Query         gi|254780999|ref|YP_003065412.1| NAD synthetase [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 562
No_of_seqs    265 out of 3977
Neff          6.9 
Searched_HMMs 39220
Date          Mon May 30 03:13:49 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780999.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 PRK13981 NAD synthetase; Provi 100.0       0       0 1282.3  51.8  542    5-556     1-543 (543)
  2 PRK02628 nadE NAD synthetase;  100.0       0       0 1122.5  50.1  557    1-561     7-675 (678)
  3 KOG2303 consensus              100.0       0       0  586.1  29.1  535    1-546     1-665 (706)
  4 PRK13980 NAD synthetase; Provi 100.0       0       0  583.6  21.6  255  271-545     7-264 (264)
  5 cd00553 NAD_synthase NAD+ synt 100.0       0       0  542.6  21.0  245  271-529     2-248 (248)
  6 pfam02540 NAD_synthase NAD syn 100.0       0       0  526.1  18.9  238  277-533     3-243 (243)
  7 PTZ00323 NAD+ synthase; Provis 100.0       0       0  513.9  20.1  248  270-533    25-285 (294)
  8 COG0171 NadE NAD synthase [Coe 100.0       0       0  504.5  20.8  253  270-544     3-267 (268)
  9 PRK00768 nadE NAD synthetase;  100.0       0       0  472.5  17.7  235  273-537    21-269 (274)
 10 cd07570 GAT_Gln-NAD-synth Glut 100.0       0       0  458.3  28.6  247    6-254     1-247 (261)
 11 PRK00876 nadE NAD synthetase;  100.0       0       0  457.6  20.0  241  273-531    13-308 (325)
 12 cd07586 nitrilase_8 Uncharacte 100.0       0       0  404.8  25.2  246    6-255     1-252 (269)
 13 cd07576 R-amidase_like Pseudom 100.0       0       0  391.6  24.2  240    6-253     1-241 (254)
 14 cd07585 nitrilase_7 Uncharacte 100.0       0       0  385.1  24.4  241    6-252     1-243 (261)
 15 cd07583 nitrilase_5 Uncharacte 100.0       0       0  381.9  23.7  239    6-252     1-241 (253)
 16 cd07584 nitrilase_6 Uncharacte 100.0       0       0  380.6  24.6  241    6-253     1-246 (258)
 17 TIGR03381 agmatine_aguB N-carb 100.0       0       0  377.2  26.1  246    5-254     1-262 (279)
 18 cd07573 CPA N-carbamoylputresc 100.0       0       0  375.6  24.9  246    5-254     1-265 (284)
 19 cd07580 nitrilase_2 Uncharacte 100.0       0       0  370.9  24.7  243    6-253     1-251 (268)
 20 cd07568 ML_beta-AS_like mammal 100.0       0       0  369.6  25.2  250    2-253     1-266 (287)
 21 cd07581 nitrilase_3 Uncharacte 100.0       0       0  367.3  24.3  239    7-252     1-243 (255)
 22 cd07572 nit Nit1, Nit 2, and r 100.0       0       0  370.2  21.7  243    6-252     1-253 (265)
 23 cd07197 nitrilase Nitrilase su 100.0       0       0  360.5  26.2  238    7-251     1-240 (253)
 24 cd07577 Ph0642_like Pyrococcus 100.0       0       0  362.6  24.3  234    6-252     1-241 (259)
 25 cd07569 DCase N-carbamyl-D-ami 100.0       0       0  360.1  25.3  252    2-254     1-282 (302)
 26 PRK10438 hypothetical protein; 100.0       0       0  353.6  24.4  243    2-258     1-245 (256)
 27 cd07578 nitrilase_1_R1 First n 100.0       0       0  353.8  24.2  239    5-253     1-243 (258)
 28 cd07575 Xc-1258_like Xanthomon 100.0       0       0  351.5  24.5  236    5-253     1-238 (252)
 29 TIGR00552 nadE NAD+ synthetase 100.0       0       0  355.0  18.9  262  271-544     5-284 (286)
 30 cd07564 nitrilases_CHs Nitrila 100.0       0       0  342.8  24.1  244    5-254     1-276 (297)
 31 COG0388 Predicted amidohydrola 100.0       0       0  339.2  26.0  250    3-256     1-255 (274)
 32 cd07565 aliphatic_amidase alip 100.0       0       0  328.8  22.7  238    5-251     1-251 (291)
 33 cd07574 nitrilase_Rim1_like Un 100.0       0       0  321.1  27.1  245    5-254     1-265 (280)
 34 cd07579 nitrilase_1_R2 Second  100.0 1.4E-45       0  318.0  21.6  233    6-251     1-254 (279)
 35 cd07582 nitrilase_4 Uncharacte 100.0 4.5E-44       0  307.5  24.7  243    5-251     6-277 (294)
 36 pfam00795 CN_hydrolase Carbon- 100.0   1E-40 2.8E-45  285.5  19.3  170    6-176     1-172 (172)
 37 cd07587 ML_beta-AS mammalian-l 100.0 1.9E-36 4.9E-41  257.6  20.6  248    3-252    62-341 (363)
 38 cd07566 ScNTA1_like Saccharomy 100.0 5.4E-36 1.4E-40  254.6  20.2  220    6-229     1-270 (295)
 39 KOG0807 consensus              100.0 2.2E-33 5.7E-38  237.5  12.4  239    5-250    16-270 (295)
 40 cd07571 ALP_N-acyl_transferase 100.0 1.7E-29 4.3E-34  212.1  24.5  224    5-249     1-251 (270)
 41 KOG0806 consensus              100.0 6.4E-32 1.6E-36  228.0  11.9  248    2-254    11-277 (298)
 42 PRK13287 amiF formamidase; Pro 100.0 1.1E-29 2.7E-34  213.5  21.8  268    3-304    12-291 (333)
 43 PRK00302 lnt apolipoprotein N- 100.0 1.1E-25 2.8E-30  187.2  23.0  224    3-248   224-475 (509)
 44 PRK13286 amiE acylamide amidoh  99.9 6.2E-25 1.6E-29  182.3  17.7  234    3-249    11-262 (343)
 45 KOG0805 consensus               99.9 5.7E-24 1.4E-28  176.0  20.2  238    2-249    15-292 (337)
 46 TIGR00546 lnt apolipoprotein N  99.9 1.3E-22 3.2E-27  167.2  15.6  214    2-229   177-441 (441)
 47 COG0815 Lnt Apolipoprotein N-a  99.9   1E-21 2.5E-26  161.3  19.6  224    4-248   227-481 (518)
 48 cd07567 biotinidase_like bioti  99.9 1.1E-20 2.8E-25  154.5  18.8  231    7-247     3-275 (299)
 49 PRK12291 apolipoprotein N-acyl  99.9 3.7E-20 9.4E-25  151.0  19.2  197    3-227   195-415 (420)
 50 KOG0808 consensus               99.9 1.5E-20 3.7E-25  153.7  12.5  244    4-251    73-350 (387)
 51 cd01990 Alpha_ANH_like_I This   99.5 3.4E-14 8.7E-19  112.0   8.5  161  295-484     1-173 (202)
 52 cd01998 tRNA_Me_trans tRNA met  99.4 2.9E-12 7.3E-17   99.5   9.7  147  294-445     1-180 (349)
 53 PRK00143 trmU tRNA (5-methylam  99.4 3.2E-12 8.1E-17   99.1   9.7  150  291-445     3-184 (355)
 54 COG1606 ATP-utilizing enzymes   99.4 4.8E-12 1.2E-16   97.9  10.2  150  282-446     9-164 (269)
 55 pfam03054 tRNA_Me_trans tRNA m  99.3 9.4E-12 2.4E-16   96.1   9.5  147  294-445     2-182 (354)
 56 PRK00074 guaA GMP synthase; Re  99.3 8.6E-11 2.2E-15   89.8  11.3  162  289-472   213-393 (513)
 57 PRK00919 GMP synthase subunit   99.3 1.1E-10 2.7E-15   89.2  11.0  169  278-472     9-188 (306)
 58 TIGR00268 TIGR00268 conserved   99.2 4.4E-11 1.1E-15   91.7   7.5  213  283-523     5-236 (263)
 59 COG0482 TrmU Predicted tRNA(5-  99.2 2.5E-10 6.4E-15   86.7   9.6  150  291-445     2-182 (356)
 60 TIGR00884 guaA_Cterm GMP synth  99.1 7.5E-10 1.9E-14   83.6  11.0  162  289-472    13-198 (319)
 61 cd01997 GMP_synthase_C The C-t  99.1 3.8E-10 9.6E-15   85.6   9.1  157  294-472     1-176 (295)
 62 TIGR00420 trmU tRNA (5-methyla  99.1 5.1E-10 1.3E-14   84.7   9.6  146  293-445     1-198 (394)
 63 TIGR00364 TIGR00364 exsB prote  99.0 3.5E-09   9E-14   79.2   8.8  150  295-446     1-190 (227)
 64 KOG2805 consensus               99.0 2.6E-09 6.6E-14   80.1   8.0  150  291-445     4-190 (377)
 65 COG0519 GuaA GMP synthase, PP-  98.8 4.6E-08 1.2E-12   71.9  10.5  187  288-499    17-227 (315)
 66 PTZ00077 asparagine synthetase  98.6 4.5E-07 1.2E-11   65.4   9.9  137  273-418   220-399 (610)
 67 COG0603 Predicted PP-loop supe  98.6 3.8E-07 9.8E-12   65.9   9.5  150  292-445     2-177 (222)
 68 PRK13825 conjugal transfer pro  98.6 5.2E-06 1.3E-10   58.5  15.0  160   31-205   217-386 (389)
 69 PRK11106 queuosine biosynthesi  98.5 2.2E-06 5.6E-11   61.0  10.4  150  292-445     1-176 (231)
 70 cd01712 ThiI ThiI is required   98.4 3.9E-06   1E-10   59.3  10.0  141  294-446     1-156 (177)
 71 pfam02568 ThiI Thiamine biosyn  98.4 4.4E-06 1.1E-10   59.0  10.0  144  293-447     4-162 (197)
 72 pfam00733 Asn_synthase Asparag  98.4 8.8E-06 2.2E-10   57.0  11.1  124  281-415     8-134 (195)
 73 TIGR03104 trio_amidotrans aspa  98.3 4.9E-06 1.2E-10   58.7   9.3  132  276-417   246-382 (589)
 74 COG0037 MesJ tRNA(Ile)-lysidin  98.3 8.7E-06 2.2E-10   57.0  10.3  143  293-445    22-185 (298)
 75 KOG1622 consensus               98.3 1.2E-06   3E-11   62.7   5.7  156  288-471   226-415 (552)
 76 pfam07186 consensus             98.3 8.6E-05 2.2E-09   50.5  14.9  159   26-205   219-393 (396)
 77 TIGR03108 eps_aminotran_1 exos  98.3 7.2E-06 1.8E-10   57.6   9.3  136  274-418   242-377 (628)
 78 pfam06508 ExsB ExsB. This fami  98.3 1.4E-06 3.6E-11   62.2   4.9   65  294-360     1-65  (137)
 79 cd01991 Asn_Synthase_B_C The C  98.2 7.2E-06 1.8E-10   57.6   8.3  126  282-417     7-135 (269)
 80 KOG0571 consensus               98.2 1.7E-05 4.3E-10   55.1   9.8  149  276-439   211-368 (543)
 81 PRK09431 asnB asparagine synth  98.2 1.9E-05 4.9E-10   54.8   9.1  135  273-416   210-359 (555)
 82 TIGR01536 asn_synth_AEB aspara  98.1 1.6E-05   4E-10   55.4   7.6  122  293-420   312-454 (646)
 83 TIGR03573 WbuX N-acetyl sugar   98.1   1E-05 2.6E-10   56.6   6.5   65  294-359    61-125 (343)
 84 COG0367 AsnB Asparagine syntha  98.1 2.9E-05 7.3E-10   53.6   8.7  158  275-445   211-376 (542)
 85 cd01993 Alpha_ANH_like_II This  98.0 2.4E-05 6.1E-10   54.2   6.9  145  294-445     1-171 (185)
 86 pfam01171 ATP_bind_3 PP-loop f  98.0 2.8E-05 7.2E-10   53.7   7.1  137  294-445     1-160 (182)
 87 PRK01269 thiamine biosynthesis  97.9 6.4E-05 1.6E-09   51.4   7.4  185  293-494   178-377 (483)
 88 PRK01565 thiamine biosynthesis  97.9 0.00017 4.4E-09   48.6   9.4  144  293-446   177-332 (399)
 89 cd01996 Alpha_ANH_like_III Thi  97.8   4E-05   1E-09   52.7   5.7   64  294-359     3-66  (154)
 90 cd01713 PAPS_reductase This do  97.8 0.00015 3.9E-09   48.9   7.9  149  294-445     1-158 (173)
 91 PRK13795 hypothetical protein;  97.8 0.00045 1.1E-08   45.9  10.2  155  282-445   236-399 (630)
 92 cd01995 ExsB ExsB is a transcr  97.7  0.0003 7.8E-09   46.9   8.4   52  294-347     1-52  (169)
 93 cd01992 PP-ATPase N-terminal d  97.7 0.00019 4.9E-09   48.2   7.3  138  294-445     1-160 (185)
 94 PRK08349 hypothetical protein;  97.6 0.00057 1.4E-08   45.2   9.2  144  294-447     2-159 (198)
 95 PRK13794 hypothetical protein;  97.6 0.00051 1.3E-08   45.5   8.1   75  280-356   234-308 (473)
 96 PRK00509 argininosuccinate syn  97.4  0.0089 2.3E-07   37.4  12.6  179  292-479     2-216 (398)
 97 PRK08576 hypothetical protein;  97.3 0.00082 2.1E-08   44.1   6.5   72  283-356   226-297 (439)
 98 PRK08557 hypothetical protein;  97.3  0.0015 3.8E-08   42.5   7.4   73  281-355   170-244 (420)
 99 PRK10696 C32 tRNA thiolase; Pr  97.2  0.0014 3.5E-08   42.6   6.5  162  275-445    22-204 (311)
100 PRK04527 argininosuccinate syn  97.1   0.017 4.4E-07   35.4  11.6  130  292-433     3-148 (397)
101 pfam01507 PAPS_reduct Phosphoa  97.1  0.0064 1.6E-07   38.3   8.9  143  294-445     1-152 (174)
102 PRK13820 argininosuccinate syn  97.1  0.0015 3.9E-08   42.3   5.7  146  291-448     2-161 (395)
103 COG0301 ThiI Thiamine biosynth  97.0   0.024 6.1E-07   34.5  11.8  168  293-476   176-357 (383)
104 PRK10660 tilS tRNA(Ile)-lysidi  97.0  0.0023 5.7E-08   41.2   6.0   62  293-355    14-81  (433)
105 cd01986 Alpha_ANH_like Adenine  96.8  0.0073 1.9E-07   37.9   7.5   47  295-345     1-47  (103)
106 PRK05370 argininosuccinate syn  96.8   0.018 4.6E-07   35.3   9.2   19  293-311   243-262 (447)
107 TIGR02432 lysidine_TilS_N tRNA  96.5  0.0074 1.9E-07   37.9   5.8  138  294-445     1-179 (204)
108 COG1365 Predicted ATPase (PP-l  96.5   0.013 3.4E-07   36.2   7.0  135  293-445    61-201 (255)
109 TIGR00342 TIGR00342 thiamine b  96.1   0.044 1.1E-06   32.8   7.9  140  293-446   187-345 (391)
110 TIGR00032 argG argininosuccina  95.9    0.07 1.8E-06   31.5   8.3  111  294-405     1-119 (420)
111 cd01999 Argininosuccinate_Synt  95.8    0.16   4E-06   29.2  12.5  132  295-432     1-144 (385)
112 pfam00764 Arginosuc_synth Argi  95.5     0.2 5.2E-06   28.4  11.6   57  297-356     2-59  (389)
113 cd01994 Alpha_ANH_like_IV This  95.1    0.17 4.4E-06   28.9   7.8   62  294-356     1-67  (194)
114 COG0175 CysH 3'-phosphoadenosi  94.8   0.053 1.4E-06   32.3   4.6  145  294-445    41-193 (261)
115 COG0137 ArgG Argininosuccinate  94.6    0.11 2.9E-06   30.1   5.8   40  192-231   105-145 (403)
116 pfam01902 ATP_bind_4 ATP-bindi  93.4    0.31   8E-06   27.2   6.3   61  294-356     2-67  (219)
117 PRK08384 thiamine biosynthesis  93.3    0.46 1.2E-05   26.1   6.9  122  293-445   180-307 (310)
118 KOG0573 consensus               90.8    0.31 7.9E-06   27.3   3.6   29  292-320   250-278 (520)
119 cd01984 AANH_like Adenine nucl  90.4    0.18 4.7E-06   28.7   2.2   33  295-327     1-34  (86)
120 PRK06850 hypothetical protein;  90.0    0.22 5.6E-06   28.3   2.3   29   57-85     66-94  (488)
121 TIGR03183 DNA_S_dndC putative   89.6    0.25 6.3E-06   27.9   2.3   31   56-86     57-87  (447)
122 pfam04273 DUF442 Putative phos  88.9     1.7 4.3E-05   22.4   6.9   94  297-397     9-108 (110)
123 COG3969 Predicted phosphoadeno  88.5    0.79   2E-05   24.6   4.3   11  510-520   387-397 (407)
124 TIGR01390 CycNucDiestase 2',3'  87.4     2.1 5.4E-05   21.8   6.0  220   23-262    31-303 (634)
125 TIGR01214 rmlD dTDP-4-dehydror  87.3     1.2   3E-05   23.5   4.6   68  143-218    35-116 (317)
126 COG2117 Predicted subunit of t  87.1     1.5 3.7E-05   22.9   4.9   60  295-358     3-62  (198)
