507898744888876777779999999999999999998714864324415676425552352465888


Q ss_pred             --------CC------------------------------------------------------------CEEEEECCCH
Q ss_conf             --------86------------------------------------------------------------2034313426
Q gi|254780170|r  145 --------GA------------------------------------------------------------SICVQAGTTT  156 (342)
Q Consensus       145 --------G~------------------------------------------------------------~I~v~~GTT~  156 (342)
                              |.                                                            +-+...+|.-
T Consensus       621 ~WGVLLNSGigEgtPRSfSARvLGmVWaGFaMIiVASYTANLAAFLVLdrPe~~ltGinDpRLRNps~nf~~aTVk~SsV  700 (993)
T KOG4440         621 SWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAFLVLDRPEERLTGINDPRLRNPSDNFIYATVKQSSV  700 (993)
T ss_pred             HHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHEEEHHHHHHHHHHEEECCCCCCCCCCCCCCCCCCCCCEEEEEECCCCH
T ss_conf             76766436667899753137788888752420200252310143123247210366788711168311316887317508


Q ss_pred             HHHHHHHHHHC------CCCCCEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCCCCEEEEC
Q ss_conf             99999999862------998507874798999999873960299825047999998367800100256444237101000
Q gi|254780170|r  157 ELTLADYFKAH------NMKYHPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDIISKSPLAPAI  230 (342)
Q Consensus       157 e~~l~~~~~~~------~~~~~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~iskEPlg~av  230 (342)
                          .-||+.+      .-+.++--|++.+|+++++..|+.+|++=|.+.|.-..++   .-+.+.-.|.|-+.-||+.+
T Consensus       701 ----d~YFrRqVELS~MyR~ME~hNy~~A~eAiq~v~~gkL~AFIWDS~rLEfEAs~---~CeLvT~GeLFgRSgyGIGl  773 (993)
T KOG4440         701 ----DIYFRRQVELSTMYRHMEKHNYESAAEAIQAVRDGKLHAFIWDSARLEFEASQ---KCELVTTGELFGRSGYGIGL  773 (993)
T ss_pred             ----HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCEEEEEEECCCEEEHHHC---CCEEEECCCCCCCCCCCCCC
T ss_conf             ----89988886788888763200245599999998749616898503103320204---64067511201534443103


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             277757999988774433112123301
Q gi|254780170|r  231 IQGDTEWYNIVSWTHYAMVTAEELGIT  257 (342)
Q Consensus       231 r~gD~~w~d~V~W~~~ali~Aee~git  257 (342)
                      +| |+-|.+-|.   -|+..-.|.|+-
T Consensus       774 qK-~SPWt~~vt---laIL~~hEsGfM  796 (993)
T KOG4440         774 QK-DSPWTQNVT---LAILKSHESGFM  796 (993)
T ss_pred             CC-CCCCCHHHH---HHHHHHHHHHHH
T ss_conf             56-999730357---999886131067


No 29 
>pfam03401 Bug Tripartite tricarboxylate transporter family receptor. These probable extra-cytoplasmic solute receptors are strongly overrepresented in several beta-proteobacteria. This family, formerly known as Bug - Bordetella uptake gene (bug) product - is a family of bacterial tripartite tricarboxylate receptors of the extracytoplasmic solute binding receptor-dependent transporter group of families, distinct from the ABC and TRAP-T families. The TctABC system has been characterized in S. typhimurium, and TctC is the extracytoplasmic tricarboxylate-binding receptor which binds the transporters TctA and TctB, two integral membrane proteins. Complete three-component systems are found only in bacteria.
Probab=98.31  E-value=4.7e-06  Score=58.65  Aligned_cols=223  Identities=14%  Similarity=0.184  Sum_probs=121.8

Q ss_pred             HHHHHHHH---CCCCCEEEEEECCCCC-CHHHHHCCCEE---EEEECCCC--CCC--CHHCCC--CCCCCC--CCCCCEE
Q ss_conf             99999996---7982202599814310-02677439627---99812432--532--011027--843532--2344023
Q gi|254780170|r   64 CRALSSAI---FDDPSKIQYLPLNAKE-RFLALQSKQID---ILSRNTDW--TLL--REISLG--LAFRPI--TYFDGQG  128 (342)
Q Consensus        64 ~raiAaal---~gd~~kVe~v~~~~~~-rf~aL~sG~vD---il~~~~T~--T~~--Rd~~~~--v~Fs~~--~~~dgq~  128 (342)
                      +|.+|..+   +|.+.-|+-+|-.... -...+.+-+-|   +++.+++.  ++.  ++..+.  -||.+.  ...+...
T Consensus         2 AR~~a~~l~~~lG~~vvV~N~pGagG~ig~~~v~~a~~DGyTl~~~~~~~~~~~~~~~~~~~~~~~df~pia~~~~~~~~   81 (274)
T pfam03401         2 ARALAQGMSKQLGQPVIVENKPGAGGIIGADAVAKAAPDGYTILLGSTGLAVAPHLYPNLPYDPIKDFTPVSLLATSPMV   81 (274)
T ss_pred             HHHHHHHHHHHHCCCEEEEECCCCCHHHHHHHHHHCCCCCCEEEEECCHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCEE
T ss_conf             78999999998699879996698306999999980899998899946789876888434788708876758865016358


Q ss_pred             EEEECCCCCCCHHHHC-------C-CCEEEE-ECCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCCCEEEEEECCH
Q ss_conf             4630211347536417-------8-620343-134269999999986299850787479899999987396029982504
Q gi|254780170|r  129 FIMHKKKGISSVSQLS-------G-ASICVQ-AGTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDAYTGDIS  199 (342)
Q Consensus       129 ~lVrk~~~i~s~~dL~-------G-~~I~v~-~GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA~~~D~s  199 (342)
                      ++|++++++++++||-       | .+++.. .||..+.....+.+..+++++.|+|+...+++.++..|++|+.+...+
T Consensus        82 l~v~~dsp~~t~~dli~~ak~~Pg~~~~g~~G~gs~~hl~~~~l~~~~G~~~~~Vpy~G~~~~~~allgG~vd~~~~~~~  161 (274)
T pfam03401        82 LVVPADSPFKTLQELVAYAKANPGKLTFASAGIGTSNHLAGELLASKAGVQLSHVPYKGSSPALQDLLGGRVDMMIDSLT  161 (274)
T ss_pred             EEECCCCCCCCHHHHHHHHHHCCCCEEEECCCCCCCCHHHHHHHHHHCCCCEEEECCCCCHHHHHHHHCCEEEEEEECCH
T ss_conf             89779997568999999998489965873278886318999999997099648834678326689986784459983513


Q ss_pred             HHHHHHHHCCCCHHHCCC-----------CCCCC-CC----------CEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             799999836780010025-----------64442-37----------101000277757999988774433112123301
Q gi|254780170|r  200 ALYALKLTNDRPSEHVIL-----------PDIIS-KS----------PLAPAIIQGDTEWYNIVSWTHYAMVTAEELGIT  257 (342)
Q Consensus       200 ~La~~~~~~~~p~~~~il-----------~e~is-kE----------Plg~avr~gD~~w~d~V~W~~~ali~Aee~git  257 (342)
                      ......    ..++.++|           |+.=+ +|          ..|++.++|=|  .+++.+.-            
T Consensus       162 ~~~~~v----~~G~lr~Lav~~~~R~~~~PdVPT~~E~G~~~~~~~~w~g~~ap~gtP--~~~~~~l~------------  223 (274)
T pfam03401       162 STAPYI----KAGKLRALAVTSPKRSPQLPDVPTVAELGLKGFEAGVWFGLVAPKGTP--PAVVEKLN------------  223 (274)
T ss_pred             HHHHHH----CCCCCEEEEEECCCCCCCCCCCCCHHHHCCCCCEEEEEEEEEECCCCC--HHHHHHHH------------
T ss_conf             204454----179825999975756754489997688487871478888876349889--99999999------------


Q ss_pred             HHHHHHHHHCCCCHHHHHHHCCCCCCCCHHHCCCCHHHHHHHHHHCCCHHHHHH
Q ss_conf             520898862267177887623588765033379986799999997186999878
Q gi|254780170|r  258 QKNINQVSKDTTNPDVQRFLGIDKSSNIGEALGLTKDWTYRIIRHMGNYGEMFD  311 (342)
Q Consensus       258 ~~nv~~~~~~s~~p~i~r~lg~~~~~~~g~~lgl~~~~~~~~i~~vGNYgei~~  311 (342)
                          +.+.+-..||+.+.++-.  . ++-...-=+.+|...+-++.-.|+++-.
T Consensus       224 ----~a~~~~~~dpe~~~~~~~--~-g~~~~~~~~~e~~~~~~~e~~~~~~l~k  270 (274)
T pfam03401       224 ----DAIKKALKDPEVVERLAN--L-GMEPVPGTPQQLAQFIQAEVKRWGPLIQ  270 (274)
T ss_pred             ----HHHHHHHCCHHHHHHHHH--C-CCCCCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             ----999999749999999997--7-8957889999999999999999999999


No 30 
>KOG1054 consensus
Probab=98.21  E-value=2.2e-06  Score=60.71  Aligned_cols=104  Identities=17%  Similarity=0.093  Sum_probs=78.3

Q ss_pred             HHHHHHCCEEEEEEECCCCCCEEE-C-----CCCCEEEEHHHHHHHHHHHHCCCCCEEEEEE----------C-CCCCCH
Q ss_conf             899985794999871789883068-8-----9898801509999999999679822025998----------1-431002
Q gi|254780170|r   27 LGDIKKRGFLKCGINTGLVGFAEV-K-----ANGDWKGFDVDFCRALSSAIFDDPSKIQYLP----------L-NAKERF   89 (342)
Q Consensus        27 Ld~Vk~rG~L~vGv~~~~ppfs~~-d-----~~G~~~GfDVDl~raiAaal~gd~~kVe~v~----------~-~~~~rf   89 (342)
                      -..++.|-+++-++-. .|+.-++ +     .+.++.||-|||+..||+.+.. .-++.+++          . -|+..+
T Consensus       411 ~~~~~n~tvvvttiL~-spyvm~kkn~~~~egn~ryEGyCvdLa~~iAkhi~~-~Y~l~iv~dgkyGardaD~k~WnGMv  488 (897)
T KOG1054         411 QASKENRTVVVTTILE-SPYVMLKKNHEQLEGNERYEGYCVDLAAEIAKHIGI-KYKLFIVGDGKYGARDADTKIWNGMV  488 (897)
T ss_pred             CCCCCCCEEEEEEECC-CCHHHHHHHHHHHCCCCCCCEEHHHHHHHHHHHCCC-EEEEEEECCCCCCCCCCCCCCCCCHH
T ss_conf             1014665289997137-954577754777317764313389999999975074-17899923776566688764113346


Q ss_pred             HHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCCCCCCEEEEEECC
Q ss_conf             677439627998124325320110278435322344023463021
Q gi|254780170|r   90 LALQSKQIDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMHKK  134 (342)
Q Consensus        90 ~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVrk~  134 (342)
                      -.|..|+.|+.++..|+|++||..  +|||.|....|-.+|.+|-
T Consensus       489 GeLv~grAdiavApLTIt~~REev--iDFSKPfMslGISIMIKKP  531 (897)
T KOG1054         489 GELVYGRADIAVAPLTITLVREEV--IDFSKPFMSLGISIMIKKP  531 (897)
T ss_pred             HHHHCCCCCEEEEEEEEEHHHHHH--HCCCCCHHHCCEEEEEECC
T ss_conf             787558433477223643012446--4246634442768998076


No 31 
>TIGR01729 taurine_ABC_bnd taurine ABC transporter, periplasmic binding protein; InterPro: IPR010068   ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs.   ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain .    The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyze ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarize the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site , , .   The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis , , , , , .   Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1).    This entry identifies a cluster of ABC transporter periplasmic substrate binding proteins, apparently specific for taurine. Transport systems for taurine (NH2-CH2-CH2-SO3H), sulphonates, and sulphate esters import sulphur when sulphate levels are low. The most closely related proteins outside this family are putative aliphatic sulphonate binding proteins..
Probab=98.19  E-value=6.7e-06  Score=57.69  Aligned_cols=158  Identities=20%  Similarity=0.201  Sum_probs=107.8

Q ss_pred             EEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCC-CCCHHHHHCCCEEEEEEC---CCCCCCCH
Q ss_conf             99987178988306889898801509999999999679822025998143-100267743962799812---43253201
Q gi|254780170|r   36 LKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNA-KERFLALQSKQIDILSRN---TDWTLLRE  111 (342)
Q Consensus        36 L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~-~~rf~aL~sG~vDil~~~---~T~T~~Rd  111 (342)
                      ++||.-+-.-||-..-.||++.-|        |+.-+   --|.|+..++ .+.+.||.||.|||-.=+   ++.-.+|+
T Consensus         1 vtvgYQ~~veP~kva~ADgrfda~--------aKe~g---aTiDWRkFdSGadi~~AlASG~V~IG~~GSsplaaAASr~   69 (304)
T TIGR01729         1 VTVGYQTVVEPAKVAQADGRFDAY--------AKEAG---ATIDWRKFDSGADIVAALASGDVDIGVVGSSPLAAAASRE   69 (304)
T ss_pred             CEEEEEECCCCCCCCCCCCCHHHH--------HHCCC---CEEEEEEECCHHHHHHHHHCCCCCCCCCCCCHHHHHHHCC
T ss_conf             966653020640033247622245--------43048---8020011044165555653386332222470789987268


Q ss_pred             HCCCCCCCCCCCCCCEEEEEECCCCCCCHHHHCCCCEEEEECCCHHHHHHHHHHH-CCCCCC---EEEECCHHHHHHHHH
Q ss_conf             1027843532234402346302113475364178620343134269999999986-299850---787479899999987
Q gi|254780170|r  112 ISLGLAFRPITYFDGQGFIMHKKKGISSVSQLSGASICVQAGTTTELTLADYFKA-HNMKYH---PIVFERVEEIDAAYR  187 (342)
Q Consensus       112 ~~~~v~Fs~~~~~dgq~~lVrk~~~i~s~~dL~G~~I~v~~GTT~e~~l~~~~~~-~~~~~~---~v~~~~~~~a~~al~  187 (342)
                      --..+-|..-..=.+..+++|+.+||..++||.||+|+|-==||++-.|-.-+++ -+++-+   ++-. ..++..+|++
T Consensus        70 vpie~f~~~~~iG~SEALVar~g~GIeKpeDL~GK~vaVPFvSTtHysLLaaLk~vw~~dp~~V~IlNl-~PP~I~AAwq  148 (304)
T TIGR01729        70 VPIEVFLVVDKIGKSEALVAREGAGIEKPEDLKGKKVAVPFVSTTHYSLLAALKHVWKVDPKEVEILNL-KPPEIVAAWQ  148 (304)
T ss_pred             CCEEEEEEECCCCCCCEEEEECCCCCCCHHHHCCCEEECCCCCHHHHHHHHHHHHHHCCCCCEEEEEEC-CCHHHHHHHH
T ss_conf             830020100102872002454367887666717884502751134589999888762678760578617-9657998754


Q ss_pred             CCCEEEEEECCHHHHHHH
Q ss_conf             396029982504799999
Q gi|254780170|r  188 AHRCDAYTGDISALYALK  205 (342)
Q Consensus       188 ~Gr~DA~~~D~s~La~~~  205 (342)
                      -|-+||-.-=.+.|-.+.
T Consensus       149 RGDIDaAYVW~PAl~~l~  166 (304)
T TIGR01729       149 RGDIDAAYVWDPALSELK  166 (304)
T ss_pred             CCCCCCCCCCHHHHHHHH
T ss_conf             388262103745688775


No 32 
>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=98.05  E-value=7.2e-05  Score=51.15  Aligned_cols=146  Identities=23%  Similarity=0.256  Sum_probs=97.0

Q ss_pred             CCCCEEE-EHHHHHHHHHHHHCCCCCEEEEEEC----CCCCCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCCCC--
Q ss_conf             9898801-5099999999996798220259981----43100267743962799812432532011027843532234--
Q gi|254780170|r   52 ANGDWKG-FDVDFCRALSSAIFDDPSKIQYLPL----NAKERFLALQSKQIDILSRNTDWTLLREISLGLAFRPITYF--  124 (342)
Q Consensus        52 ~~G~~~G-fDVDl~raiAaal~gd~~kVe~v~~----~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~~--  124 (342)
                      +.+.+.+ .-..+++.|..+..|+ .+|++-|-    ...+.+.+|+.|.+|+.+.+...-..+....+ -|+-||.+  
T Consensus        37 ~~~~p~~~~~~~fa~~v~ekt~G~-l~i~vfP~~qLG~~~~~ie~l~~G~id~~~~s~~~l~~~~P~~~-v~~lPflf~d  114 (332)
T COG1638          37 PEGHPKGKAAKKFAELVEEKTGGR-LKIEVFPNSQLGGEAEMIEQLRSGTLDIGVVSLGFLAGLVPEFG-VFDLPFLFRD  114 (332)
T ss_pred             CCCCHHHHHHHHHHHHHHHHCCCE-EEEEECCCCCCCCHHHHHHHHHCCCCEEEECCCHHHCCCCCCCE-EECCCEEECC
T ss_conf             998807899999999999871993-89997667566876999999965973078506523211387501-2248755189


Q ss_pred             --------------------------------CCEEEEEECCCCCCCHHHHCCCCEEEEECCCHHHHHHHHHHHCCCCCC
Q ss_conf             --------------------------------402346302113475364178620343134269999999986299850
Q gi|254780170|r  125 --------------------------------DGQGFIMHKKKGISSVSQLSGASICVQAGTTTELTLADYFKAHNMKYH  172 (342)
Q Consensus       125 --------------------------------dgq~~lVrk~~~i~s~~dL~G~~I~v~~GTT~e~~l~~~~~~~~~~~~  172 (342)
                                                      .|..-+..+...|++++||+|.+|-|+...+.    .++|+.-|..-+
T Consensus       115 ~~~~~~~~~~~~g~~l~~~~e~~g~~~l~~~~~G~R~~t~~k~PI~~peDlkGlkiRv~~s~~~----~~~~~a~GA~P~  190 (332)
T COG1638         115 EEHARRVLDSEFGEELLKSLEAKGLKGLAFWENGFRQFTSNKRPIKTPEDLKGLKIRVPQSPLL----LAMFKALGANPT  190 (332)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCEEEEECCCCCCCHHHHCCCEEECCCCHHH----HHHHHHCCCCCC
T ss_conf             9999999713889999999997695799986275223334678778968967984635898899----999998699897


Q ss_pred             EEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHH
Q ss_conf             7874798999999873960299825047999998
Q gi|254780170|r  173 PIVFERVEEIDAAYRAHRCDAYTGDISALYALKL  206 (342)
Q Consensus       173 ~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~  206 (342)
                      ++   ...|.+.+|++|.+|+.-+..+...+.+.
T Consensus       191 pm---~f~Evy~aLqtGvVDGqEnp~~~i~~~k~  221 (332)
T COG1638         191 PM---PFAEVYTALQTGVVDGQENPLSNIYSAKL  221 (332)
T ss_pred             CC---CHHHHHHHHHCCCCCCCCCCHHHHHCCCH
T ss_conf             78---88999999974970044176766610426


No 33 
>TIGR01728 SsuA_fam ABC transporter, substrate-binding protein, aliphatic sulfonates family; InterPro: IPR010067   ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs.   ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain .    The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyze ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarize the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site , , .   The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis , , , , , .   Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1).    Members of this family are substrate-binding periplasmic proteins of ABC transporters. This subfamily includes SsuA, a member of a transporter operon needed to obtain sulphur from aliphatic sulphonates. Related proteins include taurine (NH2-CH2-CH2-S03H) binding proteins, the probable sulphate ester binding protein AtsR, and the probable aromatic sulphonate binding protein AsfC. All these families make sulphur available when Cys and sulphate levels are low.; GO: 0006790 sulfur metabolic process, 0006810 transport, 0016020 membrane.
Probab=97.98  E-value=5.2e-05  Score=52.04  Aligned_cols=176  Identities=19%  Similarity=0.150  Sum_probs=111.2

Q ss_pred             CCEEEEEECCC-CCCHHHHHCCCEEEEEECCCCCCCCHHCCC-CCCCCCCCCC----CEEEEEECCCCCCCHHHHCCCCE
Q ss_conf             22025998143-100267743962799812432532011027-8435322344----02346302113475364178620
Q gi|254780170|r   75 PSKIQYLPLNA-KERFLALQSKQIDILSRNTDWTLLREISLG-LAFRPITYFD----GQGFIMHKKKGISSVSQLSGASI  148 (342)
Q Consensus        75 ~~kVe~v~~~~-~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~-v~Fs~~~~~d----gq~~lVrk~~~i~s~~dL~G~~I  148 (342)
                      ..||+++..+. ...+.+|.+|++|+-.-+-.....- ...+ .++-.+..+.    ...++++++++|++++||+||+|
T Consensus        31 g~~~~~~~f~~g~~~~~~l~~g~~d~g~~g~~p~~~~-~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~dlkGk~~  109 (311)
T TIGR01728        31 GTKVEWVEFPGGPPELEALGAGSLDFGYIGPGPALNA-YAAGNADIKAVGLSSDGPSATALVVGKGSGIRSVKDLKGKRI  109 (311)
T ss_pred             CCEEEEEEECCCHHHHHHHCCCCCCCCCCCCCHHEEE-CCCCCCCEEEEEEECCCCCCEEEEECCCCCCCHHHHCCCCEE
T ss_conf             6124788626754777752056500143367312010-003676467998525776403566336677301433477456


Q ss_pred             EEEECCCHHHHHHHHHHHCC------CCCC--EEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCC--
Q ss_conf             34313426999999998629------9850--7874798999999873960299825047999998367800100256--
Q gi|254780170|r  149 CVQAGTTTELTLADYFKAHN------MKYH--PIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILP--  218 (342)
Q Consensus       149 ~v~~GTT~e~~l~~~~~~~~------~~~~--~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~--  218 (342)
                      |+..|+..+..+...+...+      +..+  .+..-...++..+|..|.+||+..-.+-+.....  ..+ ..+++.  
T Consensus       110 a~~~g~~~~~~~~~~l~~~ggl~~~~~~~~d~~~~~~~~~~~~~a~~~g~~da~~~~~P~~~~~~~--~~~-~~~~~~~~  186 (311)
T TIGR01728       110 AVPKGGSGHDLLLRALLKAGGLEDNLLSGDDVDILELGPSDARAALAAGQVDAWGIWEPWLSALVE--EGG-ARVLLNGE  186 (311)
T ss_pred             EEECCCCHHHHHHHHHHHHCCCCCCCCCCCCEEEEECCCHHHHHHHHCCCCCEEECCCCCHHHHHH--HCC-CEEEEECC
T ss_conf             630666157899999997347200036876315540260456776540462212116871445432--226-24786145


Q ss_pred             CCCCCC--CEEEECCCC--CHHHHHHHHHHHHHHHHHHHH
Q ss_conf             444237--101000277--757999988774433112123
Q gi|254780170|r  219 DIISKS--PLAPAIIQG--DTEWYNIVSWTHYAMVTAEEL  254 (342)
Q Consensus       219 e~iskE--Plg~avr~g--D~~w~d~V~W~~~ali~Aee~  254 (342)
                      ...+.+  +.+..+-..  -.+|-+.|.-.+.....|..+
T Consensus       187 ~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~  226 (311)
T TIGR01728       187 GIGLPEWLVPGFLVVREEFAEEHPEQVERLLKVLVKATKW  226 (311)
T ss_pred             CCCCCCCCCCEEEEECHHHHHHCHHHHHHHHHHHHHHHHH
T ss_conf             6576531012003420678751548899999999999998


No 34 
>smart00079 PBPe Eukaryotic homologues of bacterial periplasmic substrate binding proteins. Prokaryotic homologues are represented by a separate alignment: PBPb
Probab=97.97  E-value=4.1e-05  Score=52.68  Aligned_cols=109  Identities=16%  Similarity=0.097  Sum_probs=81.0

Q ss_pred             CCCCHHHHCC---CCEEEEECCCHHHHHHHHHHHCCCC-----------CCEEEECCHHHHHHHHHCCCEEEEEECCHHH
Q ss_conf             3475364178---6203431342699999999862998-----------5078747989999998739602998250479
Q gi|254780170|r  136 GISSVSQLSG---ASICVQAGTTTELTLADYFKAHNMK-----------YHPIVFERVEEIDAAYRAHRCDAYTGDISAL  201 (342)
Q Consensus       136 ~i~s~~dL~G---~~I~v~~GTT~e~~l~~~~~~~~~~-----------~~~v~~~~~~~a~~al~~Gr~DA~~~D~s~L  201 (342)
                      .|+|++||..   .+.|+..|+.++..+    +.....           -.-..+++.++.++...+|+ .|++.|.+.|
T Consensus         1 pI~s~~DL~~q~~i~yGtv~~ss~~~fF----~~s~~~~y~~mw~~m~~~~~~~v~~~~eGv~rv~~g~-yAfi~e~~~l   75 (134)
T smart00079        1 PITSVEDLAKQTKIEYGTIRGSSTLAFF----KRSGNPEYSRMWNYMSASPSVFVKSYAEGVQRVRVSN-YAFLMESTYL   75 (134)
T ss_pred             CCCCHHHHHCCCCCEEEEECCCHHHHHH----HHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCC-CEEECCCHHH
T ss_conf             9799899842887201687896389998----8778658999999986285556677899999998078-2355051478


Q ss_pred             HHHHHHCCCCHHHCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             9999836780010025644423710100027775799998877443311212330
Q gi|254780170|r  202 YALKLTNDRPSEHVILPDIISKSPLAPAIIQGDTEWYNIVSWTHYAMVTAEELGI  256 (342)
Q Consensus       202 a~~~~~~~~p~~~~il~e~iskEPlg~avr~gD~~w~d~V~W~~~ali~Aee~gi  256 (342)
                      .....   ++-+...+++.|.+++||+++++| +.|++.++.   ++....|.|+
T Consensus        76 ~y~~~---~~C~l~~vG~~f~~~~ygia~~kg-Sp~~~~is~---~Il~l~e~G~  123 (134)
T smart00079       76 DYELS---QNCDLMTVGENFGRKGYGIAFPKG-SPLRDDLSR---AILKLSESGE  123 (134)
T ss_pred             HHHHC---CCCCEEEECEEEECCCEEEEECCC-CHHHHHHHH---HHHHHHHCCH
T ss_conf             99860---678748953066415457883399-814999999---9999885787


No 35 
>pfam00060 Lig_chan Ligand-gated ion channel. This family includes the four transmembrane regions of the ionotropic glutamate receptors and NMDA receptors.
Probab=97.80  E-value=0.00017  Score=48.80  Aligned_cols=165  Identities=16%  Similarity=0.088  Sum_probs=99.4

Q ss_pred             EEEEEC--CCCCCCHHHHCCC---CEEEEECCCHHHHHHHH--------HHHCCCCCCEEEECCHHHHHHHHHCCC-EEE
Q ss_conf             346302--1134753641786---20343134269999999--------986299850787479899999987396-029
Q gi|254780170|r  128 GFIMHK--KKGISSVSQLSGA---SICVQAGTTTELTLADY--------FKAHNMKYHPIVFERVEEIDAAYRAHR-CDA  193 (342)
Q Consensus       128 ~~lVrk--~~~i~s~~dL~G~---~I~v~~GTT~e~~l~~~--------~~~~~~~~~~v~~~~~~~a~~al~~Gr-~DA  193 (342)
                      ++|+..  ...|++++||...   ++++..+++.+....+-        .......-....+++.+++++.+.+|+ ++|
T Consensus        91 a~Lt~~~~~~~I~~i~dL~~~~~~~~g~~~~~~~~~~f~~s~~~~~~~~~~~~~~~~~~~~~~~~~egi~~v~~g~~~~A  170 (270)
T pfam00060        91 AFLTVERMQSPIQSLEDLAKQNKIGYGTLRGGSTFEFFKESKNPTYRRMWEYMISFKGEVNVESYEEGVQRVRKGNGLYA  170 (270)
T ss_pred             HHHHCCCCCCCCCCHHHHHHCCCCCEEEECCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHCCCCCEE
T ss_conf             99731334777578999986798731114076167777861430688999998750666777899999999865886289


Q ss_pred             EEECCHHHHHHHHHCCCCHHHCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCCCHHH
Q ss_conf             98250479999983678001002564442371010002777579999887744331121233015208988622671778
Q gi|254780170|r  194 YTGDISALYALKLTNDRPSEHVILPDIISKSPLAPAIIQGDTEWYNIVSWTHYAMVTAEELGITQKNINQVSKDTTNPDV  273 (342)
Q Consensus       194 ~~~D~s~La~~~~~~~~p~~~~il~e~iskEPlg~avr~gD~~w~d~V~W~~~ali~Aee~git~~nv~~~~~~s~~p~i  273 (342)
                      ++.|.+.|.....  .++-++.++++.+..+++|++++|| +.|++.++.   ++..--|.|+-..--+.-..  ..|+-
T Consensus       171 ~i~e~~~l~~~~~--~~~c~l~~vg~~f~~~~~g~a~~k~-Sp~~~~~s~---~il~l~E~G~l~~l~~kW~~--~~~~C  242 (270)
T pfam00060       171 FLMESAYLEYEVA--RDCCKLTTVGEVFGTKGYGIAFPKG-SPLRDKLSR---AILELRESGELQKLENKWWK--KKGEC  242 (270)
T ss_pred             EEECHHHHHHHHH--HCCCCCEEECCCCCCCCEEEEECCC-CCHHHHHHH---HHHHHHHCCHHHHHHHHHCC--CCCCC
T ss_conf             9952588999997--0487627805311457546885189-930999999---99998726789999986458--99999


Q ss_pred             HHHHCCCCCCCCHHHCCCCHHHHHHHHHHCC
Q ss_conf             8762358876503337998679999999718
Q gi|254780170|r  274 QRFLGIDKSSNIGEALGLTKDWTYRIIRHMG  304 (342)
Q Consensus       274 ~r~lg~~~~~~~g~~lgl~~~~~~~~i~~vG  304 (342)
                          ..+....-...|||++=|-.=+|--+|
T Consensus       243 ----~~~~~~~~~~~l~l~~~~GlF~il~~G  269 (270)
T pfam00060       243 ----SSKSTAVSSSQLGLESFAGLFLILGIG  269 (270)
T ss_pred             ----CCCCCCCCCCCCCHHHHHHHHHHHCCC
T ss_conf             ----998877778852747767568774155


No 36 
>pfam03480 SBP_bac_7 Bacterial extracellular solute-binding protein, family 7. This family of proteins are involved in binding extracellular solutes for transport across the bacterial cytoplasmic membrane. This family includes a C4-dicarboxylate-binding protein and the sialic acid-binding protein SiaP. The structure of the SiaP receptor has revealed an overall topology similar to ATP binding cassette ESR (extracytoplasmic solute receptors) proteins. Upon binding of sialic acid, SiaP undergoes domain closure about a hinge region and kinking of an alpha-helix hinge component.
Probab=97.79  E-value=0.00029  Score=47.32  Aligned_cols=138  Identities=21%  Similarity=0.253  Sum_probs=82.1

Q ss_pred             EHHHHHHHHHHHHCCCCCEEEEEEC----CCCCCHHHHHCCCEEEEEECCCCCCCCHHCC--------------------
Q ss_conf             5099999999996798220259981----4310026774396279981243253201102--------------------
Q gi|254780170|r   59 FDVDFCRALSSAIFDDPSKIQYLPL----NAKERFLALQSKQIDILSRNTDWTLLREISL--------------------  114 (342)
Q Consensus        59 fDVDl~raiAaal~gd~~kVe~v~~----~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~--------------------  114 (342)
                      ..-.+++.|.++-.|. .+|++.+.    ...+.+.++++|.+|+......+...+....                    
T Consensus        13 ~~~~fa~~V~e~T~G~-v~i~~~~~g~L~~~~e~~~~v~~G~~d~~~~~~~~~~~~~p~~~~~~lP~~~~~~~~~~~~~~   91 (285)
T pfam03480        13 AAEKFAKLVEEKTGGR-LKIEVYPNSQLGGDREVIEALKNGTVDIAAPSSGYFGGLPPEIGVFDLPFLFDDEQHLERVLD   91 (285)
T ss_pred             HHHHHHHHHHHHCCCE-EEEEEECCCCCCCHHHHHHHHHCCCCCEEEECCHHHCCCCHHHHHHHCCCCCCCHHHHHHHHH
T ss_conf             9999999999877990-899995598758879999999779948897640222125712324527546798999999995


Q ss_pred             --------------CCCCCCCCCCCCEEEEEECCCCCCCHHHHCCCCEEEEECCCHHHHHHHHHHHCCCCCCEEEECCHH
Q ss_conf             --------------784353223440234630211347536417862034313426999999998629985078747989
Q gi|254780170|r  115 --------------GLAFRPITYFDGQGFIMHKKKGISSVSQLSGASICVQAGTTTELTLADYFKAHNMKYHPIVFERVE  180 (342)
Q Consensus       115 --------------~v~Fs~~~~~dgq~~lVrk~~~i~s~~dL~G~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~~~~~~  180 (342)
                                    ++-.-.. +..|...+.-.+..|++++||+|+||-+..+.+.    .+++++-|.  .++.. ...
T Consensus        92 ~~~~~~~~~~~~~~gv~~L~~-~~~g~~~~~~~~~pi~~~~DlkG~KiR~~~~~~~----~~~~~alGa--~pv~~-~~~  163 (285)
T pfam03480        92 GEFGEALLKSLEAKGLKGLAF-WNNGFRQFTNNKKPINSPEDLKGLKLRVPPSPLL----GEVFKALGA--NPTPM-PFG  163 (285)
T ss_pred             CHHHHHHHHHHHHCCCEEEEE-ECCCCEEEEECCCCCCCHHHHCCCEEEECCCHHH----HHHHHHCCC--CCCCC-CHH
T ss_conf             847899999999769689986-2688457522788889979967982883586799----999998599--74015-758


Q ss_pred             HHHHHHHCCCEEEEEECCHHHHHHH
Q ss_conf             9999987396029982504799999
Q gi|254780170|r  181 EIDAAYRAHRCDAYTGDISALYALK  205 (342)
Q Consensus       181 ~a~~al~~Gr~DA~~~D~s~La~~~  205 (342)
                      |.+.+|.+|.+|++.+..+.+.+.+
T Consensus       164 evy~aLq~GvvDg~~~~~~~~~~~~  188 (285)
T pfam03480       164 EVYTALQTGVVDGQENPLSNIYSQK  188 (285)
T ss_pred             HHHHHHHHCCEEEEECCCHHHHHHC
T ss_conf             8999997084626753713565404


No 37 
>pfam04069 OpuAC Substrate binding domain of ABC-type glycine betaine transport system. Part of a high affinity multicomponent binding-protein-dependent transport system involved in bacterial osmoregulation. This domain is often fused to the permease component of the transporter complex. Family members are often integral membrane proteins or predicted to be attached to the membrane by a lipid anchor. Glycine betaine is involved in protection from high osmolarity environments for example in Bacillus subtilis. The family member OpuBC is closely related, and involved in choline transport. Choline is necessary for the biosynthesis of glycine betaine. L-carnitine is important for osmoregulation in Listeria monocytogenes. Family also contains proteins binding l-proline (ProX), histidine (HisX) and taurine (TauA).
Probab=97.71  E-value=0.00049  Score=45.86  Aligned_cols=131  Identities=22%  Similarity=0.188  Sum_probs=81.4

Q ss_pred             HHHHHHHHHCCCCCEEEEEECCCC-CCHHHHHCCCEEEEEECCCCCCCC-----H---HCCCCCCCCCCCC-CCEEEEEE
Q ss_conf             999999996798220259981431-002677439627998124325320-----1---1027843532234-40234630
Q gi|254780170|r   63 FCRALSSAIFDDPSKIQYLPLNAK-ERFLALQSKQIDILSRNTDWTLLR-----E---ISLGLAFRPITYF-DGQGFIMH  132 (342)
Q Consensus        63 l~raiAaal~gd~~kVe~v~~~~~-~rf~aL~sG~vDil~~~~T~T~~R-----d---~~~~v~Fs~~~~~-dgq~~lVr  132 (342)
                      +.+.+-++.+   -+|+.+++... ..+.+|.+|+||+....  |++..     +   ....+.-..+.++ +.+++.|+
T Consensus        19 i~~~~Le~~G---~~V~~~~~~~~~~~~~al~~G~iDi~~~~--w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~Vp   93 (256)
T pfam04069        19 IAAQLLEALG---YVVELVGLGSTAVLFAALASGDIDLYPEE--WTGTTYEAYKKAVEEKLGLLVLGPLGAGNTYGLAVP   93 (256)
T ss_pred             HHHHHHHHCC---CCEEEEECCCCHHHHHHHHCCCCCEEEHH--CCCCHHHHHHHHHHCCCCEEECCCCCCCCEEEEEEC
T ss_conf             9999999769---81698547870899999976997586333--066257999987514687386135777875899985


Q ss_pred             CC----CCCCCHHHHCC----------CCEEEEECCCHHHHHHHHHHHCCCCCCEEEECCH-----HHHHHHHHCCCEEE
Q ss_conf             21----13475364178----------6203431342699999999862998507874798-----99999987396029
Q gi|254780170|r  133 KK----KGISSVSQLSG----------ASICVQAGTTTELTLADYFKAHNMKYHPIVFERV-----EEIDAAYRAHRCDA  193 (342)
Q Consensus       133 k~----~~i~s~~dL~G----------~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~~~~~-----~~a~~al~~Gr~DA  193 (342)
                      +.    .+|+|++||+.          .-++...|..........++..|+.... .+...     .+..+|+.+|++++
T Consensus        94 ~~~a~~~~i~si~dL~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~yGl~~~~-~~~~s~~~~~a~~~~A~~~g~~~v  172 (256)
T pfam04069        94 KYVAEKPGIKSISDLAKPADDELGFKGEFIGRPDGWGCTRSTEGLLKAYGLDKYE-LVEGSEAAMDALLYAAIKRGEPDV  172 (256)
T ss_pred             HHHHHHCCCCCHHHHHCCCCCCCCCCCCEECCCCCCCCCHHHHHHHHHCCCCCEE-ECCCCHHHHHHHHHHHHHCCCCEE
T ss_conf             8888356998799972742102488865532788854006789999863976401-235855545999999998499889


Q ss_pred             EEECCH
Q ss_conf             982504
Q gi|254780170|r  194 YTGDIS  199 (342)
Q Consensus       194 ~~~D~s  199 (342)
                      +..=.+
T Consensus       173 ~~~w~p  178 (256)
T pfam04069       173 VYAWTP  178 (256)
T ss_pred             EEECCC
T ss_conf             996376


No 38 
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=97.55  E-value=0.0011  Score=43.55  Aligned_cols=197  Identities=17%  Similarity=0.136  Sum_probs=118.3

Q ss_pred             EEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHC----CCCCCCCCCCCCCEEEEEECCCCCCCHHHHCCCCEEEEE
Q ss_conf             0259981431002677439627998124325320110----278435322344023463021134753641786203431
Q gi|254780170|r   77 KIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREIS----LGLAFRPITYFDGQGFIMHKKKGISSVSQLSGASICVQA  152 (342)
Q Consensus        77 kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~----~~v~Fs~~~~~dgq~~lVrk~~~i~s~~dL~G~~I~v~~  152 (342)
                      .+++.-+-.++.-..+.+|.+|+.+.+.-+-.|.+..    ..+.|...    --.+.++++..+++++||+|++|+   
T Consensus        45 ~i~~~~~R~~DIp~yV~~G~~DlGI~G~D~l~E~~~~v~~~~~LgfG~c----rlvvAvP~~~~~~~~~dl~~~rIA---  117 (287)
T PRK00489         45 PIEVLFLRPDDIPGYVADGVVDLGITGEDLLEESDADVEELLDLGFGKC----RLVLAVPEDSDYTGPEDLAGKRIA---  117 (287)
T ss_pred             CEEEEEECHHHHHHHHHCCCCCEEEEEEEEHHHCCCCCEEEECCCCCCE----EEEEEECCCCCCCCHHHHCCCEEE---
T ss_conf             8799998879899999769977755133121206898169970688748----999995177888995782785897---


Q ss_pred             CCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCCCCEEEECCC
Q ss_conf             34269999999986299850787479899999987396029982504799999836780010025644423710100027
Q gi|254780170|r  153 GTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDIISKSPLAPAIIQ  232 (342)
Q Consensus       153 GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~iskEPlg~avr~  232 (342)
                       |.+....++||.++|++++++.....-|..  -.-|-+|+++.=.+.=..++.     +..+++.+.+..+..=++=+.
T Consensus       118 -Tkyp~it~~yf~~~Gi~~~iv~l~GavE~a--P~lGlAD~IvDivsTG~TL~~-----NgLk~ie~Il~S~A~LI~n~~  189 (287)
T PRK00489        118 -TSYPNLTRRYLAEKGINARVVELSGAVEVA--PRLGLADAIVDLVSTGATLRA-----NGLKEVEVILRSEAVLIANKA  189 (287)
T ss_pred             -ECHHHHHHHHHHHCCCCEEEEECCCCEECC--CCCCCCCEEEEEECCCHHHHH-----CCCEEEEEEEECEEEEEEECC
T ss_conf             -300669999999869937999776723046--666810089997167487998-----799883577502359998077


Q ss_pred             -CCHH---HHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCCCHHHHHHH-CCCCCCCCHHHCCCCHHH
Q ss_conf             -7757---99998877443311212330152089886226717788762-358876503337998679
Q gi|254780170|r  233 -GDTE---WYNIVSWTHYAMVTAEELGITQKNINQVSKDTTNPDVQRFL-GIDKSSNIGEALGLTKDW  295 (342)
Q Consensus       233 -gD~~---w~d~V~W~~~ali~Aee~git~~nv~~~~~~s~~p~i~r~l-g~~~~~~~g~~lgl~~~~  295 (342)
                       -|++   ..+.+---+.+-+.|..+-.-.-|+..    +.-.++..+| |.+  +..-..|+ +++|
T Consensus       190 ~~~~~k~~~i~~l~~ri~gvl~A~~~~~i~~Nvp~----~~l~~v~~~lPg~~--~PTi~pl~-~~~~  250 (287)
T PRK00489        190 WWDPEKREKIDKLLTRIQGVLRARESKYLMMNAPK----EKLDAVTALLPGLE--SPTVSPLA-DEDW  250 (287)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHCEEEEEEECCH----HHHHHHHHHCCCCC--CCCCCCCC-CCCE
T ss_conf             69867999999999999999977318999997877----77999998678888--98157047-9997


No 39 
>PRK11119 proX glycine betaine transporter periplasmic subunit; Provisional
Probab=97.50  E-value=0.005  Score=39.49  Aligned_cols=176  Identities=13%  Similarity=0.122  Sum_probs=95.7

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCEEEEEEECCCCCCEEECCCCCEEE--EHHHHHHHHHHHHCCCCCEE
Q ss_conf             9138999999999999840124421689998579499987178988306889898801--50999999999967982202
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKG--FDVDFCRALSSAIFDDPSKI   78 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~G--fDVDl~raiAaal~gd~~kV   78 (342)
                      |++++++++.++++++.++.++.-+     -+-++++.+.    +         .|.+  |--.+.+.+=..++   -+|
T Consensus         2 ~~~~~l~~~a~~~~~~~~a~a~~~p-----g~g~tV~~a~----~---------~W~~~~a~t~v~~~~Le~lG---Y~V   60 (332)
T PRK11119          2 MRHKVLLATALATLISTSAFAADLP-----GKGITVQPAQ----S---------TIAEETFQTLLVSRALEKLG---YDV   60 (332)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHCCCC-----CCCCEEEEEE----C---------CCHHHHHHHHHHHHHHHHCC---CCC
T ss_conf             1188899999999852276525589-----9997787601----6---------84089999999999999869---985


Q ss_pred             E-EEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHC-------CCCCCCCCCCCCC-EEEEEECCC----CCCCHHHHC-
Q ss_conf             5-9981431002677439627998124325320110-------2784353223440-234630211----347536417-
Q gi|254780170|r   79 Q-YLPLNAKERFLALQSKQIDILSRNTDWTLLREIS-------LGLAFRPITYFDG-QGFIMHKKK----GISSVSQLS-  144 (342)
Q Consensus        79 e-~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~-------~~v~Fs~~~~~dg-q~~lVrk~~----~i~s~~dL~-  144 (342)
                      + ..+++..-.|.+|.+|.+|+...+  |-+..+..       ..+.-..+++..+ +|++|.+..    +|++++||+ 
T Consensus        61 e~~~~~~~~~~~~ala~GdiD~~~~~--WlP~~~~~~~~~~~~~~~~~~g~~~~ga~~G~~V~~~~~d~~~I~si~dLkd  138 (332)
T PRK11119         61 NKPKEVDYNVFYTSIASGDATFTAVN--WFPLHDDQYEAAGGDKKFYREGVIVGGAAQGYLIDKKTADKYNITNIAQLKD  138 (332)
T ss_pred             CCCEECCHHHHHHHHHCCCCEEEECC--CCCCCHHHHHHHCCCCEEEECCCCCCCCCEEEEEECCCCCCCCCCCHHHHHC
T ss_conf             42014446889999855884486556--1765179999732776476424335665136895023321148578998628


Q ss_pred             ------------CC--CEEEEECCCHHHHHHHHHHHCCCCCCEEEECCHH-----HHHHHHHCCCEEEEEECCH
Q ss_conf             ------------86--2034313426999999998629985078747989-----9999987396029982504
Q gi|254780170|r  145 ------------GA--SICVQAGTTTELTLADYFKAHNMKYHPIVFERVE-----EIDAAYRAHRCDAYTGDIS  199 (342)
Q Consensus       145 ------------G~--~I~v~~GTT~e~~l~~~~~~~~~~~~~v~~~~~~-----~a~~al~~Gr~DA~~~D~s  199 (342)
                                  ||  -++...|...+......++..|+.......++..     +...++.+|+==.++.=.+
T Consensus       139 p~~a~~Fd~~~~GKg~i~g~~pGwg~~~~~~~~i~~ygL~~~~~~~~gs~~am~A~~~~a~~~~epiv~~~W~P  212 (332)
T PRK11119        139 PKIAKLFDTNGDGKADLTGCNPGWGCEAVINHQLKAYGLTDTVTHNQGNYAALMADTIARYKEGKPVLYYTWTP  212 (332)
T ss_pred             HHHHHHCCCCCCCCEEEEECCCCCCHHHHHHHHHHHCCCCCEEEECCCCHHHHHHHHHHHHHCCCCEEEEEECC
T ss_conf             67898607677885028814887206689999998679965054635648999999999998799989999677


No 40 
>PRK09861 cytoplasmic membrane lipoprotein-28; Provisional
Probab=97.39  E-value=0.013  Score=36.82  Aligned_cols=194  Identities=12%  Similarity=0.125  Sum_probs=100.7

Q ss_pred             HHHHHHCCCCCHHHHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEEC-CCCCCHHHH
Q ss_conf             9998401244216899985794999871789883068898988015099999999996798220259981-431002677
Q gi|254780170|r   14 ILFFTSFSTNASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPL-NAKERFLAL   92 (342)
Q Consensus        14 ~~~~~~~aa~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~-~~~~rf~aL   92 (342)
                      .+++++|...++      +..+|++|+.++..        .+    -.+..+..++.-  ...+||++.. ++.+-=.||
T Consensus        18 ~~~l~~C~~~~~------~~k~ikVG~~~~p~--------~~----i~e~~~~~~~ek--~G~~leiv~FsDy~~PN~AL   77 (272)
T PRK09861         18 GILLAGCDQSSS------DAKHIKVGVINGAE--------QD----VAEVAKKVAKEK--YGLDVELVGFSGSLLPNDAT   77 (272)
T ss_pred             HHHHHHCCCCCC------CCCEEEEEECCCCH--------HH----HHHHHHHHHHHH--CCCEEEEEEECCCCCHHHHH
T ss_conf             999874589767------89738999678986--------99----999999888761--79768999946862262897


Q ss_pred             HCCCEEEEEECCCCCCCC-HHCCCCCCC--CCCCCCCEEEEEECCCCCCCHHHH-CCCCEEEEECCCHHHHHHHHHHHCC
Q ss_conf             439627998124325320-110278435--322344023463021134753641-7862034313426999999998629
Q gi|254780170|r   93 QSKQIDILSRNTDWTLLR-EISLGLAFR--PITYFDGQGFIMHKKKGISSVSQL-SGASICVQAGTTTELTLADYFKAHN  168 (342)
Q Consensus        93 ~sG~vDil~~~~T~T~~R-d~~~~v~Fs--~~~~~dgq~~lVrk~~~i~s~~dL-~G~~I~v~~GTT~e~~l~~~~~~~~  168 (342)
                      .+|++|+=..-...=++. ....+.+++  .+.+....|+.   +..+++++|| +|.+|++....|++.---..+...|
T Consensus        78 ~~G~iDaN~fQH~pyL~~~n~~~g~~L~~v~~~~~~P~glY---S~K~ksl~dlp~Ga~IaIPnDpsN~~RAL~lL~~aG  154 (272)
T PRK09861         78 NHGELDANVFQHRPFLEQDNQAHGYKLVAVGNTFVFPMAGY---SKKIKTVAQIKEGATVAIPNDPTNLGRALLLLQKEK  154 (272)
T ss_pred             HCCCCCCHHHHHHHHHHHHHHHCCCCEEEEEEEEEEEEEEC---CCCCCCHHHCCCCCEEEECCCHHHHHHHHHHHHHCC
T ss_conf             67983602455799999999986995799731678301403---446598758479998980478126999999999889


Q ss_pred             C---------------------CCCEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCCCCEE
Q ss_conf             9---------------------8507874798999999873960299825047999998367800100256444237101
Q gi|254780170|r  169 M---------------------KYHPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDIISKSPLA  227 (342)
Q Consensus       169 ~---------------------~~~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~iskEPlg  227 (342)
                      +                     +++++..+ .++.-++|....+|+.+.-..  .+..+.+.-..+...+++  ...||.
T Consensus       155 LI~Lk~~~~~~~t~~DI~~NPk~lk~~e~~-aaql~rsl~Dp~vD~avin~n--~a~~agl~p~~dal~~E~--~~~py~  229 (272)
T PRK09861        155 LITLKEGKGLLPTALDITDNPRHLQIMELE-GAQLPRVLDDPKVDVAIISTT--YIQQTGLSPVHDSVFIED--KNSPYV  229 (272)
T ss_pred             CEEECCCCCCCCCHHHHHCCCCCCEEEECC-HHHHHHHHCCCCCCEEEECHH--HHHHCCCCCCCCCEEECC--CCCCEE
T ss_conf             789779999777744576088776799826-777467505776168997605--798877794400203668--999837


Q ss_pred             --EECCCCCH
Q ss_conf             --00027775
Q gi|254780170|r  228 --PAIIQGDT  235 (342)
Q Consensus       228 --~avr~gD~  235 (342)
                        +++|++|.
T Consensus       230 niiavr~~~~  239 (272)
T PRK09861        230 NILVAREDNK  239 (272)
T ss_pred             EEEEECCCCC
T ss_conf             9999827676


No 41 
>PRK12681 cysB transcriptional regulator CysB; Reviewed
Probab=97.33  E-value=0.015  Score=36.50  Aligned_cols=217  Identities=9%  Similarity=0.063  Sum_probs=137.5

Q ss_pred             HCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCH
Q ss_conf             57949998717898830688989880150999999999967982202599814310026774396279981243253201
Q gi|254780170|r   32 KRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLRE  111 (342)
Q Consensus        32 ~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd  111 (342)
                      .+|.|++|+......+-.           .++.+++.+.-  ...++++...+..+....|.+|++|+.+..-..  .. 
T Consensus        91 ~~G~L~Ia~~~t~a~~~L-----------P~~i~~F~~~~--P~v~l~l~~~~~~~i~~~l~~g~~DlaI~~e~~--~~-  154 (324)
T PRK12681         91 DKGSLYIATTHTQARYAL-----------PPVIKGFIKRY--PRVSLHMHQGSPTQIAEAAAKGEADFAIATEAL--HL-  154 (324)
T ss_pred             CCCEEEEEECHHHHHHHH-----------HHHHHHHHHHC--CCCCEEEEECCHHHHHHHHHCCCCCCCCCCCCC--CC-
T ss_conf             763499985358888772-----------59999999878--998446531787999999987998723124666--66-


Q ss_pred             HCCCCCCCCCCCCCCEEEEEECCCC-----CCCHHHHCCCC-EEEEECCCHHHHHHHHHHHCCCCCCEEE-ECCHHHHHH
Q ss_conf             1027843532234402346302113-----47536417862-0343134269999999986299850787-479899999
Q gi|254780170|r  112 ISLGLAFRPITYFDGQGFIMHKKKG-----ISSVSQLSGAS-ICVQAGTTTELTLADYFKAHNMKYHPIV-FERVEEIDA  184 (342)
Q Consensus       112 ~~~~v~Fs~~~~~dgq~~lVrk~~~-----i~s~~dL~G~~-I~v~~GTT~e~~l~~~~~~~~~~~~~v~-~~~~~~a~~  184 (342)
                       ...+. ..|.|.+...++|+++..     .-+++||.+-. |....|++.-..+.+.|.+.|+.-+++. .++.+....
T Consensus       155 -~~dl~-~~P~~~~~~~vvvp~~HPLa~~~~itl~dL~~~plI~~~~g~~~R~~id~~f~~~g~~P~iv~e~~~~~~I~~  232 (324)
T PRK12681        155 -YDDLI-MLPCYHWNRSVVVPPDHPLAKKKKLTIEELAQYPLVTYVFGFTGRSELDTAFNRAGLTPRIVFTATDADVIKT  232 (324)
T ss_pred             -CCCCE-EEEEEECCCCCCCCCCCCCCCCCCCCHHHHCCCCEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCHHHHHH
T ss_conf             -88746-8640003222457999965579999999986998596149982999999999988997607999898999999


Q ss_pred             HHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCC--CCCCCCCEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHH
Q ss_conf             9873960299825047999998367800100256--44423710100027775799998877443311212330152089
Q gi|254780170|r  185 AYRAHRCDAYTGDISALYALKLTNDRPSEHVILP--DIISKSPLAPAIIQGDTEWYNIVSWTHYAMVTAEELGITQKNIN  262 (342)
Q Consensus       185 al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~--e~iskEPlg~avr~gD~~w~d~V~W~~~ali~Aee~git~~nv~  262 (342)
                      .+..|=-=+++      +..........+.+.+|  ..+..-...+++|+|-     ..+-..|.-|+.=.-.+|..-|+
T Consensus       233 ~V~~GlGV~il------p~mA~~~~~d~~l~~~~~~~~f~~~~t~i~~r~g~-----~l~~~~~~Fi~~~~p~l~~~~~~  301 (324)
T PRK12681        233 YVRLGLGVGVI------ASMAVDPVADPDLVAIDASHLFAHSTTKIGFRRGT-----FLRSYMYDFIERFAPHLTRDVVE  301 (324)
T ss_pred             HHHHCCEEEEC------HHHHCCCCCCCCEEEEECCCCCCCCEEEEEEECCC-----CHHHHHHHHHHHHHCCCCHHHHH
T ss_conf             99959913970------35551965578817843655677764799997997-----15799999999861204899999


Q ss_pred             HHHHCCCCHHHHHHH
Q ss_conf             886226717788762
Q gi|254780170|r  263 QVSKDTTNPDVQRFL  277 (342)
Q Consensus       263 ~~~~~s~~p~i~r~l  277 (342)
                      +.++..+.-++.++.
T Consensus       302 ~~~~~~~~~~~~~~~  316 (324)
T PRK12681        302 KAVALRSNEEIEALF  316 (324)
T ss_pred             HHHHCCCHHHHHHHH
T ss_conf             998347889999997


No 42 
>PRK12679 cbl transcriptional regulator Cbl; Reviewed
Probab=97.20  E-value=0.022  Score=35.47  Aligned_cols=204  Identities=9%  Similarity=0.093  Sum_probs=129.5

Q ss_pred             HCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCH
Q ss_conf             57949998717898830688989880150999999999967982202599814310026774396279981243253201
Q gi|254780170|r   32 KRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLRE  111 (342)
Q Consensus        32 ~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd  111 (342)
                      .+|.|++|+......+-.+           ++.+++-.+-  ...++++...+..+....|.+|++|+.+.....  ..+
T Consensus        91 ~~G~l~Ig~~~t~a~~~LP-----------~~l~~F~~~~--P~v~l~l~~~~~~~i~~~l~~g~~Dl~i~~~~~--~~~  155 (316)
T PRK12679         91 TSGVLTIATTHTQARYSLP-----------EVIKAFRELF--PEVRLELIQGTPQEIATLLQNGEADIGIASERL--SND  155 (316)
T ss_pred             CCCEEEEEEEECCHHCCCC-----------HHHHHHHHHC--CCCEEEEEECCHHHHHHHHHCCCCCEEECCCCC--CCC
T ss_conf             7764999985032010381-----------9999999868--995389984787999999987998852224677--899


Q ss_pred             HCCCCCCCCCCCCCCEEEEEECCCC-----CCCHHHHCCCC-EEEEECCCHHHHHHHHHHHCCCCCCEE-EECCHHHHHH
Q ss_conf             1027843532234402346302113-----47536417862-034313426999999998629985078-7479899999
Q gi|254780170|r  112 ISLGLAFRPITYFDGQGFIMHKKKG-----ISSVSQLSGAS-ICVQAGTTTELTLADYFKAHNMKYHPI-VFERVEEIDA  184 (342)
Q Consensus       112 ~~~~v~Fs~~~~~dgq~~lVrk~~~-----i~s~~dL~G~~-I~v~~GTT~e~~l~~~~~~~~~~~~~v-~~~~~~~a~~  184 (342)
                      ..  +. +.|.|-+...++|+++..     --+++||.+-. |....|+++-..+.++|+..|+..+++ ...+.+....
T Consensus       156 p~--l~-~~p~~~~~~~lvvp~~HpLa~~~~vsl~~L~~~plI~~~~g~~~R~~id~~f~~~G~~p~i~~e~~~~~~i~~  232 (316)
T PRK12679        156 PQ--LV-AFPWFRWHHSLLVPLDHPLTQITPLTLESIAKWPLITYRQGITGRSRIDDAFARKGLLADIVLSAQDSDVIKT  232 (316)
T ss_pred             CC--CE-EEEEEECCEEEEECCCCCCCCCCCCCHHHHCCCCEEEECCCCHHHHHHHHHHHHCCCCCCEEEEECCHHHHHH
T ss_conf             76--07-9980553413560189951248998999987999895089984999999999977999977999998999999


Q ss_pred             HHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCC--CCCCCCCEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHH
Q ss_conf             9873960299825047999998367800100256--44423710100027775799998877443311212330152089
Q gi|254780170|r  185 AYRAHRCDAYTGDISALYALKLTNDRPSEHVILP--DIISKSPLAPAIIQGDTEWYNIVSWTHYAMVTAEELGITQKNIN  262 (342)
Q Consensus       185 al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~--e~iskEPlg~avr~gD~~w~d~V~W~~~ali~Aee~git~~nv~  262 (342)
                      .+.+|=-=+++..   ++.   ......+.+.++  ..+..-...+++|+|--.     +=.++..|+-=--.+|..-|+
T Consensus       233 ~V~~GlGvailp~---~a~---~~~~~~~l~~~~~~~~~~~~~~~~~~~r~~~l-----~~~~~~Fi~~~~~~l~~~~~~  301 (316)
T PRK12679        233 YVALGLGIGLVAE---QSS---GEQEEKNLIRLDTRHLFDANTVWLGLKRGQLQ-----RNYVWRFLELCNAGLSVEDIK  301 (316)
T ss_pred             HHHHCCCEEECHH---HHC---CCCCCCCEEEECCCCCCCCCEEEEEEECCCCC-----HHHHHHHHHHHHCCCCHHHHH
T ss_conf             9998990997014---450---75468988993263467665389999678755-----699999999752028999999


Q ss_pred             HH
Q ss_conf             88
Q gi|254780170|r  263 QV  264 (342)
Q Consensus       263 ~~  264 (342)
                      ..
T Consensus       302 ~~  303 (316)
T PRK12679        302 RQ  303 (316)
T ss_pred             HH
T ss_conf             99


No 43 
>PRK12683 transcriptional regulator CysB-like protein; Reviewed
Probab=97.07  E-value=0.026  Score=34.93  Aligned_cols=180  Identities=12%  Similarity=0.031  Sum_probs=111.0

Q ss_pred             HCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCH
Q ss_conf             57949998717898830688989880150999999999967982202599814310026774396279981243253201
Q gi|254780170|r   32 KRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLRE  111 (342)
Q Consensus        32 ~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd  111 (342)
                      .+|.|++|+......+-.           ..+.+.+-.. . ...+|++...+..+....|.+|++|+.+.....+..  
T Consensus        91 ~~G~l~Ig~~~~~~~~~l-----------p~~l~~f~~~-~-P~v~i~l~~~~~~~~~~~L~~g~~Dl~i~~~~~~~~--  155 (308)
T PRK12683         91 DSGRLTVATTHTQARYAL-----------PKVVRQFTEV-F-PKVHLALRQGSPQEIAEMLLNGEADIGIATEALDRE--  155 (308)
T ss_pred             CCCEEEECCCCHHHHHCC-----------CHHHHHHHHH-C-CCCEEEEEECCHHHHHHHHHCCCCCEEECCCCCCCC--
T ss_conf             776242001320112016-----------8466899987-8-996699960786999999977997788066677888--


Q ss_pred             HCCCCCCCCCCCCCCEEEEEECCCC-----CCCHHHHCCCC-EEEEECCCHHHHHHHHHHHCCCCCCEE-EECCHHHHHH
Q ss_conf             1027843532234402346302113-----47536417862-034313426999999998629985078-7479899999
Q gi|254780170|r  112 ISLGLAFRPITYFDGQGFIMHKKKG-----ISSVSQLSGAS-ICVQAGTTTELTLADYFKAHNMKYHPI-VFERVEEIDA  184 (342)
Q Consensus       112 ~~~~v~Fs~~~~~dgq~~lVrk~~~-----i~s~~dL~G~~-I~v~~GTT~e~~l~~~~~~~~~~~~~v-~~~~~~~a~~  184 (342)
                        .++.+. +.+-+...++++++..     .-+++||.+.. |.-..|++.-..+.++++..++..+++ ...+.+....
T Consensus       156 --~~l~~~-~l~~~~~~lv~~~~hpla~~~~v~l~dl~~~p~I~~~~~~~~r~~i~~~~~~~g~~p~~~~e~~~~~~i~~  232 (308)
T PRK12683        156 --PDLVSF-PYYSWHHVVVVPKGHPLTGRENLTLEALAEYPIITYDQGFTGRSHIDQAFAEAGAVPDIVLTALDADVIKT  232 (308)
T ss_pred             --CCCEEE-EECCCCEEEEECCCCCCCCCCCCCHHHHCCCCEEECCCCCCHHHHHHHHHHHCCCCCCEEEEECCHHHHHH
T ss_conf             --771687-61245158984699953369999999985999896189982999999999977999857999998999999


Q ss_pred             HHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCC--CCCCCCCCEEEECCCCCH
Q ss_conf             987396029982504799999836780010025--644423710100027775
Q gi|254780170|r  185 AYRAHRCDAYTGDISALYALKLTNDRPSEHVIL--PDIISKSPLAPAIIQGDT  235 (342)
Q Consensus       185 al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il--~e~iskEPlg~avr~gD~  235 (342)
                      ...+|--=++..+   ++...  ..+.+ .+.+  ++.+...++.+++|||-.
T Consensus       233 ~V~~g~Gi~ilp~---~~~~~--~~~~~-lv~l~~~~~~~~~~~~i~~rk~~~  279 (308)
T PRK12683        233 YVELGMGVGIVAA---MAYDP--QRDTG-LVALDTQHLFEANTTRVALRRGAY  279 (308)
T ss_pred             HHHHCCCHHHHHH---HHHHH--HHCCC-EEEEECCCCCCCCEEEEEECCCCC
T ss_conf             9997984707899---99878--86099-799989788766179999909685


No 44 
>COG1464 NlpA ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]
Probab=97.01  E-value=0.0098  Score=37.63  Aligned_cols=228  Identities=16%  Similarity=0.187  Sum_probs=115.8

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCC-CCEEE
Q ss_conf             91389999999999998401244216899985794999871789883068898988015099999999996798-22025
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDD-PSKIQ   79 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd-~~kVe   79 (342)
                      |++++.+.+++.+++++++|.++++.-.     .+|++|+.+..               +-++.+.+++..+.+ ..+++
T Consensus         1 m~~~~~~~~~~~~~l~~~~~~~~~~~~~-----~~I~vg~~~~p---------------~a~ile~~~k~~~~k~Gi~l~   60 (268)
T COG1464           1 MKKLKKLALALVALLALAACGAAAAKAT-----KTIKVGATPGP---------------HAEILEVVVKPALKKKGLDLK   60 (268)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHCCCCC-----CCEEEEECCCC---------------HHHHHHHHHHHHHHHCCCEEE
T ss_conf             9438899999999999975223113457-----71799636896---------------599999998778885596599


Q ss_pred             EEEC-CCCCCHHHHHCCCEEEEEECCCCCCCCHHC-CCCCCCC--CCCCCCEEEEEECCCCCCCHHHHC-CCCEEEEECC
Q ss_conf             9981-431002677439627998124325320110-2784353--223440234630211347536417-8620343134
Q gi|254780170|r   80 YLPL-NAKERFLALQSKQIDILSRNTDWTLLREIS-LGLAFRP--ITYFDGQGFIMHKKKGISSVSQLS-GASICVQAGT  154 (342)
Q Consensus        80 ~v~~-~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~-~~v~Fs~--~~~~dgq~~lVrk~~~i~s~~dL~-G~~I~v~~GT  154 (342)
                      +++. +..+-=.+|..|++|+=.--...=++.... .+..++.  ..+....++-   +..++++++|. |.+|++...-
T Consensus        61 i~~FtDY~~PN~AL~~gdiDaN~FQH~pyL~~~~k~~~~~Lv~vg~~~i~Pmg~Y---Skk~ksl~el~~GatIaiPNDp  137 (268)
T COG1464          61 IVEFTDYVQPNEALADGDIDANAFQHKPYLDQFNKEHGGKLVAVGNTHIEPMGLY---SKKYKSLAELKDGATIAIPNDP  137 (268)
T ss_pred             EEEECCCCCHHHHHHCCCCCCHHHHCHHHHHHHHHHCCCCEEEEEEEEECCCEEC---CHHCCCHHHCCCCCEEECCCCC
T ss_conf             9981487665578766884600121468899999973997898755776142501---2200868467999989887898


Q ss_pred             CHHHHHHHHHHHCCC-C--------------------CCEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHH
Q ss_conf             269999999986299-8--------------------5078747989999998739602998250479999983678001
Q gi|254780170|r  155 TTELTLADYFKAHNM-K--------------------YHPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSE  213 (342)
Q Consensus       155 T~e~~l~~~~~~~~~-~--------------------~~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~  213 (342)
                      |+|.-.-..+.+.|+ +                    .+++.. +..+.-++|.+  +|+.+--..  ++..+.+ +|.+
T Consensus       138 sN~gRAL~lL~~aGLIkLk~~~~~~aT~~DI~eNPK~lki~El-dAaqlpRaLdd--vD~AvIN~n--yA~~AgL-~p~k  211 (268)
T COG1464         138 TNEGRALLLLQKAGLIKLKDGVNLLATPKDITENPKNLKIKEL-EAAQLPRALDD--VDAAVINTN--YALQAGL-NPKK  211 (268)
T ss_pred             CCHHHHHHHHHHCCCEEECCCCCCCCCHHHHHHCCCCCEEEEC-CHHHCCCCCCC--CCEEEECCH--HHHHCCC-CCCC
T ss_conf             7356799999987967976887655888788619445756870-56756532035--677987430--7977599-9120


Q ss_pred             HCCCCCCCCCCCEE--EECCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCCCHHHHHHHC
Q ss_conf             00256444237101--000277757999988774433112123301520898862267177887623
Q gi|254780170|r  214 HVILPDIISKSPLA--PAIIQGDTEWYNIVSWTHYAMVTAEELGITQKNINQVSKDTTNPDVQRFLG  278 (342)
Q Consensus       214 ~~il~e~iskEPlg--~avr~gD~~w~d~V~W~~~ali~Aee~git~~nv~~~~~~s~~p~i~r~lg  278 (342)
                      ..|.-|....+||.  +++|.+|.+                     +.++..+.+.-+.|+|+.|+-
T Consensus       212 dai~~e~~~~spY~Niivvr~~d~d---------------------~~~ik~lv~a~qs~evk~~i~  257 (268)
T COG1464         212 DALFEEDKDSSPYVNIIVVREEDKD---------------------DPAVKKLVEAYQSDEVKAFIE  257 (268)
T ss_pred             CCEECCCCCCCCCEEEEEECCCCCC---------------------CHHHHHHHHHHCCHHHHHHHH
T ss_conf             4214146667862479997155668---------------------889999999974999999999


No 45 
>COG1910 Periplasmic molybdate-binding protein/domain [Inorganic ion transport and metabolism]
Probab=97.00  E-value=0.011  Score=37.37  Aligned_cols=151  Identities=15%  Similarity=0.149  Sum_probs=93.3

Q ss_pred             EEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCCC---------CC-CEEEEEECCC--CCCCHHHHCC
Q ss_conf             2599814310026774396279981243253201102784353223---------44-0234630211--3475364178
Q gi|254780170|r   78 IQYLPLNAKERFLALQSKQIDILSRNTDWTLLREISLGLAFRPITY---------FD-GQGFIMHKKK--GISSVSQLSG  145 (342)
Q Consensus        78 Ve~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~---------~d-gq~~lVrk~~--~i~s~~dL~G  145 (342)
                      .+-+-+.+-+-+.+++.|++|+.--.+  -..+.-.+.+.|...|.         |. -|||||+++.  +|++++||-.
T Consensus        20 ~~~~~vGS~gG~~~i~~G~adiag~hl--ld~~~g~ynip~v~~~~~~~~~LI~g~~Re~Gl~v~~gnpk~i~~~edl~~   97 (223)
T COG1910          20 AKTVYVGSMGGLLAIKRGEADIAGIHL--LDNESGTYNIPYVKKYLPGEAVLIRGYLREQGLMVQKGNPKNISSLEDLLR   97 (223)
T ss_pred             CCEEEECCCCCHHHHHHCCCCEEEEEE--CCCCCCCEEHHHHHHCCCCCEEEEEEEEEEEEEEEECCCCCCCCCHHHHHH
T ss_conf             506886044554766625451444213--257787442300423078846998536651036886489776624998852