127 PRK12563 sulfate adenylyltrans  84.5       2   5E-05   22.0   4.5  146  290-445    35-212 (312)
128 PRK05253 sulfate adenylyltrans  80.2     3.5 8.8E-05   20.4   4.5  147  290-445    24-201 (300)
129 COG2102 Predicted ATPases of P  79.7     4.4 0.00011   19.7   7.5   63  294-357     2-69  (223)
130 KOG2840 consensus               79.2     2.7 6.9E-05   21.1   3.7   67  293-360    52-125 (347)
131 COG1091 RfbD dTDP-4-dehydrorha  78.5     4.8 0.00012   19.5   5.1   64  151-220    34-108 (281)
132 TIGR02858 spore_III_AA stage I  70.2     3.9   1E-04   20.1   2.6   55  474-529   206-263 (282)
133 PRK09453 phosphodiesterase; Pr  66.4     6.4 0.00016   18.7   3.0   43    5-54      1-43  (183)
134 TIGR02124 hypE hydrogenase exp  64.9     9.3 0.00024   17.6   3.7   93  319-435   220-316 (345)
135 TIGR01188 drrA daunorubicin re  64.3     9.9 0.00025   17.4   4.1   35  282-348   166-201 (343)
136 PRK02090 phosphoadenosine phos  63.2      10 0.00027   17.3  10.0  143  293-445    42-192 (243)
137 TIGR01405 polC_Gram_pos DNA po  59.1     5.7 0.00014   19.0   1.7  175  281-470   674-875 (1264)
138 pfam02273 Acyl_transf_2 Acyl t  58.8      12 0.00032   16.8   3.6   69  282-360    90-158 (294)
139 TIGR01361 DAHP_synth_Bsub phos  57.9      13 0.00033   16.7   6.3   69  135-203    11-93  (262)
140 PRK13210 putative L-xylulose 5  57.7      13 0.00033   16.7   8.6   12  191-202    57-68  (284)
141 KOG1706 consensus               56.6      13 0.00034   16.5   4.3   19   24-45     19-37  (412)
142 pfam09987 DUF2226 Uncharacteri  56.3      14 0.00035   16.5   6.5   28   89-116    36-63  (252)
143 KOG0259 consensus               56.3      14 0.00035   16.5   3.6   70  160-245   192-266 (447)
144 COG3453 Uncharacterized protei  55.6      14 0.00036   16.4   6.3  108  296-415     9-123 (130)
145 PRK13946 shikimate kinase; Pro  52.5      12  0.0003   16.9   2.4   82  313-406    15-97  (195)
146 TIGR02039 CysD sulfate adenyly  52.0      11 0.00028   17.2   2.2   64  289-354    16-83  (295)
147 PRK09987 dTDP-4-dehydrorhamnos  51.6      16 0.00041   16.0   4.7   65  150-220    37-112 (299)
148 COG4646 DNA methylase [Transcr  51.1      15 0.00037   16.3   2.7   15  525-539   588-602 (637)
149 TIGR01980 sufB FeS assembly pr  50.9      14 0.00035   16.5   2.5   33  213-245   183-227 (469)
150 cd03819 GT1_WavL_like This fam  49.6      17 0.00044   15.8   3.2   15  159-173    70-84  (355)
151 TIGR02346 chap_CCT_theta T-com  49.3      18 0.00045   15.8   2.9   39  300-349   295-333 (554)
152 PRK13604 luxD acyl transferase  47.8      18 0.00047   15.6   3.7   69  282-360    95-163 (305)
153 TIGR02715 amido_AtzE amidohydr  47.4     5.3 0.00014   19.2   0.0   23  303-327   268-292 (454)
154 PRK13209 L-xylulose 5-phosphat  47.4      19 0.00048   15.6   8.6   17  336-352   167-183 (283)
155 TIGR01455 glmM phosphoglucosam  45.8      20 0.00051   15.4   4.1   91  126-230   159-260 (450)
156 PRK09982 universal stress prot  44.9     9.7 0.00025   17.5   1.0   31  390-420    69-103 (142)
157 PRK07106 5-aminoimidazole-4-ca  44.7      21 0.00052   15.3   4.2   23  156-178   125-147 (391)
158 PRK03367 consensus              44.0      21 0.00053   15.3   2.6   36    1-43      1-37  (329)
159 cd03812 GT1_CapH_like This fam  44.0      21 0.00054   15.3   4.8   12  338-349   237-248 (358)
160 cd03823 GT1_ExpE7_like This fa  43.3      22 0.00055   15.2   3.3   12  162-173    91-102 (359)
161 TIGR01182 eda 2-dehydro-3-deox  43.0      22 0.00056   15.2   4.2   16   30-45     74-89  (205)
162 TIGR02778 ligD_pol DNA polymer  42.7     8.6 0.00022   17.8   0.5   60  273-337   144-207 (251)
163 COG2176 PolC DNA polymerase II  42.6      19 0.00048   15.6   2.2   32  287-318   878-913 (1444)
164 TIGR03642 cas_csx13 CRISPR-ass  40.8      24  0.0006   15.0   4.9   53  271-323    69-122 (124)
165 COG5482 Uncharacterized conser  40.1      14 0.00035   16.5   1.2   85  321-415    69-153 (229)
166 pfam01553 Acyltransferase Acyl  39.0      25 0.00064   14.8   4.0   10  166-175    90-99  (132)
167 pfam04356 DUF489 Protein of un  38.9      25 0.00064   14.8   2.8   57  339-395   108-168 (190)
168 TIGR02317 prpB methylisocitrat  38.8      25 0.00064   14.8   4.2   39  160-208   168-207 (287)
169 TIGR01196 edd phosphogluconate  38.8      25 0.00064   14.8   2.7   77  287-377   269-347 (614)
170 cd03795 GT1_like_4 This family  38.7      25 0.00065   14.7   4.1   14   69-82     19-32  (357)
171 cd03802 GT1_AviGT4_like This f  38.2      26 0.00066   14.7   3.1   36    5-43      1-42  (335)
172 PRK00232 pdxA 4-hydroxythreoni  38.1      24 0.00062   14.9   2.2   40    1-45      1-42  (334)
173 pfam01261 AP_endonuc_2 Xylose   37.8      26 0.00067   14.7   9.8   23   22-44     62-84  (201)
174 TIGR02776 NHEJ_ligase_prk DNA   37.6      26 0.00067   14.6   2.4   12  398-409   359-370 (645)
175 PRK08639 threonine dehydratase  37.4      27 0.00068   14.6   4.2   48  282-329   293-344 (418)
176 TIGR03436 acidobact_VWFA VWFA-  36.8      27 0.00069   14.6   5.0   34  273-306   141-178 (296)
177 pfam01488 Shikimate_DH Shikima  35.6      19 0.00049   15.5   1.4   56  291-357    12-68  (134)
178 PRK11907 bifunctional 2',3'-cy  35.4      29 0.00073   14.4   6.8   36   22-57    143-179 (810)
179 TIGR01181 dTDP_gluc_dehyt dTDP  35.2      29 0.00073   14.4   2.2   41  159-211    65-105 (340)
180 PRK06707 amidase; Provisional   35.2      21 0.00053   15.3   1.5   15  158-172   173-187 (536)
181 PRK01909 pdxA 4-hydroxythreoni  35.0      29 0.00074   14.4   2.8   40    1-45      1-44  (329)
182 COG1134 TagH ABC-type polysacc  34.4      30 0.00075   14.3   4.9   17  336-352   107-123 (249)
183 PTZ00249 variable surface prot  34.2      15 0.00037   16.3   0.6   23   11-34     19-41  (516)
184 cd02649 nuc_hydro_CeIAG nuc_hy  33.2      31 0.00079   14.2   5.0   46  282-330   107-154 (306)
185 PRK08662 nicotinate phosphorib  33.2      28 0.00072   14.5   1.9   38  275-312   242-279 (343)
186 TIGR02356 adenyl_thiF thiazole  32.7      31  0.0008   14.1   2.5   57  155-226   103-161 (210)
187 cd01714 ETF_beta The electron   32.6      32 0.00081   14.1   5.2   52  295-347    54-105 (202)
188 PRK00218 hypothetical protein;  31.5      33 0.00084   14.0   2.8   58  338-395   113-174 (207)
189 PRK11340 phosphodiesterase Yae  31.4      33 0.00084   14.0   6.7   76    3-90     47-122 (270)
190 COG5322 Predicted dehydrogenas  31.4      33 0.00084   14.0   5.6   22  292-313   168-189 (351)
191 COG2129 Predicted phosphoester  31.4      33 0.00084   14.0   4.0   38    2-45      1-38  (226)
192 cd03220 ABC_KpsT_Wzt ABC_KpsT_  31.4      33 0.00084   14.0   5.6   14  298-311   142-155 (224)
193 TIGR03569 NeuB_NnaB N-acetylne  31.2      33 0.00085   14.0   5.3   28   18-45     10-37  (329)
194 TIGR00143 hypF [NiFe] hydrogen  30.8      34 0.00086   13.9   3.8  160  197-368   319-504 (799)
195 COG2272 PnbA Carboxylesterase   30.2      35 0.00088   13.9   6.7   87  282-368   167-265 (491)
196 KOG4201 consensus               30.0     3.9  0.0001   20.0  -2.9   54  123-176   111-168 (289)
197 COG3845 ABC-type uncharacteriz  30.0      35 0.00089   13.8   5.4   19   95-113   205-223 (501)
198 KOG1195 consensus               29.8      35  0.0009   13.8   3.6   30  281-310   313-342 (567)
199 TIGR01139 cysK cysteine syntha  29.6      35  0.0009   13.8   2.9   37  292-329   265-302 (312)
200 cd01018 ZntC Metal binding pro  29.6      35  0.0009   13.8   6.2   63  288-354   185-247 (266)
201 pfam04392 ABC_sub_bind ABC tra  28.7      37 0.00094   13.7   3.8  106  296-406   107-217 (292)
202 TIGR00389 glyS_dimeric glycyl-  28.3      26 0.00067   14.6   1.1   12  489-500   478-489 (606)
203 PRK05077 frsA fermentation/res  27.8      38 0.00097   13.6   3.2   37  296-332   196-236 (414)
204 TIGR00421 ubiX_pad polyprenyl   27.6      38 0.00098   13.6   2.2   26  326-351   146-176 (181)
205 KOG0452 consensus               27.5      38 0.00098   13.6   2.4  158  280-444   487-699 (892)
206 TIGR02440 FadJ fatty oxidation  27.4      39 0.00099   13.5   2.6   46  309-354   429-493 (732)
207 KOG1917 consensus               27.1      23 0.00058   15.1   0.5   13   18-30     51-63  (1125)
208 cd03269 ABC_putative_ATPase Th  26.8      40   0.001   13.5   5.8   21  392-412   172-192 (210)
209 PRK02848 consensus              26.6      40   0.001   13.5   2.4   40    1-45      1-45  (341)
210 TIGR02805 exbB2 tonB-system en  26.5      28  0.0007   14.5   0.9   23  295-317    82-110 (139)
211 COG1535 EntB Isochorismate hyd  26.2      41   0.001   13.4   4.4   80  189-297    61-148 (218)
212 COG2876 AroA 3-deoxy-D-arabino  26.1      41   0.001   13.4   3.8   48  157-204    62-114 (286)
213 PRK11107 hybrid sensory histid  26.0      41   0.001   13.4   6.7  131   11-153   360-492 (920)
214 pfam02677 DUF208 Uncharacteriz  26.0      41   0.001   13.4   4.4   62  142-208    82-144 (176)
215 PRK13546 teichoic acids export  25.7      42  0.0011   13.3   6.2   14  298-311   143-156 (264)
216 PRK06102 hypothetical protein;  25.5      37 0.00095   13.6   1.4   15  158-172   106-120 (452)
217 COG1029 FwdB Formylmethanofura  25.3      42  0.0011   13.3   4.0   17  425-441   342-358 (429)
218 cd04863 MtLigD_Pol_like MtLigD  25.2      30 0.00077   14.2   0.9   26  281-306   134-161 (231)
219 pfam04310 MukB MukB N-terminal  25.1      36 0.00093   13.7   1.3   17  297-313   203-219 (227)
220 pfam10042 DUF2278 Uncharacteri  25.1      42  0.0011   13.3   3.9   21  217-237   175-195 (206)
221 PRK13482 DNA integrity scannin  25.1      16  0.0004   16.1  -0.6   54  146-209    70-123 (352)
222 pfam09587 PGA_cap Bacterial ca  25.0      43  0.0011   13.3   3.4   14  158-171    66-79  (237)
223 PRK09856 fructoselysine 3-epim  25.0      43  0.0011   13.3   7.1   13  284-296   232-244 (276)
224 COG5001 Predicted signal trans  24.7      43  0.0011   13.2   3.7  126  315-445   305-442 (663)
225 cd03796 GT1_PIG-A_like This fa  24.1      44  0.0011   13.2   3.7   15   68-82     18-32  (398)
226 TIGR02176 pyruv_ox_red pyruvat  23.7      45  0.0012   13.1   3.1   52  338-389   551-616 (1194)
227 PRK04507 consensus              23.5      46  0.0012   13.1   2.2   36    1-43      1-37  (323)
228 TIGR01515 branching_enzym 1,4-  23.3      38 0.00097   13.6   1.1  126  194-335    60-202 (608)
229 COG0703 AroK Shikimate kinase   23.1      46  0.0012   13.0   2.7   76  319-406     3-79  (172)
230 PRK13545 tagH teichoic acids e  23.1      46  0.0012   13.0   5.1   69   32-111   156-224 (549)
231 PRK13270 treF trehalase; Provi  22.5      48  0.0012   13.0   2.6   19  350-368   346-364 (549)
232 TIGR01136 cysKM cysteine synth  22.5      48  0.0012   13.0   3.1   39  291-329   265-305 (315)
233 cd03811 GT1_WabH_like This fam  22.4      48  0.0012   12.9   3.9   11   40-50      3-13  (353)
234 pfam06500 DUF1100 Alpha/beta h  22.4      48  0.0012   12.9   3.3   37  296-332   192-232 (411)
235 TIGR01513 NAPRTase_put putativ  22.3      48  0.0012   12.9   3.6   72  276-357   291-371 (523)
236 PRK08305 spoVFB dipicolinate s  22.3      48  0.0012   12.9   2.8   38  140-177     3-43  (195)
237 pfam02065 Melibiase Melibiase.  22.2      48  0.0012   12.9   2.0   61   19-82     53-118 (395)
238 pfam05201 GlutR_N Glutamyl-tRN  22.0      30 0.00075   14.3   0.3   18  396-413    35-52  (150)
239 TIGR02538 type_IV_pilB type IV  21.8      34 0.00088   13.9   0.6   51  393-446   414-467 (577)
240 PRK09922 UDP-D-galactose:(gluc  21.8      49  0.0013   12.9   3.2   40    3-45      1-43  (361)
241 cd02648 nuc_hydro_1 NH_1: A su  21.7      49  0.0013   12.9   5.0   20  283-302   141-160 (367)
242 cd01571 NAPRTase_B Nicotinate   21.5      50  0.0013   12.8   3.2   38  275-312   226-263 (302)
243 cd03268 ABC_BcrA_bacitracin_re  21.5      50  0.0013   12.8   5.7   16  297-312   125-140 (208)
244 TIGR01769 GGGP geranylgeranylg  21.5      50  0.0013   12.8   9.8  137   20-173    40-211 (212)
245 TIGR01919 hisA-trpF bifunction  21.5      50  0.0013   12.8   2.5   32  283-315    67-100 (246)
246 cd01534 4RHOD_Repeat_3 Member   21.4      40   0.001   13.5   0.9   21  285-307    74-94  (95)
247 pfam00128 Alpha-amylase Alpha   21.4      50  0.0013   12.8   5.5   67   17-89      1-73  (314)
248 PRK08091 ribulose-phosphate 3-  21.3      50  0.0013   12.8   1.4   37  281-320   174-210 (235)
249 pfam05820 DUF845 Baculovirus p  21.0      51  0.0013   12.8   2.8   42  105-150    41-86  (119)
250 cd03821 GT1_Bme6_like This fam  20.9      51  0.0013   12.7   4.0   15  162-176   107-121 (375)
251 TIGR02871 spore_ylbJ sporulati  20.8      15 0.00037   16.3  -1.4   45  155-209    18-65  (384)
252 cd04148 RGK RGK subfamily.  Th  20.8      52  0.0013   12.7   4.1   35  333-367   123-163 (221)
253 TIGR01983 UbiG ubiquinone bios  20.6      52  0.0013   12.7   6.1  111  283-415    76-206 (275)
254 TIGR02713 allophanate_hyd allo  20.2      43  0.0011   13.2   0.9   16  398-413   425-441 (582)
255 TIGR02691 arsC_pI258_fam arsen  20.1      41   0.001   13.4   0.7   19  402-420     3-23  (129)

No 1  
>PRK13981 NAD synthetase; Provisional
Probab=100.00  E-value=0  Score=1282.31  Aligned_cols=542  Identities=51%  Similarity=0.857  Sum_probs=517.6

Q ss_pred             EEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCEE
Q ss_conf             28999963883688999999999999999985998999166444799844541488999999999999999988769789
Q gi|254780999|r    5 LKIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQACSSAIDTLKSDTHDGGAGI   84 (562)
Q Consensus         5 mkIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~~~~l~~La~~~~~~~i~i   84 (562)
                      ||||++|+|+++||+++|+++|++.+++|+++||||+|||||+||||+|+||+++++|++.+.+++++|++.+++ ++.+
T Consensus         1 mkIalaQ~n~~vGD~~~N~~~i~~~i~~A~~~gadlvvfPEL~ltGY~~~DLl~~~~f~~~~~~al~~la~~~~~-~i~v   79 (543)
T PRK13981          1 LRIALAQLNPTVGDIAGNAAKIRAAAAEAADAGADLLLFPELFLSGYPPEDLLLRPAFLAACEAALERLAAATAD-GPAV   79 (543)
T ss_pred             CEEEEECCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHCCC-CCEE
T ss_conf             989998289977799999999999999999879989992740210799577603889999999999999985389-9889