Q ss_pred             CCEEE---EECCCHHHHHHHHHHHCCCC-CCEEEE----CCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCC
Q ss_conf             62034---31342699999999862998-507874----79899999987396029982504799999836780010025
Q gi|254780170|r  146 ASICV---QAGTTTELTLADYFKAHNMK-YHPIVF----ERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVIL  217 (342)
Q Consensus       146 ~~I~v---~~GTT~e~~l~~~~~~~~~~-~~~v~~----~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il  217 (342)
                      +.+..   ++||-+-.-+.+.++..+.. -.+.-|    .+....-.++.+|++|+=++=.+  ++.+.    .=+|+  
T Consensus        98 ~d~~fVNR~rGSGTR~LlD~~L~~~~~~~~~I~GY~~e~~th~avA~aVa~G~AD~GvGlr~--~A~~~----gL~Fi--  169 (223)
T COG1910          98 KDLRFVNRNRGSGTRILLDELLGELNILPDSIKGYSDEATTHDAVASAVASGRADAGVGLRH--AAEKY----GLDFI--  169 (223)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHCCCCCHHCCCCCCCCCCCHHHHHHHHCCCCCCCCCHHH--HHHHC----CCCEE--
T ss_conf             67578715899658999999998737670105784323212089999997589872501799--99984----98517--


Q ss_pred             CCCCCCCCEEEECCCCCHH--HHHH
Q ss_conf             6444237101000277757--9999
Q gi|254780170|r  218 PDIISKSPLAPAIIQGDTE--WYNI  240 (342)
Q Consensus       218 ~e~iskEPlg~avr~gD~~--w~d~  240 (342)
                        +|.+|-|-+++|+++-+  |...
T Consensus       170 --pl~~E~YD~virke~~~~~~vr~  192 (223)
T COG1910         170 --PLGDEEYDFVIRKERLDKPVVRA  192 (223)
T ss_pred             --ECCCCEEEEEEEHHHCCCHHHHH
T ss_conf             --74562578998456705888999


No 46 
>PRK09501 potD spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed
Probab=96.95  E-value=0.037  Score=33.97  Aligned_cols=240  Identities=13%  Similarity=0.085  Sum_probs=120.9

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEE
Q ss_conf             91389999999999998401244216899985794999871789883068898988015099999999996798220259
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQY   80 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~   80 (342)
                      ||| +...++++.+++.+.+++.++      +.++|++-.-.+|-              |-|+....-++-+   .||++
T Consensus         1 ~~~-~~~~ll~~~a~~l~~~~~~a~------~~~~L~i~~W~~Yi--------------~~~~i~~Fe~etG---ikV~~   56 (348)
T PRK09501          1 MKK-WSRHLLAAGALALGMSAAHAD------DNNTLYFYNWTEYV--------------PPGLLEQFTKETG---IKVIY   56 (348)
T ss_pred             CHH-HHHHHHHHHHHHHHCCHHHHC------CCCEEEEECCCCCC--------------CHHHHHHHHHHHC---CEEEE
T ss_conf             936-899999999999735033543------38979998710018--------------9789999999989---88999


Q ss_pred             EECCCCC-CHHHHHC---CCEEEEEECCCCCCCC------------HH----------------CCCCCCCCCCCCCCEE
Q ss_conf             9814310-0267743---9627998124325320------------11----------------0278435322344023
Q gi|254780170|r   81 LPLNAKE-RFLALQS---KQIDILSRNTDWTLLR------------EI----------------SLGLAFRPITYFDGQG  128 (342)
Q Consensus        81 v~~~~~~-rf~aL~s---G~vDil~~~~T~T~~R------------d~----------------~~~v~Fs~~~~~dgq~  128 (342)
                      ...++.+ .+.-|++   |.+|+++.+.... +|            +.                ..+-.|+.||.+...|
T Consensus        57 ~~~~s~ee~~akL~a~~~~~yDvv~ps~~~v-~~l~~~gll~~LD~s~ipN~~nl~p~~~~~~~dp~~~y~vPy~wGt~G  135 (348)
T PRK09501         57 STYESNETMYAKLKTYKDGAYDLVVPSTYYV-DKMRKEGMIQKIDKSKLTNFSNLDPDMLNKPFDPNNDYSIPYIWGATA  135 (348)
T ss_pred             EECCCHHHHHHHHHCCCCCCCEEEEECHHHH-HHHHHCCCCCCCCHHHCCCHHHCCHHHHCCCCCCCCCEEEEEEEECCE
T ss_conf             9549999999999717999828999796899-999977984547842284812269767447748998489889975115


Q ss_pred             EEEECC----CCCCCHHHHC-----CCCEEEE-----------------ECCCHHHHHH---HHHHHCCCCCCEEEECCH
Q ss_conf             463021----1347536417-----8620343-----------------1342699999---999862998507874798
Q gi|254780170|r  129 FIMHKK----KGISSVSQLS-----GASICVQ-----------------AGTTTELTLA---DYFKAHNMKYHPIVFERV  179 (342)
Q Consensus       129 ~lVrk~----~~i~s~~dL~-----G~~I~v~-----------------~GTT~e~~l~---~~~~~~~~~~~~v~~~~~  179 (342)
                      |..+++    ..++|++||-     |+ |++.                 ..|+.+..+.   +.+++...  .+..|.+ 
T Consensus       136 i~yn~d~v~~~~~~SW~dL~dp~~kGk-i~~~d~~~~~~~~al~~lG~~~n~~d~~~l~~a~~~L~~~~~--~i~~~~s-  211 (348)
T PRK09501        136 IGVNGDAVDPKSVTSWADLWKPEYKGS-LLLTDDAREVFQMALRKLGYSGNTTDPKEIEAAYNELKKLMP--NVAAFNS-  211 (348)
T ss_pred             EEEEECCCCCCCCCCHHHHCCHHHCCE-EEECCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHC--CEEEEEC-
T ss_conf             998501147888887898549664790-797166789999999982799888999999999999998511--0589817-


Q ss_pred             HHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCCCCEEEECCCCCHH---HHHHHHHHHHHHHHHHHHHC
Q ss_conf             999999873960299825047999998367800100256444237101000277757---99998877443311212330
Q gi|254780170|r  180 EEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDIISKSPLAPAIIQGDTE---WYNIVSWTHYAMVTAEELGI  256 (342)
Q Consensus       180 ~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~iskEPlg~avr~gD~~---w~d~V~W~~~ali~Aee~gi  256 (342)
                      ++..+.+.+|++++-..-.......+ ....|-+|++=.|...--.-.++++++=+.   =..+++|.+..=+.|+    
T Consensus       212 d~~~~~l~~Gev~ia~~wsgda~~~~-~~~~~i~~v~PkEG~~~w~D~~~Ipk~A~n~e~A~~FInf~l~Pevaa~----  286 (348)
T PRK09501        212 DNPANPYMEGEVNLGMIWNGSAFVAR-QAGTPIDVVWPKEGGIFWMDSLAIPANAKNKEGALKLINFLLRPDVAKQ----  286 (348)
T ss_pred             CCHHHHHHCCCCEEEEEECHHHHHHH-HCCCCCCEEECCCCCEEEEEEEEEECCCCCHHHHHHHHHHHHCHHHHHH----
T ss_conf             70546987388329987405899999-7089971897578866998998898999898999999998619799999----


Q ss_pred             CHHHHHHHHHCCCCHHHHHHH
Q ss_conf             152089886226717788762
Q gi|254780170|r  257 TQKNINQVSKDTTNPDVQRFL  277 (342)
Q Consensus       257 t~~nv~~~~~~s~~p~i~r~l  277 (342)
                         |.+.....+.|...+.+|
T Consensus       287 ---~a~~~~y~t~n~~A~~~l  304 (348)
T PRK09501        287 ---VAETIGYPTPNLAARKLL  304 (348)
T ss_pred             ---HHHHHCCCCHHHHHHHHC
T ss_conf             ---999748898308888618


No 47 
>PRK12680 transcriptional regulator CysB-like protein; Reviewed
Probab=96.94  E-value=0.038  Score=33.91  Aligned_cols=220  Identities=11%  Similarity=0.085  Sum_probs=137.8

Q ss_pred             HCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCH
Q ss_conf             57949998717898830688989880150999999999967982202599814310026774396279981243253201
Q gi|254780170|r   32 KRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLRE  111 (342)
Q Consensus        32 ~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd  111 (342)
                      .+|.|++|+......+-           =..+.+++-+ .. ...++++...++.+....|.+|++|+.+.........+
T Consensus        91 ~~G~L~Ig~~~t~a~~~-----------LP~vi~~f~~-~y-P~V~l~l~~~~~~~l~e~l~~g~~Diai~~~~~~~~~~  157 (327)
T PRK12680         91 SQGQLTLTTTHTQARFV-----------LPPAVAQIKQ-AY-PQVSVHLQQAAESAALDLLGQGDADIAVVSTAGGEPSA  157 (327)
T ss_pred             CCEEEEEEEECHHHHHH-----------HHHHHHHHHH-HC-CCCEEEEEECCCHHHHHHHHCCCCCEEEECCCCCCCCC
T ss_conf             73379999842277775-----------6899999998-68-99679999898288999997899409994477779976


Q ss_pred             HCCCCCCCCCCCCCCEEEEEECCCC------CCCHHHHCCCC-EEEEECCCHHHHHHHHHHHCCCCCCEEE-ECCHHHHH
Q ss_conf             1027843532234402346302113------47536417862-0343134269999999986299850787-47989999
Q gi|254780170|r  112 ISLGLAFRPITYFDGQGFIMHKKKG------ISSVSQLSGAS-ICVQAGTTTELTLADYFKAHNMKYHPIV-FERVEEID  183 (342)
Q Consensus       112 ~~~~v~Fs~~~~~dgq~~lVrk~~~------i~s~~dL~G~~-I~v~~GTT~e~~l~~~~~~~~~~~~~v~-~~~~~~a~  183 (342)
                           ..+-|.|.....++|+++-.      .-+++||.+.. |.-..|++.-..+.+.|+..|+.-+++. ..+.+...
T Consensus       158 -----~~~~pl~~~~~~vvvP~~HpL~~~~~~i~L~~La~~plI~~~~g~~~r~~id~af~~~Gl~P~iv~ea~~~d~Ik  232 (327)
T PRK12680        158 -----GIAVPLYRWRRLVVVPRGHALDTPRTAPDMAALAEHPLISYDSSTRPGSSLQRAFAQVGLEPSIALTALDADLIK  232 (327)
T ss_pred             -----CEEEEEEECCEEEEEECCCCCCCCCCCCCHHHHHCCCEEECCCCCCHHHHHHHHHHHCCCCCCEEEEECCHHHHH
T ss_conf             -----547675223579999789810058999999998089889638998679999999997799764799999599999


Q ss_pred             HHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCC--CCCCCCEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHH
Q ss_conf             998739602998250479999983678001002564--442371010002777579999887744331121233015208
Q gi|254780170|r  184 AAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPD--IISKSPLAPAIIQGDTEWYNIVSWTHYAMVTAEELGITQKNI  261 (342)
Q Consensus       184 ~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e--~iskEPlg~avr~gD~~w~d~V~W~~~ali~Aee~git~~nv  261 (342)
                      ..+..|--=+++..      ..... ...+.+.+|-  .|..----+++|+|-     ..|--+|..|+-=.=++|++.|
T Consensus       233 ~~V~~GlGV~Ivp~------mA~~~-~d~~l~~~~~~~l~~~~~~~~~~~~~~-----~lr~~~~~fi~~~~p~l~~~~~  300 (327)
T PRK12680        233 TYVRAGLGVGLVAE------MAVNA-FDEDLRAWPAPAPIAECIAWAVLPRDR-----VLRDYALDLVHVLAPQIDKRDL  300 (327)
T ss_pred             HHHHHCCEEEECHH------HHHCC-CCCCEEEEECCCCCCCCEEEEEEECCC-----HHHHHHHHHHHHHCCCCCHHHH
T ss_conf             99994986188164------76287-689838940645777560599997884-----6899999999986688899999


Q ss_pred             HHHHHCCCCHHHHHHHCCCCCCCCHHHCCCCHHHHH
Q ss_conf             988622671778876235887650333799867999
Q gi|254780170|r  262 NQVSKDTTNPDVQRFLGIDKSSNIGEALGLTKDWTY  297 (342)
Q Consensus       262 ~~~~~~s~~p~i~r~lg~~~~~~~g~~lgl~~~~~~  297 (342)
                      +            |-|.    |+...+-.|++.|--
T Consensus       301 ~------------~~~~----~~~~~~~~~~~~~~~  320 (327)
T PRK12680        301 R------------RVLD----GNQAPNWPLPPTWES  320 (327)
T ss_pred             H------------HHHC----CCCCCCCCCCCCHHH
T ss_conf             9------------9826----888999999974898


No 48 
>COG2113 ProX ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]
Probab=96.90  E-value=0.037  Score=33.98  Aligned_cols=117  Identities=15%  Similarity=0.217  Sum_probs=74.3

Q ss_pred             HHHHHHHHHCCCC-CEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCH-------HCCCCCCCCCCCCC-CEEEEEEC
Q ss_conf             9999999967982-202599814310026774396279981243253201-------10278435322344-02346302
Q gi|254780170|r   63 FCRALSSAIFDDP-SKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLRE-------ISLGLAFRPITYFD-GQGFIMHK  133 (342)
Q Consensus        63 l~raiAaal~gd~-~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd-------~~~~v~Fs~~~~~d-gq~~lVrk  133 (342)
                      ....|++.++.+. ..++.++++..-.+.+|.+|++|+....  |++..+       ....++-.++.+.. -|++.|++
T Consensus        45 ~~t~v~~~iLk~~Gy~v~~~~~~~~~~~~sla~gd~D~~~~~--W~p~~~~~~~~~~~~~~v~~~~~~~~Ga~~g~~vp~  122 (302)
T COG2113          45 ATTNVAKKILKGLGYTVELVTLDTAVMYQSLAKGDLDVFPEA--WLPTTPDDYKKAVKDKKVELGGTNLEGAKQGWAVPK  122 (302)
T ss_pred             HHHHHHHHHHHHCCCCCEEEECCHHHHHHHHHCCCCCCCCCE--ECCCCHHHHHHHHCCCCEEECCCCCCCCEEEEEECE
T ss_conf             999999999996799624665559999999973797532010--268875889987426854413546677247898240


Q ss_pred             CCC---CCCHHHHC-------CCCEEEEECCCHHHHHHHHHHHCCCC-CCEEEECCHHH
Q ss_conf             113---47536417-------86203431342699999999862998-50787479899
Q gi|254780170|r  134 KKG---ISSVSQLS-------GASICVQAGTTTELTLADYFKAHNMK-YHPIVFERVEE  181 (342)
Q Consensus       134 ~~~---i~s~~dL~-------G~~I~v~~GTT~e~~l~~~~~~~~~~-~~~v~~~~~~~  181 (342)
                      -..   |++++|+.       |+-++...|...+...++.++..+.. -....+++...
T Consensus       123 y~~d~~iksi~D~~~~~d~~~g~i~g~~pG~g~~~~~~~~~k~y~~~~~~~~lv~~s~~  181 (302)
T COG2113         123 YVADAGIKSIADLAKFKDKFGGKIYGIEPGWGCMRVIEDAIKAYGLGLKGFELVESSEA  181 (302)
T ss_pred             EHHHCCCCCHHHHHHCCCCCCCCEECCCCCCCHHHHHHHHHHHCCCCCCCEEEECCCHH
T ss_conf             03423556565698666877785781589973548999998643655364488447478


No 49 
>pfam03466 LysR_substrate LysR substrate binding domain. The structure of this domain is known and is similar to the periplasmic binding proteins.
Probab=96.89  E-value=0.041  Score=33.66  Aligned_cols=190  Identities=14%  Similarity=0.130  Sum_probs=118.5

Q ss_pred             HCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCH
Q ss_conf             57949998717898830688989880150999999999967982202599814310026774396279981243253201
Q gi|254780170|r   32 KRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLRE  111 (342)
Q Consensus        32 ~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd  111 (342)
                      .+|+|++|+.....           ..|-.+++..+-+. . ...++++...+..+.+..|.+|++|+.+.....   . 
T Consensus         4 ~~G~i~I~~~~~~~-----------~~~lp~~l~~f~~~-~-P~i~i~i~~~~~~~i~~~l~~g~~Di~i~~~~~---~-   66 (209)
T pfam03466         4 PRGRLRIGAPPTFA-----------AYLLPPLLARFRER-Y-PDVELELREGDSEELLDLLAEGELDLAIRRGPP---D-   66 (209)
T ss_pred             CCEEEEEEEEHHHH-----------HHHHHHHHHHHHHH-C-CCCEEEEEECCCHHHHHHHHCCCCEEEEECCCC---C-
T ss_conf             87899999388999-----------99999999999998-8-892899998984889999986981488731789---9-


Q ss_pred             HCCCCCCCCCCCCCCEEEEEECCC-----CCCCHHHHCCCC-EEEEECCCHHHHHHHHHHHCCCCCCE-EEECCHHHHHH
Q ss_conf             102784353223440234630211-----347536417862-03431342699999999862998507-87479899999
Q gi|254780170|r  112 ISLGLAFRPITYFDGQGFIMHKKK-----GISSVSQLSGAS-ICVQAGTTTELTLADYFKAHNMKYHP-IVFERVEEIDA  184 (342)
Q Consensus       112 ~~~~v~Fs~~~~~dgq~~lVrk~~-----~i~s~~dL~G~~-I~v~~GTT~e~~l~~~~~~~~~~~~~-v~~~~~~~a~~  184 (342)
                       ..++.+. +.+-+...+++.++.     ..-+++||.... |+...+......+.++++..+.+.++ ..+++...+..
T Consensus        67 -~~~~~~~-~l~~~~~~~~~s~~~~l~~~~~i~~~~l~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  144 (209)
T pfam03466        67 -DPGLEAR-PLFEEPLVLVAPPDHPLAAGEPVSLEDLADEPLILLEPGSGLRDLVDRALERAGLRPRVALEVNSLEALLA  144 (209)
T ss_pred             -CCCEEEE-EEEEEEEEEEECCCCHHHCCCCCCHHHHCCCCEEEECCCCCCHHHHHHHHHHCCCCCCEEEEECCHHHHHH
T ss_conf             -9980899-97624136553367055428975435514665798569987137998778764876302467478799999


Q ss_pred             HHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCC--CCCCCCCEEEECCCCC---HHHHHHHHHHH
Q ss_conf             9873960299825047999998367800100256--4442371010002777---57999988774
Q gi|254780170|r  185 AYRAHRCDAYTGDISALYALKLTNDRPSEHVILP--DIISKSPLAPAIIQGD---TEWYNIVSWTH  245 (342)
Q Consensus       185 al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~--e~iskEPlg~avr~gD---~~w~d~V~W~~  245 (342)
                      ...+|..=++..+..  +...  .. .+..+.+|  +.--..++.++.+++.   +.-+.++.|..
T Consensus       145 lv~~g~Gi~~lp~~~--~~~~--~~-~~~L~~i~~~~~~~~~~~~li~~~~~~~s~~~~~f~~~l~  205 (209)
T pfam03466       145 AVAAGLGIALLPRSA--VARE--LA-DGRLVVLPLPDPPLPRPIYLVYRKGRRLSPAVRAFIDFLR  205 (209)
T ss_pred             HHHHCCEEEECCHHH--HHHH--HH-CCCEEEEECCCCCCCCEEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             999499999913999--9988--75-8998999588888744799999894978999999999999


No 50 
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=96.88  E-value=0.016  Score=36.36  Aligned_cols=206  Identities=14%  Similarity=0.161  Sum_probs=103.3

Q ss_pred             CHHHHHHHHHHHH-HHHHHHCCCCCHHHHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEE
Q ss_conf             9138999999999-999840124421689998579499987178988306889898801509999999999679822025
Q gi|254780170|r    1 MYKDFFVSILCLI-ILFFTSFSTNASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQ   79 (342)
Q Consensus         1 M~K~~l~~~l~l~-~~~~~~~aa~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe   79 (342)
                      |++|.|+++.+++ .+++++|+...      .+..+|++|+.++.-        +++    .+.....+++--  ..+||
T Consensus         3 ~~~k~~~~~~~l~~~l~l~gCg~~~------~~~~~ikVG~~~gp~--------~ei----~e~~~~~~~ek~--G~~ve   62 (271)
T PRK11063          3 FKFKTFAAVGALIGSLALVGCGQDE------KDPNHIKVGVIVGAE--------QQV----AEVAQKVAKEKY--GLDVE   62 (271)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCC------CCCCEEEEEECCCCH--------HHH----HHHHHHHHHHHC--CCEEE
T ss_conf             0299999999999999750058985------679818998468987--------999----999888888607--97689


Q ss_pred             EEEC-CCCCCHHHHHCCCEEEEEECCCCCCC-CHHCCCCCCCC--CCCCCCEEEEEECCCCCCCHHHH-CCCCEEEEECC
Q ss_conf             9981-43100267743962799812432532-01102784353--22344023463021134753641-78620343134
Q gi|254780170|r   80 YLPL-NAKERFLALQSKQIDILSRNTDWTLL-REISLGLAFRP--ITYFDGQGFIMHKKKGISSVSQL-SGASICVQAGT  154 (342)
Q Consensus        80 ~v~~-~~~~rf~aL~sG~vDil~~~~T~T~~-Rd~~~~v~Fs~--~~~~dgq~~lVrk~~~i~s~~dL-~G~~I~v~~GT  154 (342)
                      ++.. ++.+-=.||.+|++|+=..-...=++ -....+.++..  +.+....|+.   +..+++++|| +|.+|++....
T Consensus        63 iv~FsDy~~pN~AL~~G~iDaN~fQH~~yL~~~nk~~g~~L~~v~~~~~~P~glY---S~K~ksl~elp~Ga~IaIPND~  139 (271)
T PRK11063         63 LVTFNDYVLPNEALSKGDIDANAFQHKPYLDQQIKDRGYKLVAVGNTFVYPIAGY---SKKIKSLDELQDGSQVAVPNDP  139 (271)
T ss_pred             EEEECCCHHHHHHHHCCCCCHHHHHCHHHHHHHHHHCCCCEEEEEEEEEEEEEEE---ECCCCCHHHCCCCCEEEECCCC
T ss_conf             9993683215589867984423455799999999977995799866778415864---2365886475699999804885


Q ss_pred             CHHHHHHHHHHHCCC---------------------CCCEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCH-
Q ss_conf             269999999986299---------------------8507874798999999873960299825047999998367800-
Q gi|254780170|r  155 TTELTLADYFKAHNM---------------------KYHPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPS-  212 (342)
Q Consensus       155 T~e~~l~~~~~~~~~---------------------~~~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~-  212 (342)
                      |++.---..+...|+                     +++++..+ ..+.-++|....+|+.+.-..  .+....+ +|. 
T Consensus       140 sN~~RAL~lL~~aGLIkLk~~~~~~~T~~DI~~Npk~l~~~e~d-aaql~rsl~D~dv~~aviN~~--~a~~agl-~p~k  215 (271)
T PRK11063        140 TNLGRSLLLLQKVGLIKLKDGVGLLPTVLDIVENPKNLKIVELE-APQLPRSLDDAQIALAVINTT--YASQIGL-TPAK  215 (271)
T ss_pred             CHHHHHHHHHHHCCCEEECCCCCCCCCHHHHHCCCCCCEEEECC-HHHHHHHCCCCCEEEEEECHH--HHHHCCC-CCCC
T ss_conf             60999999999889889779999878966885488774899903-776443135765108981477--8977798-9342


Q ss_pred             HHCCCCCCCCCCCEE--EECCCCCH
Q ss_conf             100256444237101--00027775
Q gi|254780170|r  213 EHVILPDIISKSPLA--PAIIQGDT  235 (342)
Q Consensus       213 ~~~il~e~iskEPlg--~avr~gD~  235 (342)
                      |-..+++  ...||.  +++|++|.
T Consensus       216 dal~~E~--~~~py~Nvivvr~~~k  238 (271)
T PRK11063        216 DGIFVED--KDSPYVNLIVAREDNK  238 (271)
T ss_pred             CCEEECC--CCCCEEEEEEECCCCC
T ss_conf             5047778--9998389999827777


No 51 
>PRK12682 transcriptional regulator CysB-like protein; Reviewed
Probab=96.44  E-value=0.079  Score=31.90  Aligned_cols=182  Identities=11%  Similarity=0.040  Sum_probs=109.6

Q ss_pred             HCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCH
Q ss_conf             57949998717898830688989880150999999999967982202599814310026774396279981243253201
Q gi|254780170|r   32 KRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLRE  111 (342)
Q Consensus        32 ~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd  111 (342)
                      .+|.|++|+......+-..           ++..++.+.-  ...++++...+.......|..|++|+.+.....  ..+
T Consensus        91 ~~G~lrIg~~~~~~~~~lp-----------~~l~~f~~~~--P~v~l~l~~~~~~~~~~~l~~g~~Dl~i~~~~~--~~~  155 (309)
T PRK12682         91 DSGTLTIATTHTQARYVLP-----------RVVAKFRKRY--PKVNLSLHQGSPDEIAQMVISGEADIGIATESL--DDD  155 (309)
T ss_pred             CCCCCCCCCCHHHHHHCCC-----------HHHHHHHHHC--CCCEEEEEECCHHHHHHHHHCCCCCHHHHHCCC--CCC
T ss_conf             7774121243133320386-----------2539999878--983799983782999999976997645650777--789


Q ss_pred             HCCCCCCCCCCCCCCEEEEEECCCC-----CCCHHHHCCCCE-EEEECCCHHHHHHHHHHHCCCCCCEE-EECCHHHHHH
Q ss_conf             1027843532234402346302113-----475364178620-34313426999999998629985078-7479899999
Q gi|254780170|r  112 ISLGLAFRPITYFDGQGFIMHKKKG-----ISSVSQLSGASI-CVQAGTTTELTLADYFKAHNMKYHPI-VFERVEEIDA  184 (342)
Q Consensus       112 ~~~~v~Fs~~~~~dgq~~lVrk~~~-----i~s~~dL~G~~I-~v~~GTT~e~~l~~~~~~~~~~~~~v-~~~~~~~a~~  184 (342)
                        .++.+. |.|-+...++++++..     .-+++||.+... ....|++....+.++|...++..+++ ...+.+....
T Consensus       156 --~~l~~~-~l~~~~~~~v~~~~h~la~~~~i~~~dL~~~p~I~~~~~~~~r~~~~~~~~~~g~~p~~~~~~~~~~~~~~  232 (309)
T PRK12682        156 --PDLVTL-PCYDWTHAVIVPSDHPLAQKERITLEDLAEYPLITYHPGFTGRSAIDKAFAAAGLQPDIVLEAIDSDVIKT  232 (309)
T ss_pred             --CCEEEE-EEECCCEEEEECCCCHHHCCCCCCHHHHCCCCEEEECCCCCHHHHHHHHHHHCCCCCCEEEEECCHHHHHH
T ss_conf             --880899-93315236761699721149999999982899797279986799999999977999626999998999999


Q ss_pred             HHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCC--CCCCCCCCEEEECCCCCHHH
Q ss_conf             987396029982504799999836780010025--64442371010002777579
Q gi|254780170|r  185 AYRAHRCDAYTGDISALYALKLTNDRPSEHVIL--PDIISKSPLAPAIIQGDTEW  237 (342)
Q Consensus       185 al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il--~e~iskEPlg~avr~gD~~w  237 (342)
                      ...+|--=++..+   ++. +. ..+ +..+.+  ++...+-++.++.|++-...
T Consensus       233 ~v~~G~Gi~~lp~---~~~-~~-~~~-~~Lv~v~~~~~~~~~~~~l~~rk~~~l~  281 (309)
T PRK12682        233 YVRLGLGVGIIAE---MAY-RP-DRD-GDLVALPAGHLFGPNTAWVAVKRGAYLR  281 (309)
T ss_pred             HHHHCCEEEHHHH---HHH-HH-HHC-CCEEEEECCCCCCCCEEEEEEECCCCCC
T ss_conf             9995994242289---983-37-647-9989997988777617999996966118


No 52 
>PRK11242 DNA-binding transcriptional regulator CynR; Provisional
Probab=96.43  E-value=0.086  Score=31.64  Aligned_cols=177  Identities=10%  Similarity=0.130  Sum_probs=109.2

Q ss_pred             HCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCH
Q ss_conf             57949998717898830688989880150999999999967982202599814310026774396279981243253201
Q gi|254780170|r   32 KRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLRE  111 (342)
Q Consensus        32 ~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd  111 (342)
                      .+|.|++|+...+..+           +=.++...+.++-  ...++++...+..+....|.+|++|+.+....   .+ 
T Consensus        89 ~~G~l~ig~~~~~~~~-----------~l~~~l~~f~~~~--P~i~i~l~~~~~~~~~~~l~~~~~D~~i~~~~---~~-  151 (292)
T PRK11242         89 SRGSLRLAMTPTFTAY-----------LIGPLIDAFHARY--PGITLTIREMPQERIEALLADDELDVGIAFAP---VH-  151 (292)
T ss_pred             CCCEEEEECHHHHHHH-----------HHHHHHHHHHHHC--CCCCEEEEECCHHHHHHHHHCCCCCEEEEECC---CC-
T ss_conf             7765863024577888-----------7389988888648--89734899768899999986798557998368---88-


Q ss_pred             HCCCCCCCCCCCCCCEEEEEECCCC------CCCHHHHCCCCEEE-EECCCHHHHHHHHHHHCCCCCCEE-EECCHHHHH
Q ss_conf             1027843532234402346302113------47536417862034-313426999999998629985078-747989999
Q gi|254780170|r  112 ISLGLAFRPITYFDGQGFIMHKKKG------ISSVSQLSGASICV-QAGTTTELTLADYFKAHNMKYHPI-VFERVEEID  183 (342)
Q Consensus       112 ~~~~v~Fs~~~~~dgq~~lVrk~~~------i~s~~dL~G~~I~v-~~GTT~e~~l~~~~~~~~~~~~~v-~~~~~~~a~  183 (342)
                       ...+++. +.+-+.-.++++++..      .-+++||.+....+ ..++.+...+.++++..++..+++ ..++...+.
T Consensus       152 -~~~l~~~-~l~~~~~~~v~~~~h~la~~~~~is~~~L~~~~~i~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~  229 (292)
T PRK11242        152 -SPEIEAQ-PLFTETLALVVGRTHPLAARRKPLTLDELADEPLVLLSAEFATREQIDRYFRRHGITPRVAIEANSISAVL  229 (292)
T ss_pred             -CCCCEEE-EECCCEEEEEEECCCHHHHCCCCCCHHHHCCCCEEEECCCCCHHHHHHHHHHHCCCCCCEEEEECCHHHHH
T ss_conf             -8772565-42045079999089804227999999998189989967998579999999997699985367538899999


Q ss_pred             HHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCC--CCCCCCCEEEECCCCCH
Q ss_conf             99873960299825047999998367800100256--44423710100027775
Q gi|254780170|r  184 AAYRAHRCDAYTGDISALYALKLTNDRPSEHVILP--DIISKSPLAPAIIQGDT  235 (342)
Q Consensus       184 ~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~--e~iskEPlg~avr~gD~  235 (342)
                      ..+.+|..=++.-+.   .+.    ..+ +.+.+|  +..-.-+++.+.|++-.
T Consensus       230 ~~V~~g~Gi~ilP~~---~~~----~~~-~l~~i~l~~~~~~r~i~lv~~k~~~  275 (292)
T PRK11242        230 EIVRRGRLATLLPAA---IAR----EHD-DLCAVALDPPLPQRTAALLRRKGAY  275 (292)
T ss_pred             HHHHHCCEEEEEHHH---HHH----HCC-CEEEEECCCCCCEEEEEEEEECCCC
T ss_conf             999979969970289---860----089-9899989899870399999989398


No 53 
>PRK12684 transcriptional regulator CysB-like protein; Reviewed
Probab=96.35  E-value=0.096  Score=31.35  Aligned_cols=181  Identities=10%  Similarity=0.032  Sum_probs=108.2

Q ss_pred             HCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCH
Q ss_conf             57949998717898830688989880150999999999967982202599814310026774396279981243253201
Q gi|254780170|r   32 KRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLRE  111 (342)
Q Consensus        32 ~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd  111 (342)
                      .+|.|++|+......+-.           .++...+.+.-  ...++++...++.+....|.+|++|+.+......... 
T Consensus        91 ~~G~l~ig~~~s~~~~~l-----------p~~l~~f~~~~--P~v~l~l~~~~~~~~~~~l~~g~~Dl~i~~~~~~~~~-  156 (313)
T PRK12684         91 DQGNLTIATTHTQARYAL-----------PAAIAEFKKRY--PKVRLSILQGSPTQIAEMVIHDQADLAIATEAIADYK-  156 (313)
T ss_pred             CCCEEECCHHHHHHHHCC-----------CHHHHHHHHHC--CCEEEEEEECCHHHHHHHHHCCCCCEEECCCCCCCCC-
T ss_conf             775141102455575159-----------49999998448--9808999717889999999779966550435777778-


Q ss_pred             HCCCCCCCCCCCCCCEEEEEECCC-----CCCCHHHHCCCC-EEEEECCCHHHHHHHHHHHCCCCCCEE-EECCHHHHHH
Q ss_conf             102784353223440234630211-----347536417862-034313426999999998629985078-7479899999
Q gi|254780170|r  112 ISLGLAFRPITYFDGQGFIMHKKK-----GISSVSQLSGAS-ICVQAGTTTELTLADYFKAHNMKYHPI-VFERVEEIDA  184 (342)
Q Consensus       112 ~~~~v~Fs~~~~~dgq~~lVrk~~-----~i~s~~dL~G~~-I~v~~GTT~e~~l~~~~~~~~~~~~~v-~~~~~~~a~~  184 (342)
                         .+.+ .|.|-+...++++++.     ..-+++||.+.. |....|+..-..+.++|+..|+..+++ ...+.+...+
T Consensus       157 ---~l~~-~~l~~~~~~~v~~~~hpla~~~~v~l~dL~~~p~I~~~~~~~~r~~i~~~~~~~g~~p~~~~e~~~~~~i~~  232 (313)
T PRK12684        157 ---ELVS-LPCYQWNHAVVVPPDHPLLERKPLTLEDLAQYPLITYDDAFAGRSKINKAFALRGLKPDIVLEAIDADVIKT  232 (313)
T ss_pred             ---CEEE-EEEEECCEEEEECCCCCCCCCCCCCHHHHCCCCEEECCCCCCHHHHHHHHHHHCCCCCCEEEEECCHHHHHH
T ss_conf             ---7389-980322168995389854469999999985999896289985899999999977998747999997999999


Q ss_pred             HHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCC--CCCCCCEEEECCCCCHH
Q ss_conf             98739602998250479999983678001002564--44237101000277757
Q gi|254780170|r  185 AYRAHRCDAYTGDISALYALKLTNDRPSEHVILPD--IISKSPLAPAIIQGDTE  236 (342)
Q Consensus       185 al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e--~iskEPlg~avr~gD~~  236 (342)
                      .+.+|-.=++..+   ++...  ..+ ...+++|.  .+...++.++.|+|-.-
T Consensus       233 ~V~~GlGi~ilP~---~a~~~--~~~-~~L~~lp~~~~~~~~~~~v~~~k~~~l  280 (313)
T PRK12684        233 YVELGLGVGIVAD---MAFDP--ERD-RNLRAIPAGHLFGSNVTRVALKQGAYL  280 (313)
T ss_pred             HHHHCCCHHHHHH---HHHCH--HHC-CCEEEEECCCCCCCEEEEEEEECCCCC
T ss_conf             9995985725599---98467--638-987999784677660599999798866


No 54 
>TIGR03414 ABC_choline_bnd choline ABC transporter, periplasmic binding protein. Partial phylogenetic profiling (PMID:16930487) vs. the genome property of glycine betaine biosynthesis from choline consistently reveals a member of this ABC transporter periplasmic binding protein as the best match, save for the betaine biosynthesis enzymes themselves. Genomes often carry several paralogs, one encoded together with the permease and ATP-binding components and another encoded next to a choline-sulfatase gene, suggesting that different members of this protein family interact with shared components and give some flexibility in substrate. Of two members from Sinorhizobium meliloti 1021, one designated ChoX has been shown experimentally to bind choline (though not various related compounds such as betaine) and to be required for about 60 % of choline uptake. Members of this protein have an invariant Cys residue near the N-terminus and likely are lipoproteins.
Probab=96.27  E-value=0.083  Score=31.76  Aligned_cols=130  Identities=11%  Similarity=0.177  Sum_probs=79.7

Q ss_pred             HHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHC-------CCCCCCCCCCCCC-EEEEEE
Q ss_conf             99999999996798220259981431002677439627998124325320110-------2784353223440-234630
Q gi|254780170|r   61 VDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREIS-------LGLAFRPITYFDG-QGFIMH  132 (342)
Q Consensus        61 VDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~-------~~v~Fs~~~~~dg-q~~lVr  132 (342)
                      -.+.+.|-..++   -+|++++.+....|.+|..|++|+....  |.+.++..       ..+.-..+.|-++ +++.|+
T Consensus        24 t~v~~~iLE~~G---Y~Ve~~~~~~~~~~~~la~GdiDv~~e~--W~p~~~~~~~~~~~~g~v~~lg~~~~~a~~g~~VP   98 (290)
T TIGR03414        24 TALASVLLEGLG---YQPKVTLLSVPVTYAGLKDGDLDVFLGN--WMPAMEPDIKPYLESGSVEVLGPNLEGAKYTLAVP   98 (290)
T ss_pred             HHHHHHHHHHCC---CCEEEEECCHHHHHHHHHCCCCEEEEEC--CCCCCHHHHHHHHHCCCEEECCCCCCCCEEEEEEC
T ss_conf             999999999749---9648996774999999976997078711--14785778998863696898356667863789854


Q ss_pred             CC---CCCCCHHHHC-------CCCEEEEECCCHHHHHHHHHH--HCCC-CCCEEEECCHH----HHHHHHHCCCEEEEE
Q ss_conf             21---1347536417-------862034313426999999998--6299-85078747989----999998739602998
Q gi|254780170|r  133 KK---KGISSVSQLS-------GASICVQAGTTTELTLADYFK--AHNM-KYHPIVFERVE----EIDAAYRAHRCDAYT  195 (342)
Q Consensus       133 k~---~~i~s~~dL~-------G~~I~v~~GTT~e~~l~~~~~--~~~~-~~~~v~~~~~~----~a~~al~~Gr~DA~~  195 (342)
                      +-   .+|+|++||+       |+-++...|......+.+.++  ..++ .++++.- +..    +...|+..|+-=.++
T Consensus        99 ~Yv~d~~l~si~DL~~~~~~f~g~i~gi~~G~~~~~~~~~~i~~~~ygL~~~~l~~~-S~aam~a~l~~A~~~~epiv~~  177 (290)
T TIGR03414        99 TYVADAGLKSFADIAKFKDKLDGKIYGIEPGNDGNRLIQKMIDKNAFGLGGFKLVES-SEAGMLAQVARAVKRKEWVVFL  177 (290)
T ss_pred             HHHHHCCCCCHHHHHHCHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCCCCCEECCC-CHHHHHHHHHHHHHCCCCEEEE
T ss_conf             147765999999998586752997613679984778999998764079887021368-8899999999999869998998


Q ss_pred             E
Q ss_conf             2
Q gi|254780170|r  196 G  196 (342)
Q Consensus       196 ~  196 (342)
                      .
T Consensus       178 ~  178 (290)
T TIGR03414       178 G  178 (290)
T ss_pred             E
T ss_conf             2


No 55 
>COG1732 OpuBC Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]
Probab=96.22  E-value=0.074  Score=32.05  Aligned_cols=198  Identities=17%  Similarity=0.183  Sum_probs=107.8

Q ss_pred             HCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCC-CCCEEEEEECCCCC--CHHHHHCCCEEEEEEC--CC-
Q ss_conf             579499987178988306889898801509999999999679-82202599814310--0267743962799812--43-
Q gi|254780170|r   32 KRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFD-DPSKIQYLPLNAKE--RFLALQSKQIDILSRN--TD-  105 (342)
Q Consensus        32 ~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~g-d~~kVe~v~~~~~~--rf~aL~sG~vDil~~~--~T-  105 (342)
                      +...|+||.....-        +.       +.-.|-+.++- +..+|+.++--..+  .+.||.+|+||+-..-  +. 
T Consensus        31 ~~~~I~VgsK~~tE--------~~-------IL~~m~~~lle~~~~kv~~~~~lG~t~v~~~Al~~G~IDiYpEYTGt~~   95 (300)
T COG1732          31 AAKTIVVGSKIFTE--------QY-------ILGNILKQLLEKNGIKVEDKTGLGGTAVVRNALKSGDIDIYPEYTGTAL   95 (300)
T ss_pred             CCCCEEEECCCCCH--------HH-------HHHHHHHHHHHHCCCCEEECCCCCCHHHHHHHHHCCCCCEEEEECCHHH
T ss_conf             57887983477838--------89-------9999999999865991454168885299999997598776854323145


Q ss_pred             CCCCC-------H-------------HCCCCCCCCCC-CCCCEEEEEECC----CCCCCHHHHCCCCEEEEECCCHHH--
Q ss_conf             25320-------1-------------10278435322-344023463021----134753641786203431342699--
Q gi|254780170|r  106 WTLLR-------E-------------ISLGLAFRPIT-YFDGQGFIMHKK----KGISSVSQLSGASICVQAGTTTEL--  158 (342)
Q Consensus       106 ~T~~R-------d-------------~~~~v~Fs~~~-~~dgq~~lVrk~----~~i~s~~dL~G~~I~v~~GTT~e~--  158 (342)
                      .+..+       |             ....+.+-.|+ |-+..++.||++    .+|++++||+-..=.+.-|.+.|-  
T Consensus        96 ~~~lk~~~~~~~dp~~~y~~vK~~~~k~~~l~wl~p~~~nNTyA~av~~~~A~~~~i~TiSDLak~~~~l~~g~~~eF~~  175 (300)
T COG1732          96 FSFLKKDPPASKDPKKVYETVKKLDAKQFKLVWLKPAGFNNTYALAVRKDVAEKYNLETISDLAKHSNQLKLGADSEFAE  175 (300)
T ss_pred             HHHCCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCCEEEEECHHHHHHHCCCCHHHHHHHHHHCEECCCHHHHC
T ss_conf             66345676454798999999999888607978965468776058996198898819816999998665346227842313


Q ss_pred             ---HHHHHHHHCCCCCCE-EEECCHHHHHHHHHCCCEEE---EEECCHHHHHHHHHCCCCHHHCCCCCC-CCCCCE--EE
Q ss_conf             ---999999862998507-87479899999987396029---982504799999836780010025644-423710--10
Q gi|254780170|r  159 ---TLADYFKAHNMKYHP-IVFERVEEIDAAYRAHRCDA---YTGDISALYALKLTNDRPSEHVILPDI-ISKSPL--AP  228 (342)
Q Consensus       159 ---~l~~~~~~~~~~~~~-v~~~~~~~a~~al~~Gr~DA---~~~D~s~La~~~~~~~~p~~~~il~e~-iskEPl--g~  228 (342)
                         -+..+-+..+++++. +..=+..-.++|+.+|.+|+   |++|.- ++        +.+.++|.+. --.-||  +|
T Consensus       176 R~DG~~~l~k~Yg~~~~~~~~~m~~gl~y~Al~~g~~d~~~~YsTDg~-I~--------~~~L~VLkDDK~~fP~Y~~ap  246 (300)
T COG1732         176 RADGLPALQKAYGFDFKPDLRTMDGGLTYQALKNGTVDAADAYSTDGR-IA--------AYGLKVLKDDKGFFPPYQAAP  246 (300)
T ss_pred             CCCCCHHHHHHHCCCCCCCCEECCCHHHHHHHHCCCCCEEEECCCCCC-CC--------CCCCEEEECCCCCCCCCCCCC
T ss_conf             651228999984876688744338158999987499776763145522-12--------268579706876799876564


Q ss_pred             ECCCC----CHHHHHHHHHHHHHHHHHHHH
Q ss_conf             00277----757999988774433112123
Q gi|254780170|r  229 AIIQG----DTEWYNIVSWTHYAMVTAEEL  254 (342)
Q Consensus       229 avr~g----D~~w~d~V~W~~~ali~Aee~  254 (342)
                      +||+.    .|+...+.+ .+.+-|..+++
T Consensus       247 vvre~vlk~~Pel~~~l~-~l~~kid~~tM  275 (300)
T COG1732         247 VVREEVLKKHPELKTILN-KLSGKIDTETM  275 (300)
T ss_pred             EECHHHHHHCHHHHHHHH-HHHCCCCHHHH
T ss_conf             021877767988999998-87545899999


No 56 
>COG0725 ModA ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=96.21  E-value=0.11  Score=30.91  Aligned_cols=212  Identities=11%  Similarity=0.076  Sum_probs=110.5

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEE
Q ss_conf             91389999999999998401244216899985794999871789883068898988015099999999996798220259
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQY   80 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~   80 (342)
                      |++...+.++++++++...|++..    ..+....|+|-.-..     +.+.      |+ ++.+...+.- +  .+|++
T Consensus         1 ~~~~~~i~~~l~~~~~~~~~~~~~----~~~~~~~i~VfAAaS-----L~~~------l~-~i~~~F~~~~-~--~~V~~   61 (258)
T COG0725           1 GKKMKKILALLLLVLLALGCAAGS----AAQEAATITVFAAAS-----LTDA------LE-EIAKQFEKET-G--VKVEV   61 (258)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHCCC----CCCCCCEEEEEEEHH-----HHHH------HH-HHHHHHHHHH-C--CEEEE
T ss_conf             942688999999999999861565----445674099998156-----6899------99-9999999987-9--87999


Q ss_pred             EECCCCCCHHHHHCC-CEEEEEECCCCCCCCHHCCC--CCCCCCCCCCCE-EEEEECCCC--CCCHHHHC---CCCEEEE
Q ss_conf             981431002677439-62799812432532011027--843532234402-346302113--47536417---8620343
Q gi|254780170|r   81 LPLNAKERFLALQSK-QIDILSRNTDWTLLREISLG--LAFRPITYFDGQ-GFIMHKKKG--ISSVSQLS---GASICVQ  151 (342)
Q Consensus        81 v~~~~~~rf~aL~sG-~vDil~~~~T~T~~Rd~~~~--v~Fs~~~~~dgq-~~lVrk~~~--i~s~~dL~---G~~I~v~  151 (342)
                      .-..+.....-+++| ++|+.++.-..++..-...+  ..-....|-..+ .+.+++++.  +.++.+|.   ..++++-
T Consensus        62 ~f~gS~~l~~qIe~Ga~~D~fiSa~~~~~~~l~~~g~~~~~~~~~fa~n~lvl~~~~~~~~~~~~~~~l~~~~~~~lai~  141 (258)
T COG0725          62 EFGGSGALARQIEQGAPADLFISADDAYMDKLEDKGLIYADSRIVFAGNRLVLAVPKGSKKKIESLEDLLERPDVRLAIG  141 (258)
T ss_pred             EECCHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCCCCCCCCEEEEECCEEEEEEECCCCCCCCHHHHHHCCCCCEEEEC
T ss_conf             96138999999975998687998888889999866885667157742574899986887456512988730878579964


Q ss_pred             E-CCC-HHHHHHHHHHHCCC----CCCEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCC-C
Q ss_conf             1-342-69999999986299----850787479899999987396029982504799999836780010025644423-7
Q gi|254780170|r  152 A-GTT-TELTLADYFKAHNM----KYHPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDIISK-S  224 (342)
Q Consensus       152 ~-GTT-~e~~l~~~~~~~~~----~~~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~isk-E  224 (342)
                      . .+- .-.+..+.+...++    .-+++.-++..+++..+.+|++|+.+.=.+....    ...-..+...|+.... .
T Consensus       142 ~p~~~P~G~ya~~~l~~~g~~~~~~~k~v~~~~v~~~l~~V~~G~ad~g~vy~sd~~~----~~~~~~~~~~~~~~~~Pi  217 (258)
T COG0725         142 DPKTVPAGKYAKEALELLGLWYTLKDKLVLATNVRQALAYVETGEADAGFVYVSDALL----SKKVKIVGVFPEDLHSPI  217 (258)
T ss_pred             CCCCCCCHHHHHHHHHHHCHHHHCCCCEEECCCHHHHHHHHHCCCCCEEEEEEEHHHH----CCCCEEEEECCCCCCCCE
T ss_conf             8876971499999999705145336754653657989999863787779999763340----677608997356668971


Q ss_pred             CEEEECCCCCH
Q ss_conf             10100027775
Q gi|254780170|r  225 PLAPAIIQGDT  235 (342)
Q Consensus       225 Plg~avr~gD~  235 (342)
                      .|..++.++=.
T Consensus       218 ~y~iav~~~~~  228 (258)
T COG0725         218 VYPIAVLKNAK  228 (258)
T ss_pred             EEEEEEECCCC
T ss_conf             67899973889


No 57 
>TIGR00212 hemC porphobilinogen deaminase; InterPro: IPR000860   Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway . The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin .   The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA.   The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III.   Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) .   This entry represents hydroxymethylbilane synthase (or porphobilinogen deaminase, 2.5.1.61 from EC), which functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses the polymerisation of four PBG molecules into the tetrapyrrole structure, preuroporphyrinogen, with the concomitant release of four molecules of ammonia. This enzyme uses a unique dipyrro-methane cofactor made from two molecules of PBG, which is covalently attached to a cysteine side chain. The tetrapyrrole product is synthesized in an ordered, sequential fashion, by initial attachment of the first pyrrole unit (ring A) to the cofactor, followed by subsequent additions of the remaining pyrrole units (rings B, C, D) to the growing pyrrole chain . The link between the pyrrole ring and the cofactor is broken once all the pyrroles have been added. This enzyme is folded into three distinct domains that enclose a single, large active site that makes use of an aspartic acid as its one essential catalytic residue, acting as a general acid/base during catalysis , . A deficiency of hydroxymethylbilane synthase is implicated in the neuropathic disease, Acute Intermittent Porphyria (AIP) . ; GO: 0004418 hydroxymethylbilane synthase activity, 0033014 tetrapyrrole biosynthetic process.
Probab=95.98  E-value=0.043  Score=33.54  Aligned_cols=136  Identities=18%  Similarity=0.164  Sum_probs=86.7

Q ss_pred             CCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCCC-CCCEE---EEEECC-------CCCCCHHHH-CCCCEEEEECC
Q ss_conf             0026774396279981243253201102784353223-44023---463021-------134753641-78620343134
Q gi|254780170|r   87 ERFLALQSKQIDILSRNTDWTLLREISLGLAFRPITY-FDGQG---FIMHKK-------KGISSVSQL-SGASICVQAGT  154 (342)
Q Consensus        87 ~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~-~dgq~---~lVrk~-------~~i~s~~dL-~G~~I~v~~GT  154 (342)
                      +.-.+|.+|++||.+.+|         +.+   |..+ ..|..   |+-|.+       .+..++.+| .|++||    |
T Consensus        62 Ele~aLL~geiD~AVHSl---------KD~---P~~~~~~gL~~~a~~~RedP~D~l~s~~~~~l~~LP~GA~vG----T  125 (312)
T TIGR00212        62 ELEQALLDGEIDLAVHSL---------KDV---PTVLSPEGLEIAAVLKREDPRDVLVSRKYLSLEELPQGAKVG----T  125 (312)
T ss_pred             HHHHHHHCCCCCEEEECC---------CCC---CCCCCCCCCEEEEECCCCCCCCEEEECCCCCHHHCCCCCEEE----C
T ss_conf             999996259844888430---------235---765598882786355878864268862788851277988897----4


Q ss_pred             CHHHHHHHHHHHCCCCCCEEEECCH-HHHHHHHHC-CCEEEEEECCHHHHH-HHHHCCCC-HHHCCCCCCCCCC----CE
Q ss_conf             2699999999862998507874798-999999873-960299825047999-99836780-0100256444237----10
Q gi|254780170|r  155 TTELTLADYFKAHNMKYHPIVFERV-EEIDAAYRA-HRCDAYTGDISALYA-LKLTNDRP-SEHVILPDIISKS----PL  226 (342)
Q Consensus       155 T~e~~l~~~~~~~~~~~~~v~~~~~-~~a~~al~~-Gr~DA~~~D~s~La~-~~~~~~~p-~~~~il~e~iskE----Pl  226 (342)
                      ++-.- +.+++...++.+++++-.| +.-+.-|.. |++||++-   .-|| .|..+.+. -.+.+-|+.+--.    -+
T Consensus       126 SS~RR-~aql~~~RPDl~~~~lRGNi~TRl~Kl~~Gg~~DAiiL---A~AGL~RLg~~~~~i~~~~~~~~~~PA~GQG~i  201 (312)
T TIGR00212       126 SSLRR-KAQLKALRPDLEIEPLRGNIDTRLRKLDEGGEYDAIIL---AAAGLKRLGLENDVITEVLDPEVMLPAVGQGAI  201 (312)
T ss_pred             CHHHH-HHHHHHCCCCCEEEECCCCHHHHHHHHCCCCCCHHHHH---HHHHHHCCCCCCHHHHHCCCHHHCCCCCCCCEE
T ss_conf             57999-99998308994499746987999998518882048999---888753025410134314781141788667579


Q ss_pred             EEECCCCCHHHHHHHH
Q ss_conf             1000277757999988
Q gi|254780170|r  227 APAIIQGDTEWYNIVS  242 (342)
Q Consensus       227 g~avr~gD~~w~d~V~  242 (342)
                      |+.+|++|.....+.+
T Consensus       202 ~ve~R~dD~~~~~il~  217 (312)
T TIGR00212       202 AVECRKDDTEIKEILK  217 (312)
T ss_pred             EEEEECCCHHHHHHHH
T ss_conf             9998458779999862


No 58 
>PRK10677 modA molybdate transporter periplasmic protein; Provisional
Probab=95.97  E-value=0.15  Score=30.16  Aligned_cols=176  Identities=9%  Similarity=-0.010  Sum_probs=98.8

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEE
Q ss_conf             91389999999999998401244216899985794999871789883068898988015099999999996798220259
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQY   80 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~   80 (342)
                      |-|+++...++..+....+.++.++       .++|+|-.-.+.-+            --=|+++..-+.-+   .+|++
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~a~-------~~~l~V~aAAsL~~------------~~~ei~~~Fek~~g---~~v~~   58 (257)
T PRK10677          1 MARKWLNLFAGAALSFAVAGNALAD-------EGKITVFAAASLTN------------AMQDIATQYKKEKG---VDVVS   58 (257)
T ss_pred             CCHHHHHHHHHHHHHHCCCCCCCCC-------CCEEEEEEECCCHH------------HHHHHHHHHHHHHC---CEEEE
T ss_conf             9128999999999987235533256-------88599999257689------------99999999988419---84999


Q ss_pred             EECCCCCCHHHHHCC-CEEEEEECCCCCCCCHHCC-CCCCC-CCCCCCCE-EEEEECCCC-----CCCHH---H-HCCCC
Q ss_conf             981431002677439-6279981243253201102-78435-32234402-346302113-----47536---4-17862
Q gi|254780170|r   81 LPLNAKERFLALQSK-QIDILSRNTDWTLLREISL-GLAFR-PITYFDGQ-GFIMHKKKG-----ISSVS---Q-LSGAS  147 (342)
Q Consensus        81 v~~~~~~rf~aL~sG-~vDil~~~~T~T~~Rd~~~-~v~Fs-~~~~~dgq-~~lVrk~~~-----i~s~~---d-L~G~~  147 (342)
                      .--.+......++.| .+|+.++.-+-.+++-... .+.-. ..+|..++ .+++++++.     +....   + |.+.+
T Consensus        59 ~fgsSg~L~~QI~~GAp~DvF~sAd~~~~~~l~~~~~i~~~~~~~~a~n~lvli~pk~~~~~~~~i~~~~d~~~ll~~~r  138 (257)
T PRK10677         59 SFASSSTLARQIEAGAPADLFISADQKWMDYAVDKKAIDTATRQTLLGNSLVVVAPKASEQKDFTIDKKTDWTSLLNGGR  138 (257)
T ss_pred             EECCHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCCCCCCCCEEEEECCEEEEEEECCCCCCCCCCCCCCCHHHHCCCCC
T ss_conf             96648999999982899658997875778999867785677645621474999984687778644343323777425880


Q ss_pred             EEEEECC--CHHHHHHHHHHHCCC----CCCEEEECCHHHHHHHHHCCCEEEEEECC
Q ss_conf             0343134--269999999986299----85078747989999998739602998250
Q gi|254780170|r  148 ICVQAGT--TTELTLADYFKAHNM----KYHPIVFERVEEIDAAYRAHRCDAYTGDI  198 (342)
Q Consensus       148 I~v~~GT--T~e~~l~~~~~~~~~----~~~~v~~~~~~~a~~al~~Gr~DA~~~D~  198 (342)
                      |++-.-.  -.-.+-.+.++..|+    +-+++.-++..++++.+.+|++|+-+.=.
T Consensus       139 iaia~P~~aP~G~ya~~~L~~~gl~~~l~~klv~~~nV~~~l~~v~~G~adaG~Vy~  195 (257)
T PRK10677        139 LAVGDPDHVPAGIYAKEALQKLGAWDTLSPKLAPAEDVRGALALVERNEAPLGIVYG  195 (257)
T ss_pred             EEEECCCCCCCHHHHHHHHHHCCCHHHHCCCEEECCCHHHHHHHHHCCCCCEEEEEC
T ss_conf             898588888657999999997676655065413257699999999829987899970


No 59 
>COG4663 FcbT1 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=95.87  E-value=0.066  Score=32.37  Aligned_cols=145  Identities=14%  Similarity=0.157  Sum_probs=80.6

Q ss_pred             CCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEEC------CCCCCHHHHHCCCEEEEEECCCC
Q ss_conf             794999871789883068898988015099999999996798220259981------43100267743962799812432
Q gi|254780170|r   33 RGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPL------NAKERFLALQSKQIDILSRNTDW  106 (342)
Q Consensus        33 rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~------~~~~rf~aL~sG~vDil~~~~T~  106 (342)
                      .-++|.-....+|+     +-..+-|+-.|+|+++++...|+   +++.+.      ..-+.++++++|.+|+.-..+-+
T Consensus        34 ~p~~~wrltsswpk-----sldt~~g~a~~~Ak~v~~mT~G~---fqIqvfaAgeivpglq~~DaV~aGtve~gHt~sYY  105 (363)
T COG4663          34 NPKVRWRLTSSWPK-----SLDTIYGGAEDMAKAVAEMTGGN---FQIQVFAAGEIVPGLQALDAVKAGTVEMGHTCSYY  105 (363)
T ss_pred             CCCEEEEEECCCCC-----CCCHHCCHHHHHHHHHHHHHCCC---EEEEECCCCCCCCCHHHHHHHHCCCCCCCCEEEEE
T ss_conf             88358998326888-----75312144999999999850894---48997357771666025768752863134406899


Q ss_pred             CCCCHHCCC----CCCCC------CC------------CCCCEEEEE-ECC-----------CCCCCHHHHCCCCEEEEE
Q ss_conf             532011027----84353------22------------344023463-021-----------134753641786203431
Q gi|254780170|r  107 TLLREISLG----LAFRP------IT------------YFDGQGFIM-HKK-----------KGISSVSQLSGASICVQA  152 (342)
Q Consensus       107 T~~Rd~~~~----v~Fs~------~~------------~~dgq~~lV-rk~-----------~~i~s~~dL~G~~I~v~~  152 (342)
                      -...+....    +-|.-      ..            ||..++++. +-.           ..|++++||.|.|.-+ .
T Consensus       106 ~~GK~P~~a~~ts~PFglnA~~qnAW~y~GGG~~l~~k~ya~~n~~~~p~GntgaQMgGWFrKeI~sv~DLkGLKMRI-~  184 (363)
T COG4663         106 YKGKDPTLALGTSVPFGLNARQQNAWFYHGGGNELLNKFYADHNLISFPGGNTGAQMGGWFRKEINSVEDLKGLKMRI-P  184 (363)
T ss_pred             EECCCCCHHHHCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHCCEEECCCCCCCCCCCCHHHHHCCCHHHHCCCEEEC-C
T ss_conf             855885022311567424638887899808858999998721681323689876653500230014265533652342-6


Q ss_pred             CCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCCCEEEE
Q ss_conf             342699999999862998507874798999999873960299
Q gi|254780170|r  153 GTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDAY  194 (342)
Q Consensus       153 GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA~  194 (342)
                      |-..     +.+..-|..  |... --.|.+.+|+.|-+||.
T Consensus       185 G~aG-----~V~~kLGv~--pq~i-agGeiy~ALerGtIDAa  218 (363)
T COG4663         185 GFAG-----QVMAKLGVV--PQQI-AGGEIYPALERGTIDAA  218 (363)
T ss_pred             CCHH-----HHHHHHCCC--CCCC-CCCCEEHHHHCCCCCHH
T ss_conf             5088-----899982887--5436-88642045433661178


No 60 
>pfam09084 NMT1 NMT1/THI5 like. This family contains the NMT1 and THI5 proteins. These proteins are proposed to be required for the biosynthesis of the pyrimidine moiety of thiamine. They are regulated by thiamine.
Probab=95.74  E-value=0.025  Score=35.05  Aligned_cols=76  Identities=12%  Similarity=0.097  Sum_probs=49.5

Q ss_pred             HHHHHCCCCCCEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCCCCEEEECCCCCH--HHHH
Q ss_conf             99986299850787479899999987396029982504799999836780010025644423710100027775--7999
Q gi|254780170|r  162 DYFKAHNMKYHPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDIISKSPLAPAIIQGDT--EWYN  239 (342)
Q Consensus       162 ~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~iskEPlg~avr~gD~--~w~d  239 (342)
                      -||++.|++++++.|.+..+..+++.+|++|.-.+..+..+..+.  .+ .+.+++.......+.+.+++++.+  .+.|
T Consensus        14 G~f~~~GL~Ve~~~~~~~~~~~~al~sG~~D~a~~~~~~~~~~~~--~g-~~~~~i~~~~~~~~~~~~v~~~~~i~s~~D   90 (216)
T pfam09084        14 GYFKEEGLDVEIVEPADPSDAVQLVAAGKADFGVSYQPSLLLARA--KG-LPVVSVAALIQHPPNGLISLKDSGIKSPKD   90 (216)
T ss_pred             CCHHHCCCCEEEEECCCCHHHHHHHHCCCCCEEECCCHHHHHHHH--CC-CEEEEEEECCCCCCEEEEEECCCCCCCHHH
T ss_conf             946884980899966882789999976986778537199999997--89-849999964358972899978889899789


Q ss_pred             H
Q ss_conf             9
Q gi|254780170|r  240 I  240 (342)
Q Consensus       240 ~  240 (342)
                      +
T Consensus        91 L   91 (216)
T pfam09084        91 L   91 (216)
T ss_pred             H
T ss_conf             5


No 61 
>COG0040 HisG ATP phosphoribosyltransferase [Amino acid transport and metabolism]
Probab=95.65  E-value=0.051  Score=33.11  Aligned_cols=179  Identities=17%  Similarity=0.103  Sum_probs=106.4

Q ss_pred             EEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHC-------CCCCCCCCCCCCCEEEEEECCCCCCCHHHHCCC-CEE
Q ss_conf             259981431002677439627998124325320110-------278435322344023463021134753641786-203
Q gi|254780170|r   78 IQYLPLNAKERFLALQSKQIDILSRNTDWTLLREIS-------LGLAFRPITYFDGQGFIMHKKKGISSVSQLSGA-SIC  149 (342)
Q Consensus        78 Ve~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~-------~~v~Fs~~~~~dgq~~lVrk~~~i~s~~dL~G~-~I~  149 (342)
                      |++.-+-.++.-.-+..|.+|+-+.+.-+=.|+...       ..+.|...    --.+.++.+..+++.+||.|+ +|+
T Consensus        45 I~~~~vR~~DIP~yV~~G~~DlGItG~D~l~E~~~~~~~v~~l~dL~fG~c----rl~vAvp~~~~~~~~~~l~~~~rIA  120 (290)
T COG0040          45 IELLLVRAQDIPTYVEDGVADLGITGEDVLRESGLDDASVEELLDLGFGGC----RLVVAVPEESDYTSPEDLKGRLRIA  120 (290)
T ss_pred             EEEEEECHHHHHHHHHCCCEEEEEECHHHHHHCCCCCCCCEEHCCCCCCCE----EEEEEECCCCCCCCHHHHCCCCEEE
T ss_conf             589997768844898568500413211313331467657100101787757----9999955776756845726884688


Q ss_pred             EEECCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCCCCEEEE
Q ss_conf             43134269999999986299850787479899999987396029982504799999836780010025644423710100
Q gi|254780170|r  150 VQAGTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDIISKSPLAPA  229 (342)
Q Consensus       150 v~~GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~iskEPlg~a  229 (342)
                          |.+-...++||+..+++++++.....-|.  +-..|-+||++.=.+.=..++.     +..+++...++.. -...
T Consensus       121 ----TkYp~l~~~yf~~~g~~~~Ii~l~GsvE~--aP~~GlADaIvDivsTG~TLka-----NgL~~id~i~~ss-a~LI  188 (290)
T COG0040         121 ----TKYPNLARKYFAEKGIDVEIIKLSGSVEL--APALGLADAIVDIVSTGTTLKA-----NGLKEIEVIYDSS-ARLI  188 (290)
T ss_pred             ----ECCHHHHHHHHHHCCCEEEEEECCCCEEE--CCCCCCCCEEEEEECCCHHHHH-----CCCEEEEEEEEEE-EEEE
T ss_conf             ----73689999999975966999975572763--0156853168885067775897-----7998878898547-8999


Q ss_pred             CC------CCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCCCHHHHHHH
Q ss_conf             02------7775799998877443311212330152089886226717788762
Q gi|254780170|r  230 II------QGDTEWYNIVSWTHYAMVTAEELGITQKNINQVSKDTTNPDVQRFL  277 (342)
Q Consensus       230 vr------~gD~~w~d~V~W~~~ali~Aee~git~~nv~~~~~~s~~p~i~r~l  277 (342)
                      ++      .+++.-.++++ -+.+-++|+++-----|+.+    ..-+++..+|
T Consensus       189 ~n~~~~~~~k~~~i~~l~~-rl~gvi~a~~~~~i~~n~p~----~~ld~v~~ll  237 (290)
T COG0040         189 VNAKASLKDKQELIDQLVT-RLKGVIEARGSKYIMLNAPR----ERLDEVTALL  237 (290)
T ss_pred             ECCCCCCCHHHHHHHHHHH-HHHHHHHHCCEEEEEEECCH----HHHHHHHHHC
T ss_conf             6164232105799999999-99999853446689954887----7877789746


No 62 
>PRK01686 hisG ATP phosphoribosyltransferase catalytic subunit; Reviewed
Probab=95.30  E-value=0.059  Score=32.69  Aligned_cols=131  Identities=15%  Similarity=0.093  Sum_probs=83.5

Q ss_pred             EEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHCC----CCCCCCCCCCCCEEEEEECCCCCCCHHHHCCCCEEEEE
Q ss_conf             02599814310026774396279981243253201102----78435322344023463021134753641786203431
Q gi|254780170|r   77 KIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREISL----GLAFRPITYFDGQGFIMHKKKGISSVSQLSGASICVQA  152 (342)
Q Consensus        77 kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~----~v~Fs~~~~~dgq~~lVrk~~~i~s~~dL~G~~I~v~~  152 (342)
                      .+++.-+-.++.-..+..|-+|+-+.+.-|-.|.+...    .+.|...    ...+.++++  ......+.+++|+   
T Consensus        46 ~i~~~~~r~~DIp~~V~~G~~DlGI~G~D~l~E~~~~v~~l~dL~fG~c----~l~vA~p~~--~~~~~~~~~~rIA---  116 (212)
T PRK01686         46 DVRFLLVRATDVPTYVEHGAADLGIVGKDVLMEHGKDLYEPLDLGIGKC----RLSVAVPPG--ASAPDLGARLRVA---  116 (212)
T ss_pred             CEEEEEECHHHHHHHHHCCCCCEEEEEHHHHHCCCCCCEEEECCCCCEE----EEEEEECCC--CCCCCCCCCCEEE---
T ss_conf             9799998768889999779976886158877525899169962686118----999995277--7752004898999---


Q ss_pred             CCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCCC
Q ss_conf             342699999999862998507874798999999873960299825047999998367800100256444237
Q gi|254780170|r  153 GTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDIISKS  224 (342)
Q Consensus       153 GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~iskE  224 (342)
                       |.+....++||.++|++++++......|  .|-..|-+|+++.=.+.=..++.     +..+++.+.+..+
T Consensus       117 -TkYp~it~~yf~~~gi~~~iv~l~GavE--~aP~~G~AD~IvDiv~TG~TLk~-----NgL~~i~~Il~s~  180 (212)
T PRK01686        117 -TKYPNIAREYFAEKGVQVEIIKLYGSVE--LAPLVGLADAIVDLVSTGNTLRA-----NGLVEVEEIMDIS  180 (212)
T ss_pred             -EEHHHHHHHHHHHCCCCEEEEECCCCCC--CCCCCCCCCEEEEEECCHHHHHH-----CCCEEEEEEEEEE
T ss_conf             -8628889999997399614895415223--56778842389998477688998-----7999805888878


No 63 
>pfam03180 Lipoprotein_9 NLPA lipoprotein. This family of bacterial lipoproteins contains several antigenic members, that may be involved in bacterial virulence. Their precise function is unknown. However they are probably distantly related to pfam00497 which are solute binding proteins.
Probab=95.22  E-value=0.28  Score=28.45  Aligned_cols=158  Identities=19%  Similarity=0.179  Sum_probs=84.0