Q ss_pred             EEEEEEEECCEEEEEEEEEECCEEEEEEEEEEECCCCCCCCCCCCCCCCCCCEEEECCEEEEECCCCCCCHHHHHHHHHH
Q ss_conf             99999988898789999996997999887776235543332100377888761476474562011111110168999997
Q gi|254780999|r   85 VVGFPRQDQEGVLNSVVILDAGNIIAVRDKINLPNYSEFHEKRTFISGYSNDPIVFRDIRLGILICEDIWKNSNICKHLK  164 (562)
Q Consensus        85 ivG~p~~~~~~~yNsa~vi~~G~il~~y~K~~LP~y~~FdE~r~F~~G~~~~~~~~~g~kiGv~ICeDlw~~~~~~~~la  164 (562)
                      ++|+|.+.++++|||+++|++|+|++.|+|+|||||++|||+|||++|....+|+++|+|+|+.||||+|++..|+..++
T Consensus        80 ivG~p~~~~~~lyN~a~vi~~G~i~~~~~K~~LPnY~vFdE~RyF~~g~~~~~f~~~g~~iGv~ICED~W~~~~p~~~l~  159 (543)
T PRK13981         80 LVGHPWREGGKLYNAAALLDGGEILATYFKQDLPNYGVFDEKRYFAPGPEPGPFELKGVRIGVPICEDIWWPEGPAETLA  159 (543)
T ss_pred             EEEEEEECCCCEEEEEEEEECCEEEEEEECCCCCCCCCHHHHHHCCCCCCCCEEEECCEEEEEEEECCCCCCCCHHHHHH
T ss_conf             99647824990479999999998999983211799850203442146897764998999999972001377876899998