Q ss_pred             HHHHHHHHCCCCCEEEEEEC-CCCCCHHHHHCCCEEEEEECCCCCC-CCHHCCCCCCC--CCCCCCCEEEEEECCCCCCC
Q ss_conf             99999996798220259981-4310026774396279981243253-20110278435--32234402346302113475
Q gi|254780170|r   64 CRALSSAIFDDPSKIQYLPL-NAKERFLALQSKQIDILSRNTDWTL-LREISLGLAFR--PITYFDGQGFIMHKKKGISS  139 (342)
Q Consensus        64 ~raiAaal~gd~~kVe~v~~-~~~~rf~aL~sG~vDil~~~~T~T~-~Rd~~~~v~Fs--~~~~~dgq~~lVrk~~~i~s  139 (342)
                      .+.+++.-+   .+||++.. ++.+-=.||.+|+||+-+.-...=+ ......+.+++  .+.|....|+.-   ..+++
T Consensus        17 v~~~~~~~G---i~veiv~F~Dy~~pN~AL~~GeIDaN~fQH~~yl~~~n~~~g~~L~~v~~~~~~p~glYS---~k~ks   90 (236)
T pfam03180        17 AKPLAKKKG---LDLEIVEFTDYVQPNTALADGEIDANAFQHLPYLDQFNKEGGLDLVAVGNTHVEPIGLYS---KKYKS   90 (236)
T ss_pred             HHHHHHHCC---CEEEEEEECCCCCHHHHHHCCCCCHHHHCCHHHHHHHHHHCCCCEEEEEEEEECCEEEEE---CCCCC
T ss_conf             999999649---879999816864550797789955244438999999999779967996304672379543---37688


Q ss_pred             HHHH-CCCCEEEEECCCHHHHHHHHHHHCCC---------------------CCCEEEECCHHHHHHHHHCCCEEEEEEC
Q ss_conf             3641-78620343134269999999986299---------------------8507874798999999873960299825
Q gi|254780170|r  140 VSQL-SGASICVQAGTTTELTLADYFKAHNM---------------------KYHPIVFERVEEIDAAYRAHRCDAYTGD  197 (342)
Q Consensus       140 ~~dL-~G~~I~v~~GTT~e~~l~~~~~~~~~---------------------~~~~v~~~~~~~a~~al~~Gr~DA~~~D  197 (342)
                      ++|| +|.+|++....|++.-.-..+.+.|+                     +++++..+ ..+.-.+|..  +|+.+..
T Consensus        91 l~~lp~Ga~IaIpnD~sN~~RAL~lL~~aGLI~Lk~~~~~~~t~~DI~~Npk~l~~~ev~-a~ql~~~l~d--vD~avin  167 (236)
T pfam03180        91 LSELPDGATIAVPNDPSNEGRALLLLEKAGLIKLKDGAGLLATVKDITENPKNLKIKELE-AAQLPRALDD--VDAAVIN  167 (236)
T ss_pred             HHHCCCCCEEEECCCCCHHHHHHHHHHHCCCEEECCCCCCCCCHHHHHHCCCCCEEEEEC-HHHHHHHCCC--CCEEEEC
T ss_conf             758579998981588442999999999889889768999878988897286776699916-7775542166--5789986


Q ss_pred             CHHHHHHHHHCCCCHHHCCCCCCCCCCCE--EEECCCCC
Q ss_conf             04799999836780010025644423710--10002777
Q gi|254780170|r  198 ISALYALKLTNDRPSEHVILPDIISKSPL--APAIIQGD  234 (342)
Q Consensus       198 ~s~La~~~~~~~~p~~~~il~e~iskEPl--g~avr~gD  234 (342)
                      ..  .+..+.+ +|.+..+..|. ..+||  -+++|++|
T Consensus       168 ~n--~a~~agl-~p~~~~l~~e~-~~~~y~n~ivvr~~~  202 (236)
T pfam03180       168 TN--YALQAGL-DPKKDALFEED-KDSPYVNIIVVREDD  202 (236)
T ss_pred             HH--HHHHCCC-CHHHHHHHCCC-CCCCEEEEEEEECCC
T ss_conf             56--7988794-92121331478-899837999981777


No 64 
>PRK09791 putative DNA-binding transcriptional regulator; Provisional
Probab=95.10  E-value=0.3  Score=28.23  Aligned_cols=182  Identities=10%  Similarity=0.039  Sum_probs=110.1

Q ss_pred             HCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCH
Q ss_conf             57949998717898830688989880150999999999967982202599814310026774396279981243253201
Q gi|254780170|r   32 KRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLRE  111 (342)
Q Consensus        32 ~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd  111 (342)
                      .+|.+++|+......           .+=.++...+.+.-  ...++++...++.+.+..|.+|++|+.+.... ....+
T Consensus        93 ~~G~l~Ig~~~~~~~-----------~~lp~~l~~f~~~~--P~v~i~i~~~~~~~~~~~l~~g~~D~~i~~~~-~~~~~  158 (302)
T PRK09791         93 LAGQINIGMGASISR-----------SLMPAVISRFHQQH--PQVKVRIMEGQLVSMINELRQGELDFTINTYY-QGPYD  158 (302)
T ss_pred             CCCEEEEEECHHHHH-----------HHHHHHHHHHHHHC--CCCEEEEEECCHHHHHHHHHCCCCCEEEECCC-CCCCC
T ss_conf             663399986268898-----------71199999999988--79779999899999999998799778996567-88788


Q ss_pred             HCCCCCCCCCCCCCCEEEEEECCC---CCCCHHHHCCCCE-EEEECCCHHHHHHHHHHHCCCCCCE-EEECCHHHHHHHH
Q ss_conf             102784353223440234630211---3475364178620-3431342699999999862998507-8747989999998
Q gi|254780170|r  112 ISLGLAFRPITYFDGQGFIMHKKK---GISSVSQLSGASI-CVQAGTTTELTLADYFKAHNMKYHP-IVFERVEEIDAAY  186 (342)
Q Consensus       112 ~~~~v~Fs~~~~~dgq~~lVrk~~---~i~s~~dL~G~~I-~v~~GTT~e~~l~~~~~~~~~~~~~-v~~~~~~~a~~al  186 (342)
                      .  .+.+. +.+.+...++++++.   +..++++|.+... ....+++....+.+++...+..-++ +..++.......+
T Consensus       159 ~--~l~~~-~l~~~~~~~v~~~~hpl~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~g~~p~~~~~~~~~~~~~~lv  235 (302)
T PRK09791        159 H--EFTFE-KLLEKQFAIFCRPGHPAIGARSIKQLLDYSWTMPTPHGSYYKQLSELLDDQAQTPQVGVVCETFSACISLV  235 (302)
T ss_pred             C--CEEEE-EEEEEEEEEEECCCCCCCCCCCHHHHHCCCEEEECCCCCHHHHHHHHHHHCCCCCCEEEEECCHHHHHHHH
T ss_conf             7--64799-97740159998389843579899998479938757999799999999996799985699999299999999


Q ss_pred             HCCCEEEEEECCHHHHHHHHHCCCCHHHCCC--CCCCCCCCEEEECCCCCH
Q ss_conf             7396029982504799999836780010025--644423710100027775
Q gi|254780170|r  187 RAHRCDAYTGDISALYALKLTNDRPSEHVIL--PDIISKSPLAPAIIQGDT  235 (342)
Q Consensus       187 ~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il--~e~iskEPlg~avr~gD~  235 (342)
                      ..|.+=++..+..  +....   ..+..+.+  ++....-+++.+.|++..
T Consensus       236 ~~g~gv~ilp~~~--~~~~~---~~~~lv~lpl~~~~~~~~~~lv~r~~~~  281 (302)
T PRK09791        236 AKSDFLSILPEEM--GCDPL---HGQGLVMLPVSEILPKAAYYLIQRRDSR  281 (302)
T ss_pred             HHCCEEEEECHHH--HHHHH---HCCCEEEEECCCCCCCEEEEEEEECCCC
T ss_conf             9789679631999--98787---4899999979998860089999989098


No 65 
>TIGR02424 TF_pcaQ pca operon transcription factor PcaQ; InterPro: IPR012787    Members of this family are LysR-family transcription factors associated with operons for catabolism of protocatechuate . Members occur only in proteobacteria.; GO: 0003677 DNA binding, 0016563 transcription activator activity, 0019619 protocatechuate catabolic process, 0045941 positive regulation of transcription.
Probab=94.53  E-value=0.42  Score=27.30  Aligned_cols=164  Identities=13%  Similarity=0.118  Sum_probs=108.3

Q ss_pred             CEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCCCCCCEEEEEECCCCC-----CCHHHHCCCCEEE
Q ss_conf             20259981431002677439627998124325320110278435322344023463021134-----7536417862034
Q gi|254780170|r   76 SKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMHKKKGI-----SSVSQLSGASICV  150 (342)
Q Consensus        76 ~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVrk~~~i-----~s~~dL~G~~I~v  150 (342)
                      ..++.+...-...++.|+.|++|++++=++- +++  -.+++|. +.|...-.++||++-..     -+.+.|+.=-|-.
T Consensus       122 ~~~~i~tG~n~~Lld~LR~G~LDlVvGRL~a-pe~--MqGl~Fe-~LY~E~v~~VVragHPL~~~p~~~~~~L~~yPvl~  197 (300)
T TIGR02424       122 LRLRIVTGENAYLLDQLRVGELDLVVGRLGA-PET--MQGLSFE-HLYNERVVFVVRAGHPLLAAPSLSVASLADYPVLL  197 (300)
T ss_pred             CEEEEEECCCHHHHHHHCCCCCEEEEECCCC-CHH--HCCCCCC-CCCCCCEEEEECCCCCCCCCCCCCHHHHHCCCCCC
T ss_conf             5589987785787987228980277606888-321--1586425-14477337887085785578877778873388104


Q ss_pred             E-ECCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCCCEEEE--EECCHHHHHHHHHCCCCHHHCCCC--CCCCCCC
Q ss_conf             3-1342699999999862998507874798999999873960299--825047999998367800100256--4442371
Q gi|254780170|r  151 Q-AGTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDAY--TGDISALYALKLTNDRPSEHVILP--DIISKSP  225 (342)
Q Consensus       151 ~-~GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA~--~~D~s~La~~~~~~~~p~~~~il~--e~iskEP  225 (342)
                      - .||+-=..+..+|-++|++.=+...|+...++-==.--.-||+  ++-. ..   ...+. .+..+.||  ...+.+|
T Consensus       198 P~~g~~IR~~~erll~a~G~~~l~~r~EtvS~~fgR~y~~~sdA~WiiS~g-vv---~~dl~-~G~L~~Lp~~~~~t~GP  272 (300)
T TIGR02424       198 PPEGSIIRPLVERLLIACGIPALPQRIETVSDSFGRRYVRESDAVWIISEG-VV---AKDLA-DGTLVELPVDTRETAGP  272 (300)
T ss_pred             CCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHCCCEEECCHH-HH---HHHHC-CCCEEECCCCCCCCCCC
T ss_conf             862226799999999874765566013443157887776454725772667-89---88752-89277646575778877


Q ss_pred             EEEECCCCCHHHHHHHHHHHHHHH
Q ss_conf             010002777579999887744331
Q gi|254780170|r  226 LAPAIIQGDTEWYNIVSWTHYAMV  249 (342)
Q Consensus       226 lg~avr~gD~~w~d~V~W~~~ali  249 (342)
                      -|..+|.+. +....-+|-..++-
T Consensus       273 VGL~~R~d~-~~s~aaq~f~~alr  295 (300)
T TIGR02424       273 VGLCTRPDE-QLSRAAQLFVDALR  295 (300)
T ss_pred             CCCCCCCCC-CCCHHHHHHHHHHH
T ss_conf             021548887-78989999999999


No 66 
>TIGR02122 TRAP_TAXI TRAP transporter solute receptor, TAXI family; InterPro: IPR011852    This family is one of at least three major families of extracytoplasmic solute receptor (ESR) for TRAP (Tripartite ATP-independent Periplasmic Transporter) transporters. The others are the DctP (IPR004682 from INTERPRO) and SmoM (IPR004682 from INTERPRO) families. These transporters are secondary (driven by an ion gradient) but composed of three polypeptides, although in some species the 4-TM and 12-TM integral membrane proteins are fused. Substrates for this transporter family are not fully characterised but, besides C4 dicarboxylates, may include mannitol and other compounds ..
Probab=94.34  E-value=0.14  Score=30.37  Aligned_cols=184  Identities=18%  Similarity=0.175  Sum_probs=97.0

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEE
Q ss_conf             91389999999999998401244216899985794999871789883068898988015099999999996798220259
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQY   80 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~   80 (342)
                      |++......+.+.......+..         ....+++++...         .|.+--....+|+.+...... ..++..
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~---------~g~~~~~~~~~~~~~~~~~~~-~~~~~~   61 (319)
T TIGR02122         1 MKKRLALLGAALLIVGAAAAAA---------EPTFVTIGTGGT---------GGVYYPIGGAIAQLINKALGK-VLRVSA   61 (319)
T ss_pred             CCHHHHHHHHHHHHHHHHHHCC---------CCCEEEEECCCC---------CCCCCCCHHHHHHHHHHCCCC-CCEEEE
T ss_conf             9203566776766554443101---------332045521565---------554332013455554210132-202232


Q ss_pred             EE-CCCCCCHHHHHCCCEEEEEECCCCCCCC----------HHCCCCCCCCCCCCCCEEEEEECCCCCCCHHHHCCCCEE
Q ss_conf             98-1431002677439627998124325320----------110278435322344023463021134753641786203
Q gi|254780170|r   81 LP-LNAKERFLALQSKQIDILSRNTDWTLLR----------EISLGLAFRPITYFDGQGFIMHKKKGISSVSQLSGASIC  149 (342)
Q Consensus        81 v~-~~~~~rf~aL~sG~vDil~~~~T~T~~R----------d~~~~v~Fs~~~~~dgq~~lVrk~~~i~s~~dL~G~~I~  149 (342)
                      .. ..+......+.+|+.+..+....+...-          .....+......|.....+.+++++++++..||.|+++.
T Consensus        62 ~~~~~s~~n~~~~~~~~~~~~~~~~~~~~~a~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dl~gk~~~  141 (319)
T TIGR02122        62 QSTGGSVENVNLLEAGEAELAIVQSDVAYYAYEGIGEFEFKGPVEKLRALASLYPEYIQIVVRKDSGIKTVADLKGKRVA  141 (319)
T ss_pred             ECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHCCCCCCCCEEEEECCCCCCCHHHHCCCEEC
T ss_conf             11454112333333213455554433344432101110012333200000012454210232011343101220353000


Q ss_pred             EEE-CCCHHHHHHHHHHHCCCCC---CEEEECCHHHHHHHHHCCCEEEEEECCHHHHH
Q ss_conf             431-3426999999998629985---07874798999999873960299825047999
Q gi|254780170|r  150 VQA-GTTTELTLADYFKAHNMKY---HPIVFERVEEIDAAYRAHRCDAYTGDISALYA  203 (342)
Q Consensus       150 v~~-GTT~e~~l~~~~~~~~~~~---~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~  203 (342)
                      +.. ++-++.+....+...++..   ....+....+...++..+..|+...-.....+
T Consensus       142 ~~~~~sg~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~g~~~~  199 (319)
T TIGR02122       142 VGAPGSGTELNARAVLKAAGLTYDDIKEAEYLGYAEAADALKDGKIDAAFITAGLPTA  199 (319)
T ss_pred             CCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHCCCCCCHHHHHCCCCCEEEECCCCCCC
T ss_conf             2466643013477887650465112001110231000134320231000101344431


No 67 
>pfam01634 HisG ATP phosphoribosyltransferase.
Probab=94.26  E-value=0.44  Score=27.19  Aligned_cols=123  Identities=17%  Similarity=0.143  Sum_probs=78.5

Q ss_pred             CCHHHHHCCCEEEEEECCCCCCCCHHC-----CCCCCCCCCCCCCEEEEEECCCCCCCHHHH-CCCCEEEEECCCHHHHH
Q ss_conf             002677439627998124325320110-----278435322344023463021134753641-78620343134269999
Q gi|254780170|r   87 ERFLALQSKQIDILSRNTDWTLLREIS-----LGLAFRPITYFDGQGFIMHKKKGISSVSQL-SGASICVQAGTTTELTL  160 (342)
Q Consensus        87 ~rf~aL~sG~vDil~~~~T~T~~Rd~~-----~~v~Fs~~~~~dgq~~lVrk~~~i~s~~dL-~G~~I~v~~GTT~e~~l  160 (342)
                      +.-..+..|.+|+-+.+.-|-.|....     +.+.|...    ...+.++++..+.+.+|| .|++|+    |.+....
T Consensus         5 DIp~yV~~G~~DlGI~G~D~l~E~~~~~v~~l~dL~fG~c----rl~vA~p~~~~~~~~~dl~~~~rIA----TkYp~it   76 (161)
T pfam01634         5 DIPVFVEDGVVDLGITGEDLVREEELADVEELLDLDFGSC----KLVVAVPESGPYRSPEDLAGGKRIA----TKYPNLA   76 (161)
T ss_pred             HHHHHHHCCCCCEEEEEHHHHHCCCCCCEEEEECCCCCCE----EEEEEEECCCCCCCHHHHCCCCEEE----EECHHHH
T ss_conf             8999982899768986722221479787688742687768----9999962777758977954797999----9653999


Q ss_pred             HHHHHHCCCCCCEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCCC
Q ss_conf             9999862998507874798999999873960299825047999998367800100256444237
Q gi|254780170|r  161 ADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDIISKS  224 (342)
Q Consensus       161 ~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~iskE  224 (342)
                      ++||++++++++++.....-|..  -..|-+|+++.=.+.=..++.     +..+++.+.+..+
T Consensus        77 ~~~~~~~gi~~~ii~l~GavE~a--P~~g~AD~IvDiv~TG~TLk~-----NgL~~i~~I~~ss  133 (161)
T pfam01634        77 RKYFRKNGIDAEIIKLDGSVEAA--PALGIADAIVDLVSTGETLRA-----NGLKEIETIMDSS  133 (161)
T ss_pred             HHHHHHCCCEEEEEECCCCCCCC--CCCCCCCEEEEEECCHHHHHH-----CCCEEEEEEEEEE
T ss_conf             99999819826899755733446--666766689999788899998-----8999917999989


No 68 
>pfam01379 Porphobil_deam Porphobilinogen deaminase, dipyromethane cofactor binding domain.
Probab=94.17  E-value=0.44  Score=27.15  Aligned_cols=145  Identities=17%  Similarity=0.130  Sum_probs=77.6

Q ss_pred             CCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCC-CCCCEEEEEECCCCCCCHHHH-CCCCEEEEECCCHHHHHHHHH
Q ss_conf             002677439627998124325320110278435322-344023463021134753641-786203431342699999999
Q gi|254780170|r   87 ERFLALQSKQIDILSRNTDWTLLREISLGLAFRPIT-YFDGQGFIMHKKKGISSVSQL-SGASICVQAGTTTELTLADYF  164 (342)
Q Consensus        87 ~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~-~~dgq~~lVrk~~~i~s~~dL-~G~~I~v~~GTT~e~~l~~~~  164 (342)
                      +.-.+|.+|++|+.+.++--=+... ..++..+.+. --|..-+++-+  ..+++++| .|.+|+    |++-.- +..+
T Consensus        61 ele~aLl~~~iDiAVHS~KDlP~~~-~~~l~i~avl~R~d~rD~Li~~--~~~~l~~lp~ga~IG----TSS~RR-~aql  132 (213)
T pfam01379        61 ELEEALLNGEIDLAVHSLKDVPTEL-PEGLVLGAIPKREDPRDALVSR--NGKSLEDLPEGSVVG----TSSLRR-SAQL  132 (213)
T ss_pred             HHHHHHHCCCCCEEEEECCCCCCCC-CCCCEEEEEECCCCHHHHHHCC--CCCCHHHCCCCCEEE----CCCHHH-HHHH
T ss_conf             9999997098787876046577647-9874687664478866644302--676665677676553----253779-9999


Q ss_pred             HHCCCCCCEEEECCH-HHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCC----CCCCEEEECCCCCHHHHH
Q ss_conf             862998507874798-999999873960299825047999998367800100256444----237101000277757999
Q gi|254780170|r  165 KAHNMKYHPIVFERV-EEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDII----SKSPLAPAIIQGDTEWYN  239 (342)
Q Consensus       165 ~~~~~~~~~v~~~~~-~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~i----skEPlg~avr~gD~~w~d  239 (342)
                      +...++.+++....+ +.-++.|.+|++||++--...|  .|..+.+.-.+.+-++.+    ..--+|+-+|++|.+-.+
T Consensus       133 ~~~~pdl~~~~iRGNV~TRl~KL~~g~~DaiiLA~Agl--~RL~l~~~i~~~l~~~~~~PA~gQGaIaie~r~~d~~i~~  210 (213)
T pfam01379       133 KRKRPDLKFEPLRGNVDTRLRKLDEGEYDAIILAAAGL--KRLGLEDRITQSLPPEDMLPAVGQGALAIECRKGDEEILA  210 (213)
T ss_pred             HHHCCCCCEEECCCCHHHHHHHHHCCCCCEEEEHHHHH--HHCCCCCCCCEECCHHHCCCHHHHHHEEEEEECCCHHHHH
T ss_conf             98689984677668889999997578987986367678--6668731140671877648837430369988169899999


Q ss_pred             HH
Q ss_conf             98
Q gi|254780170|r  240 IV  241 (342)
Q Consensus       240 ~V  241 (342)
                      ++
T Consensus       211 ll  212 (213)
T pfam01379       211 LL  212 (213)
T ss_pred             HH
T ss_conf             74


No 69 
>CHL00180 rbcR LysR transcriptional regulator; Provisional
Probab=93.97  E-value=0.55  Score=26.57  Aligned_cols=188  Identities=13%  Similarity=0.079  Sum_probs=114.2

Q ss_pred             HHHHH--HCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECC
Q ss_conf             89998--5794999871789883068898988015099999999996798220259981431002677439627998124
Q gi|254780170|r   27 LGDIK--KRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNT  104 (342)
Q Consensus        27 Ld~Vk--~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~  104 (342)
                      +++++  .+|.|++|+.....-+           +-.++.+.+... . ...++++....+.+.+..|.+|++|+.+..-
T Consensus        86 ~~~~~~~~~g~lrI~~~~s~~~~-----------~lp~~l~~f~~~-~-P~v~i~l~~~~~~~~~~~l~~~~~D~~i~~~  152 (307)
T CHL00180         86 LEDLKNLQGGTLIIGASQTTGTY-----------LMPRLIGLFRQK-Y-PQIAVQLQVHSTRRIAWSVANGQIDLAIIGG  152 (307)
T ss_pred             HHHHHHCCCCCCCCCCCCHHHHH-----------HHHHHHHHHHHH-C-CCCCEEEEECCHHHHHHHHHCCCEEEEEECC
T ss_conf             99875112586010104066666-----------435889999998-8-8997278977999999999879800999757


Q ss_pred             CCCCCCHHCCCCCCCCCCCCCCEEEEEECCCC-----CCCHHHHCCCC-EEEEECCCHHHHHHHHHHHCCCCC---CE-E
Q ss_conf             32532011027843532234402346302113-----47536417862-034313426999999998629985---07-8
Q gi|254780170|r  105 DWTLLREISLGLAFRPITYFDGQGFIMHKKKG-----ISSVSQLSGAS-ICVQAGTTTELTLADYFKAHNMKY---HP-I  174 (342)
Q Consensus       105 T~T~~Rd~~~~v~Fs~~~~~dgq~~lVrk~~~-----i~s~~dL~G~~-I~v~~GTT~e~~l~~~~~~~~~~~---~~-v  174 (342)
                      ....+.  ...+.+. +++.+...++++++..     .-+++||.+.. |+...++.....+..++..+++..   ++ .
T Consensus       153 ~~~~~~--~~~l~~~-~l~~~~~~lv~~~~hpla~~~~v~~~dL~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  229 (307)
T CHL00180        153 EVPTEL--KDNLQVT-PYAEDELALILPKSHPFAKLKKIQKEDLYRLRFIALDSQSTIRKVIDNILIQNGIDSSRFKIEM  229 (307)
T ss_pred             CCCCCC--CCCEEEE-EEECCCEEEEECCCCHHHCCCCCCHHHHHCCCEEEECCCCCHHHHHHHHHHHCCCCCCCCEEEE
T ss_conf             788666--7854999-9432427999738980223999999998179848717999689999999997699845542799


Q ss_pred             EECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCC--CCCCCCCEEEECCCCCH
Q ss_conf             74798999999873960299825047999998367800100256--44423710100027775
Q gi|254780170|r  175 VFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILP--DIISKSPLAPAIIQGDT  235 (342)
Q Consensus       175 ~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~--e~iskEPlg~avr~gD~  235 (342)
                      .+.+.+....++.+|-.=++.....   .. ..... +..+++|  +.-..-+++++.+++..
T Consensus       230 ~~~~~~~l~~~v~~g~Gia~lP~~~---v~-~~~~~-g~l~~~~~~~~~~~r~i~lv~~~~r~  287 (307)
T CHL00180        230 ELNSIEAIKNAVQSGLGAAFVSVSA---IE-KELEL-GTLHWAKIENITIKRTLSIITNPNRY  287 (307)
T ss_pred             EECCHHHHHHHHHHCCEEEECCHHH---HH-HHHHC-CCEEEEECCCCCCEEEEEEEEECCCC
T ss_conf             9780999999999399499825999---99-89877-98899978999850499999979597


No 70 
>PRK00072 hemC porphobilinogen deaminase; Reviewed
Probab=93.92  E-value=0.56  Score=26.50  Aligned_cols=146  Identities=18%  Similarity=0.115  Sum_probs=77.7

Q ss_pred             CCCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCCC-CCCEEEEEECCCCCCCHHHH-CCCCEEEEECCCHHHHHHHH
Q ss_conf             10026774396279981243253201102784353223-44023463021134753641-78620343134269999999
Q gi|254780170|r   86 KERFLALQSKQIDILSRNTDWTLLREISLGLAFRPITY-FDGQGFIMHKKKGISSVSQL-SGASICVQAGTTTELTLADY  163 (342)
Q Consensus        86 ~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~-~dgq~~lVrk~~~i~s~~dL-~G~~I~v~~GTT~e~~l~~~  163 (342)
                      ++.-.+|.+|++|+.+.++---+... ..++..+.+.- -|..-++|-+  ..+++++| .|.+|+    |++-.- +..
T Consensus        63 kele~aLl~g~iDiAVHSlKDlPt~~-~~~l~i~avl~R~d~rDvLv~~--~~~~l~~Lp~ga~IG----TSS~RR-~aq  134 (300)
T PRK00072         63 KELEEALLDGEIDIAVHSLKDVPTEL-PEGLVLAAIPEREDPRDAFVSN--DYASLDDLPEGAVVG----TSSLRR-QAQ  134 (300)
T ss_pred             HHHHHHHHHCCCCEEEEECCCCCCCC-CCCCEEEEEECCCCHHHHHHCC--CCCCCCCCCCCCEEE----CCCHHH-HHH
T ss_conf             99999998287552554134578758-9885587655478867853014--667513389998885----046508-999


Q ss_pred             HHHCCCCCCEEEECCH-HHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCC-C----CCCCCCEEEECCCCCHHH
Q ss_conf             9862998507874798-999999873960299825047999998367800100256-4----442371010002777579
Q gi|254780170|r  164 FKAHNMKYHPIVFERV-EEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILP-D----IISKSPLAPAIIQGDTEW  237 (342)
Q Consensus       164 ~~~~~~~~~~v~~~~~-~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~-e----~iskEPlg~avr~gD~~w  237 (342)
                      ++...++.+++.+..+ +.-+..|.+|++||++--...|  .|..+.+.- ..+++ +    .-..--+|+-.|++|++.
T Consensus       135 l~~~~pdl~~~~iRGNv~TRl~Kl~~g~~DaiiLA~Agl--~RL~l~~~i-~~~l~~~~~~PA~gQGaiave~r~~d~~~  211 (300)
T PRK00072        135 LLALRPDLEIKDLRGNVDTRLRKLDEGEYDAIILAAAGL--KRLGLEDRI-TELLDPDEMLPAVGQGALGIECRADDEEI  211 (300)
T ss_pred             HHHHCCCCCEEECCCCHHHHHHHHHCCCCCEEEHHHHHH--HHCCCCCCE-EEEECHHHCCCCCCCCEEEEEEECCCHHH
T ss_conf             998679995677668889999997567864542067678--665785421-69855333578546303899994499888


Q ss_pred             HHHHH
Q ss_conf             99988
Q gi|254780170|r  238 YNIVS  242 (342)
Q Consensus       238 ~d~V~  242 (342)
                      .++++
T Consensus       212 ~~~l~  216 (300)
T PRK00072        212 LELLA  216 (300)
T ss_pred             HHHHH
T ss_conf             87766


No 71 
>PRK10682 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional
Probab=93.62  E-value=0.63  Score=26.18  Aligned_cols=232  Identities=9%  Similarity=0.004  Sum_probs=117.2

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEE
Q ss_conf             13899999999999984012442168999857949998717898830688989880150999999999967982202599
Q gi|254780170|r    2 YKDFFVSILCLIILFFTSFSTNASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYL   81 (342)
Q Consensus         2 ~K~~l~~~l~l~~~~~~~~aa~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v   81 (342)
                      .||+|..++++.++++++.+++++       .++|++-.-.+|-              |-|+.....++-+   .||++.
T Consensus         5 ~~~~~~~l~~~~~~~~~~~~~aa~-------~~~Lnv~nW~~Yi--------------~p~~i~~FeketG---ikV~~~   60 (370)
T PRK10682          5 NKKWLSGLVAGALMAVSVGTLAAE-------QKTLHIYNWSDYI--------------APDTVANFEKETG---IKVVYD   60 (370)
T ss_pred             HHHHHHHHHHHHHHHHHCCHHHHC-------CCEEEEECCCCCC--------------CHHHHHHHHHHHC---CEEEEE
T ss_conf             788999999999999852056642-------7979998167657--------------9779999999979---889999


Q ss_pred             ECCCCCC-HHHHHCCC--EEEEEECCCCCCCCH------------------------------HCCCCCCCCCCCCCCEE
Q ss_conf             8143100-26774396--279981243253201------------------------------10278435322344023
Q gi|254780170|r   82 PLNAKER-FLALQSKQ--IDILSRNTDWTLLRE------------------------------ISLGLAFRPITYFDGQG  128 (342)
Q Consensus        82 ~~~~~~r-f~aL~sG~--vDil~~~~T~T~~Rd------------------------------~~~~v~Fs~~~~~dgq~  128 (342)
                      ..++.+. +.-|++|.  +||++.+... .+|-                              ...+-.|+.||.+-..|
T Consensus        61 ~~~snee~~akl~ag~~gyDvv~ps~~~-v~~~~~~gll~pLD~sklpN~~ni~p~~~~~~~~~dpg~~YsVPy~wGt~G  139 (370)
T PRK10682         61 VFDSNEVLEGKLMAGSTGFDLVVPSASF-LERQLTAGVFQPLDKSKLPNWKNLDPELLKLVAKHDPDNKYAMPYMWATTG  139 (370)
T ss_pred             ECCCHHHHHHHHHCCCCCCCEEEECHHH-HHHHHHCCCCCCCCHHHCCCHHHCCHHHHHHHHCCCCCCEEEEEEEECCEE
T ss_conf             5499899999996699999889977799-999997698464770008674442999884100369997599888842259


Q ss_pred             EEEECC---------CCCCCHHHHC-----CC----CEEEE-----------------ECCCHHHHH----HHHHHHCCC
Q ss_conf             463021---------1347536417-----86----20343-----------------134269999----999986299
Q gi|254780170|r  129 FIMHKK---------KGISSVSQLS-----GA----SICVQ-----------------AGTTTELTL----ADYFKAHNM  169 (342)
Q Consensus       129 ~lVrk~---------~~i~s~~dL~-----G~----~I~v~-----------------~GTT~e~~l----~~~~~~~~~  169 (342)
                      |..+++         ..++++++|-     +|    .|++.                 ..++....+    .+.+.+...
T Consensus       140 I~Yn~d~v~~~~g~~~p~~sW~~l~~P~~~~k~k~~~v~~ld~~~~~~~~aL~~lG~~~n~~~~~d~~~aa~~~L~~~kp  219 (370)
T PRK10682        140 IGYNVDKVKAVLGEDAPVDSWDLVLKPENLEKLKSCGVSFLDAPEEIFATVLNYLGKDPNSTKADDYTGPATDLLLKLRP  219 (370)
T ss_pred             EEEECCCCCCCCCCCCCCCHHHHHHCHHHHHHCCCCCEEEECCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCH
T ss_conf             99976544223467888462998649275653035855897688899999999769998999999999999999997122


Q ss_pred             CCCEEEECCHHHHHHHHHCCCEEEEEECCH-HH-HHHHHHC-CCC--HHHCCCCC-CCCCCCEEEECCCCCHHHHH---H
Q ss_conf             850787479899999987396029982504-79-9999836-780--01002564-44237101000277757999---9
Q gi|254780170|r  170 KYHPIVFERVEEIDAAYRAHRCDAYTGDIS-AL-YALKLTN-DRP--SEHVILPD-IISKSPLAPAIIQGDTEWYN---I  240 (342)
Q Consensus       170 ~~~~v~~~~~~~a~~al~~Gr~DA~~~D~s-~L-a~~~~~~-~~p--~~~~il~e-~iskEPlg~avr~gD~~w~d---~  240 (342)
                      .  +..|.+ ++....+.+|++.+...=.. .+ +..+... .++  =.|+ +|+ ...-=-=.++++++=+.=-.   +
T Consensus       220 ~--v~~~~s-~~~~~~l~~Gei~~a~~wsGd~~~~~~~~~~~~~~~~i~yv-~PkEG~~~w~D~~~Ipk~A~n~~~A~~F  295 (370)
T PRK10682        220 N--IRYFHS-SQYINDLANGDICVAIGWAGDVWQASNRAKEAKNGVNVSFS-IPKEGAMAFFDVFAMPADAKNKDEAYQF  295 (370)
T ss_pred             H--CCEECC-CHHHHHHHCCCEEEEEEECHHHHHHHHHHHHCCCCCEEEEE-ECCCCCEEEEEEEEEECCCCCHHHHHHH
T ss_conf             2--441037-28899985486799997408999999999863578706998-1588745888788886899996999999


Q ss_pred             HHHHHHH---HHHHHHHHCCHHHHH
Q ss_conf             8877443---311212330152089
Q gi|254780170|r  241 VSWTHYA---MVTAEELGITQKNIN  262 (342)
Q Consensus       241 V~W~~~a---li~Aee~git~~nv~  262 (342)
                      .+|.+.-   -..+++.|-.+.|..
T Consensus       296 Inf~l~Pe~aa~~~~~~~y~~~n~~  320 (370)
T PRK10682        296 LNYLLRPDVIAHISDHVFYANANKA  320 (370)
T ss_pred             HHHHCCHHHHHHHHHHHCCCCHHHH
T ss_conf             9985097999999986478875389


No 72 
>PRK01066 porphobilinogen deaminase; Provisional
Probab=93.42  E-value=0.68  Score=25.96  Aligned_cols=141  Identities=16%  Similarity=0.083  Sum_probs=79.1

Q ss_pred             CHHHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCCC-CCCEEEEEECCCCCCCHHHH-CCCCEEEEECCCHHHHHHHHHH
Q ss_conf             026774396279981243253201102784353223-44023463021134753641-7862034313426999999998
Q gi|254780170|r   88 RFLALQSKQIDILSRNTDWTLLREISLGLAFRPITY-FDGQGFIMHKKKGISSVSQL-SGASICVQAGTTTELTLADYFK  165 (342)
Q Consensus        88 rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~-~dgq~~lVrk~~~i~s~~dL-~G~~I~v~~GTT~e~~l~~~~~  165 (342)
                      .-.+|.+|++|+.+.++--=++   ..+..+..+.- -|..-++|-+  .-.++.+| .|.+|    ||++-.- +..++
T Consensus        81 le~aLl~g~iDiAVHSlKDlP~---~~~l~i~av~~R~d~rDvLv~~--~~~~l~~lp~~a~I----GTSS~RR-~aql~  150 (234)
T PRK01066         81 VDFLVLSGKCDLAIHSAKDLPE---PPKLTVVAITAGLDPSDLLVYA--EKYLLQPLPKRPRI----GSSSLRR-EELLK  150 (234)
T ss_pred             HHHHHHCCCCCEEEEECCCCCC---CCCCEEEEEECCCCHHHHHHCC--CCCCCCCCCCCCEE----ECCCHHH-HHHHH
T ss_conf             9999976987789871578899---9997689996578988887604--67641228866877----3166619-99999


Q ss_pred             HCCCCCCEEEECCH-HHHHHHHHCCCEEEEEECCHHHHH-HHHHCCCCHHHCCCCCCC--CCCCEEEECCCCCHHHHHHH
Q ss_conf             62998507874798-999999873960299825047999-998367800100256444--23710100027775799998
Q gi|254780170|r  166 AHNMKYHPIVFERV-EEIDAAYRAHRCDAYTGDISALYA-LKLTNDRPSEHVILPDII--SKSPLAPAIIQGDTEWYNIV  241 (342)
Q Consensus       166 ~~~~~~~~v~~~~~-~~a~~al~~Gr~DA~~~D~s~La~-~~~~~~~p~~~~il~e~i--skEPlg~avr~gD~~w~d~V  241 (342)
                      ...++.+++.+..+ +.-+..|.+|++||++--.   || .|..+..+. ..+||..+  ..--+|+-.|++|.++..++
T Consensus       151 ~~~pdl~i~~iRGNI~TRl~Kl~~g~~DaiILA~---AGL~RLgl~~~~-~~~lp~~~~pgQGalaIe~R~dD~~~~~ll  226 (234)
T PRK01066        151 LLFPSGIILDIRGTIEERLKLLERGKYDAIVVAK---AAVLRLGLRLPY-TIELPPPYHPLQGRLAITAKKHIAKWKTLF  226 (234)
T ss_pred             HHCCCCCEEECCCCHHHHHHHHCCCCCCEEEHHH---HHHHHCCCCCCC-EEECCCCCCCCCCCEEEEECCCCHHHHHHH
T ss_conf             8789997896408999999986178989533898---999875897754-585589887886828899807979999999


Q ss_pred             H
Q ss_conf             8
Q gi|254780170|r  242 S  242 (342)
Q Consensus       242 ~  242 (342)
                      +
T Consensus       227 ~  227 (234)
T PRK01066        227 L  227 (234)
T ss_pred             H
T ss_conf             9


No 73 
>PRK11480 tauA taurine transporter substrate binding subunit; Provisional
Probab=93.25  E-value=0.41  Score=27.34  Aligned_cols=23  Identities=17%  Similarity=0.177  Sum_probs=12.2

Q ss_pred             HHHHHHHCCHHHHHHHHHCCCCH
Q ss_conf             11212330152089886226717
Q gi|254780170|r  249 VTAEELGITQKNINQVSKDTTNP  271 (342)
Q Consensus       249 i~Aee~git~~nv~~~~~~s~~p  271 (342)
                      ..|.+.|++.+++...++...-|
T Consensus       251 ~iAk~~G~~~~~~~~~l~~~~f~  273 (320)
T PRK11480        251 KLARLSGVPEGDVPGLVKGNTYL  273 (320)
T ss_pred             HHHHHHCCCHHHHHHHHHCCCCC
T ss_conf             99999598988999997368778


No 74 
>TIGR03339 phn_lysR aminoethylphosphonate catabolism associated LysR family transcriptional regulator. This group of sequences represents a number of related clades with numerous examples of members adjacent to operons for the degradation of 2-aminoethylphosphonate (AEP) in Pseudomonas, Ralstonia, Bordetella and Burkholderia species. These are transcriptional regulators of the LysR family which contain a helix-turn-helix (HTH) domain (pfam00126) and a periplasmic substrate-binding protein-like domain (pfam03466).
Probab=93.03  E-value=0.78  Score=25.59  Aligned_cols=172  Identities=16%  Similarity=0.140  Sum_probs=107.4

Q ss_pred             CCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHH
Q ss_conf             79499987178988306889898801509999999999679822025998143100267743962799812432532011
Q gi|254780170|r   33 RGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREI  112 (342)
Q Consensus        33 rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~  112 (342)
                      .|.|++|+...   +           +-.++...+...-  ....+++......+.+..|.+|++|+.+.....   .  
T Consensus        86 ~g~l~ig~~~~---~-----------~l~~~l~~f~~~~--P~v~i~i~~~~~~~~~~~L~~~~~Di~i~~~~~---~--  144 (279)
T TIGR03339        86 EGSLRIAATAP---Y-----------YVLDLVARFRQRY--PGIEVSVRIGNSQEVLQALQSYRVDVAVSSEVV---D--  144 (279)
T ss_pred             CCEEEECCCHH---H-----------HHHHHHHHHHHHC--CCCCEEEEECCHHHHHHHHHCCCEEEEEECCCC---C--
T ss_conf             45168617517---7-----------8999999999858--986057895580877754025965899972788---9--


Q ss_pred             CCCCCCCCCCCCCCEEEEEECCCC-----CCCHHHHCCCC-EEEEECCCHHHHHHHHHHHCCCCCCEE-EECCHHHHHHH
Q ss_conf             027843532234402346302113-----47536417862-034313426999999998629985078-74798999999
Q gi|254780170|r  113 SLGLAFRPITYFDGQGFIMHKKKG-----ISSVSQLSGAS-ICVQAGTTTELTLADYFKAHNMKYHPI-VFERVEEIDAA  185 (342)
Q Consensus       113 ~~~v~Fs~~~~~dgq~~lVrk~~~-----i~s~~dL~G~~-I~v~~GTT~e~~l~~~~~~~~~~~~~v-~~~~~~~a~~a  185 (342)
                      ..++.+ .+.+-+.-.++++++..     --+++||.+.. |....++.....+.+++...++..+++ ..++.......
T Consensus       145 ~~~~~~-~~l~~~~~~~~~~~~~~la~~~~i~~~~l~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  223 (279)
T TIGR03339       145 DPRLDR-VVLGNDPLVAVVHRQHPLAERESVTLEELAGQPLLMREPGSVTRQTTEEALAAAGVAPRPALEIGSREAIREA  223 (279)
T ss_pred             CCCEEE-EEEECCCEEEEEECCCHHHCCCCCCHHHHCCCCEEEECCCCCHHHHHHHHHHHCCCCCCEEEEECCHHHHHHH
T ss_conf             998399-9940444899991886332399999999769998982899839999999999779987536778969999999


Q ss_pred             HHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCC--CCCCCCCEEEECCCCC
Q ss_conf             873960299825047999998367800100256--4442371010002777
Q gi|254780170|r  186 YRAHRCDAYTGDISALYALKLTNDRPSEHVILP--DIISKSPLAPAIIQGD  234 (342)
Q Consensus       186 l~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~--e~iskEPlg~avr~gD  234 (342)
                      ..+|--=++.-+..   ..    .+| +.+++|  +..-+=++..+.+++-
T Consensus       224 v~~G~GiailP~~~---v~----~~~-~l~~~pl~~~~~~~~~~l~~~~~r  266 (279)
T TIGR03339       224 VLAGLGVSVVSAAE---VG----RDP-RLRVLPIVGAEPTMDEYLYCLKER  266 (279)
T ss_pred             HHHCCEEEEEEHHH---HH----HCC-CEEEEECCCCCCCCEEEEEEECCC
T ss_conf             99799389714899---61----098-989998988898627999998998


No 75 
>TIGR02285 TIGR02285 conserved hypothetical protein; InterPro: IPR011972    Members of this family are found in several Proteobacteria, including Pseudomonas putida (strain KT2440), Bdellovibrio bacteriovorus HD100 (three members), Aeromonas hydrophila, and Chromobacterium violaceum ATCC 12472. The function is unknown..
Probab=92.86  E-value=0.82  Score=25.44  Aligned_cols=202  Identities=14%  Similarity=0.084  Sum_probs=114.5

Q ss_pred             EEEEEEECCCCCCEEECCC------CCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCC
Q ss_conf             4999871789883068898------9880150999999999967982202599814310026774396279981243253
Q gi|254780170|r   35 FLKCGINTGLVGFAEVKAN------GDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTL  108 (342)
Q Consensus        35 ~L~vGv~~~~ppfs~~d~~------G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~  108 (342)
                      .|.. +..|.|||--.+..      -+=+|.-=.+-..|-++ +-. -.-+|+.++.+=....+|+++--+.-.++=+|+
T Consensus        20 ~I~W-~~~D~PPf~I~~G~Gmmvdi~~grG~~D~~~~~i~r~-lP~-Y~H~~~~~~~aR~~~~~Q~~~~~~C~~~ll~TP   96 (293)
T TIGR02285        20 AITW-IVSDLPPFFIFDGPGMMVDIKKGRGVLDVVLKLIRRK-LPE-YEHRIVRVSVARSLKMLQQGKAVVCDVNLLKTP   96 (293)
T ss_pred             CCEE-EEECCCCEEEEECCCEEEEECCCCCCCHHHHHHHHHH-CCC-CCCEEEEEEHHHHHHHHHCCCCCCCCCCCCCCC
T ss_conf             1115-1114787268708802897316887203367999983-654-751389986678999986388602155144786


Q ss_pred             CCHHCCCCCCC--CCCCCC-CEEEEEECCCC--CC--------CHHHH---CCCCEEEEECCCHHHHHHHHHHHCCCC--
Q ss_conf             20110278435--322344-02346302113--47--------53641---786203431342699999999862998--
Q gi|254780170|r  109 LREISLGLAFR--PITYFD-GQGFIMHKKKG--IS--------SVSQL---SGASICVQAGTTTELTLADYFKAHNMK--  170 (342)
Q Consensus       109 ~Rd~~~~v~Fs--~~~~~d-gq~~lVrk~~~--i~--------s~~dL---~G~~I~v~~GTT~e~~l~~~~~~~~~~--  170 (342)
                      ||++=  +-||  .+.+.. ..++++++...  +.        ++..|   .+++..+.+|=++-..+-+.++.++-+  
T Consensus        97 EReK~--~~Fstf~~~~~~~p~glv~~~~~~~~~~~~~~G~~VdL~~Ll~~~~~~~~~~a~RsYg~~ID~~L~~~~~~~~  174 (293)
T TIGR02285        97 EREKF--LIFSTFDPTLVVLPVGLVLRKELAAEVRDLADGDDVDLKKLLASKKLRLGVIASRSYGAQIDDILKDKKDKKN  174 (293)
T ss_pred             CHHHH--EECCHHHHHHHHCCCCEEECCCCCCCCCHHCCCCCHHHHHHHCCCCCCEEEEEEECCHHHHHHHHHHCCCCCC
T ss_conf             15432--0001247898647842365222232351120676101788731888644788630115789999973689624


Q ss_pred             CCEEEECCHHH-HHHHHHCCCEEEEEECCHHHHH-HH-------------HHCCCCHHHCCCCCCCCCCCEEEECCCCCH
Q ss_conf             50787479899-9999873960299825047999-99-------------836780010025644423710100027775
Q gi|254780170|r  171 YHPIVFERVEE-IDAAYRAHRCDAYTGDISALYA-LK-------------LTNDRPSEHVILPDIISKSPLAPAIIQGDT  235 (342)
Q Consensus       171 ~~~v~~~~~~~-a~~al~~Gr~DA~~~D~s~La~-~~-------------~~~~~p~~~~il~e~iskEPlg~avr~gD~  235 (342)
                      .+.+.=....+ .+..|..||++.+..=...... .+             .....-.++..||-.=.-.-....|.=--+
T Consensus       175 ~~~~~n~~~~nGl~~mL~~~R~~~tL~Y~~E~~Yy~~skfGyGsstvsdl~~~~~~~~~~~lpv~g~~~~i~v~vaCpkt  254 (293)
T TIGR02285       175 SRVIGNAASGNGLFKMLEKGRVQYTLAYPPEVVYYEESKFGYGSSTVSDLQKKGALAPLKFLPVAGVAAEISVVVACPKT  254 (293)
T ss_pred             CCEECCCCCHHHHHHHHHCCCCCEEECCHHHHHHHHHHCCCCCHHHHHHHHHCCCCCCEEEEEECCCCCEEEEEEEECCC
T ss_conf             22205553035799997524333031452332444431145551468888724577881264004777677899840888


Q ss_pred             HHHHHH
Q ss_conf             799998
Q gi|254780170|r  236 EWYNIV  241 (342)
Q Consensus       236 ~w~d~V  241 (342)
                      +|-+-|
T Consensus       255 ~wG~~~  260 (293)
T TIGR02285       255 EWGRKV  260 (293)
T ss_pred             HHHHHH
T ss_conf             778999


No 76 
>PRK09986 DNA-binding transcriptional activator XapR; Provisional
Probab=92.69  E-value=0.87  Score=25.29  Aligned_cols=177  Identities=10%  Similarity=-0.004  Sum_probs=106.1

Q ss_pred             HCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCH
Q ss_conf             57949998717898830688989880150999999999967982202599814310026774396279981243253201
Q gi|254780170|r   32 KRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLRE  111 (342)
Q Consensus        32 ~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd  111 (342)
                      .+|.|++|+......           ++=.++.+.+.++-  ....+++...+..+.+..|.+|++|+.+..+...  . 
T Consensus        79 ~~g~l~Ig~~~~~~~-----------~~l~~~l~~f~~~~--P~i~v~i~~~~~~~~~~~l~~~~~D~a~~~~~~~--~-  142 (278)
T PRK09986         79 EAGRIELGVVGTALW-----------GRMRPAMRHFLKEN--PNVEVLFREKSPSMQMALLERRELDAGIWRMALE--P-  142 (278)
T ss_pred             CCCCEEEEECHHHHH-----------HHHHHHHHHHHHHC--CCEEEEEEECCHHHHHHHHHCCCCCEEEECCCCC--C-
T ss_conf             777336874216888-----------76428999999878--9839999978869999999779975899637777--8-


Q ss_pred             HCCCCCCCCCCCCCCEEEEEECCCC-----CCCHHHHCCCCEEE-EECCCHHHHHHHHHHHCCCCCCEE-EECCHHHHHH
Q ss_conf             1027843532234402346302113-----47536417862034-313426999999998629985078-7479899999
Q gi|254780170|r  112 ISLGLAFRPITYFDGQGFIMHKKKG-----ISSVSQLSGASICV-QAGTTTELTLADYFKAHNMKYHPI-VFERVEEIDA  184 (342)
Q Consensus       112 ~~~~v~Fs~~~~~dgq~~lVrk~~~-----i~s~~dL~G~~I~v-~~GTT~e~~l~~~~~~~~~~~~~v-~~~~~~~a~~  184 (342)
                       ..++.+- +.+.+.-.++++++..     .-+++||.+..... ..+.+.-..+.+.+...+...+++ .+++......
T Consensus       143 -~~~~~~~-~l~~~~~~~~~~~~hpla~~~~i~~~~l~~~~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~  220 (278)
T PRK09986        143 -NPGFTSL-RLHESAFAVAVPEEHLLASKSSVPLKALRNEYFVTLPSVHSDWGFLQRVCQQAGFSPQIIREVNEPQTVLA  220 (278)
T ss_pred             -CCCCEEE-EEEECCCEEEECCCCCCCCCCCCCHHHHCCCCEEEECCCCCHHHHHHHHHHHCCCCCCEEEEECCHHHHHH
T ss_conf             -8774268-87741637996598733369999999985999798679986699999999977998517999998999999


Q ss_pred             HHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCC--CCCCCCCEEEECCCCC
Q ss_conf             9873960299825047999998367800100256--4442371010002777
Q gi|254780170|r  185 AYRAHRCDAYTGDISALYALKLTNDRPSEHVILP--DIISKSPLAPAIIQGD  234 (342)
Q Consensus       185 al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~--e~iskEPlg~avr~gD  234 (342)
                      ...+|..=++..+..  +    ....+ +.+++|  +.+.. .++.+.|++.
T Consensus       221 ~V~~G~Giailp~~~--~----~~~~~-~v~~~Pl~~~~~~-~~~lv~~~~~  264 (278)
T PRK09986        221 MVSMGIGITLVADSY--A----QMPWP-GVVFRPLKERIPA-DLYIVYHQQQ  264 (278)
T ss_pred             HHHHCCEEEEEHHHH--H----CCCCC-CEEEEECCCCCCE-EEEEEECCCC
T ss_conf             999799899841777--4----23789-9999988999803-8999984999


No 77 
>TIGR00787 dctP TRAP transporter solute receptor, DctP family; InterPro: IPR004682   TRAP-T family proteins generally consist of three components, and these systems have so far been found in Gram-negative bacteria, Gram-positive bacteria and archaea. Only one member of the family has been both sequenced and functionally characterised. This system is the DctPQM system of Rhodobacter capsulatus. DctP is a periplasmic dicarboxylate (malate, fumarate, succinate) binding receptor that is biochemically well-characterised.; GO: 0006810 transport, 0030288 outer membrane-bounded periplasmic space.
Probab=92.67  E-value=0.097  Score=31.32  Aligned_cols=189  Identities=19%  Similarity=0.201  Sum_probs=106.6

Q ss_pred             CCCEEEEHHH-HHHHHHHHHCCCCCEEEEEE----C--CCCCCHHHHHCCCEEEEEECCCCCCCC-H-------------
Q ss_conf             8988015099-99999999679822025998----1--431002677439627998124325320-1-------------
Q gi|254780170|r   53 NGDWKGFDVD-FCRALSSAIFDDPSKIQYLP----L--NAKERFLALQSKQIDILSRNTDWTLLR-E-------------  111 (342)
Q Consensus        53 ~G~~~GfDVD-l~raiAaal~gd~~kVe~v~----~--~~~~rf~aL~sG~vDil~~~~T~T~~R-d-------------  111 (342)
                      ...+.|--.+ |++.|.+.--|. .+|+.-|    -  +..+-+.+|+.|.+|+.+.+.+....= .             
T Consensus         7 ~~~p~~~AA~~Fa~lv~e~t~G~-~~i~~~P~s~LgPa~D~~~~~~l~~G~~d~~~~s~~~f~~la~p~~~v~dlPflF~   85 (267)
T TIGR00787         7 RSTPKHKAAEKFAKLVEEKTKGE-IKISVFPSSQLGPASDREMLEALRGGALDMTAPSSSKFTPLASPELAVLDLPFLFK   85 (267)
T ss_pred             CCCCHHHHHHHHHHHHHHHHCCE-EEEEECCCCCCCCCCHHHHHHHHHCCCEEEEECCCCCCCCCCCCHHHHHCCCHHHH
T ss_conf             99716589999999999865885-78997576347887769999984089548972576754233300687716762431


Q ss_pred             ----------------------HCC--CCCCCCCCCCCCEEEEEECCCCCCCHHHHCCCCEEEEECCCHHHHHHHHHHHC
Q ss_conf             ----------------------102--78435322344023463021134753641786203431342699999999862
Q gi|254780170|r  112 ----------------------ISL--GLAFRPITYFDGQGFIMHKKKGISSVSQLSGASICVQAGTTTELTLADYFKAH  167 (342)
Q Consensus       112 ----------------------~~~--~v~Fs~~~~~dgq~~lVrk~~~i~s~~dL~G~~I~v~~GTT~e~~l~~~~~~~  167 (342)
                                            ...  ++- .--|+..|...+.-+...|++++|++|.||-++..-+.+    +.++.-
T Consensus        86 d~~~~~Kvl~G~~vG~~L~~~~e~~~LG~~-~L~~w~nG~R~~t~~~~p~~~p~D~kGLKiRi~~s~~~~----~~~~~l  160 (267)
T TIGR00787        86 DTNHVHKVLDGSEVGKELLKSLEKKNLGLK-GLAYWDNGFRQFTSSKKPVTKPEDLKGLKIRIPASPVLE----AQFKAL  160 (267)
T ss_pred             CHHHHHHHHCCCHHHHHHHHHHHHHHCCCC-CHHHHHCCHHHHHCCCCCCCCCHHHCCCCCCCCCCHHHH----HHHHHC
T ss_conf             489999873665889999998887632400-003323314542214341246033258740259868999----999970


Q ss_pred             CCCCCEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCCCCEEEECCCCCHHHHH----HHHH
Q ss_conf             998507874798999999873960299825047999998367800100256444237101000277757999----9887
Q gi|254780170|r  168 NMKYHPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDIISKSPLAPAIIQGDTEWYN----IVSW  243 (342)
Q Consensus       168 ~~~~~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~iskEPlg~avr~gD~~w~d----~V~W  243 (342)
                      |-.=+++   ...|.+.||++|-+||==.-.+...+.+.-  +=.+|.-+-. ...+||..++  ++.-|..    +=+-
T Consensus       161 GA~P~~~---~F~EvY~ALq~gvVDgqENP~s~~~s~KlY--EVqKyL~~tn-H~y~g~~v~~--n~~~w~~L~~dl~~~  232 (267)
T TIGR00787       161 GANPEPM---AFSEVYTALQTGVVDGQENPLSNIYSSKLY--EVQKYLSLTN-HGYLGYLVVV--NKAFWKSLPPDLQAV  232 (267)
T ss_pred             CCCCCCC---CHHHHHHHHHCCCCCCCCCCHHHHHHHHHH--HHHHHHHHHH-HHHCCCCEEE--EHHHHHCCCHHHHHH
T ss_conf             8998412---658999987548101004672776210212--3643453310-3032620275--036743187889999


Q ss_pred             HHHHHHHHHHHH
Q ss_conf             744331121233
Q gi|254780170|r  244 THYAMVTAEELG  255 (342)
Q Consensus       244 ~~~ali~Aee~g  255 (342)
                      +..||=+|-++-
T Consensus       233 ~~~A~~ea~~~~  244 (267)
T TIGR00787       233 VKEAAKEATEYQ  244 (267)
T ss_pred             HHHHHHHHHHHH
T ss_conf             999999999988


No 78 
>PRK10341 DNA-binding transcriptional activator TdcA; Provisional
Probab=92.55  E-value=0.91  Score=25.17  Aligned_cols=159  Identities=8%  Similarity=0.063  Sum_probs=97.5

Q ss_pred             CEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCCCCCCEEEEEECCC---CCCCHHHHCCCCEEE-E
Q ss_conf             202599814310026774396279981243253201102784353223440234630211---347536417862034-3
Q gi|254780170|r   76 SKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMHKKK---GISSVSQLSGASICV-Q  151 (342)
Q Consensus        76 ~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVrk~~---~i~s~~dL~G~~I~v-~  151 (342)
                      .++++...+..+....|.+|++|+.++...-.. .  ...+.+. +.|.+.-.++++++.   +..++++|.+..... .
T Consensus       126 v~i~l~~~~~~~~~~~l~~g~~D~~i~~~~~~~-~--~~~~~~~-~l~~~~~~lv~~~~~p~~~~~~l~~L~~~~~il~~  201 (312)
T PRK10341        126 AQVSMYEAQLSSFLPAIRDGRLDFAIGTLSNEM-K--LQDLHVE-PLFESEFVLVASKSRTCTGTTTLESLKNEQWVLPQ  201 (312)
T ss_pred             CEEEEEECCHHHHHHHHHCCCCEEEEEECCCCC-C--CCCEEEE-EEECCCEEEEECCCCCCCCCCCHHHHCCCCEEEEC
T ss_conf             779999899999999996698619997436877-7--7874999-95124289997675423489798998079868606


Q ss_pred             ECCCHHHHHHHHHHHCCCCCCE-EEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCC--CCCCCCCEEE
Q ss_conf             1342699999999862998507-874798999999873960299825047999998367800100256--4442371010
Q gi|254780170|r  152 AGTTTELTLADYFKAHNMKYHP-IVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILP--DIISKSPLAP  228 (342)
Q Consensus       152 ~GTT~e~~l~~~~~~~~~~~~~-v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~--e~iskEPlg~  228 (342)
                      .++.....+.++++..++..+. +..++.........+|-.=++...  .++.   .+.+ ++.+.+|  +.+-.-.++.
T Consensus       202 ~~~~~~~~~~~~~~~~g~~~~~~~~~~s~~~i~~lv~~g~gi~~lP~--~~~~---~~~~-~~L~~lpl~~~~~~~~~~l  275 (312)
T PRK10341        202 TNMGYYSELLTTLQRNGISIENIVKTDSVVTIYNLVLNADFLTVIPC--DMTS---PFGS-NQFITIPIKETLPVARYAA  275 (312)
T ss_pred             CCCCHHHHHHHHHHHCCCCCCCEEEECHHHHHHHHHHHCCEEEEEHH--HHHH---HHCC-CCEEEEECCCCCCEEEEEE
T ss_conf             99858999999999769998816998909999999997995897269--9996---6318-9899998999885118999


Q ss_pred             ECCCCCHHHHHHHHHHH
Q ss_conf             00277757999988774
Q gi|254780170|r  229 AIIQGDTEWYNIVSWTH  245 (342)
Q Consensus       229 avr~gD~~w~d~V~W~~  245 (342)
                      +.+++-. ....++|-+
T Consensus       276 v~~k~~~-ls~a~~~fi  291 (312)
T PRK10341        276 VWSKNYR-IKKAASVLV  291 (312)
T ss_pred             EEECCCC-CCHHHHHHH
T ss_conf             9989398-899999999


No 79 
>cd00494 HMBS Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12.  HMBS catalyzes the conversion of porphobilinogen (PBG) into hydroxymethylbilane (HMB).  HMBS consists of three domains, and is believed to bind substrate through a hinge-bending motion of domains I and II.  HMBS is found in all organisms except viruses.
Probab=92.45  E-value=0.93  Score=25.09  Aligned_cols=146  Identities=19%  Similarity=0.168  Sum_probs=78.3

Q ss_pred             CCCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCCC-CCCEEEEEECCCCCCCHHHH-CCCCEEEEECCCHHHHHHHH
Q ss_conf             10026774396279981243253201102784353223-44023463021134753641-78620343134269999999
Q gi|254780170|r   86 KERFLALQSKQIDILSRNTDWTLLREISLGLAFRPITY-FDGQGFIMHKKKGISSVSQL-SGASICVQAGTTTELTLADY  163 (342)
Q Consensus        86 ~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~-~dgq~~lVrk~~~i~s~~dL-~G~~I~v~~GTT~e~~l~~~  163 (342)
                      ++.-.+|.+|++|+.+.++---+... ..++.++.+.- -|..-++|-+  ...++.+| +|.+|+    |++-.- +..
T Consensus        59 kele~aLl~g~iDiAVHSlKDlPt~~-~~gl~i~avl~R~dprDvlv~~--~~~~l~~lp~ga~IG----TSS~RR-~aq  130 (292)
T cd00494          59 KELEEALLNGEIDLAVHSLKDVPTEL-PEGLVLGAIPKREDPRDALVSR--NGSSLEDLPAGSVVG----TSSLRR-QAQ  130 (292)
T ss_pred             HHHHHHHHCCCCCEEEEECCCCCCCC-CCCCEEEEEECCCCCCCHHHCC--CCHHHHCCCCCCEEE----ECCCCH-HHH
T ss_conf             99999997098787986046577747-9874687663478822244406--400221289898785----147437-999


Q ss_pred             HHHCCCCCCEEEECCH-HHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHH-----CCCCCCCCCCCEEEECCCCCHHH
Q ss_conf             9862998507874798-99999987396029982504799999836780010-----02564442371010002777579
Q gi|254780170|r  164 FKAHNMKYHPIVFERV-EEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEH-----VILPDIISKSPLAPAIIQGDTEW  237 (342)
Q Consensus       164 ~~~~~~~~~~v~~~~~-~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~-----~il~e~iskEPlg~avr~gD~~w  237 (342)
                      ++...++.+++.+..+ +.-+..|.+|++||++--...|  .|..+.+.-.+     .++| .-..--+|+-+|++|++-
T Consensus       131 l~~~~pdl~i~~iRGNV~TRl~KL~~g~~DaiILA~AGL--~RLgl~~~i~~~l~~~~~~P-A~gQGaiave~r~~d~~~  207 (292)
T cd00494         131 LKRKRPDLKFEPLRGNVDTRLRKLDEGEYDAIILAAAGL--KRLGLEDRITQYLSPEVMLP-AVGQGALAIECRKGDEEL  207 (292)
T ss_pred             HHHHCCCCCEEECCCCHHHHHHHHHCCCCCEEEEHHHHH--HHCCCCCCCCCCCCHHCCCC-CCCCCEEEEEEECCCHHH
T ss_conf             998689995467658899999985167874775446567--55478420230036310788-766530688872489888


Q ss_pred             HHHHH
Q ss_conf             99988
Q gi|254780170|r  238 YNIVS  242 (342)
Q Consensus       238 ~d~V~  242 (342)
                      .++++
T Consensus       208 ~~~l~  212 (292)
T cd00494         208 LALLK  212 (292)
T ss_pred             HHHHH
T ss_conf             88887


No 80 
>pfam03180 Lipoprotein_9 NLPA lipoprotein. This family of bacterial lipoproteins contains several antigenic members, that may be involved in bacterial virulence. Their precise function is unknown. However they are probably distantly related to pfam00497 which are solute binding proteins.
Probab=91.98  E-value=0.18  Score=29.55  Aligned_cols=91  Identities=12%  Similarity=0.110  Sum_probs=59.6

Q ss_pred             CEEEEECCCHHH--HHHHHHHHCCCCCCEEEECCHHHHHHHHHCCCEEEEEECC-HHHHHHHHHCCCCHHHCCCCCCCCC
Q ss_conf             203431342699--9999998629985078747989999998739602998250-4799999836780010025644423
Q gi|254780170|r  147 SICVQAGTTTEL--TLADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDAYTGDI-SALYALKLTNDRPSEHVILPDIISK  223 (342)
Q Consensus       147 ~I~v~~GTT~e~--~l~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA~~~D~-s~La~~~~~~~~p~~~~il~e~isk  223 (342)
                      |||+..|.-.|.  .++..+++.|++++++.|.++.+.-.||.+|.+||=..-. +-|...  ...+..+.+.+.. ..-
T Consensus         2 kvG~~~~p~~~i~~~v~~~~~~~Gi~veiv~F~Dy~~pN~AL~~GeIDaN~fQH~~yl~~~--n~~~g~~L~~v~~-~~~   78 (236)
T pfam03180         2 KVGATPGPHAEVLEVAKPLAKKKGLDLEIVEFTDYVQPNTALADGEIDANAFQHLPYLDQF--NKEGGLDLVAVGN-THV   78 (236)
T ss_pred             EEEECCCCHHHHHHHHHHHHHHCCCEEEEEEECCCCCHHHHHHCCCCCHHHHCCHHHHHHH--HHHCCCCEEEEEE-EEE
T ss_conf             8964389769999999999996498799998168645507977899552444389999999--9977996799630-467


Q ss_pred             CCEEE-----------------ECCCCCHHHHHH
Q ss_conf             71010-----------------002777579999
Q gi|254780170|r  224 SPLAP-----------------AIIQGDTEWYNI  240 (342)
Q Consensus       224 EPlg~-----------------avr~gD~~w~d~  240 (342)
                      +|+|+                 +++.+-+.....
T Consensus        79 ~p~glYS~k~ksl~~lp~Ga~IaIpnD~sN~~RA  112 (236)
T pfam03180        79 EPIGLYSKKYKSLSELPDGATIAVPNDPSNEGRA  112 (236)
T ss_pred             CCEEEEECCCCCHHHCCCCCEEEECCCCCHHHHH
T ss_conf             2379543376887585799989815884429999


No 81 
>PRK11151 DNA-binding transcriptional regulator OxyR; Provisional
Probab=91.64  E-value=1.2  Score=24.51  Aligned_cols=179  Identities=10%  Similarity=0.044  Sum_probs=105.1

Q ss_pred             CCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHH
Q ss_conf             79499987178988306889898801509999999999679822025998143100267743962799812432532011
Q gi|254780170|r   33 RGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREI  112 (342)
Q Consensus        33 rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~  112 (342)
                      +|.|++|+.+....+           +-.++...+.+. . ...++++......+.+..|.+|++|+.+....  ..   
T Consensus        90 ~G~lrig~~~~~~~~-----------llp~~l~~f~~~-~-P~v~i~l~~~~~~~l~~~l~~g~~D~~i~~~~--~~---  151 (305)
T PRK11151         90 SGPLHIGLIPTVGPY-----------LLPHIIPMLHQT-F-PKLEMYLHEAQTHQLLAQLDSGKLDCAILALV--KE---  151 (305)
T ss_pred             CCEEEEEEHHHHHHH-----------CCCHHHHHHHHC-C-CCCEEEEEECCCHHHHHHHHCCCCCEEEEECC--CC---
T ss_conf             641431102223332-----------382779998623-8-98379999887577787865788537998458--89---


Q ss_pred             CCCCCCCCCCCCCCEEEEEECCCC-----CCCHHHHCCCCEEE-EECCCHHHHHHHHHHHCCCCCCE-EEECCHHHHHHH
Q ss_conf             027843532234402346302113-----47536417862034-31342699999999862998507-874798999999
Q gi|254780170|r  113 SLGLAFRPITYFDGQGFIMHKKKG-----ISSVSQLSGASICV-QAGTTTELTLADYFKAHNMKYHP-IVFERVEEIDAA  185 (342)
Q Consensus       113 ~~~v~Fs~~~~~dgq~~lVrk~~~-----i~s~~dL~G~~I~v-~~GTT~e~~l~~~~~~~~~~~~~-v~~~~~~~a~~a  185 (342)
                      ...+... +.+-+...++++++..     .-+++||.+..... ..|+..-..+.+++...+....+ ...++.+.....
T Consensus       152 ~~~~~~~-~l~~e~l~lv~~~~hpla~~~~i~l~~L~~~~~i~~~~~~~~r~~~~~~~~~~g~~~~~~~~~~~~~~i~~l  230 (305)
T PRK11151        152 SEAFIEV-PLFDEPMLLAVYEDHPWANRDRVPMSDLAGEKLLMLEDGHCLRDQAMGFCFEAGADEDTHFRATSLETLRNM  230 (305)
T ss_pred             CCCCEEE-EECCCCEEEEEECCCCCCCCCCCCHHHHCCCCEEEECCCCCHHHHHHHHHHHCCCCCCEEEEEECHHHHHHH
T ss_conf             9872687-620462799995898433699989999769988996899859999999999779998738999447999999


Q ss_pred             HHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCC--CCCCCCCEEEECCCCCH
Q ss_conf             873960299825047999998367800100256--44423710100027775
Q gi|254780170|r  186 YRAHRCDAYTGDISALYALKLTNDRPSEHVILP--DIISKSPLAPAIIQGDT  235 (342)
Q Consensus       186 l~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~--e~iskEPlg~avr~gD~  235 (342)
                      +..|--=++....   +.... .. .+..+.+|  ++.-.-+++.+.|+|-+
T Consensus       231 V~~G~Gv~ilp~~---~v~~~-~~-~~~l~~~pl~~~~~~r~i~lv~r~~~~  277 (305)
T PRK11151        231 VAAGSGITLLPAL---AVPNE-RK-RDGVCYLPCIKPEPRRTIGLVYRPGSP  277 (305)
T ss_pred             HHHCCCEEECCHH---HHHHH-CC-CCCEEEEECCCCCCEEEEEEEEECCCC
T ss_conf             9929968983599---98622-12-698899988899973699999989098


No 82 
>TIGR03427 ABC_peri_uca ABC transporter periplasmic binding protein, urea carboxylase region. Members of this family are ABC transporter periplasmic binding proteins associated with the urea carboxylase/allophanate hydrolase pathway, an alternative to urease for urea degradation. The protein is restricted to bacteria with the pathway, with its gene close to the urea carboxylase and allophanate hydrolase genes. The substrate for this transporter therefore is likely to be urea or a compound from which urea is easily derived.
Probab=90.85  E-value=0.39  Score=27.51  Aligned_cols=60  Identities=13%  Similarity=0.124  Sum_probs=43.7

Q ss_pred             CEEECCCCCEEEEHH------HHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             306889898801509------9999999996798220259981431002677439627998124325320
Q gi|254780170|r   47 FAEVKANGDWKGFDV------DFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLR  110 (342)
Q Consensus        47 fs~~d~~G~~~GfDV------Dl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~R  110 (342)
                      -+..|-+|+-+|++.      =|.|++.++ +.....|+.|.++..+.-.++.+|+||..   .||.|-.
T Consensus        99 ~slaDLKGKkVav~~~svshyLL~rALe~a-GLs~~DV~vVn~~~~d~~aAf~sg~VdA~---vTWeP~l  164 (328)
T TIGR03427        99 KSLADLKGQKVNLVELSVSHYLLARALESV-GLSEKDVKVVNTSDADIVAAFITKDVTAV---VTWNPQL  164 (328)
T ss_pred             CCHHHHCCCEEECCCCCCHHHHHHHHHHHC-CCCHHHEEEEECCCHHHHHHHHCCCCCEE---EEECHHH
T ss_conf             887884898883247870799999999986-99889907884795469999747998789---9978568


No 83 
>PRK11233 nitrogen assimilation transcriptional regulator; Provisional
Probab=90.84  E-value=1.4  Score=24.01  Aligned_cols=181  Identities=10%  Similarity=0.048  Sum_probs=106.1

Q ss_pred             HCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCH
Q ss_conf             57949998717898830688989880150999999999967982202599814310026774396279981243253201
Q gi|254780170|r   32 KRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLRE  111 (342)
Q Consensus        32 ~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd  111 (342)
                      .+|.+++|+.++.....          +-..+.+++.+.-  ...+|++...+.......|.+|++|+.+.....   . 
T Consensus        89 ~~G~l~ig~~p~~~~~~----------l~~p~l~~f~~~~--P~v~v~l~~~~~~~l~~~l~~g~~Dlai~~~~~---~-  152 (305)
T PRK11233         89 LSGQVSIGLAPGTAASS----------ITMPLLQAVRAEF--PEIVIYLHENSGAVLNEKLINGQLDMAVIYEHS---P-  152 (305)
T ss_pred             CCCEEEEEEECCHHHHH----------HHHHHHHHHHHHC--CCEEEEEECCCHHHHHHHHHCCCEEEEEEECCC---C-
T ss_conf             74049999962155665----------3699999999978--942999723887999999876984799982798---9-


Q ss_pred             HCCCCCCCCCCCCCCEEEEEECCCC--CCCHHHHCCCCE-EEEECCCHHHHHHHHHHHCCCCCCEE-EECCHHHHHHHHH
Q ss_conf             1027843532234402346302113--475364178620-34313426999999998629985078-7479899999987
Q gi|254780170|r  112 ISLGLAFRPITYFDGQGFIMHKKKG--ISSVSQLSGASI-CVQAGTTTELTLADYFKAHNMKYHPI-VFERVEEIDAAYR  187 (342)
Q Consensus       112 ~~~~v~Fs~~~~~dgq~~lVrk~~~--i~s~~dL~G~~I-~v~~GTT~e~~l~~~~~~~~~~~~~v-~~~~~~~a~~al~  187 (342)
                       ..++.+. +.+-+...++++++..  --++.||....+ ....++..-..+.+.|...+...+++ .+++......+..
T Consensus       153 -~~~l~~~-~l~~~~l~lv~~~~~p~~~i~l~~l~~~~~i~~~~~~~~r~~~~~~~~~~~~~~~~~~e~~~~~~i~~~V~  230 (305)
T PRK11233        153 -VAGVSSQ-ALLKEDLFLVGTQDCPGQSVDLNAIAQMNLFLPRDYSAVRLRVDEAFSLRRLTAKVIGEIESIATLTAAIA  230 (305)
T ss_pred             -CCCCEEE-EEEECCEEEEECCCCCCCCCCHHHHCCCCEEECCCCCHHHHHHHHHHHHCCCCCCEEEEECCHHHHHHHHH
T ss_conf             -8882899-99853589998477887878999980899898799984999999999977999847999996999999999


Q ss_pred             CCCEEEEEECCHHHHHHHHHCCCCHHHCC--CCCCCCCCCEEEECCCCCH
Q ss_conf             39602998250479999983678001002--5644423710100027775
Q gi|254780170|r  188 AHRCDAYTGDISALYALKLTNDRPSEHVI--LPDIISKSPLAPAIIQGDT  235 (342)
Q Consensus       188 ~Gr~DA~~~D~s~La~~~~~~~~p~~~~i--l~e~iskEPlg~avr~gD~  235 (342)
                      +|---++....   +....  ..+.+..+  +.++--.-|++.+.+++-+
T Consensus       231 ~G~GiailP~~---~~~~~--~~~~~~~~~~~~~p~~~~~~~l~~~~~r~  275 (305)
T PRK11233        231 SGMGVTVLPES---AARSL--CGAVNGWMSRITTPSMSLSLSLNLSARAN  275 (305)
T ss_pred             HCCEEEEEHHH---HHHHH--HHCCCEEEEECCCCCCEEEEEEEEECCCC
T ss_conf             79978987199---99987--53497699925999866599999989098


No 84 
>COG0181 HemC Porphobilinogen deaminase [Coenzyme metabolism]
Probab=90.05  E-value=1.6  Score=23.58  Aligned_cols=146  Identities=17%  Similarity=0.119  Sum_probs=77.8

Q ss_pred             CCCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCC-CCCCCCCEEEEEECCCCCCCHHHH-CCCCEEEEECCCHHHHHHHH
Q ss_conf             1002677439627998124325320110278435-322344023463021134753641-78620343134269999999
Q gi|254780170|r   86 KERFLALQSKQIDILSRNTDWTLLREISLGLAFR-PITYFDGQGFIMHKKKGISSVSQL-SGASICVQAGTTTELTLADY  163 (342)
Q Consensus        86 ~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs-~~~~~dgq~~lVrk~~~i~s~~dL-~G~~I~v~~GTT~e~~l~~~  163 (342)
                      ++.-.+|.+|++|+.+.++--=++- -..++.-+ -+---|..-.+|-+  ...++++| .|.+|    ||++-.- +.+
T Consensus        62 kEle~all~g~~DiAVHSlKDvP~~-~p~gL~laai~~R~dprDalVs~--~~~~l~~LP~Ga~V----GTSSlRR-~aq  133 (307)
T COG0181          62 KELEQALLEGEIDIAVHSLKDVPTE-LPEGLVLAAIPEREDPRDALVSR--DGYDLEELPEGAVV----GTSSLRR-QAQ  133 (307)
T ss_pred             HHHHHHHHCCCCCEEEEECCCCCCC-CCCCCEEEEECCCCCHHHEEEEC--CCCCHHHCCCCCCC----CCCHHHH-HHH
T ss_conf             9999999769977897604448756-89993699961789953668887--88856348998831----4526879-999


Q ss_pred             HHHCCCCCCEEEECCH-HHHHHHHHCCCEEEEEECCHHHHH-HHHHCCCCHHHCCCCCCCCC----CCEEEECCCCCHHH
Q ss_conf             9862998507874798-999999873960299825047999-99836780010025644423----71010002777579
Q gi|254780170|r  164 FKAHNMKYHPIVFERV-EEIDAAYRAHRCDAYTGDISALYA-LKLTNDRPSEHVILPDIISK----SPLAPAIIQGDTEW  237 (342)
Q Consensus       164 ~~~~~~~~~~v~~~~~-~~a~~al~~Gr~DA~~~D~s~La~-~~~~~~~p~~~~il~e~isk----EPlg~avr~gD~~w  237 (342)
                      ++...++.++..+..+ +.-++.|.+|..||++.-.   || .|..+.+--.+.+-|+.+--    --+|+..|++|.+-
T Consensus       134 l~~~rPdl~i~~lRGNVdTRL~KL~~g~yDAIILA~---AGL~RLgl~~~~~~~l~p~~~~PA~gQGal~ie~R~~d~~~  210 (307)
T COG0181         134 LKALRPDLKIEPLRGNVDTRLRKLDEGEYDAIILAA---AGLKRLGLENRITEILDPEEFLPAPGQGALAIECRAGDEKV  210 (307)
T ss_pred             HHHHCCCCEEEECCCCHHHHHHHHHCCCCCHHHHHH---HHHHHCCCCCCCEEECCHHHCCCCCCCCEEEEEEECCCHHH
T ss_conf             998699976996657688899986167852999999---99986287422206347542689888866999996396789


Q ss_pred             HHHHH
Q ss_conf             99988
Q gi|254780170|r  238 YNIVS  242 (342)
Q Consensus       238 ~d~V~  242 (342)
                      ..+..
T Consensus       211 ~~ll~  215 (307)
T COG0181         211 LELLA  215 (307)
T ss_pred             HHHHH
T ss_conf             99998


No 85 
>smart00094 TR_FER Transferrin.
Probab=90.02  E-value=0.73  Score=25.78  Aligned_cols=188  Identities=16%  Similarity=0.164  Sum_probs=96.5

Q ss_pred             HHHHHHHHHHCCCC-CEEEEEE-CCCCCCHHHHHCCCEEEEEE--CCCCCCCCHHCCCCCCCC---------CCCCCCEE
Q ss_conf             99999999967982-2025998-14310026774396279981--243253201102784353---------22344023
Q gi|254780170|r   62 DFCRALSSAIFDDP-SKIQYLP-LNAKERFLALQSKQIDILSR--NTDWTLLREISLGLAFRP---------ITYFDGQG  128 (342)
Q Consensus        62 Dl~raiAaal~gd~-~kVe~v~-~~~~~rf~aL~sG~vDil~~--~~T~T~~Rd~~~~v~Fs~---------~~~~dgq~  128 (342)
                      .=|++++.+..... -.++-+. .+..+-+.+++.|+.|++.-  +--++..|.-.+.--+..         ..||  ..
T Consensus        12 ~KC~~~~~~~~~~~~p~~~Cv~~~s~~~Ci~~I~~~~AD~~tldgg~vy~A~~~y~L~Pi~~E~y~~~~~~~~~Y~--aV   89 (332)
T smart00094       12 SKCDQWSVNSRGRDVPALECVSASSTEECIKAIQKGEADAVTLDGGDVYTAGKPYNLVPVFAENYGSEEEPETGYY--AV   89 (332)
T ss_pred             HHHHHHHHHHHCCCCCCEEEEECCCHHHHHHHHHCCCCCEEEECHHHHHHHHCCCCCCEEEEECCCCCCCCCCEEE--EE
T ss_conf             9999999996027999648640899999999986699888986838988521238862788610147789874479--99


Q ss_pred             EEEECCCCCCCHHHHCCCCEEEE-ECCC----------------------HHHHHHHHHHHCCCC---------------
Q ss_conf             46302113475364178620343-1342----------------------699999999862998---------------
Q gi|254780170|r  129 FIMHKKKGISSVSQLSGASICVQ-AGTT----------------------TELTLADYFKAHNMK---------------  170 (342)
Q Consensus       129 ~lVrk~~~i~s~~dL~G~~I~v~-~GTT----------------------~e~~l~~~~~~~~~~---------------  170 (342)
                      -+|||++++.++.+|.||+-|-. -|.|                      .++.+.+||.+.=.+               
T Consensus        90 AVVkk~s~~~~~~~LrGkkSCHtG~g~tAGW~iPig~L~~~~~i~~~~c~~~~avs~FFs~SCvPGa~~~~~~~~LC~lC  169 (332)
T smart00094       90 AVVKKGSAIFTWNQLRGKKSCHTGVGRTAGWNIPMGLLYNKLVIRPPNCPFEKAVSKFFSASCAPGADKPDPNSNLCALC  169 (332)
T ss_pred             EEEECCCCCCCHHHHCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCHHHHHHC
T ss_conf             99977887678778378863035788854302027989754776788982788999871455567888887654578755


Q ss_pred             --------CCEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHH--------HHCCCCHHHCCCCCCCCCCCE--------
Q ss_conf             --------50787479899999987396029982504799999--------836780010025644423710--------
Q gi|254780170|r  171 --------YHPIVFERVEEIDAAYRAHRCDAYTGDISALYALK--------LTNDRPSEHVILPDIISKSPL--------  226 (342)
Q Consensus       171 --------~~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~--------~~~~~p~~~~il~e~iskEPl--------  226 (342)
                              -..-.|-.+.-|++=|..|.=|.-+...+.+.-.-        +..-++++|.+|=.--++.|+        
T Consensus       170 ~G~~kC~~~~~e~Y~Gy~GAfRCL~eg~GDVAFvkhttV~e~~~g~~~~~wa~~~~~~dyeLLC~dGtr~pv~~~~~C~L  249 (332)
T smart00094      170 AGDNKCACSSHEPYYGYSGAFRCLAEGAGDVAFVKHSTVFENTDGKNGADWAKNLKRDDYELLCLDGTRKPVTEYKNCHL  249 (332)
T ss_pred             CCCCCCCCCCCCCCCCCCHHHHHHHCCCCCEEEEECCCHHHCCCCCCCCHHHHCCCHHHEEEECCCCCCCCHHHHCCCCC
T ss_conf             89987689988767574337776523998679981645542058866510221147111377899989788445032751


Q ss_pred             ------EEECCCCCHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             ------100027775799998877443311212330
Q gi|254780170|r  227 ------APAIIQGDTEWYNIVSWTHYAMVTAEELGI  256 (342)
Q Consensus       227 ------g~avr~gD~~w~d~V~W~~~ali~Aee~gi  256 (342)
                            ++++|.+.   ...+.|.+...  ++.+|-
T Consensus       250 a~vP~haVvtr~~~---~~~~~~~ll~~--~~~fg~  280 (332)
T smart00094      250 ARVPSHAVVARKDK---KEDVIWELLNQ--QQKFGK  280 (332)
T ss_pred             CCCCCCCEEECCCC---HHHHHHHHHHH--HHHHCC
T ss_conf             03788607966772---38999999999--999658


No 86 
>PRK09861 cytoplasmic membrane lipoprotein-28; Provisional
Probab=90.01  E-value=0.42  Score=27.31  Aligned_cols=94  Identities=15%  Similarity=0.008  Sum_probs=58.0

Q ss_pred             CCCCEEEEECCCHHH--HHHHHHH-HCCCCCCEEEECCHHHHHHHHHCCCEEE-EEECCHHHHHHHHHCCCCHHHCCCCC
Q ss_conf             786203431342699--9999998-6299850787479899999987396029-98250479999983678001002564
Q gi|254780170|r  144 SGASICVQAGTTTEL--TLADYFK-AHNMKYHPIVFERVEEIDAAYRAHRCDA-YTGDISALYALKLTNDRPSEHVILPD  219 (342)
Q Consensus       144 ~G~~I~v~~GTT~e~--~l~~~~~-~~~~~~~~v~~~~~~~a~~al~~Gr~DA-~~~D~s~La~~~~~~~~p~~~~il~e  219 (342)
                      +-.+||+..|...+.  .+....+ ..|++.+++.|.++.+.-.||.+|++|| +..-.+-|.....  .+..+.+.+. 
T Consensus        32 k~ikVG~~~~p~~~i~e~~~~~~~ek~G~~leiv~FsDy~~PN~AL~~G~iDaN~fQH~pyL~~~n~--~~g~~L~~v~-  108 (272)
T PRK09861         32 KHIKVGVINGAEQDVAEVAKKVAKEKYGLDVELVGFSGSLLPNDATNHGELDANVFQHRPFLEQDNQ--AHGYKLVAVG-  108 (272)
T ss_pred             CEEEEEECCCCHHHHHHHHHHHHHHHCCCEEEEEEECCCCCHHHHHHCCCCCCHHHHHHHHHHHHHH--HCCCCEEEEE-
T ss_conf             7389996789869999999988876179768999946862262897679836024557999999999--8699579973-


Q ss_pred             CCCCCCEEE-----------------ECCCCCHHHHHH
Q ss_conf             442371010-----------------002777579999
Q gi|254780170|r  220 IISKSPLAP-----------------AIIQGDTEWYNI  240 (342)
Q Consensus       220 ~iskEPlg~-----------------avr~gD~~w~d~  240 (342)
                      .+.-||+|+                 +++.+-+.....
T Consensus       109 ~~~~~P~glYS~K~ksl~dlp~Ga~IaIPnDpsN~~RA  146 (272)
T PRK09861        109 NTFVFPMAGYSKKIKTVAQIKEGATVAIPNDPTNLGRA  146 (272)
T ss_pred             EEEEEEEEECCCCCCCHHHCCCCCEEEECCCHHHHHHH
T ss_conf             16783014034465987584799989804781269999


No 87 
>PRK13583 hisG ATP phosphoribosyltransferase catalytic subunit; Provisional
Probab=89.91  E-value=1.7  Score=23.51  Aligned_cols=134  Identities=14%  Similarity=0.079  Sum_probs=79.1

Q ss_pred             EEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHC--CCCCCCCCCCC--CCEEEEEECC-CCCCCHHHHC-------
Q ss_conf             0259981431002677439627998124325320110--27843532234--4023463021-1347536417-------
Q gi|254780170|r   77 KIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREIS--LGLAFRPITYF--DGQGFIMHKK-KGISSVSQLS-------  144 (342)
Q Consensus        77 kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~--~~v~Fs~~~~~--dgq~~lVrk~-~~i~s~~dL~-------  144 (342)
                      .+++.-+-..+.-..+..|-+|+-+.+.-|-.|....  ..++-....=|  -...+.+++. ..+.+.+||+       
T Consensus        46 ~i~i~~~r~~DIp~yV~~G~~DlGItG~D~l~E~~~~~~~~v~~~~~LgfG~c~LvvAvP~~w~dv~s~~dl~~~~~~~~  125 (226)
T PRK13583         46 DVELLFLSASEIPRELGAGRVDLGVTGEDLVREKLADWDKRVEIVARLGFGHADLVVAVPEIWIDVDTMADLDDVAADFR  125 (226)
T ss_pred             CEEEEEECHHHHHHHHHCCCCCEEEEEHHHHHHCCCCCCCCEEEEECCCCCCEEEEEEECCCCCCCCCHHHHHHHHHHHH
T ss_conf             85899975556899997698656650225554224461452776321785616699994440135544000556645544


Q ss_pred             ---CCCEEEEECCCHHHHHHHHHHHCCCCC-CEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCC
Q ss_conf             ---862034313426999999998629985-078747989999998739602998250479999983678001002564
Q gi|254780170|r  145 ---GASICVQAGTTTELTLADYFKAHNMKY-HPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPD  219 (342)
Q Consensus       145 ---G~~I~v~~GTT~e~~l~~~~~~~~~~~-~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e  219 (342)
                         |+++-|  .|.+....++||+++|++. +++.....-|.  |-.-|-+|+++.=.+.=..+|.     +..+++++
T Consensus       126 ~~~~~~lrI--ATkyp~lt~~~f~~~gi~~~~ii~~~GavE~--aP~~GlaD~IVDiv~TG~TLk~-----NgLk~ie~  195 (226)
T PRK13583        126 ARHGRRLRI--ATKYWRLTQQFLSQKGVQDYRLVESLGATEG--APAAGSAEIIVDITSTGETLRA-----NHLKILSD  195 (226)
T ss_pred             HCCCCCEEE--EECCCHHHHHHHHHCCCCCCEEEECCCCCCC--CCCCCCCCEEEEEECCHHHHHH-----CCCEEECC
T ss_conf             214541476--4047326578898669964059977770213--5667873489998487588998-----79988048


No 88 
>PRK09906 DNA-binding transcriptional regulator HcaR; Provisional
Probab=89.28  E-value=1.9  Score=23.21  Aligned_cols=178  Identities=11%  Similarity=0.034  Sum_probs=104.4

Q ss_pred             HHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             85794999871789883068898988015099999999996798220259981431002677439627998124325320
Q gi|254780170|r   31 KKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLR  110 (342)
Q Consensus        31 k~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~R  110 (342)
                      ..+|.|++|+......           .+-.+++..+...-  ...+|++......+....|.+|++|+.+.....   .
T Consensus        87 ~~~~~l~ig~~~~~~~-----------~~lp~~l~~f~~~~--P~v~v~l~~~~~~~~~~~l~~g~~D~~i~~~~~---~  150 (296)
T PRK09906         87 QEDRQLTIGFVPSAEV-----------NLLPKVLPMFRLRH--PDTLIELVSLINTQQEEKLRRGELDVGFMRHPV---Y  150 (296)
T ss_pred             CCCCEEEEEECHHHHH-----------HHHHHHHHHHHHHC--CCCCEEEEECCCHHHHHHHHCCCCCEEEEECCC---C
T ss_conf             6771388321225699-----------99999999987408--986348997580899999986997679873688---9


Q ss_pred             HHCCCCCCCCCCCCCCEEEEEECCCC-----CCCHHHHCCCCEEEE---ECCCHHHHHHHHHHHCCCCCCEE-EECCHHH
Q ss_conf             11027843532234402346302113-----475364178620343---13426999999998629985078-7479899
Q gi|254780170|r  111 EISLGLAFRPITYFDGQGFIMHKKKG-----ISSVSQLSGASICVQ---AGTTTELTLADYFKAHNMKYHPI-VFERVEE  181 (342)
Q Consensus       111 d~~~~v~Fs~~~~~dgq~~lVrk~~~-----i~s~~dL~G~~I~v~---~GTT~e~~l~~~~~~~~~~~~~v-~~~~~~~  181 (342)
                        ..++.+. +.+-+.-.++++++..     --+++||.+...-+.   .+.+....+..++...+...+++ ..++...
T Consensus       151 --~~~l~~~-~l~~~~~~~~~~~~hpla~~~~i~~~dl~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~p~~~~~~~~~~~  227 (296)
T PRK09906        151 --SDEIDYL-ELLDEPLVVVLPVDHPLAHEKEITAAQLDGVNFISPDPAQSGSLAPIIKAWFAQHNSQPNIVQVATNILV  227 (296)
T ss_pred             --CCCEEEE-EEECCEEEEEEECCCCCCCCCCCCHHHHCCCCEEEECCCCCCCHHHHHHHHHHHCCCCCCEEEEECCHHH
T ss_conf             --9881899-8504607999828981005999899997599879636654760999999999977999746999898999


Q ss_pred             HHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCC--CCCCCCCEEEECCCCC
Q ss_conf             9999873960299825047999998367800100256--4442371010002777
Q gi|254780170|r  182 IDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILP--DIISKSPLAPAIIQGD  234 (342)
Q Consensus       182 a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~--e~iskEPlg~avr~gD  234 (342)
                      .......|-.=++.-+.   ..   .+ .+++.+++|  ...-.=++.++.|++.
T Consensus       228 ~~~~v~~G~Gi~~lP~~---~~---~~-~~~~l~~~pl~~~~~~~~~~l~~r~~~  275 (296)
T PRK09906        228 TMNLVGMGLGCTIIPGY---MN---NF-NTGQVVFRPLAGNVPSIALLMAWKKGE  275 (296)
T ss_pred             HHHHHHHCCEEEECHHH---HH---HH-CCCCEEEEECCCCCCEEEEEEEECCCC
T ss_conf             99999949899984587---73---10-689999998899987028999987999


No 89 
>PRK11716 DNA-binding transcriptional regulator IlvY; Provisional
Probab=88.69  E-value=2  Score=22.95  Aligned_cols=179  Identities=12%  Similarity=-0.010  Sum_probs=97.6

Q ss_pred             CCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHH
Q ss_conf             79499987178988306889898801509999999999679822025998143100267743962799812432532011
Q gi|254780170|r   33 RGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREI  112 (342)
Q Consensus        33 rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~  112 (342)
                      +|.|++|...... +++          =.++.+.+.+.-  ...++++...+..+.+..|.+|++|+.+.......    
T Consensus        66 ~G~lri~~~~t~~-~~~----------lp~~l~~f~~~~--P~v~~~l~~~~~~~~~~~l~~g~~D~ai~~~p~~~----  128 (269)
T PRK11716         66 SGELSLFCSVTAA-YSH----------LPPILDRFRAEH--PLVEIKLTTGDAADAVEKVQSGEADLAIAAKPETL----  128 (269)
T ss_pred             CCCEEEEECHHHH-HHH----------CCHHHHHHHHHC--CCCEEEEECCCHHHHHHHHHCCCCCEEEEECCCCC----
T ss_conf             6626998514887-775----------467899999988--89448984289999999998699558999378789----


Q ss_pred             CCCCCCCCCCCCCCEEEEEECCCC------CCCHHHHCCCCEEEEECCCHHHHHHHHHHHCCCCCCEE-EECCHHHHHHH
Q ss_conf             027843532234402346302113------47536417862034313426999999998629985078-74798999999
Q gi|254780170|r  113 SLGLAFRPITYFDGQGFIMHKKKG------ISSVSQLSGASICVQAGTTTELTLADYFKAHNMKYHPI-VFERVEEIDAA  185 (342)
Q Consensus       113 ~~~v~Fs~~~~~dgq~~lVrk~~~------i~s~~dL~G~~I~v~~GTT~e~~l~~~~~~~~~~~~~v-~~~~~~~a~~a  185 (342)
                      ..++.|. +.+-+...++++++..      ..+..||.....-....+.....+.+||++.++.-+++ .+.+.+...+.
T Consensus       129 ~~~l~~~-~l~~~~l~~v~p~~~~~~~~~~~~~~~dl~~~p~il~~~~~~r~~~~~~~~~~~~~p~i~~e~~~~~~i~~~  207 (269)
T PRK11716        129 PSSLAFS-PIDEIPLVLIAPALPCPVRQQVSQEKPDWSRIPFILPEHGPARRRIDLWFRRHKIKPNIYAQVSGHEAIVSM  207 (269)
T ss_pred             CCCEEEE-EEEEEEEEEEEECCCCHHHCCCCCCHHHHHCCCEEECCCCCHHHHHHHHHHHCCCCCCEEEEECCHHHHHHH
T ss_conf             9976999-965641899997884154363568844683386781589827999999999769997179998979999999


Q ss_pred             HHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCC--CCCCCCCEEEECCCCC
Q ss_conf             873960299825047999998367800100256--4442371010002777
Q gi|254780170|r  186 YRAHRCDAYTGDISALYALKLTNDRPSEHVILP--DIISKSPLAPAIIQGD  234 (342)
Q Consensus       186 l~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~--e~iskEPlg~avr~gD  234 (342)
                      +.+|--=++..+   ++...  ....+...+++  +....-.++.++|++-
T Consensus       208 V~~G~GiailP~---~~~~~--~~~~~~l~~l~~~~~~~~~~i~l~~~~~r  253 (269)
T PRK11716        208 VALGCGVGILPE---VVLDN--SPVRDRVQRLEVPPELTPFELGVCCQKKR  253 (269)
T ss_pred             HHHCCEEEEHHH---HHHHC--CCCCCCEEEEECCCCCCCEEEEEEEECCC
T ss_conf             997994172059---99832--75579889974899887369999997998


No 90 
>PRK10523 lipoprotein involved with copper homeostasis and adhesion; Provisional
Probab=87.57  E-value=0.94  Score=25.08  Aligned_cols=57  Identities=19%  Similarity=0.380  Sum_probs=39.2

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCC----------HHHHHHHH--CCEEEEEEECCCCCCEEECCCCCEE
Q ss_conf             913899999999999984012442----------16899985--7949998717898830688989880
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNA----------SILGDIKK--RGFLKCGINTGLVGFAEVKANGDWK   57 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a----------~tLd~Vk~--rG~L~vGv~~~~ppfs~~d~~G~~~   57 (342)
                      |||+++.+++++.++.+..|....          ..|.-+.+  +|+|-|+--.+.---=+.+++|.|+
T Consensus         2 mkk~~~~~~~a~g~~~l~GC~~r~~~~~~~~~~~~~lkpm~qsf~GvLPCADCsGI~ttL~L~~DGtfv   70 (234)
T PRK10523          2 MKKAILTALAAVGLFALMGCNNRAEVDTLSPAQAAELKPMQQSWRGVLPCADCEGIDTSLFLEKDGTWV   70 (234)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHCCCCHHHHHCCEEECCCCCCCEEEEEECCCCCEE
T ss_conf             058999999999999876346654346667532202670335534602034667843589986898789


No 91 
>PRK10852 thiosulfate transporter subunit; Provisional
Probab=87.53  E-value=2.4  Score=22.50  Aligned_cols=181  Identities=15%  Similarity=0.201  Sum_probs=84.0

Q ss_pred             CCCCCCCCEEEEEECCC--CCCCHHHHCCCCEEEE---E---CCCHHHHHHHHH---HHCCCC-C-----------CEEE
Q ss_conf             53223440234630211--3475364178620343---1---342699999999---862998-5-----------0787
Q gi|254780170|r  119 RPITYFDGQGFIMHKKK--GISSVSQLSGASICVQ---A---GTTTELTLADYF---KAHNMK-Y-----------HPIV  175 (342)
Q Consensus       119 s~~~~~dgq~~lVrk~~--~i~s~~dL~G~~I~v~---~---GTT~e~~l~~~~---~~~~~~-~-----------~~v~  175 (342)
                      +.| |++--.|+|||+.  +|+++.||--.-|-|+   .   |..--..|+.|-   +..|-+ .           ++..
T Consensus       115 s~p-ytStivFlVRkGNPK~IkdW~DL~k~gV~VItPNPKTSGgaRwnyLAAwg~a~~~~gg~e~~a~~fv~~l~~NVpV  193 (338)
T PRK10852        115 SSP-FYSTMGFLVRKGNPKNIHDWNDLVRSDVKLIFPNPKTSGNARYTYLAAWGAADKADGGDKAKTEQFMTQFLKNVEV  193 (338)
T ss_pred             CCC-EEEEEEEEEECCCCCCCCCHHHHCCCCCEEECCCCCCCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCC
T ss_conf             964-4667999980799566877577464897897579988840769999999999986499989999999999836851


Q ss_pred             ECCH-HHHHHHH-HCCCEEEEEECCHHHHHHHHHCCCCHHHC-CCCC-CCCCCCEEEEC-----CCCCHHHHHHHHHHHH
Q ss_conf             4798-9999998-73960299825047999998367800100-2564-44237101000-----2777579999887744
Q gi|254780170|r  176 FERV-EEIDAAY-RAHRCDAYTGDISALYALKLTNDRPSEHV-ILPD-IISKSPLAPAI-----IQGDTEWYNIVSWTHY  246 (342)
Q Consensus       176 ~~~~-~~a~~al-~~Gr~DA~~~D~s~La~~~~~~~~p~~~~-il~e-~iskEPlg~av-----r~gD~~w~d~V~W~~~  246 (342)
                      +++. -++...| +.|.-|++.+=-......+... .+++|. |.|. .|.-||--.+|     ++|-.+   +..--+.
T Consensus       194 ld~gaR~AT~tF~~rg~GDVLl~~ENEa~l~~~~~-g~~~~eiV~Ps~sIlae~pVAvVDk~vdk~GTr~---vA~AyL~  269 (338)
T PRK10852        194 FDTGGRGATTTFAERGLGDVLISFESEVNNIRKQY-EAQGFEVVIPKTNILAEFPVAWVDKNVQANGTEK---AAKAYLN  269 (338)
T ss_pred             CCCCCHHHHHHHHHCCCCCEEEEHHHHHHHHHHHH-CCCCCEEECCCCCEEECCCEEEEEECCCCCCCHH---HHHHHHH
T ss_conf             58971678899987386756752167899999960-8997149889975660697489860123458899---9999999


Q ss_pred             HHHHHHHHHCCHHHHHHHHHCCCCHHHHHHHCCCCCCCCHHHCCCCHHHHHHHHHHCCCHHHHHHHHCCCCC
Q ss_conf             331121233015208988622671778876235887650333799867999999971869998788648889
Q gi|254780170|r  247 AMVTAEELGITQKNINQVSKDTTNPDVQRFLGIDKSSNIGEALGLTKDWTYRIIRHMGNYGEMFDRNLGNQS  318 (342)
Q Consensus       247 ali~Aee~git~~nv~~~~~~s~~p~i~r~lg~~~~~~~g~~lgl~~~~~~~~i~~vGNYgei~~rnlg~~s  318 (342)
                      =|..-|..-|    +.+.---..||+|..=.. +.   +- .+.     ...|...-|...++-.+||.++-
T Consensus       270 yLyS~eaQ~i----~Ak~~yRP~~~~v~~~~~-~~---FP-~~~-----lfti~d~fGgW~~aq~~~F~dGg  327 (338)
T PRK10852        270 WLYSPQAQTI----ITDYYYRVNNPEVMDKLK-DK---FP-QTE-----LFRVEDKFGSWPEVMKTHFTSGG  327 (338)
T ss_pred             HHCCHHHHHH----HHHHCCCCCCHHHHHHHH-CC---CC-CCC-----EEEEECCCCCHHHHHHHHCCCCC
T ss_conf             8659899999----998089989978987764-54---99-851-----47653444898999998704885


No 92 
>TIGR00070 hisG ATP phosphoribosyltransferase; InterPro: IPR001348   ATP phosphoribosyltransferase (2.4.2.17 from EC) is the enzyme that catalyzes the first step in the biosynthesis of histidine in bacteria, fungi and plants as shown below. It is a member of the larger phosphoribosyltransferase superfamily of enzymes which catalyse the condensation of 5-phospho-alpha-D-ribose 1-diphosphate with nitrogenous bases in the presence of divalent metal ions .  ATP + 5-phospho-alpha-D-ribose 1-diphosphate = 1-(5-phospho-D-ribosyl)-ATP + diphosphate  Histidine biosynthesis is an energetically expensive process and ATP phosphoribosyltransferase activity is subject to control at several levels. Transcriptional regulation is based primarily on nutrient conditions and determines the amount of enzyme present in the cell, while feedback inihibition rapidly modulates activity in response to cellular conditions. The enzyme has been shown to be inhibited by 1-(5-phospho-D-ribosyl)-ATP, histidine, ppGpp (a signal associated with adverse environmental conditions) and ADP and AMP (which reflect the overall energy status of the cell). As this pathway of histidine biosynthesis is present only in prokayrotes, plants and fungi, this enzyme is a promising target for the development of novel antimicrobial compounds and herbicides.   This entry represents the two forms of ATP phosphoribosyltransferase: a long form containing two catalytic domains and a C-terminal regulatory domain, and a short form in which the regulatory domain is missing. The long form is catalytically competent, but in organisms with the short form, a histidyl-tRNA synthetase paralogue, HisZ, is required for enzyme activity .   The structures of the long form enzymes from Escherichia coli (P60757 from SWISSPROT) and Mycobacterium tuberculosis (P60759 from SWISSPROT) have been determined , . The enzyme itself exists in equilibrium between an active dimeric form, an inactive hexameric form and higher aggregates. Interconversion between the various forms is largely reversible and is influenced by the binding of the natural substrates and inhibitors of the enzyme. The two catalytic domains are linked by a two-stranded beta-sheet and togther form a "periplamsic binding protein fold". A crevice between these domains contains the active site. The C-terminal domain is not directly involved in catalysis but appears to be involved the formation of hexamers, induced by the binding of inhibitors such as histidine to the enzyme, thus regulating activity.; GO: 0003879 ATP phosphoribosyltransferase activity, 0000105 histidine biosynthetic process.
Probab=87.22  E-value=1.8  Score=23.30  Aligned_cols=187  Identities=13%  Similarity=0.061  Sum_probs=119.0

Q ss_pred             CEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCC----CHHC---CCCCCCCCCCCC--CEEEEEECCC--CCCCHHHHC
Q ss_conf             2025998143100267743962799812432532----0110---278435322344--0234630211--347536417
Q gi|254780170|r   76 SKIQYLPLNAKERFLALQSKQIDILSRNTDWTLL----REIS---LGLAFRPITYFD--GQGFIMHKKK--GISSVSQLS  144 (342)
Q Consensus        76 ~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~----Rd~~---~~v~Fs~~~~~d--gq~~lVrk~~--~i~s~~dL~  144 (342)
                      ..+++.-+-..+.=..+..|++|+-+-+.-+=.+    |...   ..|++..=.-|-  -..+.++.++  .+.+.+||.
T Consensus        44 ~~i~~~~~Ra~DiP~~V~~G~aDlGI~G~D~l~EE~L~~~~~~~~~~V~~l~dL~fG~c~L~vA~p~~~yP~~~~~~dl~  123 (317)
T TIGR00070        44 LPIKVLFVRAADIPTYVEDGVADLGITGEDVLREELLNRNVDSELKNVEILEDLNFGGCKLVVAVPEDSYPDYRGPEDLK  123 (317)
T ss_pred             CCEEEEEECCCCCCHHHHCCCEEEEEECCEEEEECHHCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCCCCCCCCCCCH
T ss_conf             76279983687774132266253348610244310111311146523255532689971368874701378768730001


Q ss_pred             ----CC--CEEEEECCCHHHHHHHHHHHCC------CCCCEEEECCHHHHHHHHHCCC--EEEEEECCHHHHHHHHHCCC
Q ss_conf             ----86--2034313426999999998629------9850787479899999987396--02998250479999983678
Q gi|254780170|r  145 ----GA--SICVQAGTTTELTLADYFKAHN------MKYHPIVFERVEEIDAAYRAHR--CDAYTGDISALYALKLTNDR  210 (342)
Q Consensus       145 ----G~--~I~v~~GTT~e~~l~~~~~~~~------~~~~~v~~~~~~~a~~al~~Gr--~DA~~~D~s~La~~~~~~~~  210 (342)
                          |+  +|+    |.+-.....||++++      ++++++.....-|+  |...|=  +|+++-=.|.=..+|.    
T Consensus       124 ~kvGg~ev~IA----T~FP~~a~~Yf~~~gGttvek~~~~i~~L~GSvE~--Ap~~G~PeAD~I~DLvstG~TL~~----  193 (317)
T TIGR00070       124 EKVGGKEVRIA----TEFPHLAKKYFRELGGTTVEKLSVEIIELNGSVEL--APLIGIPEADAIVDLVSTGTTLRE----  193 (317)
T ss_pred             HCCCCCEEEEE----ECCHHHHHHHHHHCCCCEEEEEEEEEEECCCCEEE--ECCCCCCCCCEEEEEECCHHHHHH----
T ss_conf             21589648998----26757999999861894466555799822263860--012789730002542111278975----


Q ss_pred             CHHHCCCCCCCC-C------CCEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCCCHHHHHHH
Q ss_conf             001002564442-3------710100027775799998877443311212330152089886226717788762
Q gi|254780170|r  211 PSEHVILPDIIS-K------SPLAPAIIQGDTEWYNIVSWTHYAMVTAEELGITQKNINQVSKDTTNPDVQRFL  277 (342)
Q Consensus       211 p~~~~il~e~is-k------EPlg~avr~gD~~w~d~V~W~~~ali~Aee~git~~nv~~~~~~s~~p~i~r~l  277 (342)
                       +-.+.....++ .      .|.+.. .++|.+.-+-..--+..-|+||+.-.-=-|+..   +-.=++|+.+|
T Consensus       194 -NgL~~id~i~~ks~a~LI~N~~S~~-~~~~~~~i~~l~~~i~~V~~a~~~~~~m~naP~---ed~L~~i~~ll  262 (317)
T TIGR00070       194 -NGLREIDVILDKSSARLIANRESYK-DKSKKQLIDELVTRIKGVIEAETKKSIMLNAPK---EDKLEEIIALL  262 (317)
T ss_pred             -CCCEEEEEEECCEEEEEEECCCCCC-CCCCHHHHHHHHHHHHHHHCCCCEEEEEEECCC---CCCHHHHHHHC
T ss_conf             -3968898884240378843675568-641079999999877776400405699986787---55648899735


No 93 
>COG4588 AcfC Accessory colonization factor AcfC, contains ABC-type periplasmic domain [General function prediction only]
Probab=87.09  E-value=2.5  Score=22.34  Aligned_cols=130  Identities=16%  Similarity=0.179  Sum_probs=71.5

Q ss_pred             HHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCC-HHCCCCCCC----CCCCCCCEEEEEECCC
Q ss_conf             99999999996798220259981431002677439627998124325320-110278435----3223440234630211
Q gi|254780170|r   61 VDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLR-EISLGLAFR----PITYFDGQGFIMHKKK  135 (342)
Q Consensus        61 VDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~R-d~~~~v~Fs----~~~~~dgq~~lVrk~~  135 (342)
                      .|++.-.....+   .||+..- -+..-...=..+..|+++++.+....- .....=+||    .|.|+-...++|+++.
T Consensus        36 ~~vA~~~~ektg---~kVnvt~-GPq~tW~~kAkknADilfgaseqsalaia~~~~~~fs~~~i~ply~R~aiIlvkkgN  111 (252)
T COG4588          36 KDVAKKYEEKTG---IKVNVTA-GPQATWNEKAKKNADILFGASEQSALAIAEDHKDSFSEKNIQPLYLRPAIILVKKGN  111 (252)
T ss_pred             HHHHHHHHHHHC---EEEEEEC-CCCCHHHHHHHCCCCEEECCCHHHHHHHHHHCCCCCCCCCCCEEEEECEEEEECCCC
T ss_conf             999999878748---0799941-886104456413674564164888999998563335520253135402179962799


Q ss_pred             --CCCCHHHHC--CCCEEEEECCC---------HH------HHHHHHHHHCCCCCCEEEE-CCHHHHHHHHHC-CCEEEE
Q ss_conf             --347536417--86203431342---------69------9999999862998507874-798999999873-960299
Q gi|254780170|r  136 --GISSVSQLS--GASICVQAGTT---------TE------LTLADYFKAHNMKYHPIVF-ERVEEIDAAYRA-HRCDAY  194 (342)
Q Consensus       136 --~i~s~~dL~--G~~I~v~~GTT---------~e------~~l~~~~~~~~~~~~~v~~-~~~~~a~~al~~-Gr~DA~  194 (342)
                        +|++++||-  |..|.|..|.-         .|      .++++...   ..-+++.| ++...++.++.+ -.+||.
T Consensus       112 PknIk~~eDll~~gi~ivV~dGaG~sntsgtgvwED~agr~~~ie~v~a---fR~NI~~fapnSgaArkaf~~~~~aDaw  188 (252)
T COG4588         112 PKNIKGFEDLLKPGIGIVVNDGAGVSNTSGTGVWEDIAGRKGNIETVAA---FRKNIVAFAPNSGAARKAFENQPDADAW  188 (252)
T ss_pred             CCCCCCHHHHHCCCCEEEEECCCCCCCCCCCEEHHHHHCCCCCHHHHHH---HHHCEEEECCCCCHHHHHHHCCCCCCEE
T ss_conf             5444568887057862998379764477772204865410114889999---8852389746870489998549998558


Q ss_pred             EEC
Q ss_conf             825
Q gi|254780170|r  195 TGD  197 (342)
Q Consensus       195 ~~D  197 (342)
                      ++=
T Consensus       189 ItW  191 (252)
T COG4588         189 ITW  191 (252)
T ss_pred             EEE
T ss_conf             870


No 94 
>PRK09508 leuO leucine transcriptional activator; Reviewed
Probab=86.92  E-value=2.6  Score=22.28  Aligned_cols=141  Identities=8%  Similarity=-0.058  Sum_probs=82.5

Q ss_pred             CEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCCCCCCEEEEEECCCC----CCCHHHHCCCCEEEE
Q ss_conf             2025998143100267743962799812432532011027843532234402346302113----475364178620343
Q gi|254780170|r   76 SKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMHKKKG----ISSVSQLSGASICVQ  151 (342)
Q Consensus        76 ~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVrk~~~----i~s~~dL~G~~I~v~  151 (342)
                      ..+++.+....+....|.+|++|++++......     .++.+ .+.|.|...++++++-.    --+.+++......+.
T Consensus       141 v~l~~~~~~~~~~~~~L~~g~iDl~I~~~~~~~-----~~~~~-~~L~~d~~v~v~~~~HP~~~~~lt~~~~~~~~hv~~  214 (314)
T PRK09508        141 IHLVFKSSLNQNIEHQLRYQETEFVISYEEFDR-----PEFTS-VPLFKDELVLVASKNHPRIKGPILEEQLYNEQHAVV  214 (314)
T ss_pred             CEEEEEECCCHHHHHHHHCCCCCEEEECCCCCC-----CCCEE-EEEEECCEEEEECCCCCCCCCCCCHHHHHHCCCEEE
T ss_conf             779998577064999997699529996787799-----87348-999724649998299976789999999961998899


Q ss_pred             --ECCCHHHHHHHHHHHCCCCCCEE-EECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCCCCEEE
Q ss_conf             --13426999999998629985078-747989999998739602998250479999983678001002564442371010
Q gi|254780170|r  152 --AGTTTELTLADYFKAHNMKYHPI-VFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDIISKSPLAP  228 (342)
Q Consensus       152 --~GTT~e~~l~~~~~~~~~~~~~v-~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~iskEPlg~  228 (342)
                        .|..  .....++...+..-.+. ...+...+..-+..+  |.++.=-..++-.   +.+-....++|-++..+++..
T Consensus       215 s~~~~~--~~~~~~l~~~~~~r~i~~~~~s~~~~~~lv~~t--d~ia~lP~~~a~~---~~~~~~l~~~~lP~~~~~~~~  287 (314)
T PRK09508        215 SLDRFA--SFSQPWYDTVDKQASIAYQGMALSSVLNVVSQT--HLVAIAPRWLAEE---FAESLELQILPLPLKNNSRTC  287 (314)
T ss_pred             ECCCCC--CHHHHHHHHCCCCCEEEEEECCHHHHHHHHHHC--CEEEHHHHHHHHH---HHHCCCCEEECCCCCCCCEEE
T ss_conf             639988--589999995798631899958899999999839--9775899999998---644299579789989887369


Q ss_pred             E
Q ss_conf             0
Q gi|254780170|r  229 A  229 (342)
Q Consensus       229 a  229 (342)
                      .
T Consensus       288 ~  288 (314)
T PRK09508        288 Y  288 (314)
T ss_pred             E
T ss_conf             9


No 95 
>COG0001 HemL Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]
Probab=84.88  E-value=1.5  Score=23.80  Aligned_cols=115  Identities=13%  Similarity=0.217  Sum_probs=56.8

Q ss_pred             CCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCCCCCCEEEEEEC
Q ss_conf             98801509999999999679822025998143100267743962799812432532011027843532234402346302
Q gi|254780170|r   54 GDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMHK  133 (342)
Q Consensus        54 G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVrk  133 (342)
                      |.++=.++++++.|...+. ...+|+|+..-..--..++.      ++++.|   .|++.  +-|..-|.-..-.++|+.
T Consensus        89 g~Pte~Ei~~Aell~~~~p-~~e~vrfvnSGTEAtmsAiR------lARa~T---gR~kI--ikF~G~YHG~~D~~lv~a  156 (432)
T COG0001          89 GAPTELEVELAELLIERVP-SIEKVRFVNSGTEATMSAIR------LARAYT---GRDKI--IKFEGCYHGHSDSLLVKA  156 (432)
T ss_pred             CCCCHHHHHHHHHHHHHCC-CCCEEEEECCHHHHHHHHHH------HHHHHH---CCCEE--EEECCCCCCCCCHHHHHC
T ss_conf             8997789999999998658-65089986064089999999------998764---79759--997288888711878426


Q ss_pred             CCCCCCH--HHHCCCCEEEEECCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCC--CEEEEEEC
Q ss_conf             1134753--6417862034313426999999998629985078747989999998739--60299825
Q gi|254780170|r  134 KKGISSV--SQLSGASICVQAGTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYRAH--RCDAYTGD  197 (342)
Q Consensus       134 ~~~i~s~--~dL~G~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~G--r~DA~~~D  197 (342)
                      +|+..++  .+..|..-.+.+-                 .-+++|.+.+....++...  ++-|+...
T Consensus       157 gsg~~t~g~p~s~Gvp~~~a~~-----------------ti~~~yND~~al~~~~~~~g~~IAaVIvE  207 (432)
T COG0001         157 GSGAATLGSPSSPGVPADVAKH-----------------TLVLPYNDLEALEEAFEEYGDDIAAVIVE  207 (432)
T ss_pred             CCCCCCCCCCCCCCCCHHHHCC-----------------EEEECCCCHHHHHHHHHHCCCCEEEEEEC
T ss_conf             7675557899999997345344-----------------78845799999999998768967999954


No 96 
>PRK11898 prephenate dehydratase; Provisional
Probab=84.82  E-value=2  Score=23.00  Aligned_cols=131  Identities=10%  Similarity=0.065  Sum_probs=64.5

Q ss_pred             HHHHHHHHHCCCCCEEEEEE-CCCCCCHHHHHCCCEEEEEECCCCCCC------CHHCC---CCCCCC-CCCCCCEEEEE
Q ss_conf             99999999679822025998-143100267743962799812432532------01102---784353-22344023463
Q gi|254780170|r   63 FCRALSSAIFDDPSKIQYLP-LNAKERFLALQSKQIDILSRNTDWTLL------REISL---GLAFRP-ITYFDGQGFIM  131 (342)
Q Consensus        63 l~raiAaal~gd~~kVe~v~-~~~~~rf~aL~sG~vDil~~~~T~T~~------Rd~~~---~v~Fs~-~~~~dgq~~lV  131 (342)
                      +...-|...++. ..+++++ .++.+.|.++.+|++|..+=..--+.+      -|...   .+.-.. .++--.+.+++
T Consensus        13 fS~~Aa~~~f~~-~~~~~~~~~s~~~vf~aV~~g~~d~gvvPiENS~~G~V~~t~D~L~~~~~l~I~gE~~l~I~h~Ll~   91 (285)
T PRK11898         13 FTEAAALKFFPA-GEAELVPYDSIPDVLDAVEAGEVDYAVVPIENSIEGSVNPTLDYLAHGSPLQIVAEIVLPIAQHLLV   91 (285)
T ss_pred             HHHHHHHHHCCC-CCCEEEECCCHHHHHHHHHCCCCCEEEEEEECCCCEECHHHHHHHHCCCCCEEEEEEEEEEEEEEEC
T ss_conf             899999986486-8952786699999999997799877998780458467099899872059958999999877469862


Q ss_pred             ECCCCCCCHHHHCCCCEEEEECCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCCC---EEEEEECCHHHHHHH
Q ss_conf             02113475364178620343134269999999986299850787479899999987396---029982504799999
Q gi|254780170|r  132 HKKKGISSVSQLSGASICVQAGTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYRAHR---CDAYTGDISALYALK  205 (342)
Q Consensus       132 rk~~~i~s~~dL~G~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr---~DA~~~D~s~La~~~  205 (342)
                      +..    +++++  ++|-...-  ....-..|++++-+.++++.+.+..++.+.+....   +-|+.+   .+++..
T Consensus        92 ~~~----~l~~I--~~V~SHpq--al~QC~~~L~~~~p~~~~v~~~sTa~Aa~~v~~~~~~~~AAIas---~~aa~~  157 (285)
T PRK11898         92 RPG----HLADI--RTVYSHPQ--ALAQCRKWLAEHLPGAELEPANSTAAAAQYVAEHPAEPIAAIAS---ERAAEL  157 (285)
T ss_pred             CCC----CHHHC--EEEEECHH--HHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHCCCCCEEECCH---HHHHHH
T ss_conf             799----86558--37872347--99999999997388868999075899999998489977144044---766212


No 97 
>TIGR00713 hemL glutamate-1-semialdehyde-2,1-aminomutase; InterPro: IPR004639   Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway . The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin .   The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA.   The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III.   Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) .   This entry represents glutamate-1-semialdehyde (GSA) aminotransferase (5.4.3.8 from EC), which catalyse a transamination reaction to produce 5-aminoaevulinic acid during the first stage of tetrapyrrole biosynthesis by the C5 pathway , . This enzyme has a high degree of similarity to amino acid transaminases, and is classed as a class III aminotransferase.; GO: 0042286 glutamate-1-semialdehyde 21-aminomutase activity, 0033014 tetrapyrrole biosynthetic process.
Probab=83.56  E-value=2.7  Score=22.14  Aligned_cols=116  Identities=10%  Similarity=0.161  Sum_probs=69.5

Q ss_pred             CCEEEEHHHHHHHHHHHHCCC-CCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCCCCCCEEEEEE
Q ss_conf             988015099999999996798-2202599814310026774396279981243253201102784353223440234630
Q gi|254780170|r   54 GDWKGFDVDFCRALSSAIFDD-PSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMH  132 (342)
Q Consensus        54 G~~~GfDVDl~raiAaal~gd-~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVr  132 (342)
                      |-++=-+|.|++.|-..+-.- ..||+||..-..--.+|++      |+|+.|   .|+..  |-|.+-|-=..=.+||+
T Consensus        84 G~PtE~Ei~lA~~i~~~v~~~t~e~vRfVnSGTEATMsAvR------LARG~T---GR~~I--iKFeGcYHGh~D~lLv~  152 (434)
T TIGR00713        84 GAPTEAEILLAKEIISRVPSVTEEMVRFVNSGTEATMSAVR------LARGFT---GRDKI--IKFEGCYHGHHDALLVK  152 (434)
T ss_pred             CCCCHHHHHHHHHHHHHCCCCCCCEEEEECCCCHHHHHHHH------HHHHCC---CCCCE--EEECCCCCCCHHHHCCC
T ss_conf             89988999999999864055546516862176488999999------863105---88727--88617641012320035


Q ss_pred             CCCCCCCHHH---HC--CCCEEEEECCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCC--CEEEEEEC
Q ss_conf             2113475364---17--862034313426999999998629985078747989999998739--60299825
Q gi|254780170|r  133 KKKGISSVSQ---LS--GASICVQAGTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYRAH--RCDAYTGD  197 (342)
Q Consensus       133 k~~~i~s~~d---L~--G~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~G--r~DA~~~D  197 (342)
                      ..|+..+...   .+  |..-.+.+-|                 -.++|.+.+..-++++..  ++-+++.-
T Consensus       153 AGSGaaT~g~CG~P~SpGvP~~~~k~T-----------------l~~PYND~~a~~~~f~~~G~~iAgvIvE  207 (434)
T TIGR00713       153 AGSGAATLGSCGLPTSPGVPEDFAKLT-----------------LVLPYNDLEALEEAFEEYGEEIAGVIVE  207 (434)
T ss_pred             CCCHHHCCCCCCCCCCCCCHHHHHHHC-----------------CCCCCCCHHHHHHHHHHCCCCEEEEEEC
T ss_conf             452101046887788888701143113-----------------4045173899999998679834378861


No 98 
>PRK11062 nhaR transcriptional activator NhaR; Provisional
Probab=83.42  E-value=3.8  Score=21.25  Aligned_cols=145  Identities=13%  Similarity=0.117  Sum_probs=82.0

Q ss_pred             CCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEE--ECCCCCCHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             7949998717898830688989880150999999999967982202599--81431002677439627998124325320
Q gi|254780170|r   33 RGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYL--PLNAKERFLALQSKQIDILSRNTDWTLLR  110 (342)
Q Consensus        33 rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v--~~~~~~rf~aL~sG~vDil~~~~T~T~~R  110 (342)
                      ++.+++|+....+..           |   +.+-+...+..+ .+|+++  .-+..+.+..|..+++|++..+.......
T Consensus        92 ~~~lrvGi~~tl~k~-----------~---~~~lL~~~~~~~-~~v~l~~~eg~~~~LL~~L~~~~LDlvLsd~p~~~~~  156 (296)
T PRK11062         92 NLLFDVGVADALSKR-----------L---VSRVLLAAVPED-ESIHLRCFESTHEMLLEQLSQHKLDMILSDCPVDSTQ  156 (296)
T ss_pred             CCEEEEEEHHHHHHH-----------H---HHHHHHHHHHCC-CCEEEEEECCCHHHHHHHHHCCCCCEEEECCCCCCCC
T ss_conf             705999852464698-----------9---999999997228-9779999349879999999838987576068887556


Q ss_pred             HHCCCCCCCCCCCCCCEEEEEECCCC-CCCHHHHCCCCEEEEE-CCCHHHHHHHHHHHCCCCCCEE-EECCHHHHHHHHH
Q ss_conf             11027843532234402346302113-4753641786203431-3426999999998629985078-7479899999987
Q gi|254780170|r  111 EISLGLAFRPITYFDGQGFIMHKKKG-ISSVSQLSGASICVQA-GTTTELTLADYFKAHNMKYHPI-VFERVEEIDAAYR  187 (342)
Q Consensus       111 d~~~~v~Fs~~~~~dgq~~lVrk~~~-i~s~~dL~G~~I~v~~-GTT~e~~l~~~~~~~~~~~~~v-~~~~~~~a~~al~  187 (342)
                        .. --|+.+....+-.++.+++.. .....+|++...-... +|..-..+..||+++++.-.++ .|++.+-....-.
T Consensus       157 --~~-~~~s~~L~~~~v~~~~~~~l~~~~fP~~L~~~plllp~~~S~lR~~ld~wf~~~gI~P~Iv~E~dD~allk~~a~  233 (296)
T PRK11062        157 --QE-GLFSKKLGECGVSFFCTNPLPEKPFPACLEERRLLIPGRRTMLGRKLLNWFNSQGLNVEILGEFDDAALMKAFGA  233 (296)
T ss_pred             --CC-CEEEEECCCCCEEEEECCCCCCCCCHHHHCCCCCCCCCCCCHHHHHHHHHHHHCCCCCEEEEEECCHHHHHHHHH
T ss_conf             --88-638987466846898457444587957755798402799875899999999968998449998598999999998


Q ss_pred             CCCEEEEE
Q ss_conf             39602998
Q gi|254780170|r  188 AHRCDAYT  195 (342)
Q Consensus       188 ~Gr~DA~~  195 (342)
                      .|-.=++.
T Consensus       234 ~G~Gva~~  241 (296)
T PRK11062        234 YHDAIFVA  241 (296)
T ss_pred             HCCCEEEC
T ss_conf             19988987


No 99 
>PRK13584 hisG ATP phosphoribosyltransferase catalytic subunit; Provisional
Probab=83.25  E-value=3.6  Score=21.37  Aligned_cols=107  Identities=16%  Similarity=0.141  Sum_probs=66.4

Q ss_pred             EEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCCCCCCEEEEEECCCCCCCHHHHCCCCEEEEECCCH
Q ss_conf             02599814310026774396279981243253201102784353223440234630211347536417862034313426
Q gi|254780170|r   77 KIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMHKKKGISSVSQLSGASICVQAGTTT  156 (342)
Q Consensus        77 kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVrk~~~i~s~~dL~G~~I~v~~GTT~  156 (342)
                      .+++.-+-.++.-..+..|.+|+-+.+.-|=.|.+... ..... .-|..-.+.+-.     ..+..++++|+    |.+
T Consensus        44 ~i~~~~vR~~DIp~yV~~G~~DiGIvG~D~l~E~~~~v-~~lld-L~~G~crl~vA~-----~~~~~~~~rIA----TkY  112 (204)
T PRK13584         44 NIECILVKGSDVPIYVEQGMADIGIVGSDILDERQYNV-NNLLN-MPFGACHFAVAA-----KPETTNYRKIA----TSY  112 (204)
T ss_pred             CEEEEEECHHHHHHHHHCCCCCEEEECCHHHHCCCCCE-EEEEC-CCCCCEEEEEEE-----CCCCCCCCEEE----EEH
T ss_conf             87999988688899997498657752642022268981-47652-676747899996-----67756787898----725


Q ss_pred             HHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCCCEEEEEE
Q ss_conf             9999999986299850787479899999987396029982
Q gi|254780170|r  157 ELTLADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDAYTG  196 (342)
Q Consensus       157 e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA~~~  196 (342)
                      ....++||+++|++++++.....-|.  |-..|=+|+++.
T Consensus       113 p~it~~~f~~~gi~~eii~l~GsvEl--AP~~GlAD~IvD  150 (204)
T PRK13584        113 VHTAETYFKSKGIDVELIKLNGSVEL--ACVVDMVDGIVD  150 (204)
T ss_pred             HHHHHHHHHHCCCCEEEEEEEEEEEE--CCCCCCCCEEEE
T ss_conf             77999999970995289997536853--678887558999


No 100
>PRK10622 pheA bifunctional chorismate mutase/prephenate dehydratase; Provisional
Probab=83.19  E-value=2.9  Score=22.01  Aligned_cols=137  Identities=11%  Similarity=0.085  Sum_probs=62.4

Q ss_pred             CCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEE---CCCCCCHHHHHCCCEEEEEECCCCCCC------CHHCCCC
Q ss_conf             8306889898801509999999999679822025998---143100267743962799812432532------0110278
Q gi|254780170|r   46 GFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLP---LNAKERFLALQSKQIDILSRNTDWTLL------REISLGL  116 (342)
Q Consensus        46 pfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~---~~~~~rf~aL~sG~vDil~~~~T~T~~------Rd~~~~v  116 (342)
                      -.+|..+.|.++=   .-|+..+..-+     -++++   .++.+.|.++.+|++|..+=..--+.+      =|.-.  
T Consensus       105 kVayLGp~GtfS~---~Aa~~~~~~~~-----~~~~~~~~~~i~dVf~aVe~g~adygVvPiENS~eG~V~~tlDlL~--  174 (386)
T PRK10622        105 RIAFLGPKGSYSH---LAARQYAARHF-----EQFIESGCAKFADIFNQVETGQADYAVVPIENTSSGAINDVYDLLQ--  174 (386)
T ss_pred             EEEEECCCCCHHH---HHHHHHHHHHC-----CCCCCCCCCCHHHHHHHHHCCCCCEEEEEEECCCEEEHHHHHHHHH--
T ss_conf             5998789975699---99999876424-----4333478799999999997699886788650477013999999983--


Q ss_pred             CCCCCCCCCCEEEE-EECCCCCCCHHHHCC-CCEEEEECCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHC-C--CE
Q ss_conf             43532234402346-302113475364178-6203431342699999999862998507874798999999873-9--60
Q gi|254780170|r  117 AFRPITYFDGQGFI-MHKKKGISSVSQLSG-ASICVQAGTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYRA-H--RC  191 (342)
Q Consensus       117 ~Fs~~~~~dgq~~l-Vrk~~~i~s~~dL~G-~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~-G--r~  191 (342)
                      . + ..+.-|...+ ++-..=...-.+|+. ++|....-.-  .--..|++. .+.++++.+++...+.+.+.. +  .+
T Consensus       175 ~-~-~l~I~gE~~l~I~h~Ll~~~~~~l~~Ik~VySHpqAl--~QC~~~L~~-~p~~~~~~~~sTa~Aa~~v~~~~~~~~  249 (386)
T PRK10622        175 H-T-SLSIVGEMTLTIDHCVLVSGTTDLSTIETVYSHPQPF--QQCSKFLNR-YPHWKIEYTESTSAAMEKVAQANSPHV  249 (386)
T ss_pred             C-C-CCEEEEEEEEEEEEEEECCCCCCHHHCEEEEEEHHHH--HHHHHHHHH-CCCCCEEEECCCHHHHHHHHCCCCCCH
T ss_conf             5-9-9889999997635423068999844464898765799--999999997-899845970780999999862799431


Q ss_pred             EEEEEC
Q ss_conf             299825
Q gi|254780170|r  192 DAYTGD  197 (342)
Q Consensus       192 DA~~~D  197 (342)
                      -|+.+.
T Consensus       250 AAIas~  255 (386)
T PRK10622        250 AALGSE  255 (386)
T ss_pred             HHHCHH
T ss_conf             230348


No 101
>PRK11899 prephenate dehydratase; Provisional
Probab=81.14  E-value=4.3  Score=20.88  Aligned_cols=130  Identities=12%  Similarity=0.077  Sum_probs=57.6

Q ss_pred             EEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEE-CCCCCCHHHHHCCCEEEEEECCCCCCC------CHHCCCCC--C
Q ss_conf             06889898801509999999999679822025998-143100267743962799812432532------01102784--3
Q gi|254780170|r   48 AEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLP-LNAKERFLALQSKQIDILSRNTDWTLL------REISLGLA--F  118 (342)
Q Consensus        48 s~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~-~~~~~rf~aL~sG~vDil~~~~T~T~~------Rd~~~~v~--F  118 (342)
                      +|..+.|.+       ...-|...+++   .+.++ -++.+.|.++.+|++|..+=..--+.+      -|....-+  -
T Consensus         8 ayLGp~Gtf-------S~~Aa~~~f~~---~~~v~~~s~~~vf~aV~~g~~d~gvvPiENS~eG~V~~~~dll~~~~l~I   77 (284)
T PRK11899          8 AFQGEPGAN-------SHIACRDAFPD---MEPLPCATFEDAFEAVESGEADLAMIPIENSLAGRVADIHHLLPESGLHI   77 (284)
T ss_pred             EEECCCCCH-------HHHHHHHHCCC---CCEECCCCHHHHHHHHHCCCCCEEEEEECCCCEEEHHHHHHHHCCCCCEE
T ss_conf             998999858-------99999987699---73660699999999997799887998641676475688898757389879


Q ss_pred             CC-CCCCCCEEEEEECCCCCCCHHHHCCCCEEEEECCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHH-CC--CEEEE
Q ss_conf             53-2234402346302113475364178620343134269999999986299850787479899999987-39--60299
Q gi|254780170|r  119 RP-ITYFDGQGFIMHKKKGISSVSQLSGASICVQAGTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYR-AH--RCDAY  194 (342)
Q Consensus       119 s~-~~~~dgq~~lVrk~~~i~s~~dL~G~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~-~G--r~DA~  194 (342)
                      .. .++--.+.++++++..+..+     ++|....-.  ...-..|+++++  .+.+.+.+..++.+... .+  .+-|+
T Consensus        78 ~~E~~l~I~h~L~~~~~~~l~~I-----~~VySHPqa--l~QC~~~L~~~~--~~~~~~~sta~Aa~~v~~~~~~~~AAI  148 (284)
T PRK11899         78 VGEYFLPIHHQLMALPGATLEDI-----KTVHSHPHA--LGQCRKIIRALG--LKPVVAADTAGAAREVAERGDPSMAAL  148 (284)
T ss_pred             EEEEEEEEEEEEEECCCCCHHHC-----EEEEEEHHH--HHHHHHHHHHCC--CCEEEECCCHHHHHHHHHCCCCCEEEC
T ss_conf             99886501145640799985417-----799975489--999999999769--824994380999999996699870110


Q ss_pred             EE
Q ss_conf             82
Q gi|254780170|r  195 TG  196 (342)
Q Consensus       195 ~~  196 (342)
                      .+
T Consensus       149 ~s  150 (284)
T PRK11899        149 AS  150 (284)
T ss_pred             CH
T ss_conf             60


No 102
>PRK09701 D-allose transporter subunit; Provisional
Probab=81.05  E-value=4.6  Score=20.70  Aligned_cols=82  Identities=12%  Similarity=-0.036  Sum_probs=38.4

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEE
Q ss_conf             91389999999999998401244216899985794999871789883068898988015099999999996798220259
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQY   80 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~   80 (342)
                      |||.+.+...+++.+++++.++++.+         +-+-+..---||-..         -.+=++.-|++++   .++++
T Consensus         1 m~k~~~~~~~~~~~~~~~~~a~a~~~---------iavi~k~~~npf~~~---------~~~Ga~~aAk~~G---~~v~v   59 (311)
T PRK09701          1 MNKYLKYFSGTLVGLMLSTSAFAAAE---------YAVVLKTLSNPFWVD---------MKKGIEDEAKTLG---VSVDI   59 (311)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHCCC---------EEEEECCCCCHHHHH---------HHHHHHHHHHHHC---CEEEE
T ss_conf             93699999999999998887743684---------999968889989999---------9999999999869---97999


Q ss_pred             EECCC----C---CCHHHHHCCCEEEEEEC
Q ss_conf             98143----1---00267743962799812
Q gi|254780170|r   81 LPLNA----K---ERFLALQSKQIDILSRN  103 (342)
Q Consensus        81 v~~~~----~---~rf~aL~sG~vDil~~~  103 (342)
                      ...+.    .   +.+..+.+..+|.++-+
T Consensus        60 ~~~~~~~D~~~Qi~~Ie~~I~~gvdaIii~   89 (311)
T PRK09701         60 FASPSEGDFQSQLQLFEDLSNKNYKGIAFA   89 (311)
T ss_pred             EECCCCCCHHHHHHHHHHHHHCCCCEEEEE
T ss_conf             927987899999999999997599999991


No 103
>pfam00800 PDT Prephenate dehydratase. This protein is involved in Phenylalanine biosynthesis. This protein catalyses the decarboxylation of prephenate to phenylpyruvate.
Probab=81.00  E-value=2.5  Score=22.33  Aligned_cols=118  Identities=8%  Similarity=0.124  Sum_probs=60.5