Q ss_pred             HCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCCCCEEECCCCEEEEECCCCCCCEEEEE
Q ss_conf             14777599315553335807888788999854337046421356887662104864355589859996167776379999
Q gi|254780999|r  165 KQGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQDELIFDGASFCFDGQQQLAFQMKHFSEQNFMTE  244 (562)
Q Consensus       165 ~~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d~lvf~G~S~I~d~~G~ii~~~~~f~e~~~i~d  244 (562)
                      ++|||+|+|||||||+.+|.+.|..+++.++.+++++++|+|+|||||++||||+|||+|++|+++++++.|+|++.++|
T Consensus       160 ~~GadliinlsASp~~~gK~~~R~~l~~~~a~~~~~~~iY~N~vGgqdelVFDG~S~v~~~~G~l~~~~~~F~e~~~~vd  239 (543)
T PRK13981        160 EAGAELLLVPNASPYHRGKPDLRESVLRARVRETGLPLVYLNQVGGQDELVFDGASFVLNADGELAAQLPAFEEQIAVVD  239 (543)
T ss_pred             HCCCCEEEECCCCHHHCCCHHHHHHHHHHHHHHCCCCEEEECCCCCCCCEEECCCCEEECCCCCHHHHCCCCCCCEEEEE
T ss_conf             65996999817993463887999999999998669738986268998745761864698799867564267652569998


Q ss_pred             EEECCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEE
Q ss_conf             98335212365557555554478999888642202035888764224540575215872368999999841495446797
Q gi|254780999|r  245 WHYDQQLSQWNYMSDDSASTMYIPLQEEEADYNACVLSLRDYVQKNNFHKVIIGLSGGIDSALCAAIAVDALGKENVQTI  324 (562)
Q Consensus       245 ~d~d~~~~~~~~~~~~~~~~~~~p~~~~e~~~~Alvlgl~d~~~~~g~~~~viglSGGiDSal~a~la~~alg~~~v~~~  324 (562)
                      ++.....  +...    ......+.+.++++|+||++|||||++|+||++|||||||||||||||+||++|||++||++|
T Consensus       240 ~~~~~~~--~~~~----~~~~~~~~~~~e~i~~alvlglrDy~~k~gf~~vviGLSGGiDSaL~aaiA~dALG~~nV~~v  313 (543)
T PRK13981        240 FDRGDDG--WRCV----EGPIAPELPGEEEDYRALVLGLRDYVRKNGFPGVVLGLSGGIDSALVAAIAVDALGAENVRAV  313 (543)
T ss_pred             EECCCCC--CCCC----CCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEEECCCCHHHHHHHHHHHHHHCHHHEEEE
T ss_conf             7546666--6578----876678987189999999999999998608974999767883599999999985383437886


Q ss_pred             ECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHCCCEECC
Q ss_conf             32466665221356999999721354267758999998863132346874310110123304667798887516954436
Q gi|254780999|r  325 MLPYKYTSPQSLEDAAACAKALGCKYDVLPIHDLVNHFFSLMSQFLQEEPSGIVAENIQSRIRGNILMALSNHSKAMLLT  404 (562)
Q Consensus       325 ~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~~~~~~~~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~~lvl~  404 (562)
                      +||+++||++|++||+.||++||+++.+|||+++++++.+++++.|.+...|+|+||+|||+||++||++||++|+||||
T Consensus       314 ~MPs~~tS~~s~~dA~~La~~LGi~~~~i~I~~~~~~~~~~l~~~f~~~~~dvt~ENiQAR~R~~iLm~laN~~g~lvl~  393 (543)
T PRK13981        314 MMPSRYTSDESLDDAAALARNLGVRYDIIPIEPAFEAFEAALAPLFAGTEPDITEENLQSRIRGTLLMALSNKFGSLVLT  393 (543)
T ss_pred             ECCCCCCCHHHHHHHHHHHHHHCCCEEEEEHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCEEEC
T ss_conf             45877786656999999999959974875149999999997404416876665223454888999999987338967964


Q ss_pred             CCCHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCC
Q ss_conf             43244775411023666555401017763365899999963103322234444668878828898845389997700068
Q gi|254780999|r  405 TSNKSEISVGYGTLYGDMSGGFNPLKDLYKTQVFQLASWRNSHGITSGLGPLTEVIPPSILEKSPSAELRPHQTDQESLP  484 (562)
Q Consensus       405 t~nksE~~~Gy~T~~GD~~g~~~p~~~l~Kt~v~~la~~~n~~~~~~~~~~~~~~ip~~i~~~~psaeL~~~Q~ded~l~  484 (562)
                      ||||||+|+||||+||||+|+|+||+|||||+||+|+||+|++....   +..++||++|++|||||||+|+|+|||+||
T Consensus       394 TgnkSE~avGy~TlyGD~~g~~avi~dv~KT~V~~L~r~~n~~~~~~---~~~~vip~~ii~k~pSaEL~p~Q~ded~L~  470 (543)
T PRK13981        394 TGNKSEMAVGYATLYGDMAGGFAPIKDVYKTLVYRLCRWRNTNHPGG---PDGEVIPERIITKPPSAELRPNQTDQDSLP  470 (543)
T ss_pred             CCCHHHHHHCHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCC---CCCCCCCHHHCCCCCCCCCCCCCCCCCCCC
T ss_conf             78672787474653376556743036865999999999986536456---666756187668898977799997688789


Q ss_pred             CHHHHHHHHHHHHHCCCCHHHHH-HCCCHHHHHHHHHHHHHHHHHHHHCCCCCEECCCCCCCCCCCCCCCHHH
Q ss_conf             87889999999982799977987-1899999999999998745668738970247264537864331011024
Q gi|254780999|r  485 PYPILDDIIKRIVENEESFINND-QEYNDETVRYVEHLLYGSEYKRRQAPVGTKITAKSFGRDRLYPISNKFR  556 (562)
Q Consensus       485 ~Y~~lD~il~~~i~~~~~~~~~~-~~~~~~~v~~~~~~~~~~~~KR~~~pp~~~is~~sfg~~~r~Pi~~~~~  556 (562)
                      ||++||+||++|++++.++.++. ++|+++.|++|+++|++|||||+|+|||||||+|+||+||||||+++||
T Consensus       471 pYe~lD~iL~~~ie~~~s~~~i~~~g~~~~~v~~~~~~~~~~e~KR~q~ppg~kvs~rafg~d~R~Pi~~~~~  543 (543)
T PRK13981        471 PYDVLDAILERLVEEEQSVAEIVAAGFDRETVRRVERLLYIAEYKRRQAAPGVKITRRAFGRDRRYPITNRFR  543 (543)
T ss_pred             CHHHHHHHHHHHHHCCCCHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCCCCCEECCCCCCCCCCCCCCCCCC
T ss_conf             8789999999999769999999882899999999999999704442008995587888899887776755579