Q ss_pred             HHHHHHHCCCCCEEEEEEC-CCCCCHHHHHCCCEEEEEECCCCCC------CCHHCCCCCCCCCCCC------CCEEEEE
Q ss_conf             9999996798220259981-4310026774396279981243253------2011027843532234------4023463
Q gi|254780170|r   65 RALSSAIFDDPSKIQYLPL-NAKERFLALQSKQIDILSRNTDWTL------LREISLGLAFRPITYF------DGQGFIM  131 (342)
Q Consensus        65 raiAaal~gd~~kVe~v~~-~~~~rf~aL~sG~vDil~~~~T~T~------~Rd~~~~v~Fs~~~~~------dgq~~lV  131 (342)
                      ..-|...+++  .+++++. ++.+.|.++.+|++|..+-..--+.      .-|...  ++ +.+.+      -.+.+++
T Consensus        12 ~~Aa~~~~~~--~~~~~~~~s~~~v~~av~~g~~d~gvvPiENS~~G~V~~~~DlL~--~~-~l~I~~E~~l~I~~~L~~   86 (181)
T pfam00800        12 EQAALKLFGQ--SVELVPCPSIEDVFEAVENGEADYAVVPIENSIEGSVNETLDLLL--ES-DLKIVGEVVLPIHHCLLA   86 (181)
T ss_pred             HHHHHHHCCC--CCCEEECCCHHHHHHHHHCCCCCEEEEECCCCCCCCHHHHHHHHH--HC-CCEEEEEEEEEEEEEEEC
T ss_conf             9999986399--883786699999999997799866776221245556789999998--49-987999998622100101


Q ss_pred             ECCCCCCCHHHHCC-CCEEEEECCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHH--CCCEEEEE
Q ss_conf             02113475364178-620343134269999999986299850787479899999987--39602998
Q gi|254780170|r  132 HKKKGISSVSQLSG-ASICVQAGTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYR--AHRCDAYT  195 (342)
Q Consensus       132 rk~~~i~s~~dL~G-~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~--~Gr~DA~~  195 (342)
                      +++..      |+. ++|....-  ...--..|++++.+.++++...+...+.+.+.  .++-+|.+
T Consensus        87 ~~~~~------l~~I~~V~SHpq--al~QC~~~l~~~~p~~~~~~~~sTa~Aa~~v~~~~~~~~aAI  145 (181)
T pfam00800        87 RPGTD------LEDIKTVYSHPQ--ALAQCREFLEKHLPGAERVPVSSTAAAAKIVAAEGDKGAAAI  145 (181)
T ss_pred             CCCCC------CCCCEEEEEEHH--HHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHCCCCCEEEE
T ss_conf             79986------012117884279--999999999984899889982765999999995699881340


No 104
>PRK11873 arsM arsenite S-adenosylmethyltransferase; Reviewed
Probab=76.73  E-value=6.2  Score=19.87  Aligned_cols=132  Identities=12%  Similarity=0.052  Sum_probs=74.7

Q ss_pred             CCCCCEEEEHH-----HHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCC--C
Q ss_conf             89898801509-----9999999996798220259981431002677439627998124325320110278435322--3
Q gi|254780170|r   51 KANGDWKGFDV-----DFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREISLGLAFRPIT--Y  123 (342)
Q Consensus        51 d~~G~~~GfDV-----Dl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~--~  123 (342)
                      .++|+..|.|+     +.+|+-|...+.  ..|+|+.-+... +| +.++.+|+++++..+++.-|...  -|...+  .
T Consensus        96 G~~G~ViGVD~s~~ML~~Ar~~a~~~G~--~NVeF~~Gdae~-LP-l~D~SfDvViSncVlnl~pDk~~--vl~E~~RVL  169 (258)
T PRK11873         96 GPTGKVIGVDMTPEMLAKARANARKAGY--TNVEFRLGEIEA-LP-VADGSVDVIISNCVINLSPDKER--VFREAFRVL  169 (258)
T ss_pred             CCCCEEEEECCCHHHHHHHHHHHHHCCC--CCEEEEEECCCC-CC-CCCCCEEEEEECCEEECCCCHHH--HHHHHHHHC
T ss_conf             9997799985999999999999997599--755999955531-36-89883519988246760798799--999999962


Q ss_pred             CCCEEEEEECCC--CCCCHHHHC---CCCEEEEECCCHHHHHHHHHHHCCCC-CCEEEECCHHHHHHHHHCC
Q ss_conf             440234630211--347536417---86203431342699999999862998-5078747989999998739
Q gi|254780170|r  124 FDGQGFIMHKKK--GISSVSQLS---GASICVQAGTTTELTLADYFKAHNMK-YHPIVFERVEEIDAAYRAH  189 (342)
Q Consensus       124 ~dgq~~lVrk~~--~i~s~~dL~---G~~I~v~~GTT~e~~l~~~~~~~~~~-~~~v~~~~~~~a~~al~~G  189 (342)
                      -.|-.+.+ .|-  .-.-..++.   ..-++-..|..++....++++..|-. +++..-+...+.+.....|
T Consensus       170 KPGGRl~I-SDiv~~~~lP~~~r~d~~l~~~CiaGA~~~~~~~~~l~~aGF~~i~i~~~~~~~~~~~~~~~~  240 (258)
T PRK11873        170 KPGGRFAI-SDVVLTGELPEELRNDAALYAGCVAGALSVEEYLAMLAEAGFVDITIEPKRDSREFLRGDASA  240 (258)
T ss_pred             CCCCEEEE-EEEECCCCCCHHHHHCHHHHHCCCCCCCCHHHHHHHHHHCCCCCEEEEECHHHHHHHHHHCCC
T ss_conf             88978999-974127779999985989873120366859999999997699832998553279999840775


No 105
>TIGR03227 PhnS 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate binding protein. This ABC transporter periplasmic substrate binding protein component is found in a region of the salmonella typhimurium LT2 genome responsible for the catabolism of 2-aminoethylphosphonate via the phnWX pathway (GenProp0238). The protein contains a match to pfam01547 for the "Bacterial extracellular solute-binding protein" domain.
Probab=76.25  E-value=6.4  Score=19.78  Aligned_cols=181  Identities=12%  Similarity=0.138  Sum_probs=89.6

Q ss_pred             HHHHHHHHCCCCCEEEEEECCCCCCHHHHH----CCCEEEEEECCCCCCCCHHCCCC--------------------CCC
Q ss_conf             999999967982202599814310026774----39627998124325320110278--------------------435
Q gi|254780170|r   64 CRALSSAIFDDPSKIQYLPLNAKERFLALQ----SKQIDILSRNTDWTLLREISLGL--------------------AFR  119 (342)
Q Consensus        64 ~raiAaal~gd~~kVe~v~~~~~~rf~aL~----sG~vDil~~~~T~T~~Rd~~~~v--------------------~Fs  119 (342)
                      ..+.-++-+   .||+|++..+.+.+.-|+    +-++||++..-+. ..|....++                    .+-
T Consensus        58 ~~aFek~tG---ikV~~v~~~sge~laRl~aEk~nPqaDVv~~~d~~-~~~A~~~GLl~py~~~~~~~ip~~~k~~dg~~  133 (367)
T TIGR03227        58 FDAFEKAEG---IKVNIVEAGGGEVVERAAKEKGNPKADVIVTAPPF-IQQAAAEGLLANFNSDAAKAIPAIAKAADGLW  133 (367)
T ss_pred             HHHHHHHHC---CEEEEEECCHHHHHHHHHHCCCCCCCEEEEECCHH-HHHHHHCCCCCCCCCCCHHHCCHHHHCCCCCE
T ss_conf             688888669---83899989779999999952279972099978579-99999788956278966455777663779838


Q ss_pred             CCCCCCCEEEEEECC---CCCCCHHHHCC----CCEEEE-ECCCHH--HHHH-------------HHHHHCCCCCCEEEE
Q ss_conf             322344023463021---13475364178----620343-134269--9999-------------999862998507874
Q gi|254780170|r  120 PITYFDGQGFIMHKK---KGISSVSQLSG----ASICVQ-AGTTTE--LTLA-------------DYFKAHNMKYHPIVF  176 (342)
Q Consensus       120 ~~~~~dgq~~lVrk~---~~i~s~~dL~G----~~I~v~-~GTT~e--~~l~-------------~~~~~~~~~~~~v~~  176 (342)
                      .++++...+|++.++   ...+|++||-.    .+|... ..|++-  ..|.             +|+++...+. +...
T Consensus       134 ~~~~~~~~~~~yN~~~~k~~PkSW~DL~dP~ykgkI~~~dP~tS~~g~~~l~~~~~~~G~eD~a~~~~~~L~~N~-~~~~  212 (367)
T TIGR03227       134 APFVKNYFSFAINPKLLKSAPASFADLLDADFKGKLAYSNPAQAADGMAVIILAFALFGSEDAAFAYLAKLEANN-KFHS  212 (367)
T ss_pred             EEEECCEEEEEEEHHHHCCCCCCHHHHHCCCCCCEEEECCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCC-CEEC
T ss_conf             988555799999857705799889987285337828952877661799999999997098538899999887448-6724


Q ss_pred             CCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCC-------CCCEEEECCCCC--HHH-HHHHHHHHH
Q ss_conf             7989999998739602998250479999983678001002564442-------371010002777--579-999887744
Q gi|254780170|r  177 ERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDIIS-------KSPLAPAIIQGD--TEW-YNIVSWTHY  246 (342)
Q Consensus       177 ~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~is-------kEPlg~avr~gD--~~w-~d~V~W~~~  246 (342)
                      .+.......+.+|++.....|.+.-........-|-+ .+.|..-.       .-|+++++-+|=  ++. ..+|+|.+-
T Consensus       213 ~s~~~~~~~~~~GE~~va~g~~~~~~~~~~~~g~~v~-~v~P~~~~g~~~g~~~i~~~i~ivKga~n~e~AkkfidflLS  291 (367)
T TIGR03227       213 AGTGKLNALLNKGEIAVANGDLQMDLADAEHGGLNIK-IFFPAADAGEPPSAFAIPYAIGLVKGAPNQDAGKKLIDFLLS  291 (367)
T ss_pred             CCCHHHHHHHHCCCEEEEEEECCHHHHHHHHCCCCCE-EEEECCCCCCCCCEEEEEEHHHHHCCCCCHHHHHHHHHHHCC
T ss_conf             7817999998578678995202043677762799702-895467778887348752203464499998999999999729


Q ss_pred             HHHH
Q ss_conf             3311
Q gi|254780170|r  247 AMVT  250 (342)
Q Consensus       247 ali~  250 (342)
                      .=+|
T Consensus       292 ~e~Q  295 (367)
T TIGR03227       292 ADAQ  295 (367)
T ss_pred             HHHH
T ss_conf             9999


No 106
>PRK11013 DNA-binding transcriptional regulator LysR; Provisional
Probab=75.47  E-value=6.7  Score=19.66  Aligned_cols=178  Identities=12%  Similarity=0.077  Sum_probs=99.8

Q ss_pred             HCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCH
Q ss_conf             57949998717898830688989880150999999999967982202599814310026774396279981243253201
Q gi|254780170|r   32 KRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLRE  111 (342)
Q Consensus        32 ~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd  111 (342)
                      .+|.|++|+.+.+...           +=..+...+.+.-  -...+++...+.......|.++++|+.+......+.  
T Consensus        92 ~~G~lri~~~~~~~~~-----------~lp~~l~~f~~~~--P~v~v~i~~~~~~~~~~~l~~~~~Dl~l~~~~~~~~--  156 (309)
T PRK11013         92 RQGQLSIACLPVFSQS-----------LLPGLCQPFLARY--PDVSLNIVPQESPLLEEWLSAQRHDLGLTETLHTPA--  156 (309)
T ss_pred             CCCCCCCCCCHHHHHH-----------HCCHHHHHHHHHC--CCCEEEEEECCHHHHHHHHHCCCCCEEEEECCCCCC--
T ss_conf             3676565300678988-----------6652315678438--980799998985999999975997789960788998--


Q ss_pred             HCCCCCCCCCCCCCCEEEEEECCC-----CCCCHHHHCCCCE-EEEECCCHHHHHHHHHHHCCCCCCEE-EECCHHHHHH
Q ss_conf             102784353223440234630211-----3475364178620-34313426999999998629985078-7479899999
Q gi|254780170|r  112 ISLGLAFRPITYFDGQGFIMHKKK-----GISSVSQLSGASI-CVQAGTTTELTLADYFKAHNMKYHPI-VFERVEEIDA  184 (342)
Q Consensus       112 ~~~~v~Fs~~~~~dgq~~lVrk~~-----~i~s~~dL~G~~I-~v~~GTT~e~~l~~~~~~~~~~~~~v-~~~~~~~a~~  184 (342)
                         ++.+. +.+.+...++++++.     ..-+++||.+... ....++.....+.+++...+...+++ ..++......
T Consensus       157 ---~~~~~-~l~~~~~~~v~~~~hpla~~~~i~~~dL~~~~~i~~~~~~~~r~~~~~~~~~~g~~~~~~~e~~~~~~~~~  232 (309)
T PRK11013        157 ---GTERT-ELLTLDEVCVLPDGHPLAAKKVLTPDDFQGENFISLSRTDSYRQLLDQLFAEHGVKRRMVVETHSAASVCA  232 (309)
T ss_pred             ---CCEEE-EEEEEEEEEECCCCCCCCCCCCCCHHHHCCCCEEECCCCCCHHHHHHHHHHHCCCCCCEEEEECCHHHHHH
T ss_conf             ---75788-86420146754789800049999999973898696389994999999999976999776999896999999


Q ss_pred             HHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCC--CCCCCCCEEEECCCCCH
Q ss_conf             9873960299825047999998367800100256--44423710100027775
Q gi|254780170|r  185 AYRAHRCDAYTGDISALYALKLTNDRPSEHVILP--DIISKSPLAPAIIQGDT  235 (342)
Q Consensus       185 al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~--e~iskEPlg~avr~gD~  235 (342)
                      ....|-.=++..+..   ....  ..++ ..+.|  ..+.. .++.+.+++-+
T Consensus       233 lV~~G~Gvail~~~~---~~~~--~~~g-~~~~pl~~~~~~-~~~lv~~~~r~  278 (309)
T PRK11013        233 MVRAGLGVSIVNPLT---ALDY--AGSG-LVVRPFSISVPF-TVSLIRPLHRP  278 (309)
T ss_pred             HHHHCCEEEEECHHH---HHHH--HHCC-EEEEECCCCCCE-EEEEEEECCCC
T ss_conf             999799699946999---9866--2199-099988889961-89999989997


No 107
>TIGR02294 nickel_nikA nickel ABC transporter, periplasmic nickel-binding protein; InterPro: IPR011980    Members of this family are periplasmic nickel-binding proteins of nickel ABC transporters. Nickel is bound specifically, albeit weakly, through water molecules positioned in the binding site. The amino acids whose side chains line the binding site include Tyr-44, Met-49, Trp-122, Arg-159, Trp-420, and Tyr-424 (numbering based on the precursor sequence of Escherichia coli NikA) with the Arg contributing a hydrogen bond indirectly through a water molecule ..
Probab=75.21  E-value=5  Score=20.49  Aligned_cols=80  Identities=14%  Similarity=-0.017  Sum_probs=57.8

Q ss_pred             CCCEEEECCHHHHHHHHHCCCEEEEEEC----CHHHHHHHHHCCCCHHHCC-CCCCCCCCCEEEECCCCCHHHHH-HHHH
Q ss_conf             8507874798999999873960299825----0479999983678001002-56444237101000277757999-9887
Q gi|254780170|r  170 KYHPIVFERVEEIDAAYRAHRCDAYTGD----ISALYALKLTNDRPSEHVI-LPDIISKSPLAPAIIQGDTEWYN-IVSW  243 (342)
Q Consensus       170 ~~~~v~~~~~~~a~~al~~Gr~DA~~~D----~s~La~~~~~~~~p~~~~i-l~e~iskEPlg~avr~gD~~w~d-~V~W  243 (342)
                      ++++.+.++.+....||++|.+|-+.+|    ..+-...-.++....+|.. |.++++.--|.+=..+-|....| .||-
T Consensus       199 kV~vKVIPD~~TR~LAfe~Ge~dLi~G~~rGtG~i~~DtF~ql~~~~~Y~t~lS~P~~Tr~L~lNt~~kd~~~~Dl~VR~  278 (513)
T TIGR02294       199 KVTVKVIPDAETRALAFESGEVDLIFGNERGTGVIDLDTFAQLKEDGKYQTALSQPMETRMLLLNTGKKDEATSDLAVRQ  278 (513)
T ss_pred             CEEEEEECCHHHHHHHHHCCCCCEEECCCCCCCCCCHHHHHHHHCCCCCCEECCCCHHHHHHHHHCCCCCCHHHHHHHHH
T ss_conf             13788736733688876318610232366567401422577631287732010475112454332201022000268999


Q ss_pred             HHHHHH
Q ss_conf             744331
Q gi|254780170|r  244 THYAMV  249 (342)
Q Consensus       244 ~~~ali  249 (342)
                      .++-+|
T Consensus       279 A~nhav  284 (513)
T TIGR02294       279 ALNHAV  284 (513)
T ss_pred             HHHHCC
T ss_conf             974034


No 108
>COG4939 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]
Probab=74.25  E-value=2.1  Score=22.85  Aligned_cols=69  Identities=17%  Similarity=0.241  Sum_probs=38.3

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCC--------------HHHHHHHHCCEEEEEEECC---CCCCEEECCCCCEEEEHHHH
Q ss_conf             913899999999999984012442--------------1689998579499987178---98830688989880150999
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNA--------------SILGDIKKRGFLKCGINTG---LVGFAEVKANGDWKGFDVDF   63 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a--------------~tLd~Vk~rG~L~vGv~~~---~ppfs~~d~~G~~~GfDVDl   63 (342)
                      |.|..+..++++++++..+....-              ...|+-.-++.+.+-+..+   ..-+.|.|.+|++.+=|.|.
T Consensus         1 mvk~g~~~~~~~~~LL~aCg~sd~s~~t~~dGtY~~~y~~fDd~gwk~f~~iti~dGKiv~~~ydy~~k~G~~Ks~DAdy   80 (147)
T COG4939           1 MVKYGLVGMIVALSLLTACGKSDFSKMTFNDGTYQGHYESFDDHGWKAFVTITIQDGKIVACTYDYRDKKGNIKSDDADY   80 (147)
T ss_pred             CCEEHHHHHHHHHHHHHHHCCCCCCCCCCCCCCEEEEECCCCCCCCCCEEEEEEECCEEEEEEEEEECCCCCCCCCCHHH
T ss_conf             91303659999999998706664455433587256344156534761107999828879998855064778736653336


Q ss_pred             HHHHHH
Q ss_conf             999999
Q gi|254780170|r   64 CRALSS   69 (342)
Q Consensus        64 ~raiAa   69 (342)
                      .++.-.
T Consensus        81 ~~~mk~   86 (147)
T COG4939          81 AGEMKY   86 (147)
T ss_pred             HHHHHH
T ss_conf             777777


No 109
>PRK07377 hypothetical protein; Provisional
Probab=72.58  E-value=6.7  Score=19.67  Aligned_cols=67  Identities=12%  Similarity=0.194  Sum_probs=29.8

Q ss_pred             HHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCC-CCCHHHHHCCCEEEEEEC
Q ss_conf             998579499987178988306889898801509999999999679822025998143-100267743962799812
Q gi|254780170|r   29 DIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNA-KERFLALQSKQIDILSRN  103 (342)
Q Consensus        29 ~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~-~~rf~aL~sG~vDil~~~  103 (342)
                      .|+.+=++|.|+-.+...    ..+..+...--++-+.+.+    --.++|.++..- +..-.||.+++|+.+|..
T Consensus        70 avrss~~~rlGvl~~~~~----~~~s~~~qL~~~lr~il~k----yhlRLElv~Y~~~qaL~~AL~~keVHaic~~  137 (185)
T PRK07377         70 AVRSSLVMRLGVLEDEET----KTSSVFDQLKDQLRTILDK----YHLRLELVPYPDLQALEQALHSKEVHAICLD  137 (185)
T ss_pred             HHHHHHEEEEEEECCCCC----CCHHHHHHHHHHHHHHHHH----HEEEEEEEECCCHHHHHHHHHCCCCCEEECC
T ss_conf             987522688777516666----6504689999999999875----3257887505999999999860860189705


No 110
>PRK10959 outer membrane protein W; Provisional
Probab=71.06  E-value=3.8  Score=21.24  Aligned_cols=24  Identities=21%  Similarity=0.180  Sum_probs=15.1

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             913899999999999984012442
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNA   24 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a   24 (342)
                      |||.++.++++..+++..+.+.++
T Consensus         1 Mkk~~~a~~~~~a~~s~~A~A~~a   24 (212)
T PRK10959          1 MKKLTVAALAVATLLSGSAFAHEA   24 (212)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             937899999999875167788327


No 111
>PRK10137 predicted glycosyl hydrolase; Provisional
Probab=70.71  E-value=3.9  Score=21.16  Aligned_cols=29  Identities=17%  Similarity=0.442  Sum_probs=21.5

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Q ss_conf             91389999999999998401244216899
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNASILGD   29 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~tLd~   29 (342)
                      |.|+++..++|++++.++.|+..++-...
T Consensus         1 ~~~~~~~~~~~~~~~~~s~~~~~a~~f~n   29 (781)
T PRK10137          1 KIKTILTPVTCALLISFSAHAANADNYKN   29 (781)
T ss_pred             CCCHHHHHHHHHHHHHHHHCCCCHHHHCC
T ss_conf             96304458999999976412054777444


No 112
>PRK06934 flavodoxin; Provisional
Probab=70.40  E-value=8  Score=19.18  Aligned_cols=35  Identities=14%  Similarity=0.132  Sum_probs=26.5

Q ss_pred             CEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEE
Q ss_conf             30688989880150999999999967982202599
Q gi|254780170|r   47 FAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYL   81 (342)
Q Consensus        47 fs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v   81 (342)
                      =+..-.+|+.+|=-=-+++.|+...+||.-+|+-+
T Consensus        60 as~~~~~~~~~GnT~~vAe~Iq~~tGgDLfeIe~~   94 (221)
T PRK06934         60 ASILQKNGEVLGSTQYVAQIIQEETGGDLFRIETV   94 (221)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHCCCEEEEEEC
T ss_conf             43787258668769999999999878967999878


No 113
>PRK09408 ompX outer membrane protein X; Provisional
Probab=67.71  E-value=9  Score=18.85  Aligned_cols=35  Identities=20%  Similarity=0.212  Sum_probs=21.6

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCEEEEEEECC
Q ss_conf             9138999999999999840124421689998579499987178
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNASILGDIKKRGFLKCGINTG   43 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~tLd~Vk~rG~L~vGv~~~   43 (342)
                      |||.+++++++.++...+..+.+++        -++.+|.-+.
T Consensus         1 mkk~~~~s~~~~~~~~~a~~a~A~~--------sTvS~GYAQs   35 (171)
T PRK09408          1 MKKIACLSALAAVLAFTAGTAVAAT--------STVTGGYAQS   35 (171)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHCCC--------CEEEEEEEEE
T ss_conf             9224789999999885666664257--------6698788642


No 114
>PRK10877 thiol:disulfide interchange protein DsbC; Provisional
Probab=67.46  E-value=10  Score=18.52  Aligned_cols=35  Identities=23%  Similarity=0.232  Sum_probs=22.0

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCE
Q ss_conf             91389999999999998401244216899985794
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNASILGDIKKRGF   35 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~tLd~Vk~rG~   35 (342)
                      |||++++..++++..+..+.+-.+..-+++.+.|.
T Consensus         1 mkk~l~~~~~l~~~~s~~a~aDea~i~~~l~k~g~   35 (232)
T PRK10877          1 MKKGFMLFTLLAAAFSGFAHADDAAIQQTLAKLGI   35 (232)
T ss_pred             CCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHCCC
T ss_conf             92669999999999862524379999999998399


No 115
>PRK11482 putative DNA-binding transcriptional regulator; Provisional
Probab=67.44  E-value=10  Score=18.52  Aligned_cols=157  Identities=11%  Similarity=0.035  Sum_probs=84.4

Q ss_pred             EEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCCCCCCEEEEEECCCC----CCCHHHHCCC-CEEEE
Q ss_conf             025998143100267743962799812432532011027843532234402346302113----4753641786-20343
Q gi|254780170|r   77 KIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMHKKKG----ISSVSQLSGA-SICVQ  151 (342)
Q Consensus        77 kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVrk~~~----i~s~~dL~G~-~I~v~  151 (342)
                      ++.+......+....|.+|++|+++.......     ..+. ..+.|.|...++++++..    --+.+++... -|.+.
T Consensus        94 ~i~l~~~~~~~~~~~L~~~~~Dl~i~~~~~~~-----~~~~-~~~L~~d~~v~v~~~~HP~~~~~~t~e~~~~~~Hv~~~  167 (266)
T PRK11482         94 QLLLRNIPISDAENQLSQFQTDLIIDTHSCTN-----RTIQ-HHVLFTDNMVLVCRQGHPCLSLEDDEETLDNAAHTLLL  167 (266)
T ss_pred             CEEEEECCCCCHHHHHHCCCCCEEEECCCCCC-----CCEE-EEEEEECCEEEEEECCCCCCCCCCCHHHHHCCCCEEEE
T ss_conf             86999568657889985699888985688898-----7638-99999428899998968556999999999629999997


Q ss_pred             ECCCHHHHHHHHHHHCCCCCCEE-EECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCC-CCCCCCCEEEE
Q ss_conf             13426999999998629985078-74798999999873960299825047999998367800100256-44423710100
Q gi|254780170|r  152 AGTTTELTLADYFKAHNMKYHPI-VFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILP-DIISKSPLAPA  229 (342)
Q Consensus       152 ~GTT~e~~l~~~~~~~~~~~~~v-~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~-e~iskEPlg~a  229 (342)
                      .++.....+.++....+.+-++. ...+...+...+.+  .|.+.+=-..++-..   .+....+++| .++..+++.+.
T Consensus       168 ~~~~~~~~~~~~l~~~~~~R~i~~~~~~~~~~~~lv~~--tdli~~~P~~la~~~---~~~~~L~~lp~pp~~~~~~~~~  242 (266)
T PRK11482        168 PEGQNFSGLRQRLQEMFPDRQISFSSYNILTIAALIAS--SDMLGLMPSRFYNLF---SRCWPLEKLPFPSLNEEQIDFS  242 (266)
T ss_pred             CCCCCCCHHHHHHHHCCCCCEEEEEECCHHHHHHHHHH--CCEEEEHHHHHHHHH---HHHCCCEEECCCCCCCCCEEEE
T ss_conf             69998779999999749998599997999999999984--999985899999998---8767987946899889964699


Q ss_pred             C-----CCCCHHHHHHHHHHHHHH
Q ss_conf             0-----277757999988774433
Q gi|254780170|r  230 I-----IQGDTEWYNIVSWTHYAM  248 (342)
Q Consensus       230 v-----r~gD~~w~d~V~W~~~al  248 (342)
                      +     ...|+    ..+|+...+
T Consensus       243 l~Wh~r~~~DP----~~~wlr~~i  262 (266)
T PRK11482        243 LHYNKLSLRDP----VLENVIDVI  262 (266)
T ss_pred             EEECCCCCCCC----HHHHHHHHH
T ss_conf             99885542676----899999999


No 116
>pfam06649 DUF1161 Protein of unknown function (DUF1161). This family consists of several short, hypothetical bacterial proteins of unknown function.
Probab=65.55  E-value=8.6  Score=18.98  Aligned_cols=35  Identities=14%  Similarity=0.147  Sum_probs=19.3

Q ss_pred             CHHHHHHHHHHHHHHHHHH-CCCCCHHH----HHHHHCCE
Q ss_conf             9138999999999999840-12442168----99985794
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTS-FSTNASIL----GDIKKRGF   35 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~-~aa~a~tL----d~Vk~rG~   35 (342)
                      |+|.++...++++.....+ ...+.+.-    .+|...|+
T Consensus         1 Mkk~~l~~~l~lla~~alAA~~sCE~lk~eI~~KI~~nGV   40 (75)
T pfam06649         1 MKRLLLAVALLLLAASALAAPKSCEELKAEIEAKIQANGV   40 (75)
T ss_pred             CCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCC
T ss_conf             9246999999997134531558889999999999997699


No 117
>COG2107 Predicted periplasmic solute-binding protein [General function prediction only]
Probab=64.40  E-value=12  Score=18.15  Aligned_cols=49  Identities=27%  Similarity=0.280  Sum_probs=35.8

Q ss_pred             HCCCCEEEEECCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCCCEEEEE
Q ss_conf             17862034313426999999998629985078747989999998739602998
Q gi|254780170|r  143 LSGASICVQAGTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDAYT  195 (342)
Q Consensus       143 L~G~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA~~  195 (342)
                      |++++|+|.--.||...|   ++-..+++++| +-..++...|..+|++||-+
T Consensus        93 l~~~rvavpG~~TTA~lL---~rl~~p~~~~V-~m~fdeI~~Avl~G~VDaGv  141 (272)
T COG2107          93 LKGKRVAVPGEMTTAALL---FRLAYPKAEIV-YMPFDEIIPAVLEGKVDAGV  141 (272)
T ss_pred             CCCCEEECCCCCCHHHHH---HHHHCCCCEEE-EEEHHHHHHHHHCCCCCCCE
T ss_conf             566657567853189999---99867873699-71288878999728876535


No 118
>pfam06551 DUF1120 Protein of unknown function (DUF1120). This family consists of several hypothetical bacterial proteins of unknown function.
Probab=63.24  E-value=2.6  Score=22.29  Aligned_cols=39  Identities=15%  Similarity=0.188  Sum_probs=23.6

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCEEEEE
Q ss_conf             913899999999999984012442168999857949998
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNASILGDIKKRGFLKCG   39 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~tLd~Vk~rG~L~vG   39 (342)
                      |||.++..++++.++.+.+.+.++..-+..|-+|+|+-+
T Consensus         1 mkK~l~~~~i~a~l~~~~ssa~aa~~ta~LkV~G~i~p~   39 (145)
T pfam06551         1 MKKNLAATAIAAGLAVLATSAQAADSTAVLKVTGTITPG   39 (145)
T ss_pred             CCHHHHHHHHHHHHHHHHCCHHHCCCCCEEEEEEEEECC
T ss_conf             923789999999999860314225774469999998667


No 119
>TIGR03261 phnS2 putative 2-aminoethylphosphonate ABC transport system, 1-aminoethylphosphonate-binding protein component. This ABC transporter extracellular solute-binding protein is found in a number of genomes in operon-like contexts strongly suggesting a substrate specificity for 2-aminoethylphosphonate (2-AEP). The characterized PhnSTUV system is absent in the genomes in which this system is found. These genomes encode systems for the catabolism of 2-AEP, making the need for a 2-AEP-specific transporter likely.
Probab=62.42  E-value=13  Score=17.92  Aligned_cols=179  Identities=17%  Similarity=0.148  Sum_probs=83.4

Q ss_pred             HHHHHHHHHHCCCCCEEEEEECCCCCCHHHHH----CCCEEEEEECCCCCCCCHHCCCC---------C-----CC----
Q ss_conf             99999999967982202599814310026774----39627998124325320110278---------4-----35----
Q gi|254780170|r   62 DFCRALSSAIFDDPSKIQYLPLNAKERFLALQ----SKQIDILSRNTDWTLLREISLGL---------A-----FR----  119 (342)
Q Consensus        62 Dl~raiAaal~gd~~kVe~v~~~~~~rf~aL~----sG~vDil~~~~T~T~~Rd~~~~v---------~-----Fs----  119 (342)
                      .++++.-++--  ..||+++..+..+.+.-|.    +.+.||+++.......+-...++         +     |.    
T Consensus        37 ~i~~~Fek~~t--gIkV~~v~~~tgel~~rl~aEk~~p~aDV~~g~~~~~~~~~~~~gll~~y~~~~~~~l~~~~~d~~~  114 (334)
T TIGR03261        37 KYKDAFEKVNP--DIKINWVRDSTGIITAKLLAEKNNPQADVVWGLAASSLALLDKEGMLKPYKPKGLDALNPKFRDAKN  114 (334)
T ss_pred             HHHHHHHHHCC--CCEEEEEECCHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHHHCCCCCCCCCCCHHHCCHHHCCCCC
T ss_conf             99999997779--9489999897299999999645799865998456578999886043157775305447886529788


Q ss_pred             CCCCC----CCEEEEEECC----CC---CCCHHHHCC----CCEEEEE-CC--CHHHHHHH------------HHHHCCC
Q ss_conf             32234----4023463021----13---475364178----6203431-34--26999999------------9986299
Q gi|254780170|r  120 PITYF----DGQGFIMHKK----KG---ISSVSQLSG----ASICVQA-GT--TTELTLAD------------YFKAHNM  169 (342)
Q Consensus       120 ~~~~~----dgq~~lVrk~----~~---i~s~~dL~G----~~I~v~~-GT--T~e~~l~~------------~~~~~~~  169 (342)
                      .++++    .+.+|+..++    .+   .++++||-.    -+|++.. .+  |.-..+..            |+++-..
T Consensus       115 ~~~~~g~~~~~~~i~yN~~~~~~~~~p~P~sw~DL~dp~ykg~i~~~~p~~sg~~~~~l~~~~~~~G~d~g~~~l~~l~~  194 (334)
T TIGR03261       115 PPHWVGMDAWMAAICFNTVEAKKKGLPKPTSWEDLTKPEYKGHIVMPNPASSGTGFLDVSAWLQMMGEDKGWDYMDKLHK  194 (334)
T ss_pred             CCEEEEEEEEEEEEEEEHHHCCCCCCCCCCCHHHHCCHHHCCEEECCCCCCCHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_conf             85168875246789974444042589999999997094748958734888633899999999997352889999999986


Q ss_pred             CCCEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCC-CCCCCCCEEEECCCCCHHH---HHHHHHHH
Q ss_conf             8507874798999999873960299825047999998367800100256-4442371010002777579---99988774
Q gi|254780170|r  170 KYHPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILP-DIISKSPLAPAIIQGDTEW---YNIVSWTH  245 (342)
Q Consensus       170 ~~~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~-e~iskEPlg~avr~gD~~w---~d~V~W~~  245 (342)
                      +. .....+..+....+.+|++....+-.......+ ....|-+ .+.| |.....+-+.++-+|-++=   +.+++|.+
T Consensus       195 N~-~~~~~~~~~~~~~v~~Ge~~ig~~~~~~~~~~~-~~g~pv~-~v~P~eG~~~~~~~~~Ivk~a~n~~~Ak~Fidfll  271 (334)
T TIGR03261       195 NI-AVYTHSGSKPCKLAGMGEFPIGISMAYRALKEK-KKGAPID-VVFPKEGLGWDIEATAIIKGSKNNDAAKKLVDWSI  271 (334)
T ss_pred             HH-CCCCCCCCHHHHHHHCCCEEEEEEECCHHHHHH-HCCCCEE-EEECCCCCEEEEEEEEEECCCCCHHHHHHHHHHHC
T ss_conf             32-416777638889986598579997354578876-4389733-89458984787735888879989899999999976


No 120
>COG1511 Predicted membrane protein [Function unknown]
Probab=61.50  E-value=13  Score=17.82  Aligned_cols=72  Identities=11%  Similarity=0.072  Sum_probs=47.7

Q ss_pred             CCHHHHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEE
Q ss_conf             42168999857949998717898830688989880150999999999967982202599814310026774396279981
Q gi|254780170|r   23 NASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSR  102 (342)
Q Consensus        23 ~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~  102 (342)
                      -.+.++-.-....+.|+|-...-|..+       .|-++++...+.+.+..++. .+|.-++..+--..|.+|++++.+-
T Consensus        36 i~s~~dpy~~~~~lpVAVVNeDkg~t~-------~Gk~~~iG~~~V~~L~kn~~-~~w~fVs~~~A~~gl~~g~Yya~i~  107 (780)
T COG1511          36 LGALWDPYGNTSKLPVAVVNEDKGATF-------NGKKVNIGDDLVKTLKKNKS-LDWHFVSREEAEKGLKDGKYYAVIY  107 (780)
T ss_pred             HCCCCCCCCCCCCCCEEEEECCCCCCC-------CCCEEEHHHHHHHHHCCCCC-CCEEEECHHHHHHHHHHCCCEEEEE
T ss_conf             324578666788894699857766664-------77511078999998606889-8628967898986776078439998


No 121
>pfam02621 DUF178 Putative periplasminc binding protein (DUF178). This family of proteins belong to the periplasmic binding protein clan.
Probab=61.12  E-value=13  Score=17.77  Aligned_cols=169  Identities=12%  Similarity=0.149  Sum_probs=84.2

Q ss_pred             CEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHH-CCCC--CCCCCCCCCCEEEEEECCCCCCCHHHHCCCCEEEEE
Q ss_conf             2025998143100267743962799812432532011-0278--435322344023463021134753641786203431
Q gi|254780170|r   76 SKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREI-SLGL--AFRPITYFDGQGFIMHKKKGISSVSQLSGASICVQA  152 (342)
Q Consensus        76 ~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~-~~~v--~Fs~~~~~dgq~~lVrk~~~i~s~~dL~G~~I~v~~  152 (342)
                      .+++++.-+.++.-..|.+|++|+..-+. +..-|.. .+.+  +++..-.-...++++-....+.     ..++|++..
T Consensus        25 ~~~~~~~~~P~~Ln~~l~~g~lDv~~iSs-~~y~~~~~~y~ilp~~~i~s~G~v~Svll~s~~p~~-----~~~~Ial~~   98 (248)
T pfam02621        25 LDFELVLADPETLNRLLLEGELDVAAISS-IAYARIADDYALLPDLSIAALGRVYSVLLVSREELE-----GKLRVALPG   98 (248)
T ss_pred             CCEEEEECCHHHHHHHHHCCCCCEEECCH-HHHHHCHHHHEECCCCEEEEECCCCCEEEEECCCCC-----CCCEEECCC
T ss_conf             97599868999999999869998875589-999857202315777458852797513899568867-----687287699


Q ss_pred             CCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCCCEEE--EEECCHHHHHHHHHCCCCHHHCCC--CC---CCCCCC
Q ss_conf             34269999999986299850787479899999987396029--982504799999836780010025--64---442371
Q gi|254780170|r  153 GTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDA--YTGDISALYALKLTNDRPSEHVIL--PD---IISKSP  225 (342)
Q Consensus       153 GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA--~~~D~s~La~~~~~~~~p~~~~il--~e---~iskEP  225 (342)
                      .|+|-..|-..+-....+  +++..  .+...+..++. ||  +++|.. |...     +.+-+.+.  .+   ..+.-|
T Consensus        99 ~S~TS~~Llkill~~~~~--~~~~~--~~~~~~~~~~~-da~LlIGD~A-l~~~-----~~~~~~v~DLG~~W~~~TglP  167 (248)
T pfam02621        99 ESTTSVLLLKLLLPEAYK--LVPMP--DEIEPAVLEGE-DAGLLIGDEA-LTYA-----REGLPKVYDLGELWEELTGLP  167 (248)
T ss_pred             CCHHHHHHHHHHHHHCCC--EEECC--CHHHHHHHCCC-CEEEEECHHH-CCCC-----CCCCEEEEEHHHHHHHHHCCC
T ss_conf             778999999999864572--43167--14667874489-7589975043-4500-----059728863889998987898


Q ss_pred             E--EE-ECCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHH
Q ss_conf             0--10-0027775799998877443311212330152089886
Q gi|254780170|r  226 L--AP-AIIQGDTEWYNIVSWTHYAMVTAEELGITQKNINQVS  265 (342)
Q Consensus       226 l--g~-avr~gD~~w~d~V~W~~~ali~Aee~git~~nv~~~~  265 (342)
                      +  |. ++|++=++  +...-...++.++=++|.  +|.+++.
T Consensus       168 fvfa~wv~rr~~~~--~~~~~l~~~l~~S~~~~~--~~~~~~~  206 (248)
T pfam02621       168 FVFGLWVVRRDLGL--ELAKELEEALRKSKEYAL--KHPEEIA  206 (248)
T ss_pred             CEEEEEEEECCCCH--HHHHHHHHHHHHHHHHHH--HCHHHHH
T ss_conf             50488887545688--899999999999999998--7999999


No 122
>PRK09755 putative binding protein; Provisional
Probab=60.55  E-value=14  Score=17.71  Aligned_cols=73  Identities=15%  Similarity=0.097  Sum_probs=40.3

Q ss_pred             CCEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCCCCEEEECCC---CCHHHHHHHHHHHH
Q ss_conf             50787479899999987396029982504799999836780010025644423710100027---77579999887744
Q gi|254780170|r  171 YHPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDIISKSPLAPAIIQ---GDTEWYNIVSWTHY  246 (342)
Q Consensus       171 ~~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~iskEPlg~avr~---gD~~w~d~V~W~~~  246 (342)
                      ++.+..++....+.+|.+|++|........+......  .+.+..++|. ++..-+++-+++   +|.+.|..+.+.++
T Consensus       242 i~~~~i~d~~t~~~~l~sGevD~~~~~~~~~~~~~~~--~~~~~~~~p~-~~~~y~~~N~~~~p~~D~~VRqAi~~AiD  317 (535)
T PRK09755        242 VEYLALDNSVTGYNRYRAGEVDLTWVPAQQIPAIEKS--LPGELRIIPR-LNSEYYNFNLEKPPFNDVRVRRALYLTVD  317 (535)
T ss_pred             EEEEECCCHHHHHHHHHCCCCEEECCCHHHHHHHHHC--CCCCEEEEEC-CCEEEEEEECCCCCCCCHHHHHHHHHHHC
T ss_conf             6999779689999998779823851898999999745--6885899832-53389976046576679999999997537


No 123
>PRK04405 prsA peptidylprolyl isomerase; Provisional
Probab=60.07  E-value=5.9  Score=20.02  Aligned_cols=46  Identities=15%  Similarity=0.116  Sum_probs=27.6

Q ss_pred             CHHHHHHHHHHHCCCCC--CEEEECCHHHH---HHHHHCCCEEEEEECCHHHHHHHH
Q ss_conf             26999999998629985--07874798999---999873960299825047999998
Q gi|254780170|r  155 TTELTLADYFKAHNMKY--HPIVFERVEEI---DAAYRAHRCDAYTGDISALYALKL  206 (342)
Q Consensus       155 T~e~~l~~~~~~~~~~~--~~v~~~~~~~a---~~al~~Gr~DA~~~D~s~La~~~~  206 (342)
                      .++..++++++...+.+  ..+.+.+.++|   ...+.+|.      |-..||-..+
T Consensus       129 vTd~~~k~~y~~~~p~v~~~hIlv~~e~~A~~v~~~l~~G~------dF~~lAk~~S  179 (298)
T PRK04405        129 ITTAQLKKAWKSYQPKVTVQHILVSKKSTAETVIKKLKDGK------DFAKLAKKYS  179 (298)
T ss_pred             CCHHHHHHHHHHCCCCEEEEEEEECCHHHHHHHHHHHHCCC------CHHHHHHHHC
T ss_conf             88899999998549865889988678999999999987899------7899999838


No 124
>pfam10613 Lig_chan-Glu_bd Ligated ion channel L-glutamate- and glycine-binding site. This region, sometimes called the S1 domain, is the luminal domain just upstream of the first, M1, transmembrane region of transmembrane ion-channel proteins, and it binds L-glutamate and glycine. It is found in association with Lig_chan, pfam00060.
Probab=59.96  E-value=10  Score=18.47  Aligned_cols=20  Identities=20%  Similarity=0.434  Sum_probs=17.1

Q ss_pred             CCCEEEEHHHHHHHHHHHHC
Q ss_conf             89880150999999999967
Q gi|254780170|r   53 NGDWKGFDVDFCRALSSAIF   72 (342)
Q Consensus        53 ~G~~~GfDVDl~raiAaal~   72 (342)
                      +.++.||-|||.+.+|+.+.
T Consensus        15 ~~~yeGyciDLl~~ls~~l~   34 (65)
T pfam10613        15 NERFEGYCIDLLDELAKILG   34 (65)
T ss_pred             CCCEEEHHHHHHHHHHHHCC
T ss_conf             73240279999999999849


No 125
>TIGR02977 phageshock_pspA phage shock protein A; InterPro: IPR014319   Members of this protein are the phage shock protein PspA, from the phage shock operon. PspA appears to maintain the proton motive force under stress conditions that include over expression of certain phage secretins, heat shock, ethanol and protein export defects..
Probab=59.87  E-value=6.9  Score=19.59  Aligned_cols=26  Identities=23%  Similarity=0.567  Sum_probs=20.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCCCHH-HHHH
Q ss_conf             57999988774433112123301520898862267177-8876
Q gi|254780170|r  235 TEWYNIVSWTHYAMVTAEELGITQKNINQVSKDTTNPD-VQRF  276 (342)
Q Consensus       235 ~~w~d~V~W~~~ali~Aee~git~~nv~~~~~~s~~p~-i~r~  276 (342)
                      |.|.||||                +|+++++-.+.||+ +-||
T Consensus         5 SRf~DIvN----------------sN~naLLDkAEDPeKMiRL   31 (222)
T TIGR02977         5 SRFADIVN----------------SNLNALLDKAEDPEKMIRL   31 (222)
T ss_pred             HHHHHHHH----------------HHHHHHHHCCCCHHHHHHH
T ss_conf             17688999----------------8688775247894899999


No 126
>PRK13861 type IV secretion system protein VirB9; Provisional
Probab=59.56  E-value=6.3  Score=19.82  Aligned_cols=22  Identities=23%  Similarity=0.621  Sum_probs=15.3

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             9138999999999999840124
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFST   22 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa   22 (342)
                      |.|++++++++++++++.+.+.
T Consensus         1 mmk~l~~~~~~~l~~~~~a~A~   22 (293)
T PRK13861          1 MIKKLFLTLACLLFAAIGALAE   22 (293)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHH
T ss_conf             9089999999999861266787


No 127
>TIGR01286 nifK nitrogenase molybdenum-iron protein beta chain; InterPro: IPR005976    The enzyme responsible for nitrogen fixation, the nitrogenase, shows a high degree of conservation of structure, function, and amino acid sequence across wide phylogenetic ranges. All known Mo-nitrogenases consist of two components, component I (also called dinitrogenase, or Fe-Mo protein), an alpha2beta2 tetramer encoded by the nifD and nifK genes, and component II (dinitrogenase reductase, or Fe protein) a homodimer encoded by the nifH gene , . Two operons, nifDK and nifEN, encode a tetrameric (alpha2beta2 and N2E2) enzymatic complex. Nitrogenase contains two unusual rare metal clusters; one of them is the iron molybdenum cofactor (FeMo-co), which is considered to be the site of dinitrogen reduction and whose biosynthesis requires the products of nifNE and of some other nif genes . It has been proposed that NifNE might serve as a scaffold upon which FeMo-co is built and then inserted into component I .; GO: 0016163 nitrogenase activity, 0009399 nitrogen fixation, 0016612 molybdenum-iron nitrogenase complex.
Probab=58.82  E-value=5.4  Score=20.24  Aligned_cols=229  Identities=17%  Similarity=0.236  Sum_probs=115.9

Q ss_pred             HHHHHHCCEEEEEEECCCCCC----EEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEE
Q ss_conf             899985794999871789883----0688989880150999999999967982202599814310026774396279981
Q gi|254780170|r   27 LGDIKKRGFLKCGINTGLVGF----AEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSR  102 (342)
Q Consensus        27 Ld~Vk~rG~L~vGv~~~~ppf----s~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~  102 (342)
                      ++.-|+-|.+.   +.=.-||    +|..+  -.+|||. |.|-|+..+-..+.       +-+.....=.+++|-|+.+
T Consensus       165 i~nAk~~g~ip---~dfPVpFAHTPsFVGS--HitGYD~-M~kGil~~l~~~~~-------~das~~~~~~~~~iN~ipG  231 (526)
T TIGR01286       165 IGNAKEEGVIP---DDFPVPFAHTPSFVGS--HITGYDS-MLKGILETLTKGSE-------DDASDKKKSANGKINIIPG  231 (526)
T ss_pred             HHHHHCCCCCC---CCCCCCCCCCCCCCCC--EECCCCH-HHHHHHHHHHCCCH-------HHHHHHHHCCCCEEEEEEC
T ss_conf             98753068888---8876786547773265--0025322-68999998505851-------1334544203862778407


Q ss_pred             CCCC--CCCCHHC-----CCCCCCCCCCCCCE-EEEEECC------CCCCCHHHHCC-----CCEEEEECCCHHHHHHHH
Q ss_conf             2432--5320110-----27843532234402-3463021------13475364178-----620343134269999999
Q gi|254780170|r  103 NTDW--TLLREIS-----LGLAFRPITYFDGQ-GFIMHKK------KGISSVSQLSG-----ASICVQAGTTTELTLADY  163 (342)
Q Consensus       103 ~~T~--T~~Rd~~-----~~v~Fs~~~~~dgq-~~lVrk~------~~i~s~~dL~G-----~~I~v~~GTT~e~~l~~~  163 (342)
                      ==|+  ==-|+-+     .+|+  +...-|.. .+=.|+|      .+-++++|+++     .||..|.=+ +++. ++|
T Consensus       232 FdTYCiGN~R~~Kr~L~~mGv~--~~~L~D~~~~LDsP~dGey~mY~gGT~lee~~~A~nA~atl~LQ~y~-l~kT-~eY  307 (526)
T TIGR01286       232 FDTYCIGNVREIKRILSLMGVE--YTLLSDAEESLDSPADGEYRMYDGGTKLEELKDALNAEATLVLQEYT-LRKT-KEY  307 (526)
T ss_pred             CCCCEECCHHHHHHHHHHHCCC--CEEECCCHHHCCCCCCCCCCCCCCCCCHHHHHCCCCHHHEEECCCCC-CHHH-HHH
T ss_conf             6751116568897899872898--30304655436798888712267788657642360101122212434-2356-886


Q ss_pred             HHHCCC----CCC-EEEECCHHHHHHHHHC--------------CC-EEEEEECCHHHHHHHHH-CCCCHHHCCCCC---
Q ss_conf             986299----850-7874798999999873--------------96-02998250479999983-678001002564---
Q gi|254780170|r  164 FKAHNM----KYH-PIVFERVEEIDAAYRA--------------HR-CDAYTGDISALYALKLT-NDRPSEHVILPD---  219 (342)
Q Consensus       164 ~~~~~~----~~~-~v~~~~~~~a~~al~~--------------Gr-~DA~~~D~s~La~~~~~-~~~p~~~~il~e---  219 (342)
                      .....-    .++ |.-++..++-+.++..              || +||++.-.+=|-|.|.. +.+|+ +++-=-   
T Consensus       308 ie~~W~~et~~l~~PlGv~~TDeFLm~vs~isg~eiP~~l~~eRGRlVDamtDs~awlHGKr~Ai~GDPD-lV~al~~F~  386 (526)
T TIGR01286       308 IEKKWKQETVKLEIPLGVKGTDEFLMKVSEISGQEIPAELTIERGRLVDAMTDSQAWLHGKRVAIYGDPD-LVMALVRFV  386 (526)
T ss_pred             HCCCCCCEEEEECCCCCCCHHHHHHHHHHHHCCCCCHHHHHHHCCCHHHHHHHHHHHHHHCCEEEECCCH-HHHHHHHHH
T ss_conf             5277751244524788740778999999985078762788851033025555433434003045405815-899999999


Q ss_pred             -CCCCCCEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCCCHHHHHHHCCCC
Q ss_conf             -44237101000277757999988774433112123301520898862267177887623588
Q gi|254780170|r  220 -IISKSPLAPAIIQGDTEWYNIVSWTHYAMVTAEELGITQKNINQVSKDTTNPDVQRFLGIDK  281 (342)
Q Consensus       220 -~iskEPlg~avr~gD~~w~d~V~W~~~ali~Aee~git~~nv~~~~~~s~~p~i~r~lg~~~  281 (342)
                       -+--||.=+.+.+++.+|..-+.    ++..|-.+|=. |.|  . ..=+=+.+|-||=+||
T Consensus       387 LElG~ePvHil~~N~~~~f~~~~~----~~LAAS~fG~~-Atv--w-~gKDLWhlRSLlFTep  441 (526)
T TIGR01286       387 LELGIEPVHILATNGTKEFKAEMK----ALLAASPFGQE-ATV--W-AGKDLWHLRSLLFTEP  441 (526)
T ss_pred             HHHCCCCEEEEEECCCHHHHHHHH----HHHHCCCCCCC-CEE--C-CCCCHHHHHHHHHCCC
T ss_conf             981897558984188858999999----98602634677-126--3-5630687644530488


No 128
>pfam11432 DUF3197 Protein of unknown function (DUF3197). This bacterial family of proteins has no known function.
Probab=57.60  E-value=13  Score=17.74  Aligned_cols=28  Identities=18%  Similarity=0.404  Sum_probs=23.1

Q ss_pred             CCCCCCEEEEC-CCCCHHHHHHHHHHHHH
Q ss_conf             44237101000-27775799998877443
Q gi|254780170|r  220 IISKSPLAPAI-IQGDTEWYNIVSWTHYA  247 (342)
Q Consensus       220 ~iskEPlg~av-r~gD~~w~d~V~W~~~a  247 (342)
                      .++..-+||++ +.||....++|+|..-.
T Consensus        44 ll~~~AFGPafGp~G~~ALaELv~w~~~~   72 (113)
T pfam11432        44 LLVAPAFGPAYGPGGAEALAELVRWALAQ   72 (113)
T ss_pred             CCCCCCCCCCCCCCHHHHHHHHHHHHHHC
T ss_conf             12465557675852789999999999975


No 129
>pfam04076 BOF Bacterial OB fold (BOF) protein. Proteins in this family form an OB-fold. Analysis of the predicted binding site of BOF family proteins implies that they lack nucleic acid-binding properties. They contain an predicted N-terminal signal peptide which indicates that they localize in the periplasm where they may function to bind proteins, small molecules, or other typical OB-fold ligands. As hypothesized for the distantly related OB-fold containing bacterial enterotoxins, the loss of nucleotide-binding function and the rapid evolution of the BOF ligand-binding site may be associated with the presence of BOF proteins in mobile genetic elements and their potential role in bacterial pathogenicity.
Probab=55.88  E-value=16  Score=17.22  Aligned_cols=17  Identities=18%  Similarity=-0.179  Sum_probs=9.7

Q ss_pred             CHHHHHHHHHHHHHHHH
Q ss_conf             91389999999999998
Q gi|254780170|r    1 MYKDFFVSILCLIILFF   17 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~   17 (342)
                      |||..+.++++++....
T Consensus         1 MKK~~i~~~~~l~s~~~   17 (126)
T pfam04076         1 MKKLAIALASALASTSA   17 (126)
T ss_pred             CCHHHHHHHHHHHHCHH
T ss_conf             95689999999984678


No 130
>TIGR00735 hisF imidazoleglycerol phosphate synthase, cyclase subunit; InterPro: IPR004651 Histidine is formed by several complex and distinct biochemical reactions catalysed by eight enzymes. Proteins involved in steps 4 and 6 of the histidine biosynthesis pathway are contained in one family. These enzymes are called His6 and His7 in eukaryotes and HisA and HisF in prokaryotes. HisA is a phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase (), involved in the fourth step of histidine biosynthesis. The bacterial HisF protein is a cyclase which catalyzes the cyclization reaction that produces D-erythro-imidazole glycerol phosphate during the sixth step of histidine biosynthesis. The yeast His7 protein is a bifunctional protein which catalyzes an amido-transferase reaction that generates imidazole-glycerol phosphate and 5-aminoimidazol-4-carboxamide. The latter is the ribonucleotide used for purine biosynthesis. The enzyme also catalyzes the cyclization reaction that produces D-erythro-imidazole glycerol phosphate, and is involved in the fifth and sixth steps in histidine biosynthesis.    This family describes the histidine biosynthesis protein, HisF. ; GO: 0000107 imidazoleglycerol-phosphate synthase activity, 0000105 histidine biosynthetic process, 0005737 cytoplasm, 0009382 imidazoleglycerol-phosphate synthase complex.
Probab=55.65  E-value=7  Score=19.56  Aligned_cols=97  Identities=18%  Similarity=0.251  Sum_probs=46.7

Q ss_pred             CCCCCCHHHHCCCCEEEEECCCHHHHHHHHHHHCCCCCCEEEECCHH--------------------HHHHHHHCCCEEE
Q ss_conf             11347536417862034313426999999998629985078747989--------------------9999987396029
Q gi|254780170|r  134 KKGISSVSQLSGASICVQAGTTTELTLADYFKAHNMKYHPIVFERVE--------------------EIDAAYRAHRCDA  193 (342)
Q Consensus       134 ~~~i~s~~dL~G~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~~~~~~--------------------~a~~al~~Gr~DA  193 (342)
                      .-||++++|.+|.+|-...-.      ..+|++ |  +.-|...+.+                    +.+..-.--+|=.
T Consensus        95 GGGI~~~eD~~GtkiPaleva------s~~L~a-G--ADKvSiNTaAv~~P~li~e~a~~GdGtsPietiskaFGsQciV  165 (312)
T TIGR00735        95 GGGIKSIEDVKGTKIPALEVA------SKLLRA-G--ADKVSINTAAVKNPELISEAADRGDGTSPIETISKAFGSQCIV  165 (312)
T ss_pred             CCCCCCHHHCCCCCCCHHHHH------HHHHHC-C--CCEEEECCHHHHCCHHHHHHHHCCCCCCHHHHHHHCCCCEEEE
T ss_conf             688884320456444278999------999854-8--9846328467508447899873278755156665313851799


Q ss_pred             EEECCHHHHHHHH-HCCCC---HHHCC-CCCCCCCCCEEEECCCCCHH-----HHHHHHHHHH
Q ss_conf             9825047999998-36780---01002-56444237101000277757-----9999887744
Q gi|254780170|r  194 YTGDISALYALKL-TNDRP---SEHVI-LPDIISKSPLAPAIIQGDTE-----WYNIVSWTHY  246 (342)
Q Consensus       194 ~~~D~s~La~~~~-~~~~p---~~~~i-l~e~iskEPlg~avr~gD~~-----w~d~V~W~~~  246 (342)
                      +.-|.     .|. ...+|   ++|.+ +++-  +--|-..++-|+..     =.|+|.|+-.
T Consensus       166 vaIDa-----kr~~~~~~~~~k~~f~~e~~dG--y~~y~V~~~GGR~~rtr~tg~da~~Wa~~  221 (312)
T TIGR00735       166 VAIDA-----KRVYVNSNPDEKNEFIVEVEDG--YCWYEVYIYGGRESRTRVTGLDAVEWAKE  221 (312)
T ss_pred             EEEEC-----CCCCCCCCCCCCCCEEEECCCC--CEEEEEEEECCCCCCCCCCHHHHHHHHHH
T ss_conf             75526-----4054455633346507873389--60268998308655541020679999999


No 131
>cd06325 PBP1_ABC_uncharacterized_transporter Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); its ligand specificity has not been determined experimentally.
Probab=55.32  E-value=17  Score=17.16  Aligned_cols=145  Identities=11%  Similarity=0.042  Sum_probs=67.1

Q ss_pred             CEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCCCC-CCCC
Q ss_conf             306889898801509999999999679822025998143100267743962799812432532011027843532-2344
Q gi|254780170|r   47 FAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREISLGLAFRPI-TYFD  125 (342)
Q Consensus        47 fs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~-~~~d  125 (342)
                      |.+.+.+     -|.+.+..+|..+-.+...+=+.-.++...-..-....+-++++..|- +... .+-=++..| --.+
T Consensus        37 ~~~~na~-----gd~~~l~~ia~~l~~~~~DlIva~gTpaaqa~~~~~~~iPIVF~~V~d-Pv~a-glv~s~~~pg~NvT  109 (281)
T cd06325          37 IDYQNAQ-----GDQSNLPTIARKFVADKPDLIVAIATPAAQAAANATKDIPIVFTAVTD-PVGA-GLVKSLEKPGGNVT  109 (281)
T ss_pred             EEEEECC-----CCHHHHHHHHHHHHHCCCCEEEECCHHHHHHHHHCCCCCCEEEEECCC-HHHC-CCCCCCCCCCCCEE
T ss_conf             9996079-----999999999999985499999987709999999627999989995168-6662-75435678999579


Q ss_pred             CEEEEEECCCCCCCHHHH--CCCCEEEEECCC------HHHHHHHHHHHCCCCCCEEEECCHHHHHHHHH--CCCEEEEE
Q ss_conf             023463021134753641--786203431342------69999999986299850787479899999987--39602998
Q gi|254780170|r  126 GQGFIMHKKKGISSVSQL--SGASICVQAGTT------TELTLADYFKAHNMKYHPIVFERVEEIDAAYR--AHRCDAYT  195 (342)
Q Consensus       126 gq~~lVrk~~~i~s~~dL--~G~~I~v~~GTT------~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~--~Gr~DA~~  195 (342)
                      |..-.++-...+.-+..+  +-|+|++.-.++      .-..+++..++.|+.+....+.+..|..+++.  .+++|++.
T Consensus       110 Gvs~~~~~~~~l~l~~~l~P~~k~igvlyn~~e~ns~~~~~~~~~~a~~~Gi~v~~~~v~~~~ei~~a~~~l~~~~Dal~  189 (281)
T cd06325         110 GVSDLVPVETQLELLKKLLPDAKTVGVLYNPSEANSVVQVKELKKAAAKLGIEVVEATVSSSNDVQQAAQSLAGKVDAIY  189 (281)
T ss_pred             EEECCCCHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCHHHHHHHHHHHHHCCCEEE
T ss_conf             98787478999999998588985899995799865699999999999976988999945988899999997562589999


Q ss_pred             ECC
Q ss_conf             250
Q gi|254780170|r  196 GDI  198 (342)
Q Consensus       196 ~D~  198 (342)
                      .-.
T Consensus       190 ~~~  192 (281)
T cd06325         190 VPT  192 (281)
T ss_pred             EEC
T ss_conf             918


No 132
>COG4851 CamS Protein involved in sex pheromone biosynthesis [General function prediction only]
Probab=55.27  E-value=11  Score=18.43  Aligned_cols=147  Identities=14%  Similarity=0.124  Sum_probs=65.6

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHC-C---EEEEEE------ECCCCCCEEECCCCCEEEEHHHHH------
Q ss_conf             913899999999999984012442168999857-9---499987------178988306889898801509999------
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNASILGDIKKR-G---FLKCGI------NTGLVGFAEVKANGDWKGFDVDFC------   64 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~tLd~Vk~r-G---~L~vGv------~~~~ppfs~~d~~G~~~GfDVDl~------   64 (342)
                      |+|++.+++.++.++++.|.+.-.++-++|.++ +   .-..|+      +.++.-.-.+=..|+-.||-.+-.      
T Consensus         1 Mkktl~i~~ta~vliLs~C~~~~dd~edkv~qk~~~sseq~k~Iv~k~nis~n~YktvLpyk~~kaRGl~~~n~~nr~di   80 (382)
T COG4851           1 MKKTLGIAATASVLILSGCFPFVDDTEDKVVQKEGKSSEQEKGIVPKANISENYYKTVLPYKAGKARGLGSANVYNRYDI   80 (382)
T ss_pred             CCHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHCCCCCHHHCCCCCCCCCCCCCCHHEEEEECCCCCCCHHHHHHHCCCCH
T ss_conf             94015589999999986116766873002343037703320112135444433132242210244455006655401560


Q ss_pred             -------HHHHHHHCCCCCEEEEEECCCCCC---HHHHH--CCCEEEE----EECCCCCCCCHHCCCCCCCCCCCCC--C
Q ss_conf             -------999999679822025998143100---26774--3962799----8124325320110278435322344--0
Q gi|254780170|r   65 -------RALSSAIFDDPSKIQYLPLNAKER---FLALQ--SKQIDIL----SRNTDWTLLREISLGLAFRPITYFD--G  126 (342)
Q Consensus        65 -------raiAaal~gd~~kVe~v~~~~~~r---f~aL~--sG~vDil----~~~~T~T~~Rd~~~~v~Fs~~~~~d--g  126 (342)
                             -.+|+..| ++.+--|..-.+-.+   -.-|.  +-+=+=-    ..+-+-+.+|  .   .-+|.|+-.  .
T Consensus        81 de~E~GLm~lake~f-~~d~YlfqeGQfldkdtlnswL~rksekn~nGLNP~l~~~~n~eer--~---E~sP~YLs~iLE  154 (382)
T COG4851          81 DELELGLMRLAKEHF-SPDTYLFQEGQFLDKDTLNSWLMRKSEKNPNGLNPPLESGGNMEER--E---EDSPIYLSHILE  154 (382)
T ss_pred             HHHHHHHHHHHHHCC-CCCCCEECCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHH--C---CCCCHHHHHHHH
T ss_conf             478888999877407-9431000035301588899884500225877899988899996783--2---357579998875


Q ss_pred             EEEEEECCCCCCCHHHHCCCCEEEEECCCH
Q ss_conf             234630211347536417862034313426
Q gi|254780170|r  127 QGFIMHKKKGISSVSQLSGASICVQAGTTT  156 (342)
Q Consensus       127 q~~lVrk~~~i~s~~dL~G~~I~v~~GTT~  156 (342)
                      |-++|.+|.+   -..|.|..|+....|..
T Consensus       155 hdyl~~~D~~---~~~lgGi~IgLamNSVy  181 (382)
T COG4851         155 HDYLVEGDKG---EYKLGGIVIGLAMNSVY  181 (382)
T ss_pred             HHHHCCCCCC---CEEECCEEEEEEECCEE
T ss_conf             6653046778---52555689997613223


No 133
>PRK07239 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated
Probab=54.76  E-value=17  Score=17.10  Aligned_cols=122  Identities=18%  Similarity=0.251  Sum_probs=66.3

Q ss_pred             EEEEEECCCCCC----HHHHHCCCEEEEEECCCCCCCC--HHCCCCCCCCCCC--CCCEEEEEE--CC------CC----
Q ss_conf             025998143100----2677439627998124325320--1102784353223--440234630--21------13----
Q gi|254780170|r   77 KIQYLPLNAKER----FLALQSKQIDILSRNTDWTLLR--EISLGLAFRPITY--FDGQGFIMH--KK------KG----  136 (342)
Q Consensus        77 kVe~v~~~~~~r----f~aL~sG~vDil~~~~T~T~~R--d~~~~v~Fs~~~~--~dgq~~lVr--k~------~~----  136 (342)
                      .++.+|+.-+..    ...+.+...|+++.+|.+-+.+  +...+.--.....  ..+..+++|  |.      .|    
T Consensus        41 alriVPl~DD~eL~~~t~~lia~ppD~vV~TTGiGfr~wleaAe~~Gl~d~Ll~aL~~ari~aRGPKa~gAlRaaGL~e~  120 (381)
T PRK07239         41 ALRIVPLADDDELRAATEALIAAPPDIVVATTGIGFRGWVEAADGWGLADELLEALSSARLVARGPKATGALRAAGLREE  120 (381)
T ss_pred             CCCEECCCCCHHHHHHHHHHHCCCCCEEEEECHHHHHHHHHHHHHCCCHHHHHHHHHCCEEEEECCCHHHHHHHCCCCCC
T ss_conf             53303388859999999998548999899923688999999999717778999997328078777646878986499864


Q ss_pred             -----------CCC--HHHHCCCCEEEEE-CCCHH----HHHHHHHHHCCCCCCEEE-EC--------CHHHHHHHHHCC
Q ss_conf             -----------475--3641786203431-34269----999999986299850787-47--------989999998739
Q gi|254780170|r  137 -----------ISS--VSQLSGASICVQA-GTTTE----LTLADYFKAHNMKYHPIV-FE--------RVEEIDAAYRAH  189 (342)
Q Consensus       137 -----------i~s--~~dL~G~~I~v~~-GTT~e----~~l~~~~~~~~~~~~~v~-~~--------~~~~a~~al~~G  189 (342)
                                 +..  -.++.|++|+||- |.|.+    ..+.+.+++.|..+..|. |.        ..+..+.+..+|
T Consensus       121 wsp~ses~~Evl~~Ll~~gv~G~rIAVQlHGa~~~~eP~p~~~~~Lr~aGAeV~~V~vYRW~~p~d~~~l~~Lv~~i~~g  200 (381)
T PRK07239        121 WSPASESSAEVLEYLLEEGVAGKRIAVQLHGAADEWDPLPEFLEALRAAGAEVVPVPVYRWVPPPDGGPFDRLVDLIATR  200 (381)
T ss_pred             CCCCCCCHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCHHHHHHHHHCCCEEEEECCEECCCCCCCCHHHHHHHHHHHC
T ss_conf             27999877999999971798888899981476666687889999999779868895654326999854799999999708


Q ss_pred             CEEEEEECC
Q ss_conf             602998250
Q gi|254780170|r  190 RCDAYTGDI  198 (342)
Q Consensus       190 r~DA~~~D~  198 (342)
                      ++||++--.
T Consensus       201 ~vDAVtFTS  209 (381)
T PRK07239        201 QLDAVTFTS  209 (381)
T ss_pred             CCCEEEECC
T ss_conf             888899657


No 134
>TIGR01054 rgy reverse gyrase; InterPro: IPR005736   DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis , . DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA .   Type I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA.    Reverse gyrase is a type IA topoisomerase that is unique among these enzymes in its requirement for ATP. Reverse gyrase is a hyperthermophile-specific enzyme that acts as a renaturase by positively supercoiling DNA, and by annealing complementary single-strand circles . Hyperthermophilic organisms must protect themselves against heat-induced degradation, and reverse gyrase acts to reduce the rate of double-strand DNA breakage, a function that does not require ATP hydrolysis and which is independent of its positive supercoiling abilities. Reverse gyrase achieves this by recognising nicked DNA and recruiting a protein coat to the site of damage .   More information about this protein can be found at Protein of the Month: DNA Topoisomerase .; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0006265 DNA topological change, 0006268 DNA unwinding during replication, 0005694 chromosome.
Probab=54.44  E-value=17  Score=17.07  Aligned_cols=140  Identities=16%  Similarity=0.178  Sum_probs=82.4

Q ss_pred             ECCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHH---HHCCCCHHHCCC-CCCCCCCCEE
Q ss_conf             134269999999986299850787479899999987396029982504799999---836780010025-6444237101
Q gi|254780170|r  152 AGTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDAYTGDISALYALK---LTNDRPSEHVIL-PDIISKSPLA  227 (342)
Q Consensus       152 ~GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~---~~~~~p~~~~il-~e~iskEPlg  227 (342)
                      -|--..+.++++++.+|++++.+.-....+.++.|..|++|..++=.+ -.+..   ..+|.--.|.|. +-|=.|=|+-
T Consensus       374 yG~e~a~ei~~~L~~~Gv~A~~~~~~k~~~~~~~F~~GE~dVliG~a~-yyg~LVRGLDLP~rvRYAvF~G~Pk~k~~~~  452 (1843)
T TIGR01054       374 YGKEKAEEIKEFLREHGVKAVAYHAKKPKEDLEKFAEGEIDVLIGVAS-YYGVLVRGLDLPERVRYAVFLGVPKFKVPLK  452 (1843)
T ss_pred             CCHHHHHHHHHHHHHCCCEEEEEEECCCCCCHHHHHCCCEEEEEEEEC-CCCCEEECCCCCCHHEEEEECCCCCEEEEEE
T ss_conf             255899999999985794799984037732034663485136877101-5476353266610100023438995066412


Q ss_pred             EECCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCCCHHHHHHHCCCCCCCCHHHCCCC-HH-HHHHHHHHCCC
Q ss_conf             00027775799998877443311212330152089886226717788762358876503337998-67-99999997186
Q gi|254780170|r  228 PAIIQGDTEWYNIVSWTHYAMVTAEELGITQKNINQVSKDTTNPDVQRFLGIDKSSNIGEALGLT-KD-WTYRIIRHMGN  305 (342)
Q Consensus       228 ~avr~gD~~w~d~V~W~~~ali~Aee~git~~nv~~~~~~s~~p~i~r~lg~~~~~~~g~~lgl~-~~-~~~~~i~~vGN  305 (342)
                      .....----|.=   =++-.+|..|| +|     +     |..+.++++++     .+-..+-|+ -+ .+-+.|..-+.
T Consensus       453 ~~~~~p~~~~~L---LSl~~~~~~e~-~i-----~-----~~~~~~~~~~~-----~L~r~~~ls~~e~~~~~~~~~~~~  513 (1843)
T TIGR01054       453 VALSSPRRLLAL---LSLLALILKEE-RI-----E-----SLAEKARKLLG-----RLKRYIDLSVIERALEEKLEARRA  513 (1843)
T ss_pred             ECCCCHHHHHHH---HHHHHHHHCCC-CH-----H-----HHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             037875789999---99999851432-03-----5-----78999999999-----998865444332888999985237


Q ss_pred             HHHHHH
Q ss_conf             999878
Q gi|254780170|r  306 YGEMFD  311 (342)
Q Consensus       306 Ygei~~  311 (342)
                      +|||=+
T Consensus       514 ~~e~~~  519 (1843)
T TIGR01054       514 RGEVKE  519 (1843)
T ss_pred             CCHHHH
T ss_conf             650220


No 135
>pfam02642 consensus
Probab=54.31  E-value=17  Score=17.05  Aligned_cols=103  Identities=17%  Similarity=0.022  Sum_probs=52.1

Q ss_pred             HHCCCCEEEEECCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCC---
Q ss_conf             41786203431342699999999862998507874798999999873960299825047999998367800100256---
Q gi|254780170|r  142 QLSGASICVQAGTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILP---  218 (342)
Q Consensus       142 dL~G~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~---  218 (342)
                      ++++++|+|.---||.-.|   ++-...+++++.. ..++...|+.+|++||-+-=    .-.|..+++ +-++++.   
T Consensus        90 ~l~~~~iAvPG~~TTA~lL---~~l~~~~~~~v~~-~FdeI~~aV~~G~vDaGviI----HE~rftY~~-gL~~~~DLG~  160 (259)
T pfam02642        90 SLKLKRLATPGEHTTAHLL---CKLYYPDAELVPM-PFDRIIQAVLEGKVDAGALI----HEERFSYHD-GLKVVKDLGD  160 (259)
T ss_pred             CCCCCEEECCCHHHHHHHH---HHHHCCCCEEEEE-EHHHHHHHHHCCCCCCEEEE----EHHHHHHHC-CCEEEEEHHH
T ss_conf             7789989787736799999---9985588759995-68998999975998710797----631421403-9878735889


Q ss_pred             ----CCCCCCCEEE-ECCCC-CHHHHH-HHHHHHHHHHHHHH
Q ss_conf             ----4442371010-00277-757999-98877443311212
Q gi|254780170|r  219 ----DIISKSPLAP-AIIQG-DTEWYN-IVSWTHYAMVTAEE  253 (342)
Q Consensus       219 ----e~iskEPlg~-avr~g-D~~w~d-~V~W~~~ali~Aee  253 (342)
                          ++-.-=|||. ++|+. +.+... +-++.-.++-.|.+
T Consensus       161 wW~~~tglPlPLG~ivirr~Lg~~~~~~~~~~lr~Si~yA~~  202 (259)
T pfam02642       161 LWKEKVDLPLPLGCNAIRKDVPLEVVILLKRALRESLETALK  202 (259)
T ss_pred             HHHHHCCCCCCCHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             987740998763467866107999999999999999999997


No 136
>PRK03147 thiol-disulfide oxidoreductase; Provisional
Probab=54.09  E-value=9.9  Score=18.59  Aligned_cols=49  Identities=8%  Similarity=0.161  Sum_probs=26.8

Q ss_pred             CHHHHHHHHHHHHHHHHHH-----CCCCCHHHHHHHHCCEEEEEEECCCCCCEEECCCCCEE
Q ss_conf             9138999999999999840-----12442168999857949998717898830688989880
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTS-----FSTNASILGDIKKRGFLKCGINTGLVGFAEVKANGDWK   57 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~-----~aa~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~   57 (342)
                      |||+++.....+++++++.     ........+.      +.  +....|.|+..|-+|+..
T Consensus         2 mkk~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~------~~--iG~~aP~f~l~~l~G~~v   55 (176)
T PRK03147          2 MKKNRLLFRTIILLILLAAVGYTLYQNFFADKEK------MQ--VGKEAPNFVLTDLEGKKI   55 (176)
T ss_pred             CCCEEEHHHHHHHHHHHHHHHHHHHCCCCCCCCC------CC--CCCCCCCCEEECCCCCEE
T ss_conf             8620439999999999999999986167778752------33--799089716278998987


No 137
>cd01423 MGS_CPS_I_III Methylglyoxal synthase-like domain found in pyr1 and URA1-like carbamoyl phosphate synthetases (CPS), including ammonia-dependent CPS Type I, and glutamine-dependent CPS Type III. These are multidomain proteins, in which MGS is the C-terminal domain.
Probab=53.91  E-value=18  Score=17.01  Aligned_cols=46  Identities=17%  Similarity=0.310  Sum_probs=32.1

Q ss_pred             CCCEEEEECCCHHHHHHHHHHHCCCCCCEEE--EC----CHHHHHHHHHCCCEEEEEE
Q ss_conf             8620343134269999999986299850787--47----9899999987396029982
Q gi|254780170|r  145 GASICVQAGTTTELTLADYFKAHNMKYHPIV--FE----RVEEIDAAYRAHRCDAYTG  196 (342)
Q Consensus       145 G~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~--~~----~~~~a~~al~~Gr~DA~~~  196 (342)
                      |=++....||      +++++++|++.+++.  .+    +.......+.+|++|.++.
T Consensus        26 Gf~l~AT~GT------a~~l~~~Gi~~~~v~k~~e~~~~~~p~i~d~i~~g~i~lVIN   77 (116)
T cd01423          26 GYKLYATEGT------ADFLLENGIPVTPVAWPSEEPQNDKPSLRELLAEGKIDLVIN   77 (116)
T ss_pred             CCEEEEEHHH------HHHHHHCCCCCEEEEEECCCCCCCCCCHHHHHHCCCEEEEEE
T ss_conf             9999984189------999998699657987862467899966999997698689998


No 138
>COG4134 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=53.70  E-value=18  Score=16.99  Aligned_cols=20  Identities=0%  Similarity=-0.311  Sum_probs=16.6

Q ss_pred             CHHHHHHHHHCCCEEEEEEC
Q ss_conf             98999999873960299825
Q gi|254780170|r  178 RVEEIDAAYRAHRCDAYTGD  197 (342)
Q Consensus       178 ~~~~a~~al~~Gr~DA~~~D  197 (342)
                      +..++++.|..|+.+--++-
T Consensus       244 g~Adml~lL~dG~L~l~~t~  263 (384)
T COG4134         244 GPADMLQLLNDGTLYLTLTF  263 (384)
T ss_pred             CHHHHHHHHCCCCEEEEECC
T ss_conf             87899987417847886046


No 139
>PRK03094 hypothetical protein; Provisional
Probab=53.63  E-value=15  Score=17.45  Aligned_cols=40  Identities=20%  Similarity=0.370  Sum_probs=28.8

Q ss_pred             CCEEEEECCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCCCEEEEEE
Q ss_conf             620343134269999999986299850787479899999987396029982
Q gi|254780170|r  146 ASICVQAGTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDAYTG  196 (342)
Q Consensus       146 ~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA~~~  196 (342)
                      +||+|..+=|   +++++++++|  |+++..++..++      ..|||.+.
T Consensus         2 ~kIaVE~~Ls---~v~~~L~~~G--Y~Vv~l~~~~~a------~~~Da~Vi   41 (80)
T PRK03094          2 AKIGVENSLT---DVQQALKQKG--YEVVTLNSEQDA------QGCDCCVV   41 (80)
T ss_pred             CCEEECCCCH---HHHHHHHHCC--CEEEECCCCCCC------CCCCEEEE
T ss_conf             8167326725---9999999779--878966871433------56788999


No 140
>PRK10159 outer membrane phosphoporin protein E; Provisional
Probab=53.50  E-value=7.9  Score=19.21  Aligned_cols=22  Identities=14%  Similarity=0.058  Sum_probs=15.3

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             9138999999999999840124
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFST   22 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa   22 (342)
                      |||+++.+++.+++++.++.|+
T Consensus         1 MKk~~lA~ai~a~l~s~~a~Aa   22 (351)
T PRK10159          1 MKKSTLALVVMGIVASASVQAA   22 (351)
T ss_pred             CCHHHHHHHHHHHHHCCCCCEE
T ss_conf             9473899999999872653179


No 141
>PRK10752 sulfate transporter subunit; Provisional
Probab=53.28  E-value=18  Score=16.95  Aligned_cols=183  Identities=12%  Similarity=0.084  Sum_probs=81.8

Q ss_pred             CCCCCCCCEEEEEECCC--CCCCHHHHCCCCEEEE---ECCC---HHHHHHHHH---HHCCCC------------CCEEE
Q ss_conf             53223440234630211--3475364178620343---1342---699999999---862998------------50787
Q gi|254780170|r  119 RPITYFDGQGFIMHKKK--GISSVSQLSGASICVQ---AGTT---TELTLADYF---KAHNMK------------YHPIV  175 (342)
Q Consensus       119 s~~~~~dgq~~lVrk~~--~i~s~~dL~G~~I~v~---~GTT---~e~~l~~~~---~~~~~~------------~~~v~  175 (342)
                      +.| |++-..|+|||+.  +|+++.||-..-|-|+   .-|+   --..|+.|-   ++.+-+            -++..
T Consensus       109 s~p-ytStivflVRkGNPK~IkdW~DL~k~gV~VItPNPKTSG~aRwn~LAawg~a~~~~gg~e~~a~~fv~~l~~NV~v  187 (329)
T PRK10752        109 SAP-YTSTIVFLVRKGNPKQIHDWNDLIKPGVSVITPNPKSSGGARWNYLAAWGYALHHNNNDQAKAQDFVKALYKNVEV  187 (329)
T ss_pred             CCC-EEEEEEEEECCCCCCCCCCHHHHCCCCCEEECCCCCCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCC
T ss_conf             965-2237999971899566877467464897897689988731779999999999972499999999999999836852


Q ss_pred             ECC-HHHHHHHH-HCCCEEEEEECCHHHHHHHHHCCCCHHH-CCCCC-CCCCCCEEEECCCCCHH--HHHHHHHHHHHHH
Q ss_conf             479-89999998-7396029982504799999836780010-02564-44237101000277757--9999887744331
Q gi|254780170|r  176 FER-VEEIDAAY-RAHRCDAYTGDISALYALKLTNDRPSEH-VILPD-IISKSPLAPAIIQGDTE--WYNIVSWTHYAMV  249 (342)
Q Consensus       176 ~~~-~~~a~~al-~~Gr~DA~~~D~s~La~~~~~~~~p~~~-~il~e-~iskEPlg~avr~gD~~--w~d~V~W~~~ali  249 (342)
                      +++ .-++...| +.|.-|++.+=-.........+. ++.+ +|.|. .|.-||--.+|.+.-+.  =+.+..--+.=|.
T Consensus       188 ld~gaR~AT~tF~~rg~GDVLlt~ENEa~l~~~~~g-~~~~eiV~P~~silae~pVAvVd~~vdk~GTr~~A~ayl~fLy  266 (329)
T PRK10752        188 LDSGARGSTNTFVERGIGDVLIAWENEALLAANELG-KDKFEIVTPSESILAEPTVSVVDKVVEKKGTREVAEAYLKYLY  266 (329)
T ss_pred             CCCCCHHHHHHHHHCCCCCEEEEHHHHHHHHHHHCC-CCCCEEECCCCCEECCCCEEEEECCCCCCCCHHHHHHHHHHHC
T ss_conf             589734677899864867557634379999998608-9986287899635515975998344566688999999999865


Q ss_pred             HHHHHHCCHHHHHHHHHCCCCHHHHHHHCCCCCCCCHHHCCCCHHHHHHHHHHCCCHHHHHHHHCCCC
Q ss_conf             12123301520898862267177887623588765033379986799999997186999878864888
Q gi|254780170|r  250 TAEELGITQKNINQVSKDTTNPDVQRFLGIDKSSNIGEALGLTKDWTYRIIRHMGNYGEMFDRNLGNQ  317 (342)
Q Consensus       250 ~Aee~git~~nv~~~~~~s~~p~i~r~lg~~~~~~~g~~lgl~~~~~~~~i~~vGNYgei~~rnlg~~  317 (342)
                      .-|..-|    ..+.---..||+|..=.-        ..+  ++-=...|-..-|...++-.+||.++
T Consensus       267 s~eaQ~i----~Ak~~yRP~~~~v~~~~~--------~~F--P~i~l~ti~~~fGgW~~~q~~~F~dG  320 (329)
T PRK10752        267 SPEGQEI----AAKNYYRPRDAEVAKKYE--------NAF--PKLKLFTIDEEFGGWTKAQKEHFANG  320 (329)
T ss_pred             CHHHHHH----HHHHCCCCCCHHHHHHHH--------CCC--CCCCEEEEECCCCCHHHHHHHHCCCC
T ss_conf             9799999----998088989978988765--------439--98514763324389899999970489


No 142
>COG0077 PheA Prephenate dehydratase [Amino acid transport and metabolism]
Probab=53.28  E-value=18  Score=16.95  Aligned_cols=122  Identities=11%  Similarity=0.127  Sum_probs=67.2

Q ss_pred             HHHHCCCCCEEEEEEC-CCCCCHHHHHCCCEEEEEECCCCCCCC------HHCC--CCC-CCCCCCCCCEEEEEECCCCC
Q ss_conf             9996798220259981-431002677439627998124325320------1102--784-35322344023463021134
Q gi|254780170|r   68 SSAIFDDPSKIQYLPL-NAKERFLALQSKQIDILSRNTDWTLLR------EISL--GLA-FRPITYFDGQGFIMHKKKGI  137 (342)
Q Consensus        68 Aaal~gd~~kVe~v~~-~~~~rf~aL~sG~vDil~~~~T~T~~R------d~~~--~v~-Fs~~~~~dgq~~lVrk~~~i  137 (342)
                      |...+++.  +++.|. +..+.|.++.+|++|..+=..--|.+=      |...  .+. +...+.--.+.+|++..   
T Consensus        19 a~~~f~~~--~~~~p~~ti~evf~ave~g~aD~gVVPIENS~eG~V~~tlDlL~~~~l~IvgE~~lpI~h~L~~~~~---   93 (279)
T COG0077          19 ARKLFGSG--AELLPCSTIEDVFKAVENGEADYGVVPIENSIEGSVNETLDLLAETDLQIVGEIVLPIHHCLLVKGG---   93 (279)
T ss_pred             HHHHCCCC--CEECCCCCHHHHHHHHHCCCCCEEEEEEEECCCCCHHHHHHHHCCCCCEEEEEEEEEEEEEEEECCC---
T ss_conf             99861035--4012479999999999769986699976603884038878754359868999999877999981688---


Q ss_pred             CCHHHHCC-CCEEEEECCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHC---CCEEEEEECCH
Q ss_conf             75364178-6203431342699999999862998507874798999999873---96029982504
Q gi|254780170|r  138 SSVSQLSG-ASICVQAGTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYRA---HRCDAYTGDIS  199 (342)
Q Consensus       138 ~s~~dL~G-~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~---Gr~DA~~~D~s  199 (342)
                         .+|+. ++|-...-.-  ..-.+|++++.+.++++...+..++.+.+..   ..+-|+.+..+
T Consensus        94 ---~~l~~Ik~vySHpqal--aQc~~~L~~~~p~~~~~~~~STa~Aak~v~~~~~~~~AAIas~~a  154 (279)
T COG0077          94 ---VDLEEIKTVYSHPQAL--AQCRKFLRAHLPGVEIEYTSSTAEAAKLVAEGPDETVAAIASELA  154 (279)
T ss_pred             ---CCHHHCEEEEECCHHH--HHHHHHHHHCCCCCEEEECCCHHHHHHHHHHCCCCCEEEECCHHH
T ss_conf             ---8866575887472899--999999997288836998178899999997289867368769878


No 143
>PRK00031 lolA outer-membrane lipoprotein carrier protein; Reviewed
Probab=53.24  E-value=14  Score=17.60  Aligned_cols=25  Identities=24%  Similarity=0.340  Sum_probs=14.8

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCH
Q ss_conf             9138999999999999840124421
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNAS   25 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~   25 (342)
                      |||.++++++++.++++.+.|...+
T Consensus         1 mk~~~~~~~~~~~l~~~~~~A~~~~   25 (201)
T PRK00031          1 MKKLLIAALLAAALVASSAFADAAS   25 (201)
T ss_pred             CCHHHHHHHHHHHHHHHHHCCCHHH
T ss_conf             9159999999999877664502899


No 144
>PRK10002 outer membrane protein F; Provisional
Probab=53.21  E-value=8.6  Score=18.98  Aligned_cols=22  Identities=14%  Similarity=0.196  Sum_probs=12.9

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             9138999999999999840124
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFST   22 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa   22 (342)
                      |||++|.+++.+++++.++.|+
T Consensus         2 MKK~~LA~ai~all~ag~a~AA   23 (362)
T PRK10002          2 MKRNILAVIVPALLVAGTANAA   23 (362)
T ss_pred             CHHHHHHHHHHHHHHHCCCCEE
T ss_conf             3087999999999860644178


No 145
>PRK03757 hypothetical protein; Provisional
Probab=53.08  E-value=10  Score=18.48  Aligned_cols=22  Identities=18%  Similarity=0.066  Sum_probs=14.8

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             9138999999999999840124
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFST   22 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa   22 (342)
                      |||.++.++++++++..++..+
T Consensus         1 mkk~~l~~~l~a~~~~~~~A~a   22 (191)
T PRK03757          1 MKKTLLGLTLGSLLFSAGSAVA   22 (191)
T ss_pred             CCHHHHHHHHHHHHHHCCCCCC
T ss_conf             9043999999999863040457


No 146
>PRK08206 diaminopropionate ammonia-lyase; Provisional
Probab=52.71  E-value=18  Score=16.89  Aligned_cols=203  Identities=16%  Similarity=0.193  Sum_probs=106.3

Q ss_pred             HHHHHCCCCCEEEEEE-CCCCCCHHHHHCCCEEEEEECCCCCCCCHH------CCCCCCCC----C-------CCCCCEE
Q ss_conf             9999679822025998-143100267743962799812432532011------02784353----2-------2344023
Q gi|254780170|r   67 LSSAIFDDPSKIQYLP-LNAKERFLALQSKQIDILSRNTDWTLLREI------SLGLAFRP----I-------TYFDGQG  128 (342)
Q Consensus        67 iAaal~gd~~kVe~v~-~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~------~~~v~Fs~----~-------~~~dgq~  128 (342)
                      .+++.+|-+ .+-|+| ..+..|..++.+--.+|+.-+-++....+.      ..+.-|..    +       +...||+
T Consensus       113 ~~A~~~G~~-a~I~mp~~~~~~k~~~i~~~GAeVi~~~~~yd~a~~~A~~~A~~~g~~lV~Dts~~gY~~iP~~Vm~Gy~  191 (379)
T PRK08206        113 WAAQQLGQK-AVIYMPKGSSEERVEAIRALGAECIRTDGNYDDSVRLAAQEAQENGWVVVQDTAWEGYEEIPTWIMQGYG  191 (379)
T ss_pred             HHHHHCCCC-EEEEECCCCCHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCHHHHHHHHH
T ss_conf             999983997-8999179999999999996599899968868999999999999759889735887664447698885199


Q ss_pred             EEEECCCCCCCHHHHCC--C---CEEEEEC--CCHHHHHHHHHH----HCCCCCCEEEECCHHHHHHHHHCCCEEEEEEC
Q ss_conf             46302113475364178--6---2034313--426999999998----62998507874798999999873960299825
Q gi|254780170|r  129 FIMHKKKGISSVSQLSG--A---SICVQAG--TTTELTLADYFK----AHNMKYHPIVFERVEEIDAAYRAHRCDAYTGD  197 (342)
Q Consensus       129 ~lVrk~~~i~s~~dL~G--~---~I~v~~G--TT~e~~l~~~~~----~~~~~~~~v~~~~~~~a~~al~~Gr~DA~~~D  197 (342)
                      .+..     .-.++|..  .   -|-++.|  +-... +..+++    ...+++..|.=+..+..++.+.+|+.-.+..+
T Consensus       192 Ti~~-----Ei~eQl~~~~~~pthV~~~~GvGglaag-v~~~~~~~~~~~~p~ii~VEP~~A~c~~~S~~~G~~v~v~~~  265 (379)
T PRK08206        192 TMAD-----EAVEQLKEGGEPPTHVFLQAGVGGLAAA-VLGYLAEVYGEQRPHFIVVEPDQADCLYQSARDGKPVAVTGD  265 (379)
T ss_pred             HHHH-----HHHHHHHHCCCCCCEEEEECCCCHHHHH-HHHHHHHHCCCCCCEEEEECCCCCHHHHHHHHHCCCEECCCC
T ss_conf             9999-----9999755217888779990580369999-999999974678976999677757699999985996671686


Q ss_pred             -CHHHHHHHHHCCCCHHHCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHH-----HHHHHHHHHCCH-HHHHHHHHCCCC
Q ss_conf             -0479999983678001002564442371010002777579999887744-----331121233015-208988622671
Q gi|254780170|r  198 -ISALYALKLTNDRPSEHVILPDIISKSPLAPAIIQGDTEWYNIVSWTHY-----AMVTAEELGITQ-KNINQVSKDTTN  270 (342)
Q Consensus       198 -~s~La~~~~~~~~p~~~~il~e~iskEPlg~avr~gD~~w~d~V~W~~~-----ali~Aee~git~-~nv~~~~~~s~~  270 (342)
                       .++..++.-..+.+-.|.||...     ..-.|.=.|.+=.+.+|+-.+     .-|.|||.|-.. +-+...+.+...
T Consensus       266 ~~TimdGL~cg~ps~~aw~iL~~~-----~d~~vtVsD~~i~~Amr~La~~~~~d~~IvagpsGAaglAaL~~~~~~~~~  340 (379)
T PRK08206        266 MDTIMAGLACGEPNPLAWEILRNC-----ADAFISCDDEVAALGMRILANPLGGDPPIVSGESGAVGLGLLYALMSDPDY  340 (379)
T ss_pred             CCCCCCCCCCCCCCHHHHHHHHHH-----CCEEEEECHHHHHHHHHHHHCCCCCCCCEEEECCHHHHHHHHHHHHHCCCH
T ss_conf             123003345698774789999975-----996999767999999999856657899746616548999999999848314


Q ss_pred             HHHHHHHCCCC
Q ss_conf             77887623588
Q gi|254780170|r  271 PDVQRFLGIDK  281 (342)
Q Consensus       271 p~i~r~lg~~~  281 (342)
                      .+.++-||+++
T Consensus       341 ~~~~~~lgl~~  351 (379)
T PRK08206        341 QELREKLGLDE  351 (379)
T ss_pred             HHHHHHCCCCC
T ss_conf             89999769798


No 147
>pfam00405 Transferrin Transferrin.
Probab=52.70  E-value=18  Score=16.89  Aligned_cols=160  Identities=13%  Similarity=0.142  Sum_probs=81.7

Q ss_pred             HHHHHHHHHHCCCC-CEEEEEE-CCCCCCHHHHHCCCEEEEEEC--CCCCCCCHHCCCC--C---------CCCCCCCCC
Q ss_conf             99999999967982-2025998-143100267743962799812--4325320110278--4---------353223440
Q gi|254780170|r   62 DFCRALSSAIFDDP-SKIQYLP-LNAKERFLALQSKQIDILSRN--TDWTLLREISLGL--A---------FRPITYFDG  126 (342)
Q Consensus        62 Dl~raiAaal~gd~-~kVe~v~-~~~~~rf~aL~sG~vDil~~~--~T~T~~Rd~~~~v--~---------Fs~~~~~dg  126 (342)
                      .=|++++++.-.+. -.++-+. .+..+-+.+++.|+.|++.-.  --++..|. .+++  -         -....||  
T Consensus        12 ~KC~~l~~a~~~~~~p~i~Cv~~~s~~~C~~~I~~~~AD~~~ldgg~vy~Ag~~-~y~L~Pi~~E~y~~~~~~~~~Y~--   88 (328)
T pfam00405        12 KKCGSLRDNMKKVGGPSLSCVKKSSYLECIQAIAENEADAITLDGGLVYEAGLA-PYKLKPVAAEVYGSKEEPQTHYY--   88 (328)
T ss_pred             HHHHHHHHHHHHCCCCCEEEECCCCHHHHHHHHHCCCCCEEEECHHHHHHHHCC-CCCCEEEEEECCCCCCCCCCEEE--
T ss_conf             999999999864379865875189999999999769998898686999986446-58986689751257788985489--


Q ss_pred             EEEEEECCCCCCCHHHHCCCCEEEE-ECCCH----------------------HHHHHHHHHHCCCC-C-----------
Q ss_conf             2346302113475364178620343-13426----------------------99999999862998-5-----------
Q gi|254780170|r  127 QGFIMHKKKGISSVSQLSGASICVQ-AGTTT----------------------ELTLADYFKAHNMK-Y-----------  171 (342)
Q Consensus       127 q~~lVrk~~~i~s~~dL~G~~I~v~-~GTT~----------------------e~~l~~~~~~~~~~-~-----------  171 (342)
                      ...+|||++.+ ++.+|.||+-|-. -|.|.                      +..+.+||.+.=.+ .           
T Consensus        89 aVAVVkk~s~~-~~~~LrGkkSCHtg~g~taGw~iPig~l~~~~~~~~~~~~~~~avs~FF~~SCvPGa~~~~~~~LC~l  167 (328)
T pfam00405        89 AVAVVKKGSNF-QLNQLQGKKSCHTGLGRSAGWNIPIGLLRPQLPWAIPREPLEKAVSKFFSASCVPGADEGAFPKLCQL  167 (328)
T ss_pred             EEEEEECCCCC-CHHHCCCCCCCCCCCCCCCCCCCCHHHHHCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCHHHH
T ss_conf             99999768876-67561798631367787433011289873126757899858899998606246689899878524654


Q ss_pred             ------------CEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCCCC
Q ss_conf             ------------078747989999998739602998250479999983678001002564442371
Q gi|254780170|r  172 ------------HPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDIISKSP  225 (342)
Q Consensus       172 ------------~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~iskEP  225 (342)
                                  ..-.|-.+.-|++=|..|.=|.-+...+.+...-....++++|.+|=.-=++.|
T Consensus       168 C~G~~~~~C~~~~~e~Y~Gy~GAfrCL~eg~GDVAFvkh~tV~en~~~~~~~~dyeLLC~dGtr~~  233 (328)
T pfam00405       168 CAGDGENKCACSNNEPYFGYSGAFKCLKDGAGDVAFVKHSTVFENLPDKADRDQYELLCPDNTRKP  233 (328)
T ss_pred             CCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCEEEEECCCHHHHCCCCCCHHHHHHCCCCCCCCC
T ss_conf             789986767899877665740099865318975698705436653678877344521688989677


No 148
>PRK01326 prsA foldase protein PrsA; Reviewed
Probab=52.60  E-value=14  Score=17.62  Aligned_cols=46  Identities=11%  Similarity=0.111  Sum_probs=26.1

Q ss_pred             CHHHHHHHHHHHCCCCC--CEEEECCHHHH---HHHHHC-CCEEEEEECCHHHHHHHH
Q ss_conf             26999999998629985--07874798999---999873-960299825047999998
Q gi|254780170|r  155 TTELTLADYFKAHNMKY--HPIVFERVEEI---DAAYRA-HRCDAYTGDISALYALKL  206 (342)
Q Consensus       155 T~e~~l~~~~~~~~~~~--~~v~~~~~~~a---~~al~~-Gr~DA~~~D~s~La~~~~  206 (342)
                      .++..+..++....+.+  ..+.+++.++|   ...|.+ |      .|-..||-...
T Consensus       130 iTd~~lK~~y~~y~p~v~a~hIlv~~e~~Ak~vi~~l~a~G------~dFa~lAKe~S  181 (310)
T PRK01326        130 LTDEEYKKAYESYTPEVTVQIITLDNEDKAKSVLEEAKAEG------ADFAQIAKEKT  181 (310)
T ss_pred             CCHHHHHHHHHHCCCCEEEEEEEECCHHHHHHHHHHHHCCC------CCHHHHHHHCC
T ss_conf             78899999997349853789987256888999999986378------74899986525


No 149
>pfam03698 UPF0180 Uncharacterized protein family (UPF0180). The members of this family are small uncharacterized proteins.
Probab=51.42  E-value=17  Score=17.08  Aligned_cols=40  Identities=18%  Similarity=0.396  Sum_probs=28.7

Q ss_pred             CCEEEEECCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCCCEEEEEE
Q ss_conf             620343134269999999986299850787479899999987396029982
Q gi|254780170|r  146 ASICVQAGTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDAYTG  196 (342)
Q Consensus       146 ~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA~~~  196 (342)
                      +||+|..+=|   +++++++++|  |+++..++..++      ..|||.+.
T Consensus         2 ~kIaVE~~Ls---~v~e~L~~~G--y~Vv~l~~~~~~------~~~da~Vi   41 (80)
T pfam03698         2 KKIAVEQSLS---NIEEALKEKG--YEVVRLKNEQDA------QGCDACVV   41 (80)
T ss_pred             CCEEECCCCH---HHHHHHHHCC--CEEEECCCCCCC------CCCCEEEE
T ss_conf             8266326725---9999999779--878867870325------66588999


No 150
>PRK09706 transcriptional repressor DicA; Reviewed
Probab=51.33  E-value=11  Score=18.33  Aligned_cols=12  Identities=25%  Similarity=0.700  Sum_probs=6.3

Q ss_pred             CCCHHHHHHHHC
Q ss_conf             186999878864
Q gi|254780170|r  303 MGNYGEMFDRNL  314 (342)
Q Consensus       303 vGNYgei~~rnl  314 (342)
                      +=||-++|+.-|
T Consensus       115 ~~~~~~l~~Ell  126 (135)
T PRK09706        115 VENFNKLFEELL  126 (135)
T ss_pred             HHHHHHHHHHHH
T ss_conf             999999999999


No 151
>PRK10554 outer membrane porin protein C; Provisional
Probab=50.68  E-value=9.4  Score=18.74  Aligned_cols=22  Identities=5%  Similarity=0.010  Sum_probs=15.7

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             9138999999999999840124
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFST   22 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa   22 (342)
                      |||++|.+++.+++++.++.|+
T Consensus         1 MKk~~LA~~i~all~ag~a~AA   22 (373)
T PRK10554          1 MKVKVLSLLVPALLVAGAANAA   22 (373)
T ss_pred             CCHHHHHHHHHHHHHHCCCCEE
T ss_conf             9540899999999860753179


No 152
>PRK00830 consensus
Probab=49.93  E-value=20  Score=16.62  Aligned_cols=12  Identities=8%  Similarity=0.188  Sum_probs=5.0

Q ss_pred             HHHHHHHHHHHH
Q ss_conf             099999999996
Q gi|254780170|r   60 DVDFCRALSSAI   71 (342)
Q Consensus        60 DVDl~raiAaal   71 (342)
                      +.++.+.+++..
T Consensus        66 ~~~~I~~i~~~~   77 (273)
T PRK00830         66 MIDVIERTAEEV   77 (273)
T ss_pred             HHHHHHHHHHHC
T ss_conf             799999999866


No 153
>COG0687 PotD Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]
Probab=49.78  E-value=20  Score=16.60  Aligned_cols=209  Identities=15%  Similarity=0.119  Sum_probs=101.8

Q ss_pred             CEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCC-CCCHHHHHCCC--EEEEEECCCCCCCC
Q ss_conf             9499987178988306889898801509999999999679822025998143-10026774396--27998124325320
Q gi|254780170|r   34 GFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNA-KERFLALQSKQ--IDILSRNTDWTLLR  110 (342)
Q Consensus        34 G~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~-~~rf~aL~sG~--vDil~~~~T~T~~R  110 (342)
                      .+|++-.-.+|-+     +.         +.+...++.+   .+|.+...++ ......+..|.  +|++.-+..+- .|
T Consensus        32 ~~l~v~~w~gy~~-----~~---------~~~~F~k~tG---i~V~~~~~~sne~~~ak~~~g~~~~Dvv~~s~~~~-~~   93 (363)
T COG0687          32 KTLNVYNWGGYID-----PA---------LLKPFEKETG---IKVVYDTFDSNEEMLAKLKAGGGGYDVVVPSGYFV-AR   93 (363)
T ss_pred             CEEEEECCCCCCC-----HH---------HHHHHHHHHC---CEEEEECCCCHHHHHHHHHHCCCCCCEEECCHHHH-HH
T ss_conf             8599964787557-----78---------8998999989---97999538986999999980899988797188899-99


Q ss_pred             H-----------------------------HCCCCCCCCCCCCCCEEEEEECCC-----CCCCHHHHC---------CCC
Q ss_conf             1-----------------------------102784353223440234630211-----347536417---------862
Q gi|254780170|r  111 E-----------------------------ISLGLAFRPITYFDGQGFIMHKKK-----GISSVSQLS---------GAS  147 (342)
Q Consensus       111 d-----------------------------~~~~v~Fs~~~~~dgq~~lVrk~~-----~i~s~~dL~---------G~~  147 (342)
                      -                             ...+-.++.||++-..+|..+++.     ..+|+++|=         |+.
T Consensus        94 ~~~~gll~~lD~skl~n~~~l~~~~~~~~~~d~g~~y~vPy~~g~t~i~Yn~~~~~~~~~~~sW~~l~d~~~~~~~k~~~  173 (363)
T COG0687          94 LIKEGLLQPLDKSKLPNWKNLDPEFLNPPKFDPGNKYSVPYFWGTTGIAYNTDKVKDAPPPTSWADLFDPEKFPGLKGKG  173 (363)
T ss_pred             HHHCCCCCCCCHHHCCCHHHCCHHHHCCCCCCCCCEECEEEEEEEEEEEEECCCCCCCCCCCCHHHHHCCHHHHHHCCCC
T ss_conf             98667567589666648211698783577678888603167886469999800058999998899983842002232575


Q ss_pred             EEEE---------------EC--CCHHHHHHHHHHHCCCCCC--EEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHC
Q ss_conf             0343---------------13--4269999999986299850--787479899999987396029982504799999836
Q gi|254780170|r  148 ICVQ---------------AG--TTTELTLADYFKAHNMKYH--PIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTN  208 (342)
Q Consensus       148 I~v~---------------~G--TT~e~~l~~~~~~~~~~~~--~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~  208 (342)
                      +.+.               .+  ++.+..+...+..-. +.+  .+.+.+..+..+.|.+|+++....=.......+...
T Consensus       174 ~~~~d~~~~~~~~al~~lg~~~n~~~~~~~~~a~~~L~-~~kp~~~~~~~~~~~~~~l~~Gev~~a~~w~g~~~~~~~~~  252 (363)
T COG0687         174 VALLDDDREVFGAALALLGKSPNTTDPEDLKKAFDLLD-KLKPVNVYWFDGSQYVQLLANGEVVLAMGWSGDAAAAKAAK  252 (363)
T ss_pred             CCCCCCCHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHH-HHCCCEEEEECCHHHHHHHHCCCEEEEEEECHHHHHHHHCC
T ss_conf             30136605789999997189978899889999999999-72785089963627888986699789997777899986255


Q ss_pred             CCCHHHCCCCC-CCCCCCEEEECCCCCHHHHHHHHHHHH------HHHHHHHHHCCHHHH
Q ss_conf             78001002564-442371010002777579999887744------331121233015208
Q gi|254780170|r  209 DRPSEHVILPD-IISKSPLAPAIIQGDTEWYNIVSWTHY------AMVTAEELGITQKNI  261 (342)
Q Consensus       209 ~~p~~~~il~e-~iskEPlg~avr~gD~~w~d~V~W~~~------ali~Aee~git~~nv  261 (342)
                      ..+.-..+.|+ .-.-=.-..++++|=+.=-..-.|.-|      +-..++..|-...|.
T Consensus       253 ~~~~i~~~~p~eG~~~w~D~~~ipk~a~n~~~A~~fInf~~~pe~~a~~~~~~~y~~~n~  312 (363)
T COG0687         253 NGAPIEFVIPKEGSILWFDNLAIPKGAKNVDAAYKFINFLLDPEVAAKLAEFVGYAPPNK  312 (363)
T ss_pred             CCCEEEEECCCCCCEEEEEEEEEECCCCCHHHHHHHHHHHCCHHHHHHHHHHHCCCCCCH
T ss_conf             898057734788734787889987999998999999998519899999987326788887


No 154
>pfam11588 DUF3243 Protein of unknown function (DUF3243). This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=49.51  E-value=6.7  Score=19.66  Aligned_cols=54  Identities=22%  Similarity=0.521  Sum_probs=36.0

Q ss_pred             HHHHHCCCCCCCCHHHCCCCHHHHHHHHHHCCCHHHHHHHHCCCCCCCCCCCCCCCHHHCC
Q ss_conf             8876235887650333799867999999971869998788648889998875576034289
Q gi|254780170|r  273 VQRFLGIDKSSNIGEALGLTKDWTYRIIRHMGNYGEMFDRNLGNQSELKIPRGYNALWSKG  333 (342)
Q Consensus       273 i~r~lg~~~~~~~g~~lgl~~~~~~~~i~~vGNYgei~~rnlg~~s~l~~~r~~N~lw~~g  333 (342)
                      =+.|||-  --+.++.+|++.+-..++..+||+|   ...|+-|..  .-+|-+-.||..|
T Consensus        10 wK~~Lg~--rv~~a~~~Gm~ee~i~~~A~~iGdy---LA~~vdP~N--~eerlLkELW~va   63 (81)
T pfam11588        10 WKDFLGD--RVNLAKKIGMSEETISKLAYRIGDY---LAKNVDPQN--REERLLKELWDVA   63 (81)
T ss_pred             HHHHHHH--HHHHHHHCCCCHHHHHHHHHHHHHH---HHHCCCCCC--HHHHHHHHHHHHC
T ss_conf             9999999--9999998599889999999999999---986279998--7999999999767


No 155
>COG4143 TbpA ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]
Probab=49.48  E-value=21  Score=16.57  Aligned_cols=177  Identities=15%  Similarity=0.124  Sum_probs=91.0

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEE
Q ss_conf             91389999999999998401244216899985794999871789883068898988015099999999996798220259
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQY   80 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~   80 (342)
                      |++.+...++++++++.+.| +.+.+       -+|+|++...+.     -   +| |---.+.+++-++-.   .+|+|
T Consensus         1 m~~~l~~~~~~all~~~~~~-a~~~t-------~~LtVytydSF~-----~---ew-g~Gp~vk~~FE~~~~---~~v~f   60 (336)
T COG4143           1 MRRLLRALIGLALLVSAALG-AQAAT-------PTLTVYTYDSFA-----S---EW-GPGPKVKKAFEAEYG---CKVNF   60 (336)
T ss_pred             CHHHHHHHHHHHHHHHHHHH-HHHCC-------CEEEEEEEEEEE-----C---CC-CCCHHHHHHHHHHHC---CEEEE
T ss_conf             90249999999999998657-76348-------538999976342-----2---56-885789999999859---52899


Q ss_pred             EECCCC-CCHHHHH----CCCEEEEEECCCCCCCCHHCCCC------C--------------CCCCCCCCCEEEEEECC-
Q ss_conf             981431-0026774----39627998124325320110278------4--------------35322344023463021-
Q gi|254780170|r   81 LPLNAK-ERFLALQ----SKQIDILSRNTDWTLLREISLGL------A--------------FRPITYFDGQGFIMHKK-  134 (342)
Q Consensus        81 v~~~~~-~rf~aL~----sG~vDil~~~~T~T~~Rd~~~~v------~--------------Fs~~~~~dgq~~lVrk~-  134 (342)
                      |+.... +.|.-|.    +=+.|++.+--+..++|..+.++      +              |.-||=|.--+|+-.++ 
T Consensus        61 V~~~d~v~llnRl~leg~~~~ADvvvGldn~~l~~A~~~~lf~~~~~d~~~~~vp~~~~~d~f~~P~DyGy~a~vYd~~~  140 (336)
T COG4143          61 VALGDGVELLNRLILEGKNPKADVVVGLDNNLLARARETGLFAPYGVDASDVPVPEGWKIDTFALPYDYGYFAFVYDKTK  140 (336)
T ss_pred             EECCCHHHHHHHHHHCCCCCCCCEEEECCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECHHH
T ss_conf             97075899999999707898885899347277888885587666789855788876535675101245412899976577


Q ss_pred             --CCCCCHHHHCC----CCEEEEE--CCCHHHHH-------------HHHHHHCCCCCCEEEECCHHHHHHHHHCCCEEE
Q ss_conf             --13475364178----6203431--34269999-------------999986299850787479899999987396029
Q gi|254780170|r  135 --KGISSVSQLSG----ASICVQA--GTTTELTL-------------ADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDA  193 (342)
Q Consensus       135 --~~i~s~~dL~G----~~I~v~~--GTT~e~~l-------------~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA  193 (342)
                        ..-+|++||-.    .+|.++.  -|+.-..+             -+|.++-.-+ .+....+..+++-+|..|+.+.
T Consensus       141 ~~~ppksL~dL~~~~y~~~ii~qdPrtSspGl~fLlW~~svyg~d~~~~~W~kL~~~-~v~v~~gWSeaY~aFt~GEap~  219 (336)
T COG4143         141 LKNPPKSLKDLVEPEYAGKIIYQDPRTSSPGLGFLLWTISVYGEDGAPEAWAKLADN-GVTVTKGWSEAYGAFTKGEAPL  219 (336)
T ss_pred             HCCCCCCHHHHCCCCCCCCEEECCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHC-CEEECCCHHHHHHHHHCCCCCE
T ss_conf             528762689863851269578069887884078899998763623189999999858-8686586798898874786557


Q ss_pred             EEECC
Q ss_conf             98250
Q gi|254780170|r  194 YTGDI  198 (342)
Q Consensus       194 ~~~D~  198 (342)
                      +.+=.
T Consensus       220 VLSYt  224 (336)
T COG4143         220 VLSYT  224 (336)
T ss_pred             EEEEC
T ss_conf             99860


No 156
>COG4690 PepD Dipeptidase [Amino acid transport and metabolism]
Probab=49.15  E-value=5.1  Score=20.41  Aligned_cols=12  Identities=25%  Similarity=0.432  Sum_probs=7.0

Q ss_pred             CCEEECCCCCEE
Q ss_conf             830688989880
Q gi|254780170|r   46 GFAEVKANGDWK   57 (342)
Q Consensus        46 pfs~~d~~G~~~   57 (342)
                      ++.|.|+++-|.
T Consensus       149 gvafaD~deiW~  160 (464)
T COG4690         149 GVAFADKDEIWV  160 (464)
T ss_pred             EEEEECCCCEEE
T ss_conf             268865886489


No 157
>TIGR00971 3a0106s03 sulfate ABC transporter, sulfate-binding protein; InterPro: IPR005669   Thiosulphate-binding proteins (gene cysP) specifically binds thiosulphate and are involved in the transport systems for this nutrients , . There are two conserved regions in the protein, one located in the N-terminal region and the other in the central part of these proteins. The second pattern includes two adjacent amino acids (Ser-Gly) that, in sbp, are known to be essential for sulphate binding . ; GO: 0015419 sulfate transmembrane-transporting ATPase activity, 0008272 sulfate transport, 0030288 outer membrane-bounded periplasmic space.
Probab=49.05  E-value=21  Score=16.53  Aligned_cols=182  Identities=14%  Similarity=0.130  Sum_probs=83.4

Q ss_pred             CCCCCCCCCEEEEEECCC--CCCCHHHHC--CCCEEEE----ECCCHHHHHHHHHHHCCCC----C-----------CEE
Q ss_conf             353223440234630211--347536417--8620343----1342699999999862998----5-----------078
Q gi|254780170|r  118 FRPITYFDGQGFIMHKKK--GISSVSQLS--GASICVQ----AGTTTELTLADYFKAHNMK----Y-----------HPI  174 (342)
Q Consensus       118 Fs~~~~~dgq~~lVrk~~--~i~s~~dL~--G~~I~v~----~GTT~e~~l~~~~~~~~~~----~-----------~~v  174 (342)
                      =|.| ||+..+|||||+.  .|+++.||=  |.+|...    .|..--.+|+.|=.+..-+    .           ++-
T Consensus       102 NS~P-y~ST~~FLVRKGNPK~I~DWnDL~~~~v~~I~PNPK~SG~AR~~YLaAWG~A~~~~~~D~aK~~~F~~~l~KNvE  180 (320)
T TIGR00971       102 NSAP-YTSTIVFLVRKGNPKQIHDWNDLIKPGVSVITPNPKSSGGARYNYLAAWGYALHADNGDKAKAEQFVKALLKNVE  180 (320)
T ss_pred             CCCC-CCEEEEEEEECCCCCCCCCHHHHHHCCCEEEECCCCCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCEE
T ss_conf             7886-201335567547989646513463358758607889864157899998766751378762458999999850103


Q ss_pred             EECCHH--HHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCC-CCCCCCE-EE---ECCCCCHHHHHHHHHHHHH
Q ss_conf             747989--999998739602998250479999983678001002564-4423710-10---0027775799998877443
Q gi|254780170|r  175 VFERVE--EIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPD-IISKSPL-AP---AIIQGDTEWYNIVSWTHYA  247 (342)
Q Consensus       175 ~~~~~~--~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e-~iskEPl-g~---avr~gD~~w~d~V~W~~~a  247 (342)
                      .||+-.  ..-.-.+-|=-|.+++=-+...-.+..+....--++.|. .|=-||- +.   .|.+.|.+  .+..--++=
T Consensus       181 VlD~G~RGaT~TF~ERG~GDVLI~~E~E~~~~~~~~~~~~FE~V~P~~~ILAE~~V~~VDK~V~~~~T~--~~A~AYL~y  258 (320)
T TIGR00971       181 VLDSGARGATNTFVERGLGDVLIAFENEALLIRKELEKDKFEIVIPSESILAEPTVSVVDKVVEKKGTK--KVAEAYLKY  258 (320)
T ss_pred             EEECCCCCCCCCHHHCCCCHHHHHHHHHHHHHHHHHCCCCCEEECCCCCCCCCCCEEEEECCCCCCCHH--HHHHHHHHH
T ss_conf             320688865210111063300134578899999963348726864774321356503574330323458--999999974


Q ss_pred             HHHHHHHHCCHHHHHHHHHCCCCHHHHHHHCCCCCCCCHHHCCCCHHHHHHHHHHCCCHHHHHHHHCCC
Q ss_conf             311212330152089886226717788762358876503337998679999999718699987886488
Q gi|254780170|r  248 MVTAEELGITQKNINQVSKDTTNPDVQRFLGIDKSSNIGEALGLTKDWTYRIIRHMGNYGEMFDRNLGN  316 (342)
Q Consensus       248 li~Aee~git~~nv~~~~~~s~~p~i~r~lg~~~~~~~g~~lgl~~~~~~~~i~~vGNYgei~~rnlg~  316 (342)
                      |---|..-|-..|.    .-..||+|..=+--+   -.-..|       .+|=..-|-..|+--.||-.
T Consensus       259 LYSP~~Q~I~~~~y----YR~~~~~v~~K~~~~---FP~~~L-------F~~~~~FG~W~~~~K~HF~~  313 (320)
T TIGR00971       259 LYSPEGQEIIAKNY----YRVRDAEVAKKYEDK---FPKLKL-------FTIDEKFGGWPKAQKEHFAN  313 (320)
T ss_pred             HCCCCHHHHHHHCC----CCCCCHHHHHHHHCC---CCCCEE-------EEEECCCCCCHHHHHHHHCC
T ss_conf             04941356765426----788888898677516---886023-------46723547825566543027


No 158
>PRK10693 response regulator of RpoS; Provisional
Probab=48.86  E-value=21  Score=16.51  Aligned_cols=40  Identities=20%  Similarity=0.184  Sum_probs=20.3

Q ss_pred             HHHHHHHHHHHCCCCCEEEEEECCC----CCCHHHHHCCCEEEEEECC
Q ss_conf             9999999999679822025998143----1002677439627998124
Q gi|254780170|r   61 VDFCRALSSAIFDDPSKIQYLPLNA----KERFLALQSKQIDILSRNT  104 (342)
Q Consensus        61 VDl~raiAaal~gd~~kVe~v~~~~----~~rf~aL~sG~vDil~~~~  104 (342)
                      +|+|+.+-+ ..   ..+.++-++.    .++..++..|--|.+.-..
T Consensus        67 lell~~lr~-~~---~~~PVIvlTa~~~~~d~v~al~~GA~DyL~KPI  110 (337)
T PRK10693         67 LKFVEHLRN-RG---DQTPVLVISATENMADIAKALRLGVEDVLLKPV  110 (337)
T ss_pred             HHHHHHHHH-HC---CCCEEEEEECCCCHHHHHHHHHCCCCEEEECCC
T ss_conf             999999998-58---996499998689999999999749958997896


No 159
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=47.96  E-value=22  Score=16.43  Aligned_cols=83  Identities=16%  Similarity=0.201  Sum_probs=42.1

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEE
Q ss_conf             91389999999999998401244216899985794999871789883068898988015099999999996798220259
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQY   80 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~   80 (342)
                      ||.|-++.+++++++++++.+.+.          .+++|+.-..-      .+-.|. -+-+-.+.-|++++.   ++.+
T Consensus         1 mk~k~~~~~~~~~~~~~~~~a~a~----------~~~IGv~~~~~------~~~~~~-~~~~~~~~~Ake~G~---~v~v   60 (330)
T PRK10355          1 MKIKNILLTLCAALLLTSVAAHAK----------EVKIGMAIDDL------RLERWQ-KDRDIFVKKAESLGA---KVFV   60 (330)
T ss_pred             CCHHHHHHHHHHHHHHHCCHHHHC----------CCEEEEEECCC------CCHHHH-HHHHHHHHHHHHCCC---EEEE
T ss_conf             966899999999999844611213----------86799990688------886899-999999999997599---8999


Q ss_pred             EECCCC-----CCHHHHHCCCEEEEEEC
Q ss_conf             981431-----00267743962799812
Q gi|254780170|r   81 LPLNAK-----ERFLALQSKQIDILSRN  103 (342)
Q Consensus        81 v~~~~~-----~rf~aL~sG~vDil~~~  103 (342)
                      ..-..+     +-+..+.+..+|+++-+
T Consensus        61 ~dA~~D~~~Qi~qIe~~I~qgvdaIiv~   88 (330)
T PRK10355         61 QSANGNEETQMSQIENMINRGVDVLVII   88 (330)
T ss_pred             ECCCCCHHHHHHHHHHHHHCCCCEEEEE
T ss_conf             7189998999999999998599999996


No 160
>PRK12450 foldase protein PrsA; Reviewed
Probab=47.96  E-value=15  Score=17.49  Aligned_cols=24  Identities=8%  Similarity=0.049  Sum_probs=16.9

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             913899999999999984012442
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNA   24 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a   24 (342)
                      |+|.++.++.++.++++++|+..+
T Consensus         4 mKK~~~~~~~~~svl~LaAC~s~~   27 (309)
T PRK12450          4 MNKLITGVVTLATVVTLSACQSSH   27 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             999999999999999998605899


No 161
>pfam06535 RGM_N Repulsive guidance molecule (RGM) N-terminus. This family consists of the N-terminal region of several mammalian and one bird sequence from Gallus gallus (Chicken). All of the mammalian proteins are hypothetical and have no known function but one member from chicken is annotated as being a repulsive guidance molecule (RGM). RGM is a GPI-linked axon guidance molecule of the retinotectal system. RGM is repulsive for a subset of axons, those from the temporal half of the retina. Temporal retinal axons invade the anterior optic tectum in a superficial layer, and encounter RGM expressed in a gradient with increasing concentration along the anterior-posterior axis. Temporal axons are able to receive posterior-dependent information by sensing gradients or concentrations of guidance cues. Thus, RGM is likely to provide positional information for temporal axons invading the optic tectum in the stratum opticum.
Probab=47.15  E-value=22  Score=16.35  Aligned_cols=35  Identities=31%  Similarity=0.560  Sum_probs=21.3

Q ss_pred             CEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHH
Q ss_conf             949998717898830688989880150999999999
Q gi|254780170|r   34 GFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSS   69 (342)
Q Consensus        34 G~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAa   69 (342)
                      ..++|-.+--.. .+-....+...|+|.|+|+|+-+
T Consensus        31 ~IlkCn~~fva~-T~~~~~~~~~~~~~~~fC~ALR~   65 (207)
T pfam06535        31 KILKCNSDFVAA-TSSVHGGGSKDGPETEFCKALRS   65 (207)
T ss_pred             EEEEECHHHHHH-CCCCCCCCCCCCCCHHHHHHHHH
T ss_conf             168704356431-37556787777752589999999


No 162
>PRK03095 prsA peptidylprolyl isomerase; Reviewed
Probab=46.78  E-value=19  Score=16.87  Aligned_cols=24  Identities=17%  Similarity=0.249  Sum_probs=15.1

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCH
Q ss_conf             9138999999999999840124421
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNAS   25 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~   25 (342)
                      |||.++..+ ++.++++++|+..++
T Consensus         1 MKK~~la~~-~~svl~LaaC~~~~~   24 (287)
T PRK03095          1 MKKAMLALA-ATSVIALSACGTSSS   24 (287)
T ss_pred             CCHHHHHHH-HHHHHHHHHCCCCCC
T ss_conf             907899999-999999985168998


No 163
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed
Probab=45.78  E-value=24  Score=16.21  Aligned_cols=153  Identities=9%  Similarity=0.057  Sum_probs=75.5

Q ss_pred             CCHHHHHHHHCCEEEEEEECCCCCCEEECCCCC-----EEEEHHHHHHHHHHHHCCCCCEEEEEECCC------CCCHHH
Q ss_conf             421689998579499987178988306889898-----801509999999999679822025998143------100267
Q gi|254780170|r   23 NASILGDIKKRGFLKCGINTGLVGFAEVKANGD-----WKGFDVDFCRALSSAIFDDPSKIQYLPLNA------KERFLA   91 (342)
Q Consensus        23 ~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~-----~~GfDVDl~raiAaal~gd~~kVe~v~~~~------~~rf~a   91 (342)
                      +....++.+++|+..+---...|       +|.     -.|-..+.-+.+. +.+     ++++..|=      ......
T Consensus        42 N~~vv~~L~~~Gv~~v~~~~~v~-------~~~~ViirAHGi~~~~~~~~~-~~g-----~~viDaTCP~V~k~~~~v~~  108 (304)
T PRK01045         42 NKYVVERLKKKGAIFVEELDEVP-------DGAIVIFSAHGVSPAVREEAK-ERG-----LTVIDATCPLVTKVHKEVAR  108 (304)
T ss_pred             CHHHHHHHHHCCCEEECCCCCCC-------CCCEEEEECCCCCHHHHHHHH-HCC-----CCEEECCCCCHHHHHHHHHH
T ss_conf             98999999988699961556689-------999899977899899999999-659-----97770508305899999999


Q ss_pred             HHCCCEEEEEECCCCCCCCHHCCCCCCCCCCCCCCEEEEEECCCCCCCHHHHCCCCEEEEECCCHHH----HHHHHHHHC
Q ss_conf             7439627998124325320110278435322344023463021134753641786203431342699----999999862
Q gi|254780170|r   92 LQSKQIDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMHKKKGISSVSQLSGASICVQAGTTTEL----TLADYFKAH  167 (342)
Q Consensus        92 L~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVrk~~~i~s~~dL~G~~I~v~~GTT~e~----~l~~~~~~~  167 (342)
                      +...-..+++-+-.--+|=...  ..+     ..+..++|.....+..+...+.+++++..-||.-.    .+.++++.+
T Consensus       109 ~~~~Gy~iviiG~~~HpEv~gi--~g~-----~~~~~~vv~~~~d~~~l~~~~~~ki~vvsQTT~~~~~~~~i~~~l~~~  181 (304)
T PRK01045        109 MSREGYEIILIGHKGHPEVEGT--MGQ-----APDGVYLVESPEDVAKLDVKDPDKLALVTQTTLSVDDTAEIIAALKAR  181 (304)
T ss_pred             HHHCCCEEEEECCCCCHHHHHH--HHH-----CCCCEEEECCHHHHHHCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHH
T ss_conf             9858988999817898899969--975-----799739988699997577689971899972556599999999999976


Q ss_pred             CCCCCEEEECC-------HHHHHHHHHCCCEEEEEE
Q ss_conf             99850787479-------899999987396029982
Q gi|254780170|r  168 NMKYHPIVFER-------VEEIDAAYRAHRCDAYTG  196 (342)
Q Consensus       168 ~~~~~~v~~~~-------~~~a~~al~~Gr~DA~~~  196 (342)
                      ........|++       .+++...|. ++||+++-
T Consensus       182 ~~~~~~~~~nTIC~aT~~RQ~a~~~La-~~vD~miV  216 (304)
T PRK01045        182 FPEIRGPRKDDICYATQNRQEAVKELA-KQVDLVIV  216 (304)
T ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHH-HCCCEEEE
T ss_conf             836525732352077899999999877-41888999


No 164
>PHA01976 helix-turn-helix protein
Probab=45.19  E-value=16  Score=17.25  Aligned_cols=52  Identities=25%  Similarity=0.525  Sum_probs=38.3

Q ss_pred             HHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCCCHHHHHHHCCCCCCCCHHHCCCCHHHHH
Q ss_conf             999887744331121233015208988622671778876235887650333799867999
Q gi|254780170|r  238 YNIVSWTHYAMVTAEELGITQKNINQVSKDTTNPDVQRFLGIDKSSNIGEALGLTKDWTY  297 (342)
Q Consensus       238 ~d~V~W~~~ali~Aee~git~~nv~~~~~~s~~p~i~r~lg~~~~~~~g~~lgl~~~~~~  297 (342)
                      +.--+|+-.-  .|+-+||+++.|.........|++..+.      -+...+|.+-||-.
T Consensus        11 R~~~g~sQ~e--LA~~lGVs~~~is~wE~g~~~P~~d~L~------~la~~~~VS~D~Ll   62 (67)
T PHA01976         11 RNARAWSAPE--LSRRAGVRHSLIYDFEADKRLPNLKTLL------RLADALGVTLDWLC   62 (67)
T ss_pred             HHHCCCCHHH--HHHHHCCCHHHHHHHHCCCCCCCHHHHH------HHHHHHCCCHHHHH
T ss_conf             9986999999--9999499899999998789899989999------99999797899992


No 165
>PRK10837 putative DNA-binding transcriptional regulator; Provisional
Probab=44.86  E-value=24  Score=16.12  Aligned_cols=179  Identities=12%  Similarity=0.030  Sum_probs=99.3

Q ss_pred             CCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHH
Q ss_conf             79499987178988306889898801509999999999679822025998143100267743962799812432532011
Q gi|254780170|r   33 RGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREI  112 (342)
Q Consensus        33 rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~  112 (342)
                      +|.|++|+...+..+           +=.++...+.+. . ....+++...+..+.+..|.+|++|+.+....   ..+ 
T Consensus        88 ~g~l~i~~~~~~~~~-----------~l~~~l~~f~~~-~-P~v~l~l~~~~~~~~~~~l~~~~~D~~i~~~~---~~~-  150 (291)
T PRK10837         88 NGAIRIYASSTIGNY-----------ILPAMIARYRHD-Y-PQLPLELSVGNSQDVIQAVLDFRVDIGLIEGP---CHS-  150 (291)
T ss_pred             CCEEEEEEEHHHHHH-----------HHHHHHHHHHHH-C-CCCEEEEEECCHHHHHHHHHHCCCCEEEECCC---CCC-
T ss_conf             862999961799999-----------999999999964-8-99359999888899999998088416674178---899-


Q ss_pred             CCCCCCCCCCCCCCEEEEEECCC----CCCCHHHHCCCC-EEEEECCCHHHHHHHHHHHCCCCCCEE-EECCHHHHHHHH
Q ss_conf             02784353223440234630211----347536417862-034313426999999998629985078-747989999998
Q gi|254780170|r  113 SLGLAFRPITYFDGQGFIMHKKK----GISSVSQLSGAS-ICVQAGTTTELTLADYFKAHNMKYHPI-VFERVEEIDAAY  186 (342)
Q Consensus       113 ~~~v~Fs~~~~~dgq~~lVrk~~----~i~s~~dL~G~~-I~v~~GTT~e~~l~~~~~~~~~~~~~v-~~~~~~~a~~al  186 (342)
                       ..+. +.+.+.+...+++..+.    +--+++||.... |....|+.....+..++...+.+.+++ .+++.+.....+
T Consensus       151 -~~l~-~~~l~~~~~~~v~~p~~~l~~~~i~~~~l~~~~~i~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~i~~~v  228 (291)
T PRK10837        151 -TEII-SEPWLEDELVVFAAPDSPLARGPVTLEQLAAAPWILRERGSGTREIVDYLLLSHLPRFEMAMELGNSEAIKHAV  228 (291)
T ss_pred             -CCEE-EEEEECCCEEEEECCCCHHHCCCCCHHHHHCCCEEEECCCCCHHHHHHHHHHHCCCCCCEEEECCCHHHHHHHH
T ss_conf             -8718-99944141899987886653799998998079879944998689999999985488653013129799999999


Q ss_pred             HCCCEEEEEECCHHHHHHHHHCCCCHHHCCC--CCCCCCCCEEEECCCCCH
Q ss_conf             7396029982504799999836780010025--644423710100027775
Q gi|254780170|r  187 RAHRCDAYTGDISALYALKLTNDRPSEHVIL--PDIISKSPLAPAIIQGDT  235 (342)
Q Consensus       187 ~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il--~e~iskEPlg~avr~gD~  235 (342)
                      .+|--=++..+..  +...  ... +..+.+  +..-...++..+.|++-.
T Consensus       229 ~~G~Gia~lp~~~--v~~~--l~~-g~L~~l~~~~~~~~~~~~lv~~k~~~  274 (291)
T PRK10837        229 RHGLGISCLSRRV--IADQ--LQA-GTLVEVAVPLPRLMRTLWRIHHRQKH  274 (291)
T ss_pred             HHCCCEEECCHHH--HHHH--HHC-CCEEEEECCCCCCCCEEEEEEECCCC
T ss_conf             9599189724999--9999--878-99799707888861279999989786


No 166
>TIGR03061 pip_yhgE_Nterm YhgE/Pip N-terminal domain. This family contains the N-terminal domain of a family of multiple membrane-spanning proteins of Gram-positive bacteria. One member was shown to be a host protein essential for phage infection, so many members of this family are called "phage infection protein". A separate model, TIGR03062, represents the conserved C-terminal domain. The domains are separated by regions highly variable in both length and sequence, often containing extended heptad repeats as described in model TIGR03057.
Probab=44.35  E-value=25  Score=16.07  Aligned_cols=67  Identities=12%  Similarity=0.072  Sum_probs=45.5

Q ss_pred             HHHHHHCCEEEEEE-ECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEE
Q ss_conf             89998579499987-17898830688989880150999999999967982202599814310026774396279981
Q gi|254780170|r   27 LGDIKKRGFLKCGI-NTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSR  102 (342)
Q Consensus        27 Ld~Vk~rG~L~vGv-~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~  102 (342)
                      +|--.....|.+++ +.|-+ -.+       .|=.+++.+.+...+..+ .++.|+.++.++--..|.+|++.+.+-
T Consensus        35 wdPy~~~~~lpvAVVN~D~g-~~~-------~g~~~~~G~~lv~~L~~~-~~~~w~~vs~~~A~~gl~~G~yy~~i~  102 (164)
T TIGR03061        35 WDPYGNLDNLPVAVVNEDKG-ATY-------DGKTLNAGDDLVKELKKN-DDLDWHFVSAKEAEKGLADGKYYMVIT  102 (164)
T ss_pred             CCCCCCCCCCEEEEEECCCC-CCC-------CCCCCCHHHHHHHHHHCC-CCCEEEECCHHHHHHHHHCCCEEEEEE
T ss_conf             68755657871899977878-650-------881522899999987338-886179848999998886495699999


No 167
>PRK07060 short chain dehydrogenase; Provisional
Probab=44.24  E-value=25  Score=16.06  Aligned_cols=14  Identities=14%  Similarity=0.050  Sum_probs=7.9

Q ss_pred             CCCEEEEEECCCCC
Q ss_conf             39627998124325
Q gi|254780170|r   94 SKQIDILSRNTDWT  107 (342)
Q Consensus        94 sG~vDil~~~~T~T  107 (342)
                      -|++|+++.+..++
T Consensus        75 ~g~iDilVnnAG~~   88 (245)
T PRK07060         75 AGAFDGLVNCAGIA   88 (245)
T ss_pred             CCCCCEEEECCCCC
T ss_conf             59998999898879


No 168
>COG0107 HisF Imidazoleglycerol-phosphate synthase [Amino acid transport and metabolism]
Probab=44.08  E-value=18  Score=17.00  Aligned_cols=15  Identities=13%  Similarity=0.164  Sum_probs=9.4

Q ss_pred             CEEEEHHHHHHHHHH
Q ss_conf             880150999999999
Q gi|254780170|r   55 DWKGFDVDFCRALSS   69 (342)
Q Consensus        55 ~~~GfDVDl~raiAa   69 (342)
                      +..|=-|++++.-..
T Consensus        27 rd~GDpVelA~~Y~e   41 (256)
T COG0107          27 RDAGDPVELAKRYNE   41 (256)
T ss_pred             HHCCCHHHHHHHHHH
T ss_conf             314894999999977


No 169
>PRK09967 putative outer membrane lipoprotein; Provisional
Probab=43.53  E-value=24  Score=16.18  Aligned_cols=21  Identities=10%  Similarity=0.290  Sum_probs=13.5

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             9138999999999999840124
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFST   22 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa   22 (342)
                      |+|+++..++.+.+++. +|++
T Consensus         1 m~k~~~~~~l~~~l~ls-gC~s   21 (160)
T PRK09967          1 MIKHLVAPLIFTSLILT-GCQS   21 (160)
T ss_pred             CHHHHHHHHHHHHHHHH-HCCC
T ss_conf             90789999999999998-4589


No 170
>cd01424 MGS_CPS_II Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways responsible for the synthesis of pyrimidine nucleotides or arginine. The MGS-like domain is the C-terminal domain of CarB and appears to play a regulatory role in CPS function by binding allosteric effector molecules, including UMP and ornithine.
Probab=42.10  E-value=27  Score=15.86  Aligned_cols=46  Identities=15%  Similarity=0.192  Sum_probs=29.6

Q ss_pred             CCCEEEEECCCHHHHHHHHHHHCCCCCCEEE--ECCHHHHHHHHHCCCEEEEEE
Q ss_conf             8620343134269999999986299850787--479899999987396029982
Q gi|254780170|r  145 GASICVQAGTTTELTLADYFKAHNMKYHPIV--FERVEEIDAAYRAHRCDAYTG  196 (342)
Q Consensus       145 G~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~--~~~~~~a~~al~~Gr~DA~~~  196 (342)
                      |=+|....||      .+|++++|+..+.+.  .+..+.....+.+|++|.++.
T Consensus        26 Gf~i~AT~GT------a~~L~~~Gi~~~~v~k~~e~~p~i~d~i~~~~i~lVIN   73 (110)
T cd01424          26 GFKLVATEGT------AKYLQEAGIPVEVVNKVSEGRPNIVDLIKNGEIQLVIN   73 (110)
T ss_pred             CCEEEECCHH------HHHHHHCCCCCEEEECCCCCCCCHHHHHHCCCEEEEEE
T ss_conf             9999987169------99998649864033005679976899997793589997


No 171
>pfam08085 Entericidin Entericidin EcnA/B family. This family consists of the entericidin antidote/toxin peptides. The entericidin locus is activated in stationary phase under high osmolarity conditions by rho-S and simultaneously repressed by the osmoregulatory EnvZ/OmpR signal transduction pathway. The entericidin locus encodes tandem paralogous genes (ecnAB) and directs the synthesis of two small cell-envelope lipoproteins which can maintain plasmids in bacterial population by means of post-segregational killing.
Probab=41.26  E-value=25  Score=16.09  Aligned_cols=34  Identities=24%  Similarity=0.243  Sum_probs=17.1