No 2  
>PRK02628 nadE NAD synthetase; Reviewed
Probab=100.00  E-value=0  Score=1122.49  Aligned_cols=557  Identities=25%  Similarity=0.369  Sum_probs=493.1

Q ss_pred             CCCC--EEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             9886--28999963883688999999999999999985998999166444799844541488999999999999999988
Q gi|254780999|r    1 MLKK--LKIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQACSSAIDTLKSDTH   78 (562)
Q Consensus         1 M~~~--mkIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~~~~l~~La~~~~   78 (562)
                      ||+.  +|||++|+++++||+++|.++|++.+++|+++||+|+||||||||||+|+|||++++|++.+.++|++|++.++
T Consensus         7 ~~~~gfirvA~a~~~~~VgD~~~N~~~I~~~i~~A~~~ga~lvvfPEL~ltGY~~eDL~l~~~fl~~~~~aL~~l~~~t~   86 (678)
T PRK02628          7 IYRHGFVRVAAATPKVRVADPAFNAERILALAREAHDDGVALAVFPELSLSGYSCGDLFLQDALLDAVEDALAALVEASA   86 (678)
T ss_pred             HHHCCEEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEECCCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHCC
T ss_conf             46577127999478987538899999999999999988998998255203389889985799999999999999998578


Q ss_pred             HCCCEEEEEEEEEECCEEEEEEEEEECCEEEEEEEEEEECCCCCCCCCCCCCCCCCCC-----------------EEE--
Q ss_conf             7697899999998889878999999699799988777623554333210037788876-----------------147--
Q gi|254780999|r   79 DGGAGIVVGFPRQDQEGVLNSVVILDAGNIIAVRDKINLPNYSEFHEKRTFISGYSND-----------------PIV--  139 (562)
Q Consensus        79 ~~~i~iivG~p~~~~~~~yNsa~vi~~G~il~~y~K~~LP~y~~FdE~r~F~~G~~~~-----------------~~~--  139 (562)
                      +.++.++||+|.+.++++|||+++|.+|+|++.|+|++||||++|||+|||+||....                 +|+  
T Consensus        87 ~~~~~viVG~P~~~~~~LyN~A~vi~~G~Ilg~~~K~~LPNY~vFdE~R~F~~g~~~~~~~i~~~g~~vPfG~dllF~~~  166 (678)
T PRK02628         87 DLDPVLVVGAPLRVRHRLYNCAVVIHRGRILGVVPKSYLPNYREFYEKRWFAPGDGIRGETIRLCGQEVPFGTDLLFEAE  166 (678)
T ss_pred             CCCEEEEEECEEECCCCEEEEEEEEECCEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCEEEEEC
T ss_conf             98859999330620895488999999999999970433879976574636777777886168347822045665256541


Q ss_pred             -ECCEEEEECCCCCCCHHHHHHHHHHHCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCC--CCCC
Q ss_conf             -6474562011111110168999997147775993155533358078887889998543370464213568876--6210
Q gi|254780999|r  140 -FRDIRLGILICEDIWKNSNICKHLKKQGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQD--ELIF  216 (562)
Q Consensus       140 -~~g~kiGv~ICeDlw~~~~~~~~la~~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d--~lvf  216 (562)
                       +++++||+.||||+|.+..|+..++.+||++|+|||||||+.+|.+.|+.+++.+|++++++++|+|.++||+  ++||
T Consensus       167 ~~~g~~~GveICEDlW~~~~P~~~la~~GA~lI~NlSASp~~~gK~~~R~~lv~~~s~~~~~~yvY~n~G~gEsttDlVF  246 (678)
T PRK02628        167 DLPGFVFGVEICEDLWVPIPPSSYAALAGATVLANLSASNITVGKADYRRLLVASQSARCLAAYVYAAAGVGESTTDLAW  246 (678)
T ss_pred             CCCCCEEEEEEEECCCCCCCHHHHHHHCCCCEEEECCCCHHHCCCHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCCEEE
T ss_conf             66883899997211488998589998749887971688803348699999999999886288569982357876760699


Q ss_pred             CCCCEEECCCCEEEEECCCCCCC--EEEEEEEECCCCCCCCC---------------------------------CCCCC
Q ss_conf             48643555898599961677763--79999983352123655---------------------------------57555
Q gi|254780999|r  217 DGASFCFDGQQQLAFQMKHFSEQ--NFMTEWHYDQQLSQWNY---------------------------------MSDDS  261 (562)
Q Consensus       217 ~G~S~I~d~~G~ii~~~~~f~e~--~~i~d~d~d~~~~~~~~---------------------------------~~~~~  261 (562)
                      ||+|+|++ +|++++++++|+++  ++++|+|++.....+..                                 .....
T Consensus       247 dG~s~I~~-nG~lla~~~~F~~~~~l~~adiDl~~l~~~R~~~~sf~~~~~~~~~~~~~~~~v~~~~~~~~~~~~l~r~v  325 (678)
T PRK02628        247 DGQTLIYE-NGELLAESERFPREEQLIIADIDLERLRQERLRNGSFDDNRRHHRNESAPFRTIPFALDPPTGDLGLRRPV  325 (678)
T ss_pred             ECCEEEEC-CCCEEEECCCCCCCCCEEEEEEEHHHHHHHHHHCCCCCCCCHHCCCCCCCCEEEEEECCCCCCCCCCCCCC
T ss_conf             68867872-88167533566667636899830777666664047622210001345566336543115664544433544


Q ss_pred             CCCCCCCCCH------HHHHHCCHHHHHHHHHHHCCCCEEEEECCCCCHHH---HHHHHHHHCCCH--HHEEEEECCCCC
Q ss_conf             5544789998------88642202035888764224540575215872368---999999841495--446797324666
Q gi|254780999|r  262 ASTMYIPLQE------EEADYNACVLSLRDYVQKNNFHKVIIGLSGGIDSA---LCAAIAVDALGK--ENVQTIMLPYKY  330 (562)
Q Consensus       262 ~~~~~~p~~~------~e~~~~Alvlgl~d~~~~~g~~~~viglSGGiDSa---l~a~la~~alg~--~~v~~~~mp~~~  330 (562)
                      ...|++|..+      .+++|+++|+||+||++|+|++++|||||||||||   ||++.|+++||.  +||+||+||+++
T Consensus       326 ~~~PfvP~~~~~~~~~~~ei~~~qv~GL~dyl~k~g~~~vViGLSGGiDSaLaLLVaa~A~d~Lg~~r~~V~~vtMPs~~  405 (678)
T PRK02628        326 ERFPFVPSDPERLDQRCYEAYNIQVSGLAQRLRATGIKKVVIGISGGLDSTLALLVAAKAFDRLGLPRKNILAYTMPGFG  405 (678)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHHHHHHCCCHHCEEEEECCCCC
T ss_conf             66888888533445549999999999999999864998189967776447999999999999848971224899778876


Q ss_pred             CCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCCCCC--CCCHHHHCCCCHHHHHHHHHHHHHCCCEECCCCCH
Q ss_conf             6522135699999972135426775899999886313234687--43101101233046677988875169544364324
Q gi|254780999|r  331 TSPQSLEDAAACAKALGCKYDVLPIHDLVNHFFSLMSQFLQEE--PSGIVAENIQSRIRGNILMALSNHSKAMLLTTSNK  408 (562)
Q Consensus       331 ~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~~~~~~~~~~~~~--~~~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~nk  408 (562)
                      ||+.|++||++||++||+++.+|+|++++.++++++++.+.+.  .+|+|+||+|||+|+++||++||++|+|||+||||
T Consensus       406 TS~~S~~dA~~La~~LGi~~~~I~I~~a~~~~~~di~~~~~~~~~~~Dvt~ENiQAR~R~~iLM~laNk~g~LVL~TGNk  485 (678)
T PRK02628        406 TTDRTKNNAVALMKALGVTAREIDIRPAALQMLKDIGHPFARGEKVYDVTFENVQAGERTQILFRLANQRGGLVIGTGDL  485 (678)
T ss_pred             CCHHHHHHHHHHHHHCCCCEEEEEHHHHHHHHHHHHCCHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEEECCCC
T ss_conf             57878999999999729977997629999999998444222378776602665203556789999745779679736851