Q ss_pred             CHHHHHHHHHHHHHH-HHHHCCCCCHHHHHHHHCC
Q ss_conf             913899999999999-9840124421689998579
Q gi|254780170|r    1 MYKDFFVSILCLIIL-FFTSFSTNASILGDIKKRG   34 (342)
Q Consensus         1 M~K~~l~~~l~l~~~-~~~~~aa~a~tLd~Vk~rG   34 (342)
                      |||.+...+++++++ .+++|-.-...=++|++-|
T Consensus         1 Mk~~~~~~~~l~~~~~~lagCNTv~G~G~Diq~aG   35 (42)
T pfam08085         1 MKKLIALLLALLLLALVLAGCNTVAGAGKDIQSAG   35 (42)
T ss_pred             CHHHHHHHHHHHHHHHHHHCCHHHHHCCHHHHHHH
T ss_conf             92369999999999999861222111216389887


No 172
>PRK05579 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated
Probab=40.93  E-value=28  Score=15.74  Aligned_cols=58  Identities=24%  Similarity=0.263  Sum_probs=38.5

Q ss_pred             HHHHCCCCEEEEECCCHHH-----------------HHHHHHHHCCC---------------CCCEEEECCHHHHHHHHH
Q ss_conf             3641786203431342699-----------------99999986299---------------850787479899999987
Q gi|254780170|r  140 VSQLSGASICVQAGTTTEL-----------------TLADYFKAHNM---------------KYHPIVFERVEEIDAAYR  187 (342)
Q Consensus       140 ~~dL~G~~I~v~~GTT~e~-----------------~l~~~~~~~~~---------------~~~~v~~~~~~~a~~al~  187 (342)
                      -.+|.|++|-|..|-|.|.                 .|++.+..+|.               .++.+.+++.+|++.++.
T Consensus       181 ~~~l~gkkvLITaG~T~E~IDpVR~IsN~SSGkmG~aiA~~a~~~GA~VtlI~g~~~~~~p~~v~~i~v~ta~eM~~~v~  260 (392)
T PRK05579        181 PKDLAGKRVLITAGPTREPIDPVRYITNRSSGKMGYALARAAARRGADVTLVSGPVNLPTPAGVKRIDVESAQEMLDAVL  260 (392)
T ss_pred             CCCCCCCEEEEECCCCEEEECCEEEECCCCCCHHHHHHHHHHHHCCCEEEEEECCCCCCCCCCCEEEEECCHHHHHHHHH
T ss_conf             77767887999747724776762476657865899999999996799799996478778999967999675999999999


Q ss_pred             C--CCEEEEEEC
Q ss_conf             3--960299825
Q gi|254780170|r  188 A--HRCDAYTGD  197 (342)
Q Consensus       188 ~--Gr~DA~~~D  197 (342)
                      .  ..||+++.-
T Consensus       261 ~~~~~~D~~I~a  272 (392)
T PRK05579        261 AAAQKADIFIMA  272 (392)
T ss_pred             HHCCCCCEEEEE
T ss_conf             735447899993


No 173
>PRK01659 consensus
Probab=38.02  E-value=31  Score=15.46  Aligned_cols=20  Identities=10%  Similarity=0.214  Sum_probs=9.9

Q ss_pred             CCHHHHHHHHHCCCEEEEEE
Q ss_conf             79899999987396029982
Q gi|254780170|r  177 ERVEEIDAAYRAHRCDAYTG  196 (342)
Q Consensus       177 ~~~~~a~~al~~Gr~DA~~~  196 (342)
                      .+.++...++..+.++|++.
T Consensus       207 ~~~~di~~l~~~~~v~gv~~  226 (252)
T PRK01659        207 GNADHMVEVFQKTTADAALA  226 (252)
T ss_pred             CCHHHHHHHHHHCCCCEEEE
T ss_conf             99999999997489826557


No 174
>TIGR01829 AcAcCoA_reduct acetoacetyl-CoA reductase; InterPro: IPR011283   This entry represent acetoacetyl-CoA reductase, a member of the family short-chain-alcohol dehydrogenases. Note that, despite the precision implied by the enzyme name, the reaction of 1.1.1.36 from EC is defined more generally as (R)-3-hydroxyacyl-CoA + NADP+ = 3-oxoacyl-CoA + NADPH. Members of this family may act in the biosynthesis of poly-beta-hydroxybutyrate (e.g. Rhizobium meliloti) and related poly-beta-hydroxyalkanoates. Note that the member of this family from Azospirillum brasilense, designated NodG, appears to lack acetoacetyl-CoA reductase activity and to act instead in the production of nodulation factor. ; GO: 0018454 acetoacetyl-CoA reductase activity, 0042619 poly-hydroxybutyrate biosynthetic process, 0005737 cytoplasm.
Probab=37.99  E-value=19  Score=16.85  Aligned_cols=17  Identities=29%  Similarity=0.419  Sum_probs=14.8

Q ss_pred             CCCEEEEEECCCCCCCCHH
Q ss_conf             3962799812432532011
Q gi|254780170|r   94 SKQIDILSRNTDWTLLREI  112 (342)
Q Consensus        94 sG~vDil~~~~T~T~~Rd~  112 (342)
                      -|.||||+.|.-||  ||+
T Consensus        77 lGpvDvLVNNAGIT--RD~   93 (244)
T TIGR01829        77 LGPVDVLVNNAGIT--RDK   93 (244)
T ss_pred             CCCEEEEEECCCCC--CCH
T ss_conf             19536898688644--030


No 175
>PRK09620 hypothetical protein; Provisional
Probab=37.90  E-value=31  Score=15.44  Aligned_cols=41  Identities=12%  Similarity=0.135  Sum_probs=25.4

Q ss_pred             HHHHHHHHHHCCCCCCEEEE--CC-------HHHHHHHHHCCCEEEEEECC
Q ss_conf             99999999862998507874--79-------89999998739602998250
Q gi|254780170|r  157 ELTLADYFKAHNMKYHPIVF--ER-------VEEIDAAYRAHRCDAYTGDI  198 (342)
Q Consensus       157 e~~l~~~~~~~~~~~~~v~~--~~-------~~~a~~al~~Gr~DA~~~D~  198 (342)
                      ...|.. .+....+-.+|-|  ++       .+.+...+...+||.++.-.
T Consensus       133 pdIl~~-i~~~~~~~~lVGFkaEt~~~~e~Li~~A~~kl~~k~~D~ivAN~  182 (229)
T PRK09620        133 PKVLKQ-IKQWDPETVLVGFKLESDVNEEELFERAKNRMEEAKASVMIANS  182 (229)
T ss_pred             HHHHHH-HHHHCCCCEEEEEEECCCCCHHHHHHHHHHHHHHCCCCEEEECC
T ss_conf             799999-87238998699998378896789999999999976999999848


No 176
>PRK11627 hypothetical protein; Provisional
Probab=37.51  E-value=32  Score=15.41  Aligned_cols=22  Identities=23%  Similarity=0.431  Sum_probs=12.0

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             913899999999999984012442
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNA   24 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a   24 (342)
                      |.||+++.++++++++  +|++..
T Consensus         1 ~mkk~~~~l~a~~lL~--gCas~p   22 (192)
T PRK11627          1 MLKKILFPLVALFMLA--GCATPP   22 (192)
T ss_pred             CHHHHHHHHHHHHHHH--HHCCCC
T ss_conf             9287999999999998--606997


No 177
>smart00851 MGS MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. This family also includes inosicase. The known structures in this family show a common phosphate binding site PUBMED:10526357.
Probab=37.28  E-value=32  Score=15.38  Aligned_cols=48  Identities=15%  Similarity=0.220  Sum_probs=30.4

Q ss_pred             CCCEEEEECCCHHHHHHHHHHHCCCCCC-EE--EECCHHHHHHHHHCCCEEEEEECC
Q ss_conf             8620343134269999999986299850-78--747989999998739602998250
Q gi|254780170|r  145 GASICVQAGTTTELTLADYFKAHNMKYH-PI--VFERVEEIDAAYRAHRCDAYTGDI  198 (342)
Q Consensus       145 G~~I~v~~GTT~e~~l~~~~~~~~~~~~-~v--~~~~~~~a~~al~~Gr~DA~~~D~  198 (342)
                      |-++....||      +.+++++|++.+ ++  ..++.......+.+|++|.++...
T Consensus        13 Gf~l~AT~GT------a~~L~~~Gi~v~~l~~ki~~g~~~i~~~i~~~~IdlVInt~   63 (90)
T smart00851       13 GFELVATGGT------AKFLREAGLPVKTLHPKVHGGILAILDLIKNGEIDLVINTL   63 (90)
T ss_pred             CCEEEECCHH------HHHHHHCCCCCEEEECCCCCCCCCHHHHHCCCCEEEEEEEC
T ss_conf             9989981258------99999759971043024435610489981978879999846


No 178
>PRK10808 outer membrane protein A; Reviewed
Probab=37.02  E-value=30  Score=15.57  Aligned_cols=23  Identities=13%  Similarity=-0.006  Sum_probs=14.2

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             91389999999999998401244
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTN   23 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~   23 (342)
                      |||.++..+++++.+...+.++.
T Consensus         1 MKKt~ial~va~a~~a~~A~Aa~   23 (347)
T PRK10808          1 MKKTAIAIAVALAGFATVAQAAP   23 (347)
T ss_pred             CCHHHHHHHHHHHHHHHHHHCCC
T ss_conf             94679999999997776431200


No 179
>pfam06510 DUF1102 Protein of unknown function (DUF1102). This family consists of several hypothetical archaeal proteins of unknown function.
Probab=36.71  E-value=32  Score=15.33  Aligned_cols=10  Identities=20%  Similarity=0.471  Sum_probs=5.9

Q ss_pred             CCEEECCCCC
Q ss_conf             8306889898
Q gi|254780170|r   46 GFAEVKANGD   55 (342)
Q Consensus        46 pfs~~d~~G~   55 (342)
                      |+.|.+.+|+
T Consensus        52 PY~yi~~~Gk   61 (183)
T pfam06510        52 PYVYLNNNGK   61 (183)
T ss_pred             CEEEECCCCE
T ss_conf             4589847984


No 180
>PRK10329 glutaredoxin-like protein; Provisional
Probab=36.21  E-value=33  Score=15.28  Aligned_cols=39  Identities=21%  Similarity=0.386  Sum_probs=21.7

Q ss_pred             HHHHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHH
Q ss_conf             16899985794999871789883068898988015099999999996
Q gi|254780170|r   25 SILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAI   71 (342)
Q Consensus        25 ~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal   71 (342)
                      ..++.+++.|+-.       .|.-..++ ..|.||..|..++++++.
T Consensus        38 ea~~~vk~~G~~q-------~PVV~~~~-~~wsGFRPD~i~~L~~a~   76 (81)
T PRK10329         38 EAADTLRAQGFRQ-------LPVVIAGD-LSWSGFRPDMINRLHPAP   76 (81)
T ss_pred             HHHHHHHHCCCCC-------CCEEEECC-CEECCCCHHHHHHHHHHH
T ss_conf             9999999769855-------99899699-544360989999888878


No 181
>KOG1759 consensus
Probab=35.66  E-value=34  Score=15.22  Aligned_cols=36  Identities=19%  Similarity=0.262  Sum_probs=24.3

Q ss_pred             CCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCC
Q ss_conf             9898801509999999999679822025998143100
Q gi|254780170|r   52 ANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKER   88 (342)
Q Consensus        52 ~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~r   88 (342)
                      .++...||..|+|.++|+.++...++| +|.+....|
T Consensus        12 ~~~V~~~fe~elt~~lAkimgkP~~~i-~V~l~~~~~   47 (115)
T KOG1759          12 VDKVPDGFEKELTKALAKIMGKPEDYI-MVELAGGVR   47 (115)
T ss_pred             CCCCCCCHHHHHHHHHHHHHCCCHHHE-EEEECCCCE
T ss_conf             566783399999999999957975658-999648945


No 182
>PRK04281 consensus
Probab=35.36  E-value=34  Score=15.19  Aligned_cols=19  Identities=16%  Similarity=0.179  Sum_probs=7.5

Q ss_pred             CHHHHHHHHHCCCEEEEEE
Q ss_conf             9899999987396029982
Q gi|254780170|r  178 RVEEIDAAYRAHRCDAYTG  196 (342)
Q Consensus       178 ~~~~a~~al~~Gr~DA~~~  196 (342)
                      +.++...++..|.+||+..
T Consensus       209 ~~~di~~~~~~~~~~~v~~  227 (254)
T PRK04281        209 NVRHLIEGITEGKADAVLA  227 (254)
T ss_pred             CHHHHHHHHHHCCCCEEEE
T ss_conf             9999999998089888976


No 183
>PRK09319 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional
Probab=35.28  E-value=22  Score=16.44  Aligned_cols=43  Identities=19%  Similarity=0.339  Sum_probs=19.5

Q ss_pred             EEEEECCC--CCCCHHHHCCC-CEEEE------ECCCH-HHHHHHHHHHCCCC
Q ss_conf             34630211--34753641786-20343------13426-99999999862998
Q gi|254780170|r  128 GFIMHKKK--GISSVSQLSGA-SICVQ------AGTTT-ELTLADYFKAHNMK  170 (342)
Q Consensus       128 ~~lVrk~~--~i~s~~dL~G~-~I~v~------~GTT~-e~~l~~~~~~~~~~  170 (342)
                      |+++|.+-  ..-++.-|+|. -++|.      .||.. ...|.+|.++++++
T Consensus       140 GVL~R~GHTEAaVDLarLAGl~P~gVicEI~n~DGtMaR~~~L~~FA~~h~L~  192 (552)
T PRK09319        140 GVLKRAGHTEAAVDLARLAGLYPAGVICEIQNPDGSMARLPQLKEYARQWGLK  192 (552)
T ss_pred             CEEECCCCCHHHHHHHHHCCCCCEEEEEEEECCCCCCCCHHHHHHHHHHCCCC
T ss_conf             88244786189999999749997189999977998652489999999985996


No 184
>TIGR01916 F420_puta_dedox F420-dependent oxidoreductase, putative; InterPro: IPR008225 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function..
Probab=34.79  E-value=31  Score=15.47  Aligned_cols=119  Identities=15%  Similarity=0.166  Sum_probs=70.0

Q ss_pred             HHHHHHHH------HCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCH----HCCCCCCCCCCCCCCEEEEEE
Q ss_conf             99999999------67982202599814310026774396279981243253201----102784353223440234630
Q gi|254780170|r   63 FCRALSSA------IFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLRE----ISLGLAFRPITYFDGQGFIMH  132 (342)
Q Consensus        63 l~raiAaa------l~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd----~~~~v~Fs~~~~~dgq~~lVr  132 (342)
                      -++.||++      .+.||.-++-+.-.+.+.+         ..-..+=+|..|.    ..-+||=|.+  +.|..++-|
T Consensus        65 ~A~eiA~RladvtGtGKDp~~~~ail~Ea~ev~---------~~~~~F~itetr~G~VcaNAGvD~SN~--~~G~~llLP  133 (260)
T TIGR01916        65 EAKEIAARLADVTGTGKDPRFVQAILEEAEEVV---------RVGKPFLITETRHGLVCANAGVDESNV--EEGELLLLP  133 (260)
T ss_pred             HHHHHHHHHHHCCCCCCCHHHHHHHHHHCCEEE---------EECCCEEEEEECCCCEEEEECCCCCCC--CCCEEECCC
T ss_conf             899999987530568986898898776240666---------327973698326663677505571124--785673589


Q ss_pred             CCC-----CC-CCHHHHCCCCEEEEE-----------------CCCHHHHHHHHHHHC-----CCCCCEEEECCHHHHHH
Q ss_conf             211-----34-753641786203431-----------------342699999999862-----99850787479899999
Q gi|254780170|r  133 KKK-----GI-SSVSQLSGASICVQA-----------------GTTTELTLADYFKAH-----NMKYHPIVFERVEEIDA  184 (342)
Q Consensus       133 k~~-----~i-~s~~dL~G~~I~v~~-----------------GTT~e~~l~~~~~~~-----~~~~~~v~~~~~~~a~~  184 (342)
                      +|-     +| +.+.+|-|++|+|+-                 |-..-..|.||.-.+     .+.+|.+..-+.=.+.+
T Consensus       134 ~dPD~SA~~ir~~L~el~G~~VgVIITDT~GRpFR~G~vGvAiG~aG~~~l~D~~G~~DlyGreL~~T~vAvADELAaaA  213 (260)
T TIGR01916       134 EDPDASAEKIRRGLRELLGKDVGVIITDTNGRPFREGQVGVAIGAAGVKALKDWRGEKDLYGRELEVTVVAVADELAAAA  213 (260)
T ss_pred             CCHHHHHHHHHHHHHHHHCCEEEEEEECCCCCCCCCCCCEEEEEECCCHHHHHCCCCCCCCCCCCCEEEEEEHHHHHHHH
T ss_conf             88378999999999986398478999718888401687437881004047873278959888822122221034788643


Q ss_pred             HHHCCCEE
Q ss_conf             98739602
Q gi|254780170|r  185 AYRAHRCD  192 (342)
Q Consensus       185 al~~Gr~D  192 (342)
                      .|..|+.|
T Consensus       214 nLVmGead  221 (260)
T TIGR01916       214 NLVMGEAD  221 (260)
T ss_pred             HHHCCCCC
T ss_conf             12123037


No 185
>PRK11622 putative ABC transporter solute-binding protein; Provisional
Probab=34.71  E-value=35  Score=15.13  Aligned_cols=32  Identities=13%  Similarity=-0.017  Sum_probs=23.5

Q ss_pred             EE-CCHHHHHHHHHCCCEEEEEECCHHHHHHHH
Q ss_conf             74-798999999873960299825047999998
Q gi|254780170|r  175 VF-ERVEEIDAAYRAHRCDAYTGDISALYALKL  206 (342)
Q Consensus       175 ~~-~~~~~a~~al~~Gr~DA~~~D~s~La~~~~  206 (342)
                      .| .+..+..+.|.+|++|..++-.+.-+....
T Consensus       249 ~yP~~~~~l~~L~adGEi~~~~sfnp~~a~~~I  281 (401)
T PRK11622        249 TFPASPAELDQLLADGELDLAFTFNPNEAQAAI  281 (401)
T ss_pred             CCCCCHHHHHHHHHCCCEEEEEECCHHHHHHHH
T ss_conf             268999999999847987788403877788898


No 186
>pfam07091 FmrO Ribosomal RNA methyltransferase (FmrO). This family consists of several bacterial ribosomal RNA methyltransferase (aminoglycoside-resistance methyltransferase) proteins.
Probab=34.62  E-value=35  Score=15.12  Aligned_cols=129  Identities=16%  Similarity=0.249  Sum_probs=55.3

Q ss_pred             EEEEEECCCCCCEEECCCCCEEEEHHH--HHHHHHHHH--CCCCCEEEEEECCCCCCHHHHHCCCEEEEEE-CCCCCCCC
Q ss_conf             999871789883068898988015099--999999996--7982202599814310026774396279981-24325320
Q gi|254780170|r   36 LKCGINTGLVGFAEVKANGDWKGFDVD--FCRALSSAI--FDDPSKIQYLPLNAKERFLALQSKQIDILSR-NTDWTLLR  110 (342)
Q Consensus        36 L~vGv~~~~ppfs~~d~~G~~~GfDVD--l~raiAaal--~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~-~~T~T~~R  110 (342)
                      |-||.++=.-||--..++=.+.|+|||  +|..+.+.+  ++-+..++...+     ....-...+|+..- -+-..+++
T Consensus       109 laCGlNPLa~pwm~~~~~~~Y~a~DId~~~i~fi~~~l~~l~v~~~~~~~Dl-----~~~~p~~~~DvaLllK~lp~LE~  183 (248)
T pfam07091       109 LACGLNPLAVPWMPLAPDATYHAYDIDRALIEFIRAFLALLGVPGEVRVRDL-----LTDPPAEPADVALLLKTLPLLEQ  183 (248)
T ss_pred             ECCCCCCCCCCCCCCCCCCEEEEEECCHHHHHHHHHHHHHCCCCCCEEEEEE-----CCCCCCCCCCCHHHHHHHHHHHH
T ss_conf             0026883014233689986799970777899999999986298763798761-----04799887340047552778988


Q ss_pred             H-HCCCCCCCCCCCCCCEEEEEECCCCCCCHHHHCCCCEEEEECCCHHHHHHHHHHHCCCCCCEEEECC
Q ss_conf             1-1027843532234402346302113475364178620343134269999999986299850787479
Q gi|254780170|r  111 E-ISLGLAFRPITYFDGQGFIMHKKKGISSVSQLSGASICVQAGTTTELTLADYFKAHNMKYHPIVFER  178 (342)
Q Consensus       111 d-~~~~v~Fs~~~~~dgq~~lVrk~~~i~s~~dL~G~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~~~~  178 (342)
                      . ...+.++...  .+.+-++|  +-   -.+.|+|+..+..+  ++..+++...+.++..++-+.|.+
T Consensus       184 q~~G~g~~ll~~--l~~~~vVV--SF---PtrsLgGR~kGm~~--~y~~~fe~~~~~r~~~~~~~~~~n  243 (248)
T pfam07091       184 QRRGAGLDLLDA--LNAPHVVV--SF---PTRSLGGRSKGMEA--TYSAWFEALVAGRGWIVDRLEFGN  243 (248)
T ss_pred             HCCCCHHHHHHH--HCCCEEEE--EC---CCCCCCCCCCCCCC--CHHHHHHHHCCCCCCEEEEEEECC
T ss_conf             702607899998--37983899--65---64122676664446--688999976036874345666066


No 187
>smart00475 53EXOc 5'-3' exonuclease.
Probab=34.55  E-value=35  Score=15.11  Aligned_cols=51  Identities=24%  Similarity=0.518  Sum_probs=35.2

Q ss_pred             HHHHCCHHHHHHHHHCCCCHHHHHHHCCCCCCCCHHHCCCCHHHHHHHHHHCCCHHHHHHH
Q ss_conf             1233015208988622671778876235887650333799867999999971869998788
Q gi|254780170|r  252 EELGITQKNINQVSKDTTNPDVQRFLGIDKSSNIGEALGLTKDWTYRIIRHMGNYGEMFDR  312 (342)
Q Consensus       252 ee~git~~nv~~~~~~s~~p~i~r~lg~~~~~~~g~~lgl~~~~~~~~i~~vGNYgei~~r  312 (342)
                      |++||+-.++-         +.+-|.| +.+-|+---=|+.+.-|.+.|++-|+-.+||+.
T Consensus       165 e~~gv~P~q~~---------d~~aL~G-D~sDnIpGV~GIG~KtA~kLL~~ygsle~i~~~  215 (259)
T smart00475      165 EKYGLTPEQII---------DYKALMG-DSSDNIPGVPGIGEKTAAKLLKEFGSLENILEN  215 (259)
T ss_pred             HHHCCCHHHHH---------HHHHCCC-CCCCCCCCCCCCCHHHHHHHHHHCCCHHHHHHH
T ss_conf             88489989986---------3764046-453589999984789999999983999999983


No 188
>PRK03002 prsA peptidylprolyl isomerase; Reviewed
Probab=34.18  E-value=36  Score=15.07  Aligned_cols=45  Identities=20%  Similarity=0.206  Sum_probs=23.3

Q ss_pred             CHHHHHHHHHHHCCCCCCEEEECCHHHH---HHHHHCCCEEEEEECCHHHHHHHH
Q ss_conf             2699999999862998507874798999---999873960299825047999998
Q gi|254780170|r  155 TTELTLADYFKAHNMKYHPIVFERVEEI---DAAYRAHRCDAYTGDISALYALKL  206 (342)
Q Consensus       155 T~e~~l~~~~~~~~~~~~~v~~~~~~~a---~~al~~Gr~DA~~~D~s~La~~~~  206 (342)
                      .++..+++++.. .+.+..+.+++.++|   ...+.+|.      |-..||-..+
T Consensus       124 vtd~d~k~~Y~p-ev~~~hIlv~~e~~A~~v~~~l~~G~------dF~~lAk~~S  171 (285)
T PRK03002        124 VTEKDVKDHYKP-EIKASHILVSDENEAKEIKKKLDAGA------SFEELAKQES  171 (285)
T ss_pred             CCHHHHHHHCCC-CEEEEEEEECCHHHHHHHHHHHHCCC------CHHHHHHHHC
T ss_conf             889999986187-63888877789999999999988799------9999999968


No 189
>pfam01381 HTH_3 Helix-turn-helix. This large family of DNA binding helix-turn helix proteins includes Cro and CI.
Probab=34.01  E-value=31  Score=15.47  Aligned_cols=40  Identities=28%  Similarity=0.569  Sum_probs=27.5

Q ss_pred             HHHHHHCCHHHHHHHHHCCCCHHHHHHHCCCCCCCCHHHCCCCHHH
Q ss_conf             1212330152089886226717788762358876503337998679
Q gi|254780170|r  250 TAEELGITQKNINQVSKDTTNPDVQRFLGIDKSSNIGEALGLTKDW  295 (342)
Q Consensus       250 ~Aee~git~~nv~~~~~~s~~p~i~r~lg~~~~~~~g~~lgl~~~~  295 (342)
                      .|+..||+.+.+......-..|.+..+.      .+.+.||.+.+|
T Consensus        15 lA~~~gis~~~is~~E~g~~~p~~~~l~------~ia~~l~v~~~~   54 (55)
T pfam01381        15 LAEKLGVSRSTISKIENGKREPSLETLK------KLAEALGVSLDE   54 (55)
T ss_pred             HHHHHCCCHHHHHHHHCCCCCCCHHHHH------HHHHHHCCCHHH
T ss_conf             9999896999999998799999999999------999997897987


No 190
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.93  E-value=36  Score=15.05  Aligned_cols=29  Identities=24%  Similarity=0.394  Sum_probs=18.6

Q ss_pred             CHHHHHHHHHHHHHHHHH--HCCCCCHHHHH
Q ss_conf             913899999999999984--01244216899
Q gi|254780170|r    1 MYKDFFVSILCLIILFFT--SFSTNASILGD   29 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~--~~aa~a~tLd~   29 (342)
                      |+|++++++++.+++..+  .....+.++.+
T Consensus         1 M~kk~~~a~~~s~v~~s~~~~t~V~a~~~~~   31 (265)
T COG3883           1 MKKKILLAVLLSLVIISTAFLTTVFAALLSD   31 (265)
T ss_pred             CCHHHHHHHHHHHHHHHHHHCCHHHHHHHHH
T ss_conf             9148999999999999981100021335334


No 191
>PRK09934 putative fimbrial protein; Provisional
Probab=33.86  E-value=34  Score=15.17  Aligned_cols=19  Identities=16%  Similarity=0.158  Sum_probs=10.0

Q ss_pred             CHHHHHHHHHHHHHHHHHH
Q ss_conf             9138999999999999840
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTS   19 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~   19 (342)
                      |||.++..++.+++...+.
T Consensus         1 mkk~~l~~~~~l~~~~~~~   19 (171)
T PRK09934          1 MRRVFIAIFCGLLWSPLSQ   19 (171)
T ss_pred             CHHHHHHHHHHHHHHHHHH
T ss_conf             9268999999999863442


No 192
>pfam12262 Lipase_bact_N Bacterial virulence factor lipase N-terminal. This domain family is found in bacteria, and is typically between 258 and 271 amino acids in length. There are two conserved sequence motifs: DGT and DGWST. This family is the N-terminal region of bacterial virulence factor lipase. The N-terminal region contains a potential signalling sequence.
Probab=33.86  E-value=28  Score=15.72  Aligned_cols=20  Identities=25%  Similarity=0.295  Sum_probs=13.7

Q ss_pred             CHHHHHHHHHHHHHHHHHHC
Q ss_conf             91389999999999998401
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSF   20 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~   20 (342)
                      |||+++.++++..+.+..|.
T Consensus         1 MKk~~l~~~i~SAL~LaGCg   20 (269)
T pfam12262         1 MKKKFLALLLASALLLAGCG   20 (269)
T ss_pred             CCHHHHHHHHHHHHHHCCCC
T ss_conf             92479999999986411157


No 193
>KOG4254 consensus
Probab=33.76  E-value=14  Score=17.65  Aligned_cols=97  Identities=21%  Similarity=0.246  Sum_probs=62.4

Q ss_pred             HCCCCHHHCCCCC-CCCCCCEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCCCHHHHHHHCCCCCCCC
Q ss_conf             3678001002564-442371010002777579999887744331121233015208988622671778876235887650
Q gi|254780170|r  207 TNDRPSEHVILPD-IISKSPLAPAIIQGDTEWYNIVSWTHYAMVTAEELGITQKNINQVSKDTTNPDVQRFLGIDKSSNI  285 (342)
Q Consensus       207 ~~~~p~~~~il~e-~iskEPlg~avr~gD~~w~d~V~W~~~ali~Aee~git~~nv~~~~~~s~~p~i~r~lg~~~~~~~  285 (342)
                      ....|..|+|.=- ..+-|-..-.-++.+++.++..--.++..|++=.-|..+. |.... --+-|..||+||.. -|+.
T Consensus       412 tlappg~Hvl~lf~~~t~~~w~g~~~~eye~~K~~~ae~~~~~ie~l~Pgfsss-v~~~d-vgTP~t~qr~l~~~-~Gn~  488 (561)
T KOG4254         412 TLAPPGKHVLHLFTQYTPEEWEGGLKGEYETKKEAFAERVFSVIEKLAPGFSSS-VESYD-VGTPPTHQRFLGRP-GGNI  488 (561)
T ss_pred             CCCCCCCEEEEEECCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCE-EEEEE-CCCCCHHHHHHCCC-CCCC
T ss_conf             758988618998436886564568742116788999999999999976786651-78886-47993266774478-8751


Q ss_pred             HH-HCCCCHHHHHHHHHHCCCH
Q ss_conf             33-3799867999999971869
Q gi|254780170|r  286 GE-ALGLTKDWTYRIIRHMGNY  306 (342)
Q Consensus       286 g~-~lgl~~~~~~~~i~~vGNY  306 (342)
                      +. .++|+..+..+-+..--||
T Consensus       489 ~~~~~~ld~g~l~~Pv~~~s~y  510 (561)
T KOG4254         489 FHGAMGLDQGYLHRPVMAWSNY  510 (561)
T ss_pred             CCCCCCCCCCCCCCCCCCCCCC
T ss_conf             5763555543335773233467


No 194
>PRK05866 short chain dehydrogenase; Provisional
Probab=33.18  E-value=37  Score=14.97  Aligned_cols=35  Identities=6%  Similarity=-0.186  Sum_probs=14.0

Q ss_pred             EEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHH
Q ss_conf             99871789883068898988015099999999996
Q gi|254780170|r   37 KCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAI   71 (342)
Q Consensus        37 ~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal   71 (342)
                      .++-++..+||......=-.+|=.-=+.+++|.++
T Consensus        26 ~~~~~~~~~P~dL~GKvaLITGassGIG~aiA~~l   60 (290)
T PRK05866         26 LLPNRPPRTPVDLTGKRILLTGASSGIGEAAAEKF   60 (290)
T ss_pred             CCCCCCCCCCCCCCCCEEEECCCCCHHHHHHHHHH
T ss_conf             56789999497899998999081309999999999


No 195
>cd01302 Cyclic_amidohydrolases Cyclic amidohydrolases, including hydantoinase, dihydropyrimidinase, allantoinase, and dihydroorotase, are involved in the metabolism of pyrimidines and purines, sharing the property of hydrolyzing the cyclic amide bond of each substrate to the corresponding N-carbamyl amino acids. Allantoinases catalyze the degradation of purines, while dihydropyrimidinases and hydantoinases, a microbial counterpart of dihydropyrimidinase, are involved in pyrimidine degradation. Dihydroorotase participates in the de novo synthesis of pyrimidines.
Probab=33.01  E-value=37  Score=14.95  Aligned_cols=86  Identities=16%  Similarity=0.167  Sum_probs=45.0

Q ss_pred             CCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             79899999987396029982504799999836780010025644423710100027775799998877443311212330
Q gi|254780170|r  177 ERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDIISKSPLAPAIIQGDTEWYNIVSWTHYAMVTAEELGI  256 (342)
Q Consensus       177 ~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~iskEPlg~avr~gD~~w~d~V~W~~~ali~Aee~gi  256 (342)
                      ++.+..++++.+|.+|++++|..         |.+.+.+-.+..|.+.|.|+.  -=+..+--+     +...  -+.|+
T Consensus       206 ~d~~aL~~~l~~G~ID~i~SDHa---------P~~~~~K~~~~~f~~a~~G~~--glet~lpl~-----l~~~--~~~~l  267 (337)
T cd01302         206 EDREALWEGVKNGKIDTIASDHA---------PHSKEEKESGKDIWKAPPGFP--GLETRLPIL-----LTEG--VKRGL  267 (337)
T ss_pred             HHHHHHHHHHHCCCCCEEEECCC---------CCCHHHHCCCCCCCCCCCCCC--CHHHHHHHH-----HHHH--HHCCC
T ss_conf             89999999887499558985888---------989888102467464889875--277799999-----9999--85499


Q ss_pred             CHHHHHHHHHCCCCHHHHHHHCCCCCCC
Q ss_conf             1520898862267177887623588765
Q gi|254780170|r  257 TQKNINQVSKDTTNPDVQRFLGIDKSSN  284 (342)
Q Consensus       257 t~~nv~~~~~~s~~p~i~r~lg~~~~~~  284 (342)
                      +=..+-++  .|.||  .|+||+.+.|.
T Consensus       268 sl~~~v~~--~s~nP--Aki~gl~~kG~  291 (337)
T cd01302         268 SLETLVEI--LSENP--ARIFGLYPKGT  291 (337)
T ss_pred             CHHHHHHH--HHHHH--HHHHCCCCCCC
T ss_conf             99999999--97889--99959898886


No 196
>pfam09403 FadA Adhesion protein FadA. FadA (Fusobacterium adhesin A) is an adhesin which forms two alpha helices.
Probab=32.06  E-value=33  Score=15.24  Aligned_cols=21  Identities=29%  Similarity=0.300  Sum_probs=14.8

Q ss_pred             CHHHHHHHHHHHHHHHHHHCC
Q ss_conf             913899999999999984012
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFS   21 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~a   21 (342)
                      |+|.++++++++...++++..
T Consensus         1 MkK~ll~~~llls~~s~aa~~   21 (126)
T pfam09403         1 MKKILLCSMLILSSLSYAAEA   21 (126)
T ss_pred             CHHHHHHHHHHHHHHHHHHHH
T ss_conf             916999999999999987457


No 197
>PRK05752 uroporphyrinogen-III synthase; Validated
Probab=32.00  E-value=39  Score=14.85  Aligned_cols=99  Identities=9%  Similarity=0.138  Sum_probs=60.1

Q ss_pred             EEECCCCCCCCHHCCCCCCCCCCCCCCEEEEEECCCCCCCHHHHCCCCEEEEECCCHHHHHHHHHHHCCCCCCEE-EECC
Q ss_conf             981243253201102784353223440234630211347536417862034313426999999998629985078-7479
Q gi|254780170|r  100 LSRNTDWTLLREISLGLAFRPITYFDGQGFIMHKKKGISSVSQLSGASICVQAGTTTELTLADYFKAHNMKYHPI-VFER  178 (342)
Q Consensus       100 l~~~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVrk~~~i~s~~dL~G~~I~v~~GTT~e~~l~~~~~~~~~~~~~v-~~~~  178 (342)
                      .++..|-..-++....++|. +.-+++.+++--.  .......+.|++|...+|.-.-..|.+.++++|..++.+ .|..
T Consensus        88 AVG~~TA~aL~~~G~~v~~p-~~~~~SE~LL~lp--~l~~~~~~~g~rVLi~rG~gGR~~L~~~L~~rGa~V~~~~~YrR  164 (255)
T PRK05752         88 SVGAATAAILQDYGLDVSYP-EQGDDSEALLALP--ALRQALAVPDPRVLIMRGEGGRELLAERLREQGASVDYLELYRR  164 (255)
T ss_pred             EECHHHHHHHHHCCCCCCCC-CCCCCHHHHHHCH--HHHHHHCCCCCEEEEEECCCCHHHHHHHHHHCCCEEEEEEEEEE
T ss_conf             98899999999769982448-9877767886055--45422047788799981676178999999988998989987884


Q ss_pred             ------HHHHHHHHHCCCEEEEEECCHHH
Q ss_conf             ------89999998739602998250479
Q gi|254780170|r  179 ------VEEIDAAYRAHRCDAYTGDISAL  201 (342)
Q Consensus       179 ------~~~a~~al~~Gr~DA~~~D~s~L  201 (342)
                            ..+..+.+..+++|+++.-.+..
T Consensus       165 ~~p~~~~~~~~~~~~~~~id~i~~TS~e~  193 (255)
T PRK05752        165 CLPDYPAGTLLQRVEAERLNGLVVSSGQG  193 (255)
T ss_pred             CCCCCCHHHHHHHHHHCCCCEEEECCHHH
T ss_conf             38999849999999808999999881999


No 198
>TIGR00506 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; InterPro: IPR000422 3,4-Dihydroxy-2-butanone 4-phosphate is biosynthesized from ribulose 5-phosphate and serves as the biosynthetic precursor for the xylene ring of riboflavin . It is sometimes found as a bifunctional enzyme with GTP cyclohydrolase II that catalyses the first committed step in the biosynthesis of riboflavin (IPR000926 from INTERPRO).   No sequences with significant homology to DHBP synthase are found in the metazoa.; GO: 0008686 34-dihydroxy-2-butanone-4-phosphate synthase activity, 0009231 riboflavin biosynthetic process.
Probab=31.43  E-value=36  Score=15.05  Aligned_cols=34  Identities=12%  Similarity=-0.078  Sum_probs=15.5

Q ss_pred             CCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCH
Q ss_conf             798999999873960299825047999998367800
Q gi|254780170|r  177 ERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPS  212 (342)
Q Consensus       177 ~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~  212 (342)
                      .+-.-..++..+..|.-+..|+-.=.+  ..+..|+
T Consensus       119 ~DR~~Ti~~~l~~~~~~vmmgr~~dFG--~df~rPG  152 (230)
T TIGR00506       119 NDRALTIRAALADVVKPVMMGRKEDFG--SDFRRPG  152 (230)
T ss_pred             HHHHHHHHHHHCCCCCEEECCCCCCCH--HHCCCCC
T ss_conf             478899988746766422227624551--1436888


No 199
>pfam05968 Bacillus_PapR Bacillus PapR protein. This family consists of the Bacillus species specific PapR protein. The papR gene belongs to the PlcR regulon and is located 70 bp downstream from plcR. It encodes a 48-amino-acid peptide. Disruption of the papR gene abolishes expression of the PlcR regulon, resulting in a large decrease in haemolysis and virulence in insect larvae. A processed form of PapR activates the PlcR regulon by allowing PlcR to bind to its DNA target. This activating mechanism is strain specific.
Probab=31.41  E-value=29  Score=15.60  Aligned_cols=18  Identities=33%  Similarity=0.318  Sum_probs=10.6

Q ss_pred             CHHHHHHHHHHHHHHHHH
Q ss_conf             913899999999999984
Q gi|254780170|r    1 MYKDFFVSILCLIILFFT   18 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~   18 (342)
                      |||-++.++++++.+...
T Consensus         1 MKKlLigslltlAM~wGi   18 (48)
T pfam05968         1 MKKLLIGSLLTLAMLWGI   18 (48)
T ss_pred             CCHHHHHHHHHHHHHHCC
T ss_conf             904788689999999533


No 200
>pfam05175 MTS Methyltransferase small domain. This domain is found in ribosomal RNA small subunit methyltransferase C as well as other methyltransferases .
Probab=31.07  E-value=40  Score=14.75  Aligned_cols=72  Identities=17%  Similarity=0.176  Sum_probs=40.8

Q ss_pred             CEEEEEEECCCCCC--EEECCCCCEEEEHHHH-----HHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCC
Q ss_conf             94999871789883--0688989880150999-----9999999679822025998143100267743962799812432
Q gi|254780170|r   34 GFLKCGINTGLVGF--AEVKANGDWKGFDVDF-----CRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDW  106 (342)
Q Consensus        34 G~L~vGv~~~~ppf--s~~d~~G~~~GfDVDl-----~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~  106 (342)
                      .+|=+|.-.+.-+.  ....++.+.++.|++-     +++-+++...  ..++++   +.+.+..+..+++|++++|-.+
T Consensus        34 ~vLDlGcG~G~i~~~la~~~p~~~v~~vDi~~~Al~~a~~N~~~n~l--~~v~v~---~~D~~~~~~~~~fD~IvsNPP~  108 (170)
T pfam05175        34 KVLDLGCGYGVLGAALAKRSPDLEVTMVDINARALESARANLAANGL--ENGEVF---WSDLYSAVEPGKFDLIISNPPF  108 (170)
T ss_pred             CEEEECCCCCHHHHHHHHHCCCCEEEECHHHHHHHHHHHHHHHHHCC--CEEEEE---ECCCCCCCCCCCEEEEEECCCC
T ss_conf             49997764829899999978986798515449999999999998099--848999---7446665778866089989772


Q ss_pred             CCCC
Q ss_conf             5320
Q gi|254780170|r  107 TLLR  110 (342)
Q Consensus       107 T~~R  110 (342)
                      -..+
T Consensus       109 h~g~  112 (170)
T pfam05175       109 HAGK  112 (170)
T ss_pred             CCCC
T ss_conf             1142


No 201
>smart00530 HTH_XRE Helix-turn-helix XRE-family like proteins.
Probab=31.06  E-value=36  Score=15.05  Aligned_cols=40  Identities=23%  Similarity=0.538  Sum_probs=24.6

Q ss_pred             HHHHHHCCHHHHHHHHHCCCCHHHHHHHCCCCCCCCHHHCCCCHHH
Q ss_conf             1212330152089886226717788762358876503337998679
Q gi|254780170|r  250 TAEELGITQKNINQVSKDTTNPDVQRFLGIDKSSNIGEALGLTKDW  295 (342)
Q Consensus       250 ~Aee~git~~nv~~~~~~s~~p~i~r~lg~~~~~~~g~~lgl~~~~  295 (342)
                      .|+..||+...|.........|.+..+.      .+.+.||.+.+|
T Consensus        16 lA~~~gis~~~is~~E~g~~~p~~~~l~------~ia~~l~~~~~~   55 (56)
T smart00530       16 LAEKLGVSRSTLSRIENGKRKPSLETLK------KLAKALGVSLDE   55 (56)
T ss_pred             HHHHHCCCHHHHHHHHCCCCCCCHHHHH------HHHHHHCCCHHH
T ss_conf             9999895999999999799899999999------999998888987


No 202
>PRK01033 imidazole glycerol phosphate synthase subunit HisF; Provisional
Probab=30.97  E-value=40  Score=14.74  Aligned_cols=13  Identities=15%  Similarity=0.266  Sum_probs=5.7

Q ss_pred             CCHHHHHHHHHCC
Q ss_conf             7989999998739
Q gi|254780170|r  177 ERVEEIDAAYRAH  189 (342)
Q Consensus       177 ~~~~~a~~al~~G  189 (342)
                      .+.+++...|..|
T Consensus        84 rs~e~~~~ll~~G   96 (253)
T PRK01033         84 KTVEQAKRIFSLG   96 (253)
T ss_pred             CCHHHHHHHHHCC
T ss_conf             2168889998679


No 203
>cd00093 HTH_XRE Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.
Probab=30.78  E-value=38  Score=14.93  Aligned_cols=40  Identities=28%  Similarity=0.567  Sum_probs=24.1

Q ss_pred             HHHHHHCCHHHHHHHHHCCCCHHHHHHHCCCCCCCCHHHCCCCHHH
Q ss_conf             1212330152089886226717788762358876503337998679
Q gi|254780170|r  250 TAEELGITQKNINQVSKDTTNPDVQRFLGIDKSSNIGEALGLTKDW  295 (342)
Q Consensus       250 ~Aee~git~~nv~~~~~~s~~p~i~r~lg~~~~~~~g~~lgl~~~~  295 (342)
                      .|+..||+...+.........|.+.++.      .+.+.+|++.+|
T Consensus        18 lA~~~gis~~~l~~~e~g~~~p~~~~l~------~la~~~~~~~~~   57 (58)
T cd00093          18 LAEKLGVSRSTISRIENGKRNPSLETLE------KLAKALGVSLDE   57 (58)
T ss_pred             HHHHCCCCHHHHHHHHCCCCCCCHHHHH------HHHHHHCCCHHH
T ss_conf             9571499999999998799899999999------999993898987


No 204
>pfam12276 DUF3617 Protein of unknown function (DUF3617). This family of proteins is found in bacteria. Proteins in this family are typically between 155 and 179 amino acids in length. There is a single completely conserved residue C that may be functionally important.
Probab=30.42  E-value=36  Score=15.08  Aligned_cols=26  Identities=19%  Similarity=0.335  Sum_probs=14.9

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCHH
Q ss_conf             91389999999999998401244216
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNASI   26 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~t   26 (342)
                      |+|.+++++++++++...+.++++..
T Consensus         1 M~~~~~~~~~~~~~~~~~~~a~~~~~   26 (149)
T pfam12276         1 MKRLLLLALLLLLLLLAAAAAAAAQD   26 (149)
T ss_pred             CCHHHHHHHHHHHHHHHCCCCCCCCC
T ss_conf             95057899999999862653100555


No 205
>pfam10566 Glyco_hydro_97 Glycoside hydrolase 97. This is the 97th family of glycosidases, in this case bacterial. The central part of the GH97 family protein sequences represents a typical and complete (beta/alpha)8-barrel or catalytic TIM-barrel type domain. The N- and C-terminal parts of the sequences, mainly consisting of beta-strands, most probably form two additional non-catalytic domains with as yet unknown functions. The non-catalytic domains of glycosidases from the alpha-galactosidase and alpha-glucosidase superfamilies are also predominantly composed of beta-strands, and at least some of these domains are involved in oligomerisation and carbohydrate binding. In all known glycosidases with the (beta-alpha)8-barrel fold, the amino acid residues at the active site are located on the C-termini of the beta-strands.
Probab=30.35  E-value=24  Score=16.18  Aligned_cols=60  Identities=15%  Similarity=0.099  Sum_probs=27.2

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCEEEEEEE--CCCCCCEEECCCCCE------EEEHHH
Q ss_conf             91389999999999998401244216899985794999871--789883068898988------015099
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNASILGDIKKRGFLKCGIN--TGLVGFAEVKANGDW------KGFDVD   62 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~tLd~Vk~rG~L~vGv~--~~~ppfs~~d~~G~~------~GfDVD   62 (342)
                      |||.+++.++.++++..+++++ +.+++-.---|.|++-+.  .+.+-|+. .-+|+.      -||..+
T Consensus         1 mkk~~~~~~~~~~~~~~~~~~~-~k~~~v~SPDG~l~v~v~~~~g~l~YsV-~~~g~~vi~~S~LGl~~~   68 (643)
T pfam10566         1 MKKLTIILLAFLLLIGNLSLAA-RKNYQLTSPNGKLKVELTLEGNELVYQI-QYQKQEVIQNSPLGLVLD   68 (643)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHH-CCEEEEECCCCCEEEEEEECCCEEEEEE-EECCEEEEECCCCCEEEC
T ss_conf             9502578999999997656754-1623899989988999998899599999-999989984387857986


No 206
>TIGR00631 uvrb excinuclease ABC, B subunit; InterPro: IPR004807 All proteins in this family for which functions are known are DNA helicases that function in the nucleotide excision repair and are endonucleases that make the 3' incision next to DNA damage. They are part of a pathway requiring UvrA, UvrB, UvrC, and UvrD homologs.; GO: 0009381 excinuclease ABC activity, 0006289 nucleotide-excision repair, 0005737 cytoplasm, 0009380 excinuclease repair complex.
Probab=30.24  E-value=41  Score=14.66  Aligned_cols=20  Identities=35%  Similarity=0.473  Sum_probs=10.2

Q ss_pred             HHHHHCCCEEEEEECCCCCCCCH
Q ss_conf             26774396279981243253201
Q gi|254780170|r   89 FLALQSKQIDILSRNTDWTLLRE  111 (342)
Q Consensus        89 f~aL~sG~vDil~~~~T~T~~Rd  111 (342)
                      +..|..|++|||++   +|+=||
T Consensus       490 irdLR~G~fDVLVG---INLLRE  509 (667)
T TIGR00631       490 IRDLRLGEFDVLVG---INLLRE  509 (667)
T ss_pred             HHHHCCCCCEEEEE---CCHHHC
T ss_conf             99844788408860---002002


No 207
>PTZ00334 trans-sialidase; Provisional
Probab=30.21  E-value=39  Score=14.82  Aligned_cols=22  Identities=18%  Similarity=0.415  Sum_probs=15.7

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             9138999999999999840124
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFST   22 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa   22 (342)
                      |.|++|.++++|+++.+.+|..
T Consensus        39 MSRrvF~SAVLLLlvVmMCCgs   60 (780)
T PTZ00334         39 MSRRVFTSAVLLLLVVMMCCGS   60 (780)
T ss_pred             CCHHHHHHHHHHHHHHHEECCC
T ss_conf             5134467789999998420898


No 208
>TIGR02747 TraV type IV conjugative transfer system protein TraV; InterPro: IPR014118   This entry includes TraV, which is a component of conjugative type IV secretion system. TraV is an outer membrane lipoprotein that is believed to interact with the secretin TraK , , . The alignment contains three conserved cysteines in the N-terminal half..
Probab=30.16  E-value=36  Score=15.04  Aligned_cols=22  Identities=18%  Similarity=0.279  Sum_probs=16.2

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             9138999999999999840124
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFST   22 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa   22 (342)
                      |.|..++++++++++.++.|++
T Consensus         1 Mmr~~~L~~~~~~~f~LtGCsa   22 (174)
T TIGR02747         1 MMRLKVLLLLACVAFLLTGCSA   22 (174)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHH
T ss_conf             9067899999999872002577


No 209
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=30.12  E-value=42  Score=14.65  Aligned_cols=52  Identities=17%  Similarity=0.154  Sum_probs=26.8

Q ss_pred             CCCEEEEECCCHHHHHHHHHHHCCCCCCEEEECCH--------HHHHHHHHCCCEEEEEEC
Q ss_conf             86203431342699999999862998507874798--------999999873960299825
Q gi|254780170|r  145 GASICVQAGTTTELTLADYFKAHNMKYHPIVFERV--------EEIDAAYRAHRCDAYTGD  197 (342)
Q Consensus       145 G~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~~~~~--------~~a~~al~~Gr~DA~~~D  197 (342)
                      |.+.-+..|.-+|.. ++-++..=+++.++.+++.        ...+..+..|+.|-+++-
T Consensus       482 gs~~L~~~G~Gteri-eeeL~~~FP~~rv~r~d~Dtt~~k~~~~~~l~~~~~ge~dILiGT  541 (730)
T COG1198         482 GSEHLRAVGPGTERI-EEELKRLFPGARIIRIDSDTTRRKGALEDLLDQFANGEADILIGT  541 (730)
T ss_pred             CCCEEEEECCCHHHH-HHHHHHHCCCCCEEEECCCCCCCHHHHHHHHHHHHCCCCCEEECC
T ss_conf             997369964619999-999998789994799846666643568999999757998866341


No 210
>PRK03353 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional
Probab=29.87  E-value=26  Score=15.96  Aligned_cols=12  Identities=33%  Similarity=0.343  Sum_probs=6.4

Q ss_pred             CEEEECCCCCHH
Q ss_conf             101000277757
Q gi|254780170|r  225 PLAPAIIQGDTE  236 (342)
Q Consensus       225 Plg~avr~gD~~  236 (342)
                      |=|...|+|-.+
T Consensus       144 ~GGvl~R~GHTE  155 (217)
T PRK03353        144 PGGVLTRRGHTE  155 (217)
T ss_pred             CCCCCCCCCHHH
T ss_conf             688353797899


No 211
>PRK05928 hemD uroporphyrinogen-III synthase; Reviewed
Probab=29.60  E-value=42  Score=14.59  Aligned_cols=64  Identities=22%  Similarity=0.262  Sum_probs=45.5

Q ss_pred             HHCCCCEEEEECCCHHHHHHHHHHHCCCCCC-EEEECC-------HHHHHHHHHCCCEEEEEECC-HHHHHHH
Q ss_conf             4178620343134269999999986299850-787479-------89999998739602998250-4799999
Q gi|254780170|r  142 QLSGASICVQAGTTTELTLADYFKAHNMKYH-PIVFER-------VEEIDAAYRAHRCDAYTGDI-SALYALK  205 (342)
Q Consensus       142 dL~G~~I~v~~GTT~e~~l~~~~~~~~~~~~-~v~~~~-------~~~a~~al~~Gr~DA~~~D~-s~La~~~  205 (342)
                      ++.|++|-+..|.-....|.+.+++.|..++ ++.|++       ......++..+++|+++--. +.+....
T Consensus       123 ~~~~~~vL~~~g~~~~~~L~~~L~~~g~~v~~~~~Y~~~~~~~~~~~~~~~~~~~~~~d~i~ftS~~~v~~~~  195 (252)
T PRK05928        123 NLPGKRVLYLRGNGGRPLLGDFLQERGADVDECEVYERKPPKLEGAEELIEELQTGEVDAIIFTSPSMVRAFL  195 (252)
T ss_pred             CCCCCEEEEEECCCCCHHHHHHHHHCCCEEEEEEEEEEECCCCCCHHHHHHHHHCCCCCEEEEECHHHHHHHH
T ss_conf             7789879998167666578999997798479998657637888827999999862898799990999999999


No 212
>TIGR01885 Orn_aminotrans ornithine--oxo-acid transaminase; InterPro: IPR010164   Ornithine aminotransferase catalyses the conversion of L-ornithine and a 2-oxo acid to L-glutamate 5-semialdehyde and an L-amino acid. This enzyme is found in low-GC bacteria, where it is responsible for the fourth step in arginine biosynthesis, and in the mitochondrial matrix of eukaryotes, where it controls L-ornithine levels in tissues. In human hereditary ornithine aminotransferase deficiency, the elevated levels of intraocular concentrations of ornithine are responsible for gyrate atrophy, which affects the CNS and peripheral nervous system ; GO: 0008483 transaminase activity, 0030170 pyridoxal phosphate binding.
Probab=29.14  E-value=23  Score=16.25  Aligned_cols=131  Identities=15%  Similarity=0.117  Sum_probs=83.7

Q ss_pred             HHHHHHHHHHHCCCCCEEEEE--------ECCCCCCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCCCCCCEEEEEE
Q ss_conf             999999999967982202599--------814310026774396279981243253201102784353223440234630
Q gi|254780170|r   61 VDFCRALSSAIFDDPSKIQYL--------PLNAKERFLALQSKQIDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMH  132 (342)
Q Consensus        61 VDl~raiAaal~gd~~kVe~v--------~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVr  132 (342)
                      .++.+|+-..+    .|+...        --.+..-++.|-.||.+.+.-.-|=++.=|+++++  +.-|=|...++--.
T Consensus        61 P~i~~Al~~Q~----~KlTL~Sraf~nd~lg~~~~~~t~LfgGk~~~vL~mNTGaEAvEtA~KL--AR~WgY~~K~ip~~  134 (426)
T TIGR01885        61 PKIVNALKNQA----DKLTLTSRAFHNDVLGEFAKYLTKLFGGKYEKVLPMNTGAEAVETALKL--ARKWGYEVKGIPRN  134 (426)
T ss_pred             HHHHHHHHHHH----HHCCCHHHHHHCCHHHHHHHHHHHHCCCCCCEEECCCCCHHHHHHHHHH--HHHHCCCCCCCCCC
T ss_conf             16899999998----5137102766060357899999975499510560456873479999999--99744135785576


Q ss_pred             CCCCCCCHHHHCCCCEEEEECCCHHHHHHHHHHHCCC------CCCEEEECCHHHHHHHHHCC-----CEEEEEEC
Q ss_conf             2113475364178620343134269999999986299------85078747989999998739-----60299825
Q gi|254780170|r  133 KKKGISSVSQLSGASICVQAGTTTELTLADYFKAHNM------KYHPIVFERVEEIDAAYRAH-----RCDAYTGD  197 (342)
Q Consensus       133 k~~~i~s~~dL~G~~I~v~~GTT~e~~l~~~~~~~~~------~~~~v~~~~~~~a~~al~~G-----r~DA~~~D  197 (342)
                      |..=|...-..-|+|.+.+.-||-+..-++-|-.-=+      .+..|+|++.+...++|.+=     .+-|++-.
T Consensus       135 kA~ii~~~GNFhGRTlgA~S~Std~e~~k~~FGPflPnvasGhgf~~iPYgd~EAl~~aL~~P~~~GDnVAA~i~E  210 (426)
T TIGR01885       135 KAKIIAASGNFHGRTLGAVSASTDSETSKKGFGPFLPNVASGHGFRKIPYGDLEALRKALQDPKKTGDNVAAFILE  210 (426)
T ss_pred             CEEEEEECCCCCCHHHHHHHHCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCEEEEEEC
T ss_conf             2389985388733035443202672120067879677433578521155888789999972757788868999950


No 213
>KOG4716 consensus
Probab=28.92  E-value=44  Score=14.52  Aligned_cols=49  Identities=20%  Similarity=0.398  Sum_probs=36.2

Q ss_pred             CEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCC
Q ss_conf             880150999999999967982202599814310026774396279981243
Q gi|254780170|r   55 DWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTD  105 (342)
Q Consensus        55 ~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T  105 (342)
                      -+.|||-|++.-|++.|-  ...|+|....-..|...+.+|+.-+...++.
T Consensus       232 ~LrGFDqdmae~v~~~m~--~~Gikf~~~~vp~~Veq~~~g~l~v~~k~t~  280 (503)
T KOG4716         232 LLRGFDQDMAELVAEHME--ERGIKFLRKTVPERVEQIDDGKLRVFYKNTN  280 (503)
T ss_pred             ECCCCCHHHHHHHHHHHH--HHCCCEEECCCCEEEEECCCCCEEEEEECCC
T ss_conf             102526999999999999--7097334033530102204772799961255


No 214
>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=28.37  E-value=45  Score=14.46  Aligned_cols=31  Identities=19%  Similarity=0.312  Sum_probs=24.3

Q ss_pred             CCCHHHCCCCHHHHHHHHHHCC-------CHHHHHHHHCC
Q ss_conf             6503337998679999999718-------69998788648
Q gi|254780170|r  283 SNIGEALGLTKDWTYRIIRHMG-------NYGEMFDRNLG  315 (342)
Q Consensus       283 ~~~g~~lgl~~~~~~~~i~~vG-------NYgei~~rnlg  315 (342)
                      .|+|  .|-+.+||..+++..|       .|+.||-||.=
T Consensus        56 ~NFG--~GSSRE~A~~al~~~Gi~aVIA~SFarIf~rN~i   93 (121)
T cd01579          56 ENYG--QGSSREHAALAPMYLGVRAVLAKSFARIHRANLI   93 (121)
T ss_pred             CCCC--CCCCHHHHHHHHHHCCCEEEEEHHHHHHHHHHHH
T ss_conf             7567--8972899999999839459997589999998788


No 215
>pfam02402 Lysis_col Lysis protein. These small bacterial proteins are required for colicin release and partial cell lysis. This family contains lysis proteins for several different forms of colicin. Bacillus subtilis lytA has been included in this family, the similarity is not highly significant, however it is also a short protein, that is involved in secretion of other proteins (Bateman A pers. obs.).
Probab=28.36  E-value=25  Score=16.08  Aligned_cols=22  Identities=32%  Similarity=0.549  Sum_probs=13.6

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             91389999999999998401244
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTN   23 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~   23 (342)
                      |||.++..++.+. +..++|.++
T Consensus         1 Mkki~~~~i~~~~-~~L~aCQaN   22 (46)
T pfam02402         1 MKKILFIGILLLT-VLLSACQAN   22 (46)
T ss_pred             CCEEEEHHHHHHH-HHHHHHHHH
T ss_conf             9242013999999-999985550


No 216
>PRK13893 conjugal transfer protein TrbM; Provisional
Probab=28.26  E-value=42  Score=14.64  Aligned_cols=24  Identities=17%  Similarity=0.065  Sum_probs=15.0

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             913899999999999984012442
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNA   24 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a   24 (342)
                      |+|++|..+.+++.+..++.++.+
T Consensus         1 m~kk~l~~a~~~~a~~~~~g~~~a   24 (193)
T PRK13893          1 MKKKLLALAAAVAALGSAAGTASA   24 (193)
T ss_pred             CCCHHHHHHHHHHHHCCCCCCCCH
T ss_conf             961488999999997047564414


No 217
>PRK09733 putative fimbrial protein; Provisional
Probab=27.80  E-value=38  Score=14.92  Aligned_cols=15  Identities=20%  Similarity=0.379  Sum_probs=11.0

Q ss_pred             CHHHHHHHHHHHHHH
Q ss_conf             913899999999999
Q gi|254780170|r    1 MYKDFFVSILCLIIL   15 (342)
Q Consensus         1 M~K~~l~~~l~l~~~   15 (342)
                      |||.++.+.+++++.
T Consensus         2 mKk~ll~~~~~~~~s   16 (181)
T PRK09733          2 FKKSLLVAGVAMILS   16 (181)
T ss_pred             HHHHHHHHHHHHHHH
T ss_conf             068899999999986


No 218
>TIGR00363 TIGR00363 lipoprotein, YaeC family; InterPro: IPR004478 This family of putative lipoproteins contains a consensus site for lipoprotein signal sequence cleavage. Escherichia coli contains several lipoproteins in addition to the major outer membrane lipoprotein. Members of this family are often localized in the cytoplasmic membrane and are attached to it by a lipid anchor..
Probab=27.77  E-value=40  Score=14.78  Aligned_cols=191  Identities=16%  Similarity=0.172  Sum_probs=93.2

Q ss_pred             HHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCC-HHHHHCCCEEEEEECCCCCCC
Q ss_conf             8579499987178988306889898801509999999999679822025998143100-267743962799812432532
Q gi|254780170|r   31 KKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKER-FLALQSKQIDILSRNTDWTLL  109 (342)
Q Consensus        31 k~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~r-f~aL~sG~vDil~~~~T~T~~  109 (342)
                      .....+++|+-.+.-       .     --.++++.+|+.-.|  ..|+++.....-. -.++..|++|.-+-..-.-++
T Consensus        20 ~~~~~ikvGv~~G~e-------~-----~vae~a~kvak~kyG--ldv~lv~f~~~~lPn~a~~~G~~dan~~qh~Pyl~   85 (264)
T TIGR00363        20 AAPKKIKVGVISGAE-------Q-----QVAEVAKKVAKEKYG--LDVELVEFNDYVLPNEAVSKGDLDANAFQHKPYLD   85 (264)
T ss_pred             HHHHHEEEEEEECCC-------H-----HHHHHHHHHHHHHCC--CEEEEEECCCCCCCHHHHCCCCCCHHHHHCCCCHH
T ss_conf             100010477861770-------3-----489999987433216--31688611452055123103651024442275212


Q ss_pred             CHHCCCCCCCCCCCCCCEEEEEECC---CCCCCHHHH-CCCCEEEEECCCHHHH-------------------HHHHH--
Q ss_conf             0110278435322344023463021---134753641-7862034313426999-------------------99999--
Q gi|254780170|r  110 REISLGLAFRPITYFDGQGFIMHKK---KGISSVSQL-SGASICVQAGTTTELT-------------------LADYF--  164 (342)
Q Consensus       110 Rd~~~~v~Fs~~~~~dgq~~lVrk~---~~i~s~~dL-~G~~I~v~~GTT~e~~-------------------l~~~~--  164 (342)
                      .+....-.+  -...-|..|+-+-.   ..|+++.+| +|.+|.+...-|...-                   |...+  
T Consensus        86 ~~~~~~~~~--~lv~vGntfvyP~aGyskkik~~~~~~~G~~v~~PndPtn~Gr~l~ll~k~~li~lk~~~~ll~t~ld~  163 (264)
T TIGR00363        86 QDAKAKNGY--KLVAVGNTFVYPLAGYSKKIKSVDELQDGAKVAVPNDPTNLGRALLLLQKEGLIKLKDGKGLLPTVLDI  163 (264)
T ss_pred             HHHHHHHCC--CEEEEECEEEECCCHHHHHHHHHHHHHCCCEEEECCCCCCCCCEEEEEECCCCEEEECCCCHHHHHHHH
T ss_conf             566541024--168870502311210346664288651587797358863003011122100001210113035666655


Q ss_pred             HHCCCCCCEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCCCCE-EEECCCCCHHHHHHHH
Q ss_conf             86299850787479899999987396029982504799999836780010025644423710-1000277757999988
Q gi|254780170|r  165 KAHNMKYHPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDIISKSPL-APAIIQGDTEWYNIVS  242 (342)
Q Consensus       165 ~~~~~~~~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~iskEPl-g~avr~gD~~w~d~V~  242 (342)
                      ..+.-+.+++..+.. ..-..|...++|.-+...+  +.....+....|-+.+.+-  ..|| -+.|.+.|..=...|+
T Consensus       164 ~~nP~~l~i~e~~~~-~~~r~ldd~~~~~a~~~~t--y~~q~Gl~~~~d~~f~edk--~sPyvn~~v~r~dnk~~~~v~  237 (264)
T TIGR00363       164 VENPKKLKIVELEAA-QLPRALDDAKVDLAVINTT--YASQVGLSPAKDGVFVEDK--ESPYVNIIVAREDNKDAENVK  237 (264)
T ss_pred             HCCCCCEEEEEECCH-HHHHHCCCCCEEEEEEHHH--HHHHHCCCCCCCEEEEEEC--CCCEEEEEEEECCCCCHHHHH
T ss_conf             318541168861301-2122205430123320012--3444066502160588607--887589998514440068999


No 219
>TIGR00580 mfd transcription-repair coupling factor; InterPro: IPR004576 All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transcribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. A lesion in the template strand blocks the RNA polymerase complex (RNAP). The RNAP-DNA-RNA complex is specifically recognised by TcrF, which releases RNAP and the truncated transcript. The TcrF may replace RNAP at the lesion site and then recruit the UvrA/B/C repair system.; GO: 0003684 damaged DNA binding, 0005524 ATP binding, 0006281 DNA repair.
Probab=27.76  E-value=46  Score=14.39  Aligned_cols=143  Identities=22%  Similarity=0.279  Sum_probs=73.3

Q ss_pred             CCCCEEEEEECCCCCCCHHHHC--------CCCEEEEECCCHHHHHHHHHHHCCC-CCCEEEECCHHHH------HHHHH
Q ss_conf             3440234630211347536417--------8620343134269999999986299-8507874798999------99987
Q gi|254780170|r  123 YFDGQGFIMHKKKGISSVSQLS--------GASICVQAGTTTELTLADYFKAHNM-KYHPIVFERVEEI------DAAYR  187 (342)
Q Consensus       123 ~~dgq~~lVrk~~~i~s~~dL~--------G~~I~v~~GTT~e~~l~~~~~~~~~-~~~~v~~~~~~~a------~~al~  187 (342)
                      .-+||.|.|...  |.++..++        -.+|||.-|=-+|.-|++.+.+..- .+++..-.+.-|.      -+-+.
T Consensus       719 ~RgGQvFyv~Nr--ie~i~~~~~~l~~LVP~arIaiaHGqM~e~eLE~~m~~F~~~~~~vLvcTTIIE~GIDIPnANTiI  796 (997)
T TIGR00580       719 LRGGQVFYVHNR--IESIEKLKTQLRELVPEARIAIAHGQMTENELEEVMLEFYKGEFDVLVCTTIIESGIDIPNANTII  796 (997)
T ss_pred             CCCCEEEEEECC--CCCHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCHHHHHHHH
T ss_conf             139818998088--135789999998508432678883356845689999986268433013221465056410012686


Q ss_pred             CCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHC
Q ss_conf             39602998250479999983678001002564442371010002777579999887744331121233015208988622
Q gi|254780170|r  188 AHRCDAYTGDISALYALKLTNDRPSEHVILPDIISKSPLAPAIIQGDTEWYNIVSWTHYAMVTAEELGITQKNINQVSKD  267 (342)
Q Consensus       188 ~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~iskEPlg~avr~gD~~w~d~V~W~~~ali~Aee~git~~nv~~~~~~  267 (342)
                      =-++|-|  -.++|+-+|-.-.          +=.+.-||.-+=..+.+...--.-=+.|+-+-.|+|=. =.|    + 
T Consensus       797 i~~AD~F--GLaQLYQLRGRVG----------Rs~~~AYAYlL~~~~~~Lt~~A~~RL~ai~~f~eLGaG-f~i----A-  858 (997)
T TIGR00580       797 IDRADKF--GLAQLYQLRGRVG----------RSKKKAYAYLLYPHQKALTEDALKRLEAIQEFSELGAG-FKI----A-  858 (997)
T ss_pred             HHHHCCC--CHHHHHHCCCEEC----------CCCCEEEEEECCCCCCCCCHHHHHHHHHHHHHCCCCCH-HHH----H-
T ss_conf             8752114--7034745363120----------58712689833477400145899999999730113521-678----8-


Q ss_pred             CCCHHHH---HHHCCCCCCCC
Q ss_conf             6717788---76235887650
Q gi|254780170|r  268 TTNPDVQ---RFLGIDKSSNI  285 (342)
Q Consensus       268 s~~p~i~---r~lg~~~~~~~  285 (342)
                      +.|=|||   -|||.|.+|.+
T Consensus       859 ~hDlEIRGaGNLLG~eQSG~I  879 (997)
T TIGR00580       859 LHDLEIRGAGNLLGEEQSGHI  879 (997)
T ss_pred             HHCCCCCCCHHHCCCCCCCHH
T ss_conf             631100355001260126406


No 220
>TIGR03502 lipase_Pla1_cef extracellular lipase, Pla-1/cef family. Members of this protein family are bacterial lipoproteins largely from the Gammaproteobacteria. Characterized members are expressed in extracellularly and have esterase activity. Members include the lipase Pla-1 from Aeromonas hydrophila (AF092033) and CHO cell elongation factor (cef) from Vibrio hollisae
Probab=27.73  E-value=45  Score=14.41  Aligned_cols=29  Identities=14%  Similarity=0.071  Sum_probs=16.3

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCHHHHHH
Q ss_conf             913899999999999984012442168999
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNASILGDI   30 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~tLd~V   30 (342)
                      |||+++.++++..+.+..| ...+++.+++
T Consensus         1 MKk~~l~~~iasal~LagC-Gg~~~~~~~~   29 (792)
T TIGR03502         1 MKKLLLSLAIASALGLAGC-GDNSDGTEDV   29 (792)
T ss_pred             CCHHHHHHHHHHHHHHHCC-CCCCCCCCCC
T ss_conf             9337899999998750045-7886677776


No 221
>pfam02401 LYTB LytB protein. The mevalonate-independent 2-C-methyl-D-erythritol 4-phosphate (MEP) pathway for isoprenoid biosynthesis is essential in many eubacteria, plants, and the malaria parasite. The LytB gene is involved in the trunk line of the MEP pathway.
Probab=27.47  E-value=46  Score=14.36  Aligned_cols=153  Identities=11%  Similarity=0.107  Sum_probs=74.6

Q ss_pred             CCHHHHHHHHCCEEEEEEECCCCCCEEECCCCC-----EEEEHHHHHHHHHHHHCCCCCEEEEEECC------CCCCHHH
Q ss_conf             421689998579499987178988306889898-----80150999999999967982202599814------3100267
Q gi|254780170|r   23 NASILGDIKKRGFLKCGINTGLVGFAEVKANGD-----WKGFDVDFCRALSSAIFDDPSKIQYLPLN------AKERFLA   91 (342)
Q Consensus        23 ~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~-----~~GfDVDl~raiAaal~gd~~kVe~v~~~------~~~rf~a   91 (342)
                      +-...++.+++|+..+---.+.|       +|.     -.|-..+.-+.+ ++.+     ++++..+      -......
T Consensus        40 N~~vv~~L~~~Gv~~v~~~~~i~-------~g~~ViirAHGv~~~~~~~a-~~~g-----l~viDaTCP~V~kvh~~v~~  106 (280)
T pfam02401        40 NRHVVNRLRERGAIFVEELKEVP-------EGATVIFSAHGVSPEVREEA-KERG-----LQVIDATCPLVTKVHNAVER  106 (280)
T ss_pred             CHHHHHHHHHCCCEEECCCCCCC-------CCCEEEEECCCCCHHHHHHH-HHCC-----CEEEECCCCCHHHHHHHHHH
T ss_conf             98999999988399813613378-------78889993999998999999-9749-----92993708015799999999


Q ss_pred             HHCCCEEEEEECCCCCCCCHHCCCCCCCCCCCCCCEEEEEECCCCCCCHHHHCCCCEEEEECCCHH-H---HHHHHHHHC
Q ss_conf             743962799812432532011027843532234402346302113475364178620343134269-9---999999862
Q gi|254780170|r   92 LQSKQIDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMHKKKGISSVSQLSGASICVQAGTTTE-L---TLADYFKAH  167 (342)
Q Consensus        92 L~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVrk~~~i~s~~dL~G~~I~v~~GTT~e-~---~l~~~~~~~  167 (342)
                      +...-..+++-+-.--+|=...  ..     |..+..++|.....+..+...+.+++++..-||.- .   .+.+.++.+
T Consensus       107 ~~~~Gy~iiiiG~~~HpEv~gi--~g-----~~~~~~~vv~~~~d~~~l~~~~~~k~~vvsQTT~~~~~~~~i~~~l~~~  179 (280)
T pfam02401       107 MAKKGYHVILIGHKNHPEVEGT--VG-----YAPEQVFVVENAEDVAALPLQAETKLAVVTQTTLSLDDTAEIVAALRER  179 (280)
T ss_pred             HHHCCCEEEEEECCCCHHHHHH--HH-----HCCCCCEECCCHHHHHHCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHH
T ss_conf             9868987999837987888869--98-----7578724317887884278888662699955655399999999999986


Q ss_pred             CCCCCEEEECC-------HHHHHHHHHCCCEEEEEE
Q ss_conf             99850787479-------899999987396029982
Q gi|254780170|r  168 NMKYHPIVFER-------VEEIDAAYRAHRCDAYTG  196 (342)
Q Consensus       168 ~~~~~~v~~~~-------~~~a~~al~~Gr~DA~~~  196 (342)
                      .+..+...|++       .+++...|. .+||+|+-
T Consensus       180 ~~~~~~~v~ntIC~aT~~RQ~a~~~lA-~~vD~miV  214 (280)
T pfam02401       180 YPEVRGPPFNTICYATQNRQEAVRELA-PEVDVVLV  214 (280)
T ss_pred             CHHCCCCCCCCCCHHHHHHHHHHHHHH-HHCCEEEE
T ss_conf             621138885772275888999999777-54989999


No 222
>PRK00050 mraW S-adenosyl-methyltransferase MraW; Provisional
Probab=27.03  E-value=47  Score=14.31  Aligned_cols=104  Identities=22%  Similarity=0.254  Sum_probs=56.0

Q ss_pred             CCCCCEEEEHHHH-HHHHHHHHCCC-CCEEEEEECCCCCCHHHHHC-CCEEEEEECCCCCC--CCHHCCCCCCCCCCCCC
Q ss_conf             8989880150999-99999996798-22025998143100267743-96279981243253--20110278435322344
Q gi|254780170|r   51 KANGDWKGFDVDF-CRALSSAIFDD-PSKIQYLPLNAKERFLALQS-KQIDILSRNTDWTL--LREISLGLAFRPITYFD  125 (342)
Q Consensus        51 d~~G~~~GfDVDl-~raiAaal~gd-~~kVe~v~~~~~~rf~aL~s-G~vDil~~~~T~T~--~Rd~~~~v~Fs~~~~~d  125 (342)
                      .++|...|||-|- +-+.|...+.+ ..++.++..++++....|.. |++|-+.....+..  =.+..-||+|.    .|
T Consensus        46 ~~~~~li~iDrD~~ai~~a~~~l~~~~~r~~~~~~nF~~l~~~l~~~~~vdgil~DLGvSS~Qld~~~RGFSF~----~d  121 (309)
T PRK00050         46 GPGGRLIAIDRDPQAIAAAKERLDPFGGRFTIVHGNFSDLAEYLAEVGKVDGILLDLGVSSPQLDDAERGFSFR----KD  121 (309)
T ss_pred             CCCCEEEEEECCHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHCCCCCEEEEEEECCCHHHCCCCCCCCCC----CC
T ss_conf             99988999989889999999986525882899927798899999863887789997224833203776787567----89


Q ss_pred             CEEEEEECC--CCCCCHHHHCCCCEEEEECCCHHHHHHHHHHHCC
Q ss_conf             023463021--1347536417862034313426999999998629
Q gi|254780170|r  126 GQGFIMHKK--KGISSVSQLSGASICVQAGTTTELTLADYFKAHN  168 (342)
Q Consensus       126 gq~~lVrk~--~~i~s~~dL~G~~I~v~~GTT~e~~l~~~~~~~~  168 (342)
                      |. +=.|-|  .+++. .|        .-.+.+|..|.+.|...|
T Consensus       122 gp-LDMRMd~~~~~tA-~~--------iln~~se~eL~~I~~~yG  156 (309)
T PRK00050        122 GP-LDMRMDPTRGLSA-AE--------VVNTYSEEDLARIFKTYG  156 (309)
T ss_pred             CC-CCCCCCCCCCCCH-HH--------HHHHCCHHHHHHHHHHHC
T ss_conf             98-5312268899889-99--------987389999999999966


No 223
>PRK02145 consensus
Probab=26.84  E-value=47  Score=14.29  Aligned_cols=19  Identities=11%  Similarity=0.184  Sum_probs=7.5

Q ss_pred             CHHHHHHHHHCCCEEEEEE
Q ss_conf             9899999987396029982
Q gi|254780170|r  178 RVEEIDAAYRAHRCDAYTG  196 (342)
Q Consensus       178 ~~~~a~~al~~Gr~DA~~~  196 (342)
                      +.++...++..|.++|++.
T Consensus       212 s~~di~~~~~~~~~~av~~  230 (257)
T PRK02145        212 SLQHLADGITEGHADAVLA  230 (257)
T ss_pred             CHHHHHHHHHHCCCCEEEE
T ss_conf             9999999998089848765


No 224
>PRK05963 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed
Probab=26.75  E-value=48  Score=14.28  Aligned_cols=70  Identities=16%  Similarity=0.219  Sum_probs=41.3

Q ss_pred             CCCCHHHHHHHHHHHHHHHH-HHHHHCCHHHHHHHHHCCCCHHHHHHHCCCCCCCCHHHCCCCHHHHHHHHHHCCCHHH
Q ss_conf             27775799998877443311-2123301520898862267177887623588765033379986799999997186999
Q gi|254780170|r  231 IQGDTEWYNIVSWTHYAMVT-AEELGITQKNINQVSKDTTNPDVQRFLGIDKSSNIGEALGLTKDWTYRIIRHMGNYGE  308 (342)
Q Consensus       231 r~gD~~w~d~V~W~~~ali~-Aee~git~~nv~~~~~~s~~p~i~r~lg~~~~~~~g~~lgl~~~~~~~~i~~vGNYge  308 (342)
                      .++..-|...++....++-. -|+.|++.+.||.+.-+..+..+.+        .+.+.||++++=.+..+...||=+-
T Consensus       217 ~~g~~v~~~~~~~~~~~~~~~L~~~gl~~~dId~~v~HQ~n~~~~~--------~v~~~lgl~~ek~~~~~~~~GNt~s  287 (327)
T PRK05963        217 QDGRAVFTEAVRMMTGASQNVLASAAMLPQDIDRFFPHQANARIVD--------KVCETLGIPRAKAASTIETYGNSSA  287 (327)
T ss_pred             ECCHHHHHHHHHHHHHHHHHHHHHCCCCHHHCCEEEECCCCHHHHH--------HHHHHCCCCHHHHHHHHHHHCCHHH
T ss_conf             1749999999985299999999984998222888998679989999--------9999829797870302751392488


No 225
>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR; InterPro: IPR012704   At least five distinct pathways exist for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR which is, in most cases, divergently transcribed from the operon that encodes the genes involved in the methylcitric acid cycle of propionate catabolism. This protein is required for the expression of the proteins involved in this pathway . 2-methylcitric acid, an intermediate in this pathway, has been proposed to be a co-activator of PrpR .; GO: 0000156 two-component response regulator activity, 0003677 DNA binding, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay), 0019629 propionate catabolic process 2-methylcitrate cycle, 0005737 cytoplasm.
Probab=26.69  E-value=35  Score=15.14  Aligned_cols=124  Identities=19%  Similarity=0.216  Sum_probs=80.6

Q ss_pred             HHHHHHHHHCCCCCEEEEEECCCCCC---H-HHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCCCCCCEEEEEECCCCCC
Q ss_conf             99999999679822025998143100---2-6774396279981243253201102784353223440234630211347
Q gi|254780170|r   63 FCRALSSAIFDDPSKIQYLPLNAKER---F-LALQSKQIDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMHKKKGIS  138 (342)
Q Consensus        63 l~raiAaal~gd~~kVe~v~~~~~~r---f-~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVrk~~~i~  138 (342)
                      |-+.|+. -|.+.-.|+-+.+-|.+.   | ..|.+-++|+++++=|--    +=++-..|-|       +++=+.+|..
T Consensus        18 Lf~Di~~-Efd~~A~i~~I~lGFe~aV~~Ir~~l~~ErcD~vvagGSNg----AYLksRLslP-------v~~i~~~GFD   85 (658)
T TIGR02329        18 LFRDIAP-EFDHRANITPIQLGFEEAVEEIRQRLAAERCDVVVAGGSNG----AYLKSRLSLP-------VIVIKATGFD   85 (658)
T ss_pred             HHHHHHH-CCCCCCCCCHHHCCHHHHHHHHHHHHHCCCCCEEEECCCCH----HHHCCCCCCC-------EEEECCCCHH
T ss_conf             8887653-10374554033303789999999985137997798678540----3221578877-------4785787414


Q ss_pred             CHHHHC-----CCCEEEEECCCHHHHHHHHHHHCCCCCCEEEECCHH---HHHHHHHCCCEEEEEECC
Q ss_conf             536417-----862034313426999999998629985078747989---999998739602998250
Q gi|254780170|r  139 SVSQLS-----GASICVQAGTTTELTLADYFKAHNMKYHPIVFERVE---EIDAAYRAHRCDAYTGDI  198 (342)
Q Consensus       139 s~~dL~-----G~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~~~~~~---~a~~al~~Gr~DA~~~D~  198 (342)
                      -+..|+     -.+|+|++-.++-..+..|-+..++.+....|-+.+   .++.+|.+--+.++++-+
T Consensus        86 ~m~ALArAr~~a~~igvvT~~~t~p~~~~Fq~~f~l~~~~r~y~t~eDAr~~v~~Lra~G~~~vVG~G  153 (658)
T TIGR02329        86 VMQALARARRIASRIGVVTYQDTVPALREFQKAFNLDIEQRSYVTEEDARSCVNDLRASGIEVVVGAG  153 (658)
T ss_pred             HHHHHHHHCCCCCCEEEEECCCCHHHHHHHHHHHCCCHHHHHHCCHHHHHHHHHHHHHCCCEEEECCC
T ss_conf             89999872000331046742788467999999863416887504677899999999768975988765


No 226
>PRK11814 cysteine desulfurase activator complex subunit SufB; Provisional
Probab=26.67  E-value=27  Score=15.87  Aligned_cols=177  Identities=15%  Similarity=0.204  Sum_probs=88.3

Q ss_pred             CCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHC-CCEEEEEECCCCCCCCHHCCCCCCCCCCCCCCEEEEEE
Q ss_conf             98801509999999999679822025998143100267743-96279981243253201102784353223440234630
Q gi|254780170|r   54 GDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQS-KQIDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMH  132 (342)
Q Consensus        54 G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~s-G~vDil~~~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVr  132 (342)
                      .-+.|+.=|+.|.|.+.-. +|   +|   --.-|+.|+.. .+..    --.|-...  ...+||...+||....    
T Consensus        31 ~~~kGL~e~~V~~IS~~k~-EP---~W---ml~~RLkA~~~~~~~~----~P~W~~~~--~~~id~~~i~yY~~P~----   93 (484)
T PRK11814         31 ELPKGLNEDVIRLISAKKN-EP---EW---MLEWRLKAYRHWLTME----EPHWAKLH--YPPIDYQDISYYSAPK----   93 (484)
T ss_pred             CCCCCCCHHHHHHHHCCCC-CC---HH---HHHHHHHHHHHHHHCC----CCCCCCCC--CCCCCHHHEEEEECCC----
T ss_conf             2789999999999860408-87---89---9999999999986089----99998889--9877714648862445----


Q ss_pred             CCCCCCCH---------------------HHHCCCCEEEEECCCH-HHHHHHHHHHCCCCCCEE--EECCHHHHHHHHHC
Q ss_conf             21134753---------------------6417862034313426-999999998629985078--74798999999873
Q gi|254780170|r  133 KKKGISSV---------------------SQLSGASICVQAGTTT-ELTLADYFKAHNMKYHPI--VFERVEEIDAAYRA  188 (342)
Q Consensus       133 k~~~i~s~---------------------~dL~G~~I~v~~GTT~-e~~l~~~~~~~~~~~~~v--~~~~~~~a~~al~~  188 (342)
                      .....+++                     +.|.|..|=++-.|.+ ..++++.+++.|.=+...  ....+++.+..|. 
T Consensus        94 ~~~~~~s~devp~ei~~tf~kLGIp~~e~k~Lagv~vda~~dS~~V~~~~~~~l~~~GVIf~~~~~A~~~hpeLVkkyl-  172 (484)
T PRK11814         94 CKSKPKSLDEVDPELLETFEKLGIPLREQKRLAGVAVDAVFDSVSVATTFKEKLAEAGVIFCSISEAIQEHPELVKKYL-  172 (484)
T ss_pred             CCCCCCCHHHCCHHHHHHHHHHCCCHHHHHHHCCCEEEEEECCCHHHHHHHHHHHHCCEEEECHHHHHHHHHHHHHHHH-
T ss_conf             5566455334589999999883886778775236524322052012355689998688599669999999899999998-


Q ss_pred             CCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCC-CCEEEECCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             96029982504799999836780010025644423-7101000277757999988774433112123
Q gi|254780170|r  189 HRCDAYTGDISALYALKLTNDRPSEHVILPDIISK-SPLAPAIIQGDTEWYNIVSWTHYAMVTAEEL  254 (342)
Q Consensus       189 Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~isk-EPlg~avr~gD~~w~d~V~W~~~ali~Aee~  254 (342)
                      |++  +-.+.--++++-+.+=+.+-++-+|.-... .||-..+|-++..-..+    -..||.|||-
T Consensus       173 g~~--v~~~d~kfaALn~A~~s~G~FvYVPkgV~v~~pL~~~f~i~~~~~~qf----~htLIIaEeg  233 (484)
T PRK11814        173 GSV--VPVNDNFFAALNSAVFSDGSFVYIPKGVRCPMELSTYFRINAANTGQF----ERTLIIADEG  233 (484)
T ss_pred             HCC--CCCCCCHHHHHHHHHHCCCEEEEECCCEEECCEEEEEEEECCCCCCEE----EEEEEEECCC
T ss_conf             465--687510889988998639769996698267536799999857765400----1579996278


No 227
>CHL00085 ycf24 putative ABC transporter
Probab=26.51  E-value=28  Score=15.70  Aligned_cols=184  Identities=15%  Similarity=0.219  Sum_probs=94.6

Q ss_pred             CEEECC---CCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCC-CEEEEEECCCCCCCCHHCCCCCCCCCC
Q ss_conf             306889---8988015099999999996798220259981431002677439-627998124325320110278435322
Q gi|254780170|r   47 FAEVKA---NGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSK-QIDILSRNTDWTLLREISLGLAFRPIT  122 (342)
Q Consensus        47 fs~~d~---~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG-~vDil~~~~T~T~~Rd~~~~v~Fs~~~  122 (342)
                      ++|.++   .--+.|++-|+.|.|.+.. ++|   +|   --.-|..||..= +.    .--.|-...  ...++|-..+
T Consensus        22 ygf~~~i~~~~~~~GL~e~~V~~IS~~k-~EP---~W---ml~~RLkAl~~~~~~----~~P~W~~~~--~~~id~~~i~   88 (485)
T CHL00085         22 YGFSTSIETERFPKGLNEDIVKLISKKK-NEP---KF---LLIFRLKAYKKWKKM----KQPDWAFLK--YPEIDYQDII   88 (485)
T ss_pred             CCCCCCCCCCCCCCCCCHHHHHHHHHCC-CCC---HH---HHHHHHHHHHHHHCC----CCCCCCCCC--CCCCCCHHEE
T ss_conf             8887760301379999999999998443-867---99---999999999997449----999998899--9978841057


Q ss_pred             CCCCEEEEEECCCCCCCHHH---------------------HCCCCEEEEECCCH-HHHHHHHHHHCCCCCCEE--EECC
Q ss_conf             34402346302113475364---------------------17862034313426-999999998629985078--7479
Q gi|254780170|r  123 YFDGQGFIMHKKKGISSVSQ---------------------LSGASICVQAGTTT-ELTLADYFKAHNMKYHPI--VFER  178 (342)
Q Consensus       123 ~~dgq~~lVrk~~~i~s~~d---------------------L~G~~I~v~~GTT~-e~~l~~~~~~~~~~~~~v--~~~~  178 (342)
                      ||.-..    .....+++++                     |.|..|-++-.|.+ -.++++.+++.|.=+...  ....
T Consensus        89 yy~~p~----~~~~~~s~devp~eik~tfekLGip~~e~k~l~gv~vda~~dS~~V~~~~~~~L~~~GVIf~~~~~A~~~  164 (485)
T CHL00085         89 YYSAPK----LKKKLNSLDEVDPELLSTFEKLGIPLNEQKRLSNVAVDAVFDSVSIGTTFKEELIKAGVIFCSISEAINK  164 (485)
T ss_pred             EEECCC----CCCCCCCHHHCCHHHHHHHHHCCCCHHHHHHHHHHHHHEEECCEEEEECHHHHHHHCCEEEECHHHHHHH
T ss_conf             775256----4456679366799999999871883566666420012002050553201278999799599568999987


Q ss_pred             HHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCC-CCEEEECCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             899999987396029982504799999836780010025644423-7101000277757999988774433112123
Q gi|254780170|r  179 VEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDIISK-SPLAPAIIQGDTEWYNIVSWTHYAMVTAEEL  254 (342)
Q Consensus       179 ~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~isk-EPlg~avr~gD~~w~d~V~W~~~ali~Aee~  254 (342)
                      +++.+..|. |++  +-.+.--++++-+.+-+.+-++-+|.-..- .|+-..+|-++.....+    -..||.|||-
T Consensus       165 ~pelv~ky~-g~~--v~~~d~kfaALn~A~~sgG~FvYVPkgV~v~~Pl~~~f~i~~~~~~qf----~htLIIaeeg  234 (485)
T CHL00085        165 YPELIKKYL-GSV--VPIGDNYFAALNSAVFSDGSFCYIPKDTKCPLELSTYFRINNEESGQF----ERTLIIADEN  234 (485)
T ss_pred             HHHHHHHHH-HCC--CCCCCCHHHHHHHHHHCCCEEEEECCCCCCCCCEEEEEEECCCCCCCC----CEEEEEECCC
T ss_conf             089999986-154--388744689999998459769984077111552079999757756777----4479996579


No 228
>KOG2951 consensus
Probab=26.43  E-value=48  Score=14.24  Aligned_cols=63  Identities=21%  Similarity=0.104  Sum_probs=41.8

Q ss_pred             CCCCHHHHCCCCEEEEECCCH-HHHH----HHHHHHCCCCC-CEEEECCHHHHHHHHHCCCEEEEEECC
Q ss_conf             347536417862034313426-9999----99998629985-078747989999998739602998250
Q gi|254780170|r  136 GISSVSQLSGASICVQAGTTT-ELTL----ADYFKAHNMKY-HPIVFERVEEIDAAYRAHRCDAYTGDI  198 (342)
Q Consensus       136 ~i~s~~dL~G~~I~v~~GTT~-e~~l----~~~~~~~~~~~-~~v~~~~~~~a~~al~~Gr~DA~~~D~  198 (342)
                      ..++-..|+..-||...|+.. |..+    +...+.-..+. -...+.+....+..+.+|+||||.--.
T Consensus       149 ~vs~~~~L~kAlv~~e~g~~~~~~~~~~~~~r~~~~~~~~~~g~r~~gs~a~~lc~VAsG~~Day~e~g  217 (279)
T KOG2951         149 RVSSQTKLSKALVATEIGLLRDEATLDKAYSRLYSKVGAKAHGLRSIGSAALNLCMVASGAADAYYEFG  217 (279)
T ss_pred             EECCHHHHHHHHEEEECCCCCCHHHHHHHHHHHHHHHCCCCCEEEEECHHHHHHHHHHCCCCCEEEECC
T ss_conf             220204664333354045345688899899999998536653145505789999999707741011268


No 229
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=26.07  E-value=49  Score=14.20  Aligned_cols=29  Identities=7%  Similarity=-0.022  Sum_probs=17.3

Q ss_pred             CCEEEECCHHHHHHHHHCCCEEEEEECCH
Q ss_conf             50787479899999987396029982504
Q gi|254780170|r  171 YHPIVFERVEEIDAAYRAHRCDAYTGDIS  199 (342)
Q Consensus       171 ~~~v~~~~~~~a~~al~~Gr~DA~~~D~s  199 (342)
                      +.++.|+..+++++++.+|...+.+...+
T Consensus       215 i~ivg~D~~~~~~~~i~~g~l~~~~~~~p  243 (273)
T cd06309         215 IKIVSIDGTKDAFQAMADGKLNATVECNP  243 (273)
T ss_pred             EEEEEECCCHHHHHHHHCCCCEEEEECCH
T ss_conf             69999899999999987699719997839


No 230
>pfam07996 T4SS Type IV secretion system proteins. Members of this family are components of the type IV secretion system. They mediate intracellular transfer of macromolecules via a mechanism ancestrally related to that of bacterial conjugation machineries.
Probab=25.92  E-value=39  Score=14.86  Aligned_cols=20  Identities=25%  Similarity=0.311  Sum_probs=11.4

Q ss_pred             CHHHHHHHHHHHHHHHHHHC
Q ss_conf             91389999999999998401
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSF   20 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~   20 (342)
                      |||+++..++++.++...+.
T Consensus         1 Mkk~~~~~~~~~~l~~~~~a   20 (217)
T pfam07996         1 MKKKLIILALALALLAASPA   20 (217)
T ss_pred             CCHHHHHHHHHHHHHCCCHH
T ss_conf             93379999999998477777


No 231
>COG3636 Predicted transcriptional regulator [Transcription]
Probab=25.84  E-value=44  Score=14.47  Aligned_cols=53  Identities=15%  Similarity=0.211  Sum_probs=33.3

Q ss_pred             EEECCCCCHHHHHHHHHHH----HHHHHHHHHHCCHHHHHHHHHCCCCHHHHHHHCC
Q ss_conf             1000277757999988774----4331121233015208988622671778876235
Q gi|254780170|r  227 APAIIQGDTEWYNIVSWTH----YAMVTAEELGITQKNINQVSKDTTNPDVQRFLGI  279 (342)
Q Consensus       227 g~avr~gD~~w~d~V~W~~----~ali~Aee~git~~nv~~~~~~s~~p~i~r~lg~  279 (342)
                      .-++-.||+++....+-++    .---.|++-|+++..+...+....||.+.-+|-+
T Consensus        28 ~~~le~~d~a~i~~alg~var~~GMsqvA~~aGlsRe~LYkaLS~~GNPtf~Til~V   84 (100)
T COG3636          28 NAALEEGDPALIAAALGVVARSRGMSQVARKAGLSREGLYKALSPGGNPTFDTILAV   84 (100)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHCCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHH
T ss_conf             999974899999999999998657899999949669999998478999758999999


No 232
>PRK06922 hypothetical protein; Provisional
Probab=25.77  E-value=50  Score=14.17  Aligned_cols=22  Identities=14%  Similarity=0.306  Sum_probs=14.0

Q ss_pred             HHHHHHCCCHHHHHHHHCCCCC
Q ss_conf             9999971869998788648889
Q gi|254780170|r  297 YRIIRHMGNYGEMFDRNLGNQS  318 (342)
Q Consensus       297 ~~~i~~vGNYgei~~rnlg~~s  318 (342)
                      ++||.++----|=|.-||-+.-
T Consensus       634 ~~Ii~~~~YLqEGY~~hL~~Ki  655 (679)
T PRK06922        634 VNIVQAMNYLQDGYTNHLSEKI  655 (679)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCE
T ss_conf             1318999999888998643120


No 233
>pfam02602 HEM4 Uroporphyrinogen-III synthase HemD. This family consists of uroporphyrinogen-III synthase HemD EC:4.2.1.75 also known as Hydroxymethylbilane hydrolyase (cyclizing) from eukaryotes, bacteria and archaea. This enzyme catalyses the reaction: Hydroxymethylbilane <= uroporphyrinogen-III + H(2)O. Some members of this family are multi-functional proteins possessing other enzyme activities related to porphyrin biosynthesis, with pfam00590, however the aligned region corresponds with the uroporphyrinogen-III synthase EC:4.2.1.75 activity only. Uroporphyrinogen-III synthase is the fourth enzyme in the heme pathway. Mutant forms of the Uroporphyrinogen-III synthase gene cause congenital erythropoietic porphyria in humans a recessive inborn error of metabolism also known as Gunther disease.
Probab=25.49  E-value=50  Score=14.13  Aligned_cols=58  Identities=22%  Similarity=0.265  Sum_probs=43.1

Q ss_pred             HHCCCCEEEEECCCHHHHHHHHHHHCCCCCC-EEEECC------HHHHHHHHHCCCEEEEEECCH
Q ss_conf             4178620343134269999999986299850-787479------899999987396029982504
Q gi|254780170|r  142 QLSGASICVQAGTTTELTLADYFKAHNMKYH-PIVFER------VEEIDAAYRAHRCDAYTGDIS  199 (342)
Q Consensus       142 dL~G~~I~v~~GTT~e~~l~~~~~~~~~~~~-~v~~~~------~~~a~~al~~Gr~DA~~~D~s  199 (342)
                      .+.+++|....|--....|.+.++..|.+++ ++.|++      ..+....+..+++|+++--.+
T Consensus       111 ~~~~~~il~~~g~~~~~~L~~~L~~~g~~v~~~~~Y~~~~~~~~~~~~~~~~~~~~~d~i~ftS~  175 (229)
T pfam02602       111 LLAGKRVLLLRGNLGRDDLAEALREAGAKVDEVVVYRTVPPAELPEELRELLRAGEIDAVVFTSP  175 (229)
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHCCCEEEEEEEEEEECCCCCHHHHHHHHHHCCCCEEEECCH
T ss_conf             26898699972777736789999977986789988886369877699999998289989998799


No 234
>PRK01909 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase; Validated
Probab=24.91  E-value=31  Score=15.42  Aligned_cols=126  Identities=11%  Similarity=0.059  Sum_probs=59.7

Q ss_pred             EECCHHHHHHHHHCCCEEEEEECCHHHHHHH-HHCCCCHHHCCCCCCCCCCCEEEECCCCC-HHHHHHHHHHHHHHHHHH
Q ss_conf             7479899999987396029982504799999-83678001002564442371010002777-579999887744331121
Q gi|254780170|r  175 VFERVEEIDAAYRAHRCDAYTGDISALYALK-LTNDRPSEHVILPDIISKSPLAPAIIQGD-TEWYNIVSWTHYAMVTAE  252 (342)
Q Consensus       175 ~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~-~~~~~p~~~~il~e~iskEPlg~avr~gD-~~w~d~V~W~~~ali~Ae  252 (342)
                      .++..+.+.....+|++||+++--..=.++. ...+-|+--..|-+....+...+++--++ +.+ .++--|.+--+..=
T Consensus        92 ~~~~l~~Av~~~~~g~~dalVTaPInK~~i~~aG~~f~GHTE~La~~~~~~~~~Mml~~~~~~~L-rV~l~T~HipLk~V  170 (329)
T PRK01909         92 VLDLLDAAIDGALAGRYDAIVTAPLQKSTINDAGVPFTGHTEYLAERTHTPRVVMMLAGTGERPL-RVALATTHLPLRDV  170 (329)
T ss_pred             HHHHHHHHHHHHHCCCCCEEEECCCCHHHHHHCCCCCCCHHHHHHHHHCCCCEEEEEEECCCCCE-EEEEECCCCCHHHH
T ss_conf             99999999999975988899977128999986799989878999998389975999986699837-99984566119999


Q ss_pred             HHHCCHHHHHHHHHCCCCHHHHHHHC----------CCCCCCCHHHCCCCH-HHHHHHHHH
Q ss_conf             23301520898862267177887623----------588765033379986-799999997
Q gi|254780170|r  253 ELGITQKNINQVSKDTTNPDVQRFLG----------IDKSSNIGEALGLTK-DWTYRIIRH  302 (342)
Q Consensus       253 e~git~~nv~~~~~~s~~p~i~r~lg----------~~~~~~~g~~lgl~~-~~~~~~i~~  302 (342)
                      -.-||..++.+..+ ..+-..+|.+|          +.|..+-+-.+|-+. ++..-+|+.
T Consensus       171 ~~~It~~~I~~~i~-~~~~~l~~~fgi~~PrIaV~GLNPHAGE~G~~G~EE~~iI~PAI~~  230 (329)
T PRK01909        171 SAALTIDGLVETLA-IIDRDLRRDFGLAAPRILVTGLNPHAGENGYLGREEIDVIEPALAR  230 (329)
T ss_pred             HHHHCHHHHHHHHH-HHHHHHHHHCCCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHH
T ss_conf             98423479999999-9999999844888985999950898765566633778889999999


No 235
>PRK07424 bifunctional sterol desaturase/short chain dehydrogenase; Validated
Probab=24.55  E-value=33  Score=15.29  Aligned_cols=57  Identities=14%  Similarity=0.218  Sum_probs=31.2

Q ss_pred             CCCCCEEEEEECCCCCCCHHHHCCCCEEEEECC--CHHHHHHHHHHHCCCCCCEEEECCHHHHH
Q ss_conf             234402346302113475364178620343134--26999999998629985078747989999
Q gi|254780170|r  122 TYFDGQGFIMHKKKGISSVSQLSGASICVQAGT--TTELTLADYFKAHNMKYHPIVFERVEEID  183 (342)
Q Consensus       122 ~~~dgq~~lVrk~~~i~s~~dL~G~~I~v~~GT--T~e~~l~~~~~~~~~~~~~v~~~~~~~a~  183 (342)
                      -||.|.--+|-|  =..+.-.|+||||+|.-.|  -.+. |...+.++|  ++++.+.+.++.+
T Consensus       159 aY~~g~~tlvDk--lmGTalSLKGKTV~VTGASG~LG~a-L~k~l~~~G--AKVIalTs~~~~i  217 (410)
T PRK07424        159 AYYCGTFTLVDK--LMGTALSLKGKTVAVTGASGTLGQA-LLKELHQQG--AKVIALTSNSDKI  217 (410)
T ss_pred             CEEEEEEHHHHH--HHCCEEECCCCEEEEECCCCHHHHH-HHHHHHHCC--CEEEEEECCCCCC
T ss_conf             614422202555--5210130168679995477377899-999999779--9899993589865


No 236
>PRK01742 tolB translocation protein TolB; Provisional
Probab=23.80  E-value=54  Score=13.93  Aligned_cols=58  Identities=12%  Similarity=0.267  Sum_probs=26.7

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCEEEEEEEC----CCCCCEEECCCCCEEEEHHHHHHHHHHHH
Q ss_conf             913899999999999984012442168999857949998717----89883068898988015099999999996
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNASILGDIKKRGFLKCGINT----GLVGFAEVKANGDWKGFDVDFCRALSSAI   71 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~tLd~Vk~rG~L~vGv~~----~~ppfs~~d~~G~~~GfDVDl~raiAaal   71 (342)
                      |.|+++..+++++++.+++.+.+.=.+       +++=|+..    ..+||...+.      ..-|+.+-|++.+
T Consensus         3 m~~~~~~~~~~l~~~~~~~~a~a~L~I-------~It~G~~~~~pIAi~pF~~~~~------~~~~i~~vI~~DL   64 (430)
T PRK01742          3 LLKRLVSVFAVLFAVISNAFAGDEVRI-------VIDEGVDGARPIAVVPFKWNGS------APEDIAKIIAADL   64 (430)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCEEE-------EEECCCCCCCCEEEECCCCCCC------CHHHHHHHHHHHH
T ss_conf             699999999999999877850575599-------9945767740459925367897------6678999998777


No 237
>pfam08671 SinI Anti-repressor SinI. SinR is a pleiotropic regulator of several late growth processes. It is a tetrameric DNA binding protein whose activity is down-regulated thorough the formation of a SinI:SinR protein complex. When complexed with SinI, the SinR tetramer is disrupted such that is no longer able to bind DNA.
Probab=23.79  E-value=54  Score=13.93  Aligned_cols=26  Identities=23%  Similarity=0.610  Sum_probs=18.0

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHH
Q ss_conf             757999988774433112123301520898862
Q gi|254780170|r  234 DTEWYNIVSWTHYAMVTAEELGITQKNINQVSK  266 (342)
Q Consensus       234 D~~w~d~V~W~~~ali~Aee~git~~nv~~~~~  266 (342)
                      |++|.++|.       +|-+.||+-..+.+++.
T Consensus         2 D~EW~~Li~-------EA~~~Gis~ee~r~fL~   27 (30)
T pfam08671         2 DQEWVQLIK-------EAMEAGLSKEEFREFLE   27 (30)
T ss_pred             CHHHHHHHH-------HHHHCCCCHHHHHHHHH
T ss_conf             579999999-------99981467999999985


No 238
>pfam07659 DUF1599 Domain of Unknown Function (DUF1599).
Probab=23.70  E-value=51  Score=14.08  Aligned_cols=18  Identities=22%  Similarity=0.554  Sum_probs=15.7

Q ss_pred             CCHHHHHHHHHHHHHHHH
Q ss_conf             775799998877443311
Q gi|254780170|r  233 GDTEWYNIVSWTHYAMVT  250 (342)
Q Consensus       233 gD~~w~d~V~W~~~ali~  250 (342)
                      -++++.++||..++|||+
T Consensus        43 i~~~f~~iiNY~i~aLIq   60 (61)
T pfam07659        43 IDSEFIDIINYSIMALIQ   60 (61)
T ss_pred             CCHHHHHHHHHHHHHHHH
T ss_conf             515799999999999980


No 239
>TIGR03070 couple_hipB transcriptional regulator, y4mF family. Members of this family belong to a clade of helix-turn-helix DNA-binding proteins, among the larger family pfam01381 (HTH_3; Helix-turn-helix). Members are similar in sequence to the HipB protein of E. coli. Genes for members of the seed alignment for this protein family were found to be closely linked to genes encoding proteins related to HipA. The HibBA operon appears to have some features in common with toxin-antitoxin post-segregational killing systems.
Probab=23.61  E-value=54  Score=13.91  Aligned_cols=27  Identities=19%  Similarity=0.342  Sum_probs=14.0

Q ss_pred             HHHHHCCHHHHHHHHHCCCCHHHHHHH
Q ss_conf             212330152089886226717788762
Q gi|254780170|r  251 AEELGITQKNINQVSKDTTNPDVQRFL  277 (342)
Q Consensus       251 Aee~git~~nv~~~~~~s~~p~i~r~l  277 (342)
                      ||..||++.-|.++.....+|.+..++
T Consensus        22 A~~aGvs~~~Is~iE~G~~~~~l~~l~   48 (58)
T TIGR03070        22 ADLAGVGLRFIRDIEKGKPTVRLDKVL   48 (58)
T ss_pred             HHHHCCCHHHHHHHHCCCCCCCHHHHH
T ss_conf             988199899999997899988899999


No 240
>TIGR00392 ileS isoleucyl-tRNA synthetase; InterPro: IPR002301   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 .    Isoleucyl-tRNA synthetase (6.1.1.5 from EC) is an alpha monomer that belongs to class Ia. The enzyme, isoleucyl-transfer RNA synthetase, activates not only the cognate substrate L-isoleucine but also the minimally distinct L-valine in the first, aminoacylation step. Then, in a second, "editing" step, the synthetase itself rapidly hydrolyzes only the valylated products ,  as shown from the crystal structures. ; GO: 0000166 nucleotide binding, 0004822 isoleucine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006428 isoleucyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=23.59  E-value=54  Score=13.94  Aligned_cols=90  Identities=16%  Similarity=0.274  Sum_probs=56.2

Q ss_pred             HHHHHHHHCCEE-EEEEECCCCCCEEECCCCCEE------EEHHHH-HHHHHHHHCCCCCEEEEEECCC-CCCHHHHHCC
Q ss_conf             168999857949-998717898830688989880------150999-9999999679822025998143-1002677439
Q gi|254780170|r   25 SILGDIKKRGFL-KCGINTGLVGFAEVKANGDWK------GFDVDF-CRALSSAIFDDPSKIQYLPLNA-KERFLALQSK   95 (342)
Q Consensus        25 ~tLd~Vk~rG~L-~vGv~~~~ppfs~~d~~G~~~------GfDVDl-~raiAaal~gd~~kVe~v~~~~-~~rf~aL~sG   95 (342)
                      -.+.+-+++|.| ..+.-.---||-++-  ..|+      .--|.+ -+.|...++....||+|+|-.. .+||..--.+
T Consensus       434 ~I~~~L~~~~~Ll~~e~i~H~YPhcWRt--k~P~IYRAt~QWF~~~D~~~~k~~~L~~i~~v~W~P~~~k~~R~~~~~~n  511 (938)
T TIGR00392       434 IIIEQLKDKGLLLKAEKITHSYPHCWRT--KTPVIYRATEQWFIKIDEKKIKDQMLEEIKKVKWVPEWGKEGRFKNWLEN  511 (938)
T ss_pred             HHHHHHHHCCCEEEEEEEECCCCCCCCC--CCCEEEECCCCCEEECCHHHHHHHHHHHCCCEEECCCCCCCHHHHHHHHC
T ss_conf             9999984269778876655058770778--98457204722146635477789999862832761463221467887611


Q ss_pred             CEEEEEECCCCCCCCHHCCCCCCCCCCCCC
Q ss_conf             627998124325320110278435322344
Q gi|254780170|r   96 QIDILSRNTDWTLLREISLGLAFRPITYFD  125 (342)
Q Consensus        96 ~vDil~~~~T~T~~Rd~~~~v~Fs~~~~~d  125 (342)
                      +-|       |+.+|.+.=|+-  -|.+|+
T Consensus       512 ~~D-------WcISRQR~WG~P--IP~w~~  532 (938)
T TIGR00392       512 RKD-------WCISRQRYWGVP--IPVWYC  532 (938)
T ss_pred             CCC-------CEEECCCCCCCC--CEEEEE
T ss_conf             676-------526335625897--406886


No 241
>COG5510 Predicted small secreted protein [Function unknown]
Probab=23.56  E-value=54  Score=13.90  Aligned_cols=34  Identities=21%  Similarity=0.267  Sum_probs=13.0

Q ss_pred             CHHHHHHH-HHHHHHHHHHHCCCCCHHHHHHHHCC
Q ss_conf             91389999-99999999840124421689998579
Q gi|254780170|r    1 MYKDFFVS-ILCLIILFFTSFSTNASILGDIKKRG   34 (342)
Q Consensus         1 M~K~~l~~-~l~l~~~~~~~~aa~a~tLd~Vk~rG   34 (342)
                      |||..++. ++++...+.++|-.....=++|+.-|
T Consensus         2 mk~t~l~i~~vll~s~llaaCNT~rG~G~DIq~~G   36 (44)
T COG5510           2 MKKTILLIALVLLASTLLAACNTMRGAGKDIQSGG   36 (44)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
T ss_conf             04899999999999999988663002236488888


No 242
>COG0603 Predicted PP-loop superfamily ATPase [General function prediction only]
Probab=23.34  E-value=55  Score=13.88  Aligned_cols=65  Identities=15%  Similarity=0.186  Sum_probs=44.5

Q ss_pred             HHHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCH--HHHHCCCEEEEEE
Q ss_conf             6899985794999871789883068898988015099999999996798220259981431002--6774396279981
Q gi|254780170|r   26 ILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERF--LALQSKQIDILSR  102 (342)
Q Consensus        26 tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf--~aL~sG~vDil~~  102 (342)
                      .+-..++.+....+++-+|         |+..=.++|.++.+|++++..   -+.+.+++-.++  .+|..+.+|+.-.
T Consensus        18 ~l~~a~~~~~ev~alsfdY---------GQrh~~Ele~A~~iak~lgv~---~~iid~~~~~~~~~saLtd~~~~vp~~   84 (222)
T COG0603          18 CLAWAKKEGYEVHALTFDY---------GQRHRKELEAAKELAKKLGVP---HHIIDVDLLGEIGGSALTDDSIDVPKY   84 (222)
T ss_pred             HHHHHHHCCCEEEEEEEEC---------CCCCHHHHHHHHHHHHHCCCC---EEEECHHHHHHCCCCCCCCCCCCCCCC
T ss_conf             9999996098899997507---------898689999999999981998---289541687535888675888636666


No 243
>PRK09726 DNA-binding transcriptional regulator HipB; Provisional
Probab=23.19  E-value=54  Score=13.93  Aligned_cols=29  Identities=24%  Similarity=0.477  Sum_probs=19.1

Q ss_pred             HHHHHHHCCHHHHHHHHHCCCCHHHHHHH
Q ss_conf             11212330152089886226717788762
Q gi|254780170|r  249 VTAEELGITQKNINQVSKDTTNPDVQRFL  277 (342)
Q Consensus       249 i~Aee~git~~nv~~~~~~s~~p~i~r~l  277 (342)
                      -.|+..||.|+.|..+..+...+.+..|+
T Consensus        30 ~lA~~vGi~Q~TiS~~E~~p~~~~leTLF   58 (88)
T PRK09726         30 ELAKKIGIKQATISNFENNPDNTTLTTFF   58 (88)
T ss_pred             HHHHHHCCCHHHHHHHHCCCCCCCHHHHH
T ss_conf             99998197499999997599878699999


No 244
>PRK02083 imidazole glycerol phosphate synthase subunit HisF; Provisional
Probab=23.11  E-value=56  Score=13.85  Aligned_cols=20  Identities=20%  Similarity=0.260  Sum_probs=10.1

Q ss_pred             CCHHHHHHHHHCCCEEEEEE
Q ss_conf             79899999987396029982
Q gi|254780170|r  177 ERVEEIDAAYRAHRCDAYTG  196 (342)
Q Consensus       177 ~~~~~a~~al~~Gr~DA~~~  196 (342)
                      .+.++...+|..+.+|+++.
T Consensus       207 ~s~~di~~~l~~~~i~gv~~  226 (253)
T PRK02083        207 GNLEHFAEAFTEGGADAALA  226 (253)
T ss_pred             CCHHHHHHHHHHCCCEEEEE
T ss_conf             99999999998679809987


No 245
>TIGR00543 isochor_syn isochorismate synthases; InterPro: IPR004561   Isochorismate synthase (5.4.99.6 from EC) catalyses the conversion of chorismate to isochorismate, the first step in the biosynthesis of both the respiratory chain component menaquinone (MK, vitamin K2) and phylloquinone (vitamin K1). In bacteria, isochorismate is a precursor of siderophores enterobactin (via the 2,3-dihydroxybenzoate (DHB) precursor) , amonabactins  and salicylic acid . Most aerobic bacteria secrete siderophores to facilitate iron acquisition . Siderophores are iron-chelating agents which are low molecular weight compounds that specifically bind ferric iron and mediate iron uptake into the cell by recognition of specific membrane receptor proteins and transport systems. In plants, isochorismate synthase is required for defence against pathogens. Salicylic acid synthesised via the pathway using isochorismate synthase is responsible for both local and systemic acquired resistance in plants .  In Escherichia coli and Bacillus subtilis, two distinct isochorismate synthase isoenzymes, MenF  and EntC /DhbC , are known to be involved in MK and siderophore biosynthesis pathways, respectively . MenF and EntC are differentially regulated and isochorismate synthesised by EntC is mainly channelled into enterobactin synthesis, whereas isochorismate synthesised by MenF is mainly channelled into menaquinone synthesis .  The catalytic/chorismate binding domain characteristic of members of this group is related to other chorismate binding enzymes : component I of anthranilate synthase, para-aminobenzoate synthase, and aminodeoxychorismate synthase (please see PIRSF001373 from PIRSF and PIRSF001374 from PIRSF).  There is a significant heterogeneity in the length and sequence of the N-terminal region of members of this group. Partially on the basis of the N-terminal region, the group can be divided into subfamilies, with the enzymes involved in DHB (enterobactin precursor) biosynthesis (EntC/DhbC/VibC) forming a distinct subfamily, and the enzymes involved in MK biosynthesis (MenF) forming two groups (E. coli and B. subtilis types).; GO: 0008909 isochorismate synthase activity, 0009058 biosynthetic process.
Probab=23.11  E-value=56  Score=13.85  Aligned_cols=93  Identities=22%  Similarity=0.361  Sum_probs=48.7

Q ss_pred             CCCHHHCCCCCCCCC--CCEEEECCCCC-HHHHHHHH-HHHHHHHHHHHHHCCHHHHHHHHHCCCCHHHHHHHCCCCCCC
Q ss_conf             780010025644423--71010002777-57999988-774433112123301520898862267177887623588765
Q gi|254780170|r  209 DRPSEHVILPDIISK--SPLAPAIIQGD-TEWYNIVS-WTHYAMVTAEELGITQKNINQVSKDTTNPDVQRFLGIDKSSN  284 (342)
Q Consensus       209 ~~p~~~~il~e~isk--EPlg~avr~gD-~~w~d~V~-W~~~ali~Aee~git~~nv~~~~~~s~~p~i~r~lg~~~~~~  284 (342)
                      +|-.+|.++-|.|.+  +|++--+--.. ++.+..-+ |=++.-|.|--.       +   .+..+-.+-+.|.  ||.-
T Consensus       215 Kn~~Eh~~Vve~I~~~L~~~~~~~~~~~~p~~~~l~~vqHL~t~i~a~l~-------~---~~~~~~~~l~~LH--PTPA  282 (371)
T TIGR00543       215 KNLREHQLVVEDIRRRLEPICESLDVSEAPKLLKLANVQHLYTPISARLK-------D---EDISLLDLLKQLH--PTPA  282 (371)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCEEECCCCCCCCCCCCCCCEEEEECCCCC-------C---CCCCHHHHHHHHC--CCHH
T ss_conf             12456688899999987403504113787640101350661001125798-------7---6468799999858--8410


Q ss_pred             CHHHCCCCHHHHHHHHHHCCCHHHHHHHHCCCCCCCC
Q ss_conf             0333799867999999971869998788648889998
Q gi|254780170|r  285 IGEALGLTKDWTYRIIRHMGNYGEMFDRNLGNQSELK  321 (342)
Q Consensus       285 ~g~~lgl~~~~~~~~i~~vGNYgei~~rnlg~~s~l~  321 (342)
                      +|   |+|..-|+..|+++    |-|||.+=.+ |+|
T Consensus       283 Vg---G~P~e~A~~~Ir~~----E~f~RG~Yaa-p~G  311 (371)
T TIGR00543       283 VG---GLPREEALDLIREH----EPFDRGLYAA-PLG  311 (371)
T ss_pred             CC---CCCHHHHHHHHHHH----CCCCCCCCCE-EEC
T ss_conf             05---78889999998742----5876654231-310


No 246
>COG4594 FecB ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=22.66  E-value=57  Score=13.79  Aligned_cols=23  Identities=26%  Similarity=0.410  Sum_probs=16.2

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             91389999999999998401244
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTN   23 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~   23 (342)
                      |+|..+...+++++++.++|+..
T Consensus         3 ~~~~~~i~~lll~lllva~C~~s   25 (310)
T COG4594           3 MKKTAIILTLLLLLLLVAACSSS   25 (310)
T ss_pred             CHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             50359999999999999771476


No 247
>COG5633 Predicted periplasmic lipoprotein [General function prediction only]
Probab=22.57  E-value=53  Score=13.97  Aligned_cols=46  Identities=22%  Similarity=0.306  Sum_probs=19.9

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCH--HHH---HHHHCCEEEEEEECCCCCCEE
Q ss_conf             9138999999999999840124421--689---998579499987178988306
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNAS--ILG---DIKKRGFLKCGINTGLVGFAE   49 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~--tLd---~Vk~rG~L~vGv~~~~ppfs~   49 (342)
                      |+|-+++.+ +++++.  +|.+...  +.+   -|.+.-.+..|+..+.|+.+.
T Consensus         1 Mrk~~~~~l-~~~lLv--GCsS~~~i~~~~~q~vvm~~s~l~~~Isae~~~l~~   51 (123)
T COG5633           1 MRKLCLLSL-ALLLLV--GCSSHQEILVNDEQSVVMETSVLIAGISAEKPVLSE   51 (123)
T ss_pred             CCEEHHHHH-HHHHHH--CCCCCCCCCCCCCCEEEECCCCEECCCCCCCCEEEE
T ss_conf             930038999-999942--047887752255020340355134141305870266


No 248
>COG1427 Predicted periplasmic solute-binding protein [General function prediction only]
Probab=22.41  E-value=57  Score=13.76  Aligned_cols=146  Identities=16%  Similarity=0.163  Sum_probs=71.4

Q ss_pred             EEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCCCCCCEEEEEECCC---C-CCCHHHHCCCCEEEEEC
Q ss_conf             2599814310026774396279981243253201102784353223440234630211---3-47536417862034313
Q gi|254780170|r   78 IQYLPLNAKERFLALQSKQIDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMHKKK---G-ISSVSQLSGASICVQAG  153 (342)
Q Consensus        78 Ve~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVrk~~---~-i~s~~dL~G~~I~v~~G  153 (342)
                      +.++...+.+.-..|.+|+||+.+-..  ....+..+.       .+.+-++-..+..   . ++.-...++..|++...
T Consensus        25 ~~v~~~~P~el~~~ll~Grid~a~VSs--~~~~~~~l~-------~l~~~~I~s~g~vlSV~L~s~~~~~~~~~vAvT~~   95 (252)
T COG1427          25 ERVVKAVPSELNELLLSGRIDAALVSS--VAYAEDDLK-------LLPGLGIASNGKVLSVLLFSNRPLDEGRRVAVTKE   95 (252)
T ss_pred             EEEEECCCHHHHHHHHHCCCCEEEECH--HHHHHCCCC-------CCCCCEEEECCCEEEEEEEECCCCCCCCCEECCCC
T ss_conf             278743977889999818262244106--877520312-------27874477558568999984587666764113752


Q ss_pred             CCHHHHHH-HHHHHCCCCCCEEEECC-HHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCC-CCCC---CCCCCE-
Q ss_conf             42699999-99986299850787479-89999998739602998250479999983678001002-5644---423710-
Q gi|254780170|r  154 TTTELTLA-DYFKAHNMKYHPIVFER-VEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVI-LPDI---ISKSPL-  226 (342)
Q Consensus       154 TT~e~~l~-~~~~~~~~~~~~v~~~~-~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~i-l~e~---iskEPl-  226 (342)
                      |-+-..|- -..++.+  +..+.++. ...+-+.++.-.+--.++|    .+++.....|..+.. |.+.   ++.=|. 
T Consensus        96 S~TS~~LLkvL~~~~~--~~~v~~~~~~~~~~~~le~~d~~LlIGD----eAL~~~~~~~~~~~~DLg~~W~eltglpfV  169 (252)
T COG1427          96 SATSVALLKVLLEKLG--ISNVLVETDTTDAEELLEEADGALLIGD----EALRAVYSLPGKLIYDLGELWYELTGLPFV  169 (252)
T ss_pred             CHHHHHHHHHHHHHHC--CCCEEEECCCCCHHHHHHCCCCEEEECH----HHHHHHCCCCCCEEHHHHHHHHHHHCCCCE
T ss_conf             0559999999999848--7634542156747677640890388558----988751167882201378899998789954


Q ss_pred             --EEECCCCCHHHH
Q ss_conf             --100027775799
Q gi|254780170|r  227 --APAIIQGDTEWY  238 (342)
Q Consensus       227 --g~avr~gD~~w~  238 (342)
                        -.+.|++++.-.
T Consensus       170 FAv~~sr~~~~~~~  183 (252)
T COG1427         170 FAVLASRKDKPFYK  183 (252)
T ss_pred             EEEEEEECCCCCHH
T ss_conf             78999850687005


No 249
>PRK12696 flgH flagellar basal body L-ring protein; Reviewed
Probab=22.26  E-value=58  Score=13.74  Aligned_cols=18  Identities=11%  Similarity=0.226  Sum_probs=11.8

Q ss_pred             CHHHHHHHHHHHHHHHHH
Q ss_conf             913899999999999984
Q gi|254780170|r    1 MYKDFFVSILCLIILFFT   18 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~   18 (342)
                      |.|+++.++++++++..+
T Consensus         1 mm~~~l~~~~~~~~L~GC   18 (238)
T PRK12696          1 MIRKLLAASCAVLLLSGC   18 (238)
T ss_pred             CHHHHHHHHHHHHHHHCC
T ss_conf             958999999999995165


No 250
>PRK05567 inositol-5'-monophosphate dehydrogenase; Reviewed
Probab=22.23  E-value=54  Score=13.91  Aligned_cols=49  Identities=22%  Similarity=0.160  Sum_probs=29.6

Q ss_pred             ECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCCCCEEEE
Q ss_conf             479899999987396029982504799999836780010025644423710100
Q gi|254780170|r  176 FERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDIISKSPLAPA  229 (342)
Q Consensus       176 ~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~iskEPlg~a  229 (342)
                      .....+...||..|---.+.+  +.||+   ..+.|+++....-..-|+-.|++
T Consensus       340 i~~sGdi~KAla~GAd~VMlG--s~lAg---t~EsPG~~~~~~G~~~K~YRGMg  388 (486)
T PRK05567        340 IRYSGDIAKALAAGASAVMLG--SMLAG---TEEAPGEVELYQGRSYKSYRGMG  388 (486)
T ss_pred             CCCCCHHHHHHHCCCCEEEEC--CHHCC---CCCCCCCEEEECCEEEEEEECCC
T ss_conf             354357999986589889866--12147---76799726847896999971566


No 251
>pfam07437 YfaZ YfaZ precursor. This family contains the precursor of the bacterial protein YfaZ (approximately 180 residues long). Many members of this family are hypothetical proteins.
Probab=21.98  E-value=59  Score=13.71  Aligned_cols=130  Identities=13%  Similarity=0.080  Sum_probs=54.3

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCEEEEEEECCCCCC------EEECCCCCEEEEHHHHHHHHHHHHCCC
Q ss_conf             91389999999999998401244216899985794999871789883------068898988015099999999996798
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNASILGDIKKRGFLKCGINTGLVGF------AEVKANGDWKGFDVDFCRALSSAIFDD   74 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~tLd~Vk~rG~L~vGv~~~~ppf------s~~d~~G~~~GfDVDl~raiAaal~gd   74 (342)
                      |||.++.+++.+++++.++.+..- +++.=+.--.+.+|.....++.      .+-|.+|...|....+.-.+..-.+. 
T Consensus         1 mkk~~~~~a~~l~~~s~~A~A~s~-~~~~g~~~t~~~~~~g~~~~gl~~~g~w~~sd~dg~~~~~gl~~~~~~Gp~~~~-   78 (180)
T pfam07437         1 MAKFRVASVALLLLVALSVNASSF-NLGLGNDYTNTGLGLGTNTDGLAVSGNWIYSDDDGDVAGGGLGMNLPAGPHHAT-   78 (180)
T ss_pred             CCHHHHHHHHHHHHHHHHCEEEEE-ECCCCCCEEEEEECCCCCCCCEEEECCEEEECCCCCEECCEEEEECCCCCEEEE-
T ss_conf             903589999999876321057884-224664137774303788875054212657879996732404674056783898-


Q ss_pred             CCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHCCCCCCCCCCCCCCEEEEEECCCCCCCHHHHCC
Q ss_conf             22025998143100267743962799812432532011027843532234402346302113475364178
Q gi|254780170|r   75 PSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREISLGLAFRPITYFDGQGFIMHKKKGISSVSQLSG  145 (342)
Q Consensus        75 ~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVrk~~~i~s~~dL~G  145 (342)
                       .-.+..-+..++.    .+|-.=-+-....|...+    .+++-.-.||....+    .+++++..++++
T Consensus        79 -vGgK~~y~~~~~g----~~G~Ava~GG~~~~~~~~----~~sl~Ge~YyaP~~l----ssGvd~y~ea~~  136 (180)
T pfam07437        79 -VGAKGSYLWPDEG----PNGSAVAVGGGLALAIGP----SFSLQGEAYYAPSVL----SSGVDSYYEANS  136 (180)
T ss_pred             -EEEEEEEECCCCC----CCCEEEEECCEEECCCCC----CEEEEEEEEECCHHH----CCCCHHHEEECC
T ss_conf             -2036998276668----863189862568624588----578988789880673----256203337346


No 252
>PRK10449 heat-inducible protein; Provisional
Probab=21.66  E-value=59  Score=13.67  Aligned_cols=10  Identities=30%  Similarity=0.145  Sum_probs=4.9

Q ss_pred             CHHHHHHHHH
Q ss_conf             9138999999
Q gi|254780170|r    1 MYKDFFVSIL   10 (342)
Q Consensus         1 M~K~~l~~~l   10 (342)
                      |||.+.+.++
T Consensus         1 MKk~l~l~~~   10 (140)
T PRK10449          1 MKKVVALVAL   10 (140)
T ss_pred             CCHHHHHHHH
T ss_conf             9034999999


No 253
>pfam11131 PhrC_PhrF Rap-phr extracellular signalling. PhrC and PhrF stimulate ComA-dependent gene expression to different levels and are both required for full expression of genes activated by ComA, which activates the expression of genes involved in competence development and the production of several secreted products.
Probab=21.42  E-value=29  Score=15.68  Aligned_cols=35  Identities=20%  Similarity=0.254  Sum_probs=19.4

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCHHH-HHHHHCCE
Q ss_conf             913899999999999984012442168-99985794
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNASIL-GDIKKRGF   35 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~tL-d~Vk~rG~   35 (342)
                      ||.|+++..+++.........++++.- -.|.+||-
T Consensus         1 lKsKl~v~CLA~aavF~at~ia~a~~~qf~VaeRGM   36 (37)
T pfam11131         1 LKSKLFVICLAAAAVFTATGIAQAPQHQFHVAERGM   36 (37)
T ss_pred             CCCEEEEHHHHHHHHHEECCCCCCCHHHHHHHHHCC
T ss_conf             983276211555667243254558356510354057


No 254
>TIGR03525 GldK gliding motility-associated lipoprotein GldK. Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldK is a lipoprotein linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae. Knockouts of GldK abolish the gliding phenotype. GldK is homologous to GldJ. There is a GldK homolog in Cytophaga hutchinsonii and several other species that has a different, shorter architecture and is represented by a separate model. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.
Probab=21.32  E-value=60  Score=13.62  Aligned_cols=30  Identities=23%  Similarity=0.345  Sum_probs=15.7

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCEEEEEEEC
Q ss_conf             913899999999999984012442168999857949998717
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNASILGDIKKRGFLKCGINT   42 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~tLd~Vk~rG~L~vGv~~   42 (342)
                      |||.+++.++++++.+++.  .         .+|.|+ ||..
T Consensus         1 Mkk~~~~~~~~~~~~SCg~--~---------~~GELv-Gv~~   30 (449)
T TIGR03525         1 MKKYLVFAALVVLVYSCGS--G---------DKGELV-GVEG   30 (449)
T ss_pred             CCHHHHHHHHHHHHHHCCC--C---------CCCEEE-EECC
T ss_conf             9124899999998721058--9---------971387-3148


No 255
>KOG3019 consensus
Probab=21.17  E-value=61  Score=13.60  Aligned_cols=18  Identities=17%  Similarity=0.244  Sum_probs=8.1

Q ss_pred             HHHHHHHHHHHHHHHHHC
Q ss_conf             998877443311212330
Q gi|254780170|r  239 NIVSWTHYAMVTAEELGI  256 (342)
Q Consensus       239 d~V~W~~~ali~Aee~gi  256 (342)
                      |+|+-..+++-.---.||
T Consensus       219 DL~~li~~ale~~~v~GV  236 (315)
T KOG3019         219 DLVNLIYEALENPSVKGV  236 (315)
T ss_pred             HHHHHHHHHHHCCCCCCE
T ss_conf             789999999756897742


No 256
>TIGR01422 phosphonatase phosphonoacetaldehyde hydrolase; InterPro: IPR006323   These sequences represent an enzyme that catalyzes the cleavage of the carbon phosphorous bond of a phosphonate. The mechanism depends on the substrate having a carbonyl one carbon away from the cleavage position. This enzyme is a member of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases, and contains a modified version of the conserved catalytic motifs of that superfamily: the first motif is usually DxDx(T/V), here it is DxAxT, and in the third motif the normal conserved lysine is instead an arginine. Additionally, the enzyme contains a unique conserved catalytic lysine (B. cereus pos. 53) which is involved in the binding and activation of the substrate through the formation of a Schiff base . The substrate of this enzyme is the product of 2-aminoethylphosphonate (AEP) transaminase, phosphonoacetaldehyde. This degradation pathway for AEP may be related to its toxic properties which are utilised by microorganisms as a chemical warfare agent..
Probab=21.10  E-value=61  Score=13.59  Aligned_cols=57  Identities=19%  Similarity=0.374  Sum_probs=23.9

Q ss_pred             CCEEEEEECCHH-HHHHHHHCCCCHHHCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCHHH
Q ss_conf             960299825047-999998367800100256444237101000277757999988774433112123301520
Q gi|254780170|r  189 HRCDAYTGDISA-LYALKLTNDRPSEHVILPDIISKSPLAPAIIQGDTEWYNIVSWTHYAMVTAEELGITQKN  260 (342)
Q Consensus       189 Gr~DA~~~D~s~-La~~~~~~~~p~~~~il~e~iskEPlg~avr~gD~~w~d~V~W~~~ali~Aee~git~~n  260 (342)
                      |.|-.|+....- ++.......--.||++-++-+..        .|-|       |=..++-++=||||+-=|
T Consensus       117 GScsGYpr~vMd~v~~~Aa~~GY~pD~vVatDdvpq--------~GRP-------~P~~alkNvieLGv~dv~  174 (199)
T TIGR01422       117 GSCSGYPREVMDIVVAEAALQGYKPDFVVATDDVPQ--------AGRP-------YPFMALKNVIELGVDDVN  174 (199)
T ss_pred             ECCCCCHHHHHHHHHHHHHHCCCCCCEEECCCCCCC--------CCCC-------HHHHHHHHHHHCCCCCCC
T ss_conf             247987578999999999747897664246622467--------8897-------478999989870752210


No 257
>PRK10765 nitroreductase A; Provisional
Probab=20.80  E-value=26  Score=15.92  Aligned_cols=13  Identities=8%  Similarity=0.026  Sum_probs=8.7

Q ss_pred             HHHHHHHHCCEEE
Q ss_conf             1689998579499
Q gi|254780170|r   25 SILGDIKKRGFLK   37 (342)
Q Consensus        25 ~tLd~Vk~rG~L~   37 (342)
                      .|++.+++|-.+|
T Consensus         3 ~tie~i~~rRSiR   15 (240)
T PRK10765          3 PTIELILGHRSIR   15 (240)
T ss_pred             HHHHHHHHCCCCC
T ss_conf             8999999767534


No 258
>COG3784 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.67  E-value=62  Score=13.53  Aligned_cols=32  Identities=25%  Similarity=0.341  Sum_probs=16.6

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCE
Q ss_conf             91389999999999998401244216899985794
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNASILGDIKKRGF   35 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~tLd~Vk~rG~   35 (342)
                      |++.++++++   ++.+...++.+-|||+-+.-|.
T Consensus         3 ~~~~l~la~~---a~gl~s~sa~altld~A~tqGr   34 (109)
T COG3784           3 MKRTLLLALL---ALGLASSSAMALTLDEARTQGR   34 (109)
T ss_pred             HHHHHHHHHH---HHHHCCHHHHHHHHHHHHHCCC
T ss_conf             7999999999---9830256789965899986561


No 259
>PRK02621 consensus
Probab=20.62  E-value=62  Score=13.53  Aligned_cols=20  Identities=15%  Similarity=0.086  Sum_probs=9.8

Q ss_pred             CCHHHHHHHHHCCCEEEEEE
Q ss_conf             79899999987396029982
Q gi|254780170|r  177 ERVEEIDAAYRAHRCDAYTG  196 (342)
Q Consensus       177 ~~~~~a~~al~~Gr~DA~~~  196 (342)
                      .+.++...+|..+.+++++.
T Consensus       208 ~s~edi~~~l~~~~v~gviv  227 (254)
T PRK02621        208 GCCDHIAEALTEGKAEAALL  227 (254)
T ss_pred             CCHHHHHHHHHHCCCEEEEE
T ss_conf             99999999998589819877


No 260
>pfam10626 TraO Conjugative transposon protein TraO. This is a family of conjugative transposon proteins.
Probab=20.60  E-value=37  Score=14.96  Aligned_cols=42  Identities=24%  Similarity=0.325  Sum_probs=20.2

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCC-EEEEEEECCCC
Q ss_conf             9138999999999999840124421689998579-49998717898
Q gi|254780170|r    1 MYKDFFVSILCLIILFFTSFSTNASILGDIKKRG-FLKCGINTGLV   45 (342)
Q Consensus         1 M~K~~l~~~l~l~~~~~~~~aa~a~tLd~Vk~rG-~L~vGv~~~~p   45 (342)
                      |||.+++.++++  +...+..+.|+.+ --+.+| .++-|+-.+.-
T Consensus         1 MKk~~~i~~~~~--l~l~~~~a~AQR~-LPkqkGie~~~g~~~g~~   43 (193)
T pfam10626         1 MKRKLFIILLAL--LALFAGQAHAQRC-LPGMKGIQLTAGMVDGFH   43 (193)
T ss_pred             CCEEEEEHHHHH--HHHHCCHHHHHHH-CCCCCEEEEEEEEECCCE
T ss_conf             961886088999--9986498888764-777711799853214611


No 261
>pfam07901 DUF1672 Protein of unknown function (DUF1672). This family is composed of hypothetical bacterial proteins of unknown function.
Probab=20.50  E-value=56  Score=13.83  Aligned_cols=17  Identities=24%  Similarity=0.356  Sum_probs=10.8

Q ss_pred             EEEECCCCCHHHHHHHH
Q ss_conf             01000277757999988
Q gi|254780170|r  226 LAPAIIQGDTEWYNIVS  242 (342)
Q Consensus       226 lg~avr~gD~~w~d~V~  242 (342)
                      +-|-+.++|..+.+-.+
T Consensus       205 yEpli~kn~~~fk~gmk  221 (304)
T pfam07901       205 YEPLIKKNDKEFKKGMK  221 (304)
T ss_pred             HHHHHCCCHHHHHHHHH
T ss_conf             88876177177999999


No 262
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=20.31  E-value=63  Score=13.49  Aligned_cols=38  Identities=26%  Similarity=0.379  Sum_probs=17.4

Q ss_pred             HHHHHHHHCCCCCCEEE--ECCH--HHHHHHHHCCCEEEEEE
Q ss_conf             99999986299850787--4798--99999987396029982
Q gi|254780170|r  159 TLADYFKAHNMKYHPIV--FERV--EEIDAAYRAHRCDAYTG  196 (342)
Q Consensus       159 ~l~~~~~~~~~~~~~v~--~~~~--~~a~~al~~Gr~DA~~~  196 (342)
                      .|.+|+...|+++.-..  .++.  .+.+.+|..|..|++++
T Consensus       461 dLt~yl~~~~ik~~YlHs~i~t~eR~eIl~~LR~G~~DVlVG  502 (657)
T PRK05298        461 DLTDYLKELGIKVRYLHSDIDTLERVEIIRDLRLGEFDVLVG  502 (657)
T ss_pred             HHHHHHHHCCCEEEEEECCCCHHHHHHHHHHHHCCCCCEEEE
T ss_conf             999999967980799626661889999999985888758975


Done!