Q ss_pred             HHHHHHHCCC-CCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHCCCCCCCCCCCC-------CCCC
Q ss_conf             4775411023-6665554010177633658999999631033222344446688788288988453899-------9770
Q gi|254780999|r  409 SEISVGYGTL-YGDMSGGFNPLKDLYKTQVFQLASWRNSHGITSGLGPLTEVIPPSILEKSPSAELRPH-------QTDQ  480 (562)
Q Consensus       409 sE~~~Gy~T~-~GD~~g~~~p~~~l~Kt~v~~la~~~n~~~~~~~~~~~~~~ip~~i~~~~psaeL~~~-------Q~de  480 (562)
                      ||+|+||||+ ||||||+|+||+|||||.||.|+||++++..   ..+....|+.+|+++||||||.|.       |+||
T Consensus       486 SElAvGy~Ty~yGD~mg~yavn~~VpKTlV~~L~r~~a~~~~---~~~~~~~vl~~Il~tpiSpEL~P~~~~~~i~QktE  562 (678)
T PRK02628        486 SELALGWCTYGVGDHMSHYNVNASVPKTLIQHLIRWVAESGQ---FDEAVSEVLLDILDTPISPELVPPDEEGEIVQKTE  562 (678)
T ss_pred             CHHHHCEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCC---CCCCHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             468648310477541246244678837899999999986244---45311256898546999914279886677887463


Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCHHHHH----------------------HCCCHHHHHHHH----HHHHHHHHHHHHCCC
Q ss_conf             006887889999999982799977987----------------------189999999999----999874566873897
Q gi|254780999|r  481 ESLPPYPILDDIIKRIVENEESFINND----------------------QEYNDETVRYVE----HLLYGSEYKRRQAPV  534 (562)
Q Consensus       481 d~l~~Y~~lD~il~~~i~~~~~~~~~~----------------------~~~~~~~v~~~~----~~~~~~~~KR~~~pp  534 (562)
                      |.|||||+|||||+++++.+.++..+.                      .+|++++|++|+    ++|++|||||+|+||
T Consensus       563 d~lgPYel~Df~Ly~~lr~g~~p~ki~~la~~af~~~~~~~~~~~~~~~~~y~~~~i~~wl~~f~~Rff~~QfKRs~~P~  642 (678)
T PRK02628        563 DIVGPYELQDFFLYYFLRYGFRPSKIAFLAWHAWKDAERGNWPGPEDKRNAYDLAEIKKWLEVFLRRFFSSQFKRSALPN  642 (678)
T ss_pred             CCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCHHHCCC
T ss_conf             55787577899999999728988999999999740222245665320024789999999999999998872304200899


Q ss_pred             CCEECC-CCCCC--CCCCCCCC---HHHHHHHC
Q ss_conf             024726-45378--64331011---02455414
Q gi|254780999|r  535 GTKITA-KSFGR--DRLYPISN---KFRDHISE  561 (562)
Q Consensus       535 ~~~is~-~sfg~--~~r~Pi~~---~~~~~~~~  561 (562)
                      ||||+. -|+++  |||||..+   -|.++|++
T Consensus       643 Gpkv~s~~slSPRgdwrmPsd~~~~~wl~el~~  675 (678)
T PRK02628        643 GPKVGSGGSLSPRGDWRAPSDASAALWLDELER  675 (678)
T ss_pred             CCEECCCCCCCCCCCCCCCCCCCHHHHHHHHHH
T ss_conf             987478866387412358764278999999996


No 3  
>KOG2303 consensus
Probab=100.00  E-value=0  Score=586.15  Aligned_cols=535  Identities=22%  Similarity=0.270  Sum_probs=433.2

Q ss_pred             CCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             98862899996388368899999999999999998599899916644479984454148899999999999999998876
Q gi|254780999|r    1 MLKKLKIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQACSSAIDTLKSDTHDG   80 (562)
Q Consensus         1 M~~~mkIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~~~~l~~La~~~~~~   80 (562)
                      |+++++||.+++|.+.-|+++|.++|++.|++|++.||.+-+-|||-+|||.|+|.|++.+..-++++.+.+|...-...
T Consensus         1 m~r~vtvAtc~lNqWAlDFegN~~rI~~Si~eAk~~gA~~RlGPELEi~GYgC~DHf~E~Dt~~HswE~l~~lv~~~~~~   80 (706)
T KOG2303           1 MGRKVTVATCTLNQWALDFEGNMQRILKSIEEAKARGARYRLGPELEITGYGCEDHFLESDTLLHSWEMLAELVESPVTQ   80 (706)
T ss_pred             CCCEEEEEEECHHHHHHHCCCCHHHHHHHHHHHHHCCCEEECCCCEEECCCCHHHHHCCCHHHHHHHHHHHHHHCCCCCC
T ss_conf             98358898841114444133329999999999996498462177335147772775224117887999999997497778


Q ss_pred             CCEEEEEEEEEECCEEEEEEEEEECCEEEEEEEEEEECCCCCCCCCCCCCCCCCCCE-----------------------
Q ss_conf             978999999988898789999996997999887776235543332100377888761-----------------------
Q gi|254780999|r   81 GAGIVVGFPRQDQEGVLNSVVILDAGNIIAVRDKINLPNYSEFHEKRTFISGYSNDP-----------------------  137 (562)
Q Consensus        81 ~i~iivG~p~~~~~~~yNsa~vi~~G~il~~y~K~~LP~y~~FdE~r~F~~G~~~~~-----------------------  137 (562)
                      ++.+.+|+|....+..|||.+++-||+|+.+.+|+-|.|.++|.|.|||+++.+...                       
T Consensus        81 ~il~diGmPv~hr~~ryNCrv~~~n~kil~IRpKm~lanDgnyRE~RwFt~W~~~~~~e~y~lP~~i~~~~~Q~tVPfGd  160 (706)
T KOG2303          81 DILCDIGMPVMHRNVRYNCRVLFLNRKILLIRPKMWLANDGNYRESRWFTPWTRPRVTEEYQLPRMIQKHTGQETVPFGD  160 (706)
T ss_pred             CEEEECCCCHHHHHHHHCCCEEECCCEEEEECCCCEECCCCCCHHHCCCCCCCCCCCCCEEECCHHHHHHHCCEEECCCC
T ss_conf             74686387122220220402120277189970420333688702100233346655430233668889870880303551


Q ss_pred             --EEECCEEEEECCCCCCCHHHHHHHHHHHCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCC-CC
Q ss_conf             --476474562011111110168999997147775993155533358078887889998543370464213568876-62
Q gi|254780999|r  138 --IVFRDIRLGILICEDIWKNSNICKHLKKQGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQD-EL  214 (562)
Q Consensus       138 --~~~~g~kiGv~ICeDlw~~~~~~~~la~~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d-~l  214 (562)
                        +.+.+.-+|..|||++|.|..|...|+++|++|++|-|+|++..+|.+.|.+++...+.+.+..++|+||-|+++ .+
T Consensus       161 avl~~~dt~ig~EiCEEL~tp~sphi~mal~GVei~~NaSGShh~LrK~~~r~~li~~at~k~GGvYlyaNqrGCDG~Rl  240 (706)
T KOG2303         161 AVLQTWDTCIGSEICEELWTPRSPHIDMALDGVEIITNASGSHHELRKLNTRVDLILNATSKCGGVYLYANQRGCDGDRL  240 (706)
T ss_pred             EEEEECCCCHHHHHHHHHCCCCCCCHHHHHCCEEEEECCCCCHHHHHHHHHHHHHHHCCHHHCCEEEEEECCCCCCCCEE
T ss_conf             13432231130888998738999633344076388851885278886420346877410331662899613677887614


Q ss_pred             CCCCCCEEECCCCEEEEECCCCC-CCE--EEEEEEECCCCCCCC-----------------------------CCCCCCC
Q ss_conf             10486435558985999616777-637--999998335212365-----------------------------5575555
Q gi|254780999|r  215 IFDGASFCFDGQQQLAFQMKHFS-EQN--FMTEWHYDQQLSQWN-----------------------------YMSDDSA  262 (562)
Q Consensus       215 vf~G~S~I~d~~G~ii~~~~~f~-e~~--~i~d~d~d~~~~~~~-----------------------------~~~~~~~  262 (562)
                      .|||.|+|+ -+|++++|..+|+ +++  .++.+|++...+-+.                             ....+..
T Consensus       241 YydGca~Ia-~NG~vlAqg~QFsl~DveVv~atvDle~vrsyR~~~~S~~~~as~~~~~~ri~v~~~ls~~~d~~~~~t~  319 (706)
T KOG2303         241 YYDGCAMIA-MNGSVLAQGSQFSLDDVEVVTATVDLEDVRSYRASISSRGLQASRAVKYPRIHVDFELSQHFDLLATPTE  319 (706)
T ss_pred             EECCHHHEE-ECCEEEEECCCCCCCCEEEEEEEECHHHHHHHHHHHCCCCCCCCCCCCCCEEEECCEECCCCCCCCCCCC
T ss_conf             763611145-4561455123033233278999851889888886650244322135776505643253013554468888


Q ss_pred             CCCCCCCCHHHHHHCCHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHH-------HHCC--CHHH-------------
Q ss_conf             54478999888642202035888764224540575215872368999999-------8414--9544-------------
Q gi|254780999|r  263 STMYIPLQEEEADYNACVLSLRDYVQKNNFHKVIIGLSGGIDSALCAAIA-------VDAL--GKEN-------------  320 (562)
Q Consensus       263 ~~~~~p~~~~e~~~~Alvlgl~d~~~~~g~~~~viglSGGiDSal~a~la-------~~al--g~~~-------------  320 (562)
                      .....-.+++|++--.-...||||++++|..|+++.||||+||+-+|+|.       ++|+  |.|.             
T Consensus       320 p~e~~~hsPeeEia~GPacwlWdyLRRs~~aGfflPLSGG~DSsatA~iV~sMC~~V~~av~~g~eqv~~Dvr~i~~~~~  399 (706)
T KOG2303         320 PIEWKYHSPEEEIALGPACWLWDYLRRSGQAGFFLPLSGGVDSSATAAIVYSMCRQVCKAVQSGDEQVLADVRRIVNDIS  399 (706)
T ss_pred             CCCCCCCCCHHHHCCCCHHHHHHHHHHCCCCCEEEECCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCC
T ss_conf             75545579689860484488999998638874477647886405899999999999999997473654320687714888


Q ss_pred             -------------EEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCCC----------CCCCCH
Q ss_conf             -------------679732466665221356999999721354267758999998863132346----------874310
Q gi|254780999|r  321 -------------VQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHDLVNHFFSLMSQFLQ----------EEPSGI  377 (562)
Q Consensus       321 -------------v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~~~~~~~~~~~----------~~~~~~  377 (562)
                                   .+...|.+.+||++|.+.|++||.++|..|..+.|+.+|.+..+.+.-..+          ....++
T Consensus       400 ~~p~dp~~l~nri~~TcyMgSenSS~ETr~rak~La~~igs~H~~i~iD~~vsavl~lF~~vtGk~P~f~~~ggsn~enl  479 (706)
T KOG2303         400 YTPTDPADLCNRILYTCYMGSENSSKETRRRAKELANQIGSYHIDLNIDTAVSAVLSLFNLVTGKTPRFKSHGGSNRENL  479 (706)
T ss_pred             CCCCCHHHHHHHHHHHHEECCCCCCHHHHHHHHHHHHHHCCEEEEEEEHHHHHHHHHHHHHHHCCCCCEECCCCCHHHHH
T ss_conf             68889899987666542004656648899999999986351024155059999999999887478752115888606667


Q ss_pred             HHHCCCCHHHHHHHHHHHHHC--------CCEECCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCC
Q ss_conf             110123304667798887516--------954436432447754110236665554010177633658999999631033
Q gi|254780999|r  378 VAENIQSRIRGNILMALSNHS--------KAMLLTTSNKSEISVGYGTLYGDMSGGFNPLKDLYKTQVFQLASWRNSHGI  449 (562)
Q Consensus       378 ~~eN~qaR~R~~~L~~~an~~--------~~lvl~t~nksE~~~Gy~T~~GD~~g~~~p~~~l~Kt~v~~la~~~n~~~~  449 (562)
                      +++|||||+||++-|-+|...        |.||||+.|..|...||-|+|.+++.|++|||++.||+++.+.+|.-+++ 
T Consensus       480 aLQNiQARiRMvLaylfAqL~~wvr~~~GglLVLGSaNVDE~LrGYLTKYDCSSADINPIGgISK~DLr~Fl~~a~~~~-  558 (706)
T KOG2303         480 ALQNIQARIRMVLAYLFAQLLLWVRGRPGGLLVLGSANVDESLRGYLTKYDCSSADINPIGGISKTDLRRFLQYAKEKF-  558 (706)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHC-
T ss_conf             6777999999999999998778750787736997247603576511101455624667766724878999999999863-


Q ss_pred             CCCCCCCCCCCCHHHCCCCCCCCCCC------CCCCCCCCC-CHHHHHHHHHHH-HHCCCCH---HHH----HHCCCH--
Q ss_conf             22234444668878828898845389------997700068-878899999999-8279997---798----718999--
Q gi|254780999|r  450 TSGLGPLTEVIPPSILEKSPSAELRP------HQTDQESLP-PYPILDDIIKRI-VENEESF---INN----DQEYND--  512 (562)
Q Consensus       450 ~~~~~~~~~~ip~~i~~~~psaeL~~------~Q~ded~l~-~Y~~lD~il~~~-i~~~~~~---~~~----~~~~~~--  512 (562)
                             ..++.+.|++.||||||.|      .|+||.++| +|+.|--+=+.- +..-.+.   ...    ...+++  
T Consensus       559 -------~lp~L~~il~a~pTAELePl~~g~~~QtDE~dmGmTY~ELsv~GrlRK~~~cGPysMF~kLl~~W~~klsp~q  631 (706)
T KOG2303         559 -------GLPALQSILDAPPTAELEPLTDGDYSQTDEADMGMTYAELSVFGRLRKVSKCGPYSMFCKLLHQWGDKLSPRQ  631 (706)
T ss_pred             -------CCHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCCCHHH
T ss_conf             -------9568999864998302552556762334446417669998776742043366858999999998567589899


Q ss_pred             --HHHHHHHHHHHHHHHHHHHCCCCCEECCCCCCCC
Q ss_conf             --9999999999874566873897024726453786
Q gi|254780999|r  513 --ETVRYVEHLLYGSEYKRRQAPVGTKITAKSFGRD  546 (562)
Q Consensus       513 --~~v~~~~~~~~~~~~KR~~~pp~~~is~~sfg~~  546 (562)
                        |.|++|+..+..|.||--  .-.|.+.+-++++|
T Consensus       632 vaEKVk~FF~~Y~iNRHKmT--vlTPsyHAE~Yspe  665 (706)
T KOG2303         632 VAEKVKRFFSYYSINRHKMT--VLTPSYHAENYSPE  665 (706)
T ss_pred             HHHHHHHHHHHHEECCCCCE--ECCCCCCCCCCCCC
T ss_conf             99999888754122240111--12643002337976


No 4  
>PRK13980 NAD synthetase; Provisional
Probab=100.00  E-value=0  Score=583.63  Aligned_cols=255  Identities=39%  Similarity=0.574  Sum_probs=244.5

Q ss_pred             HHHHHHCCHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCC
Q ss_conf             88864220203588876422454057521587236899999984149544679732466665221356999999721354
Q gi|254780999|r  271 EEEADYNACVLSLRDYVQKNNFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKY  350 (562)
Q Consensus       271 ~~e~~~~Alvlgl~d~~~~~g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~  350 (562)
                      +.+.+.+.++.+||||++|+|++++||||||||||||||+||++|+|++||+|++||+++||+.|.+||+.+|++||+++
T Consensus         7 d~~~~~~~iv~~lrdy~~~~g~kg~VlGlSGGIDSavva~La~~Alg~~~v~~v~mP~~~ss~~s~~dA~~la~~lgi~~   86 (264)
T PRK13980          7 DYEKVREIIVDFIREEVEKAGFKGVVLGLSGGIDSAVVAYLAVKALGKENVLALLMPYRVSPPEDLEDALLVAERLGIEY   86 (264)
T ss_pred             CHHHHHHHHHHHHHHHHHHHCCCEEEEECCCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCE
T ss_conf             89999999999999999980998099979868889999999998549660689989899998878999999999869984


Q ss_pred             CCCCHHHHHHHHHHHHCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHCCCEECCCCCHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             26775899999886313234687431011012330466779888751695443643244775411023666555401017
Q gi|254780999|r  351 DVLPIHDLVNHFFSLMSQFLQEEPSGIVAENIQSRIRGNILMALSNHSKAMLLTTSNKSEISVGYGTLYGDMSGGFNPLK  430 (562)
Q Consensus       351 ~~i~I~~~~~~~~~~~~~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~nksE~~~Gy~T~~GD~~g~~~p~~  430 (562)
                      .+++|+++++++.+.+..     ..+++.+|+|||+||++||++||++|+||+|||||||+++||||+|||++|+++||+
T Consensus        87 ~~i~I~~~~~~~~~~~~~-----~~~~~~~NiqaR~Rm~~Ly~~An~~~~lVlgTgNksE~~~Gy~TkyGD~~~d~~Pi~  161 (264)
T PRK13980         87 KVIEITPIVDAFFSAVPD-----ADRLRRGNIMARTRMVLLYDYANRDNRLVLGTSNKSELLLGYFTKYGDGAVDINPIG  161 (264)
T ss_pred             EEEECHHHHHHHHHHCCC-----CCHHHHHHHHHHHHHHHHHHHHHHCCCEEECCCCHHHHHHHHCCCCCCCCCCHHHHC
T ss_conf             998279999999986310-----006688875898999999998643397765588674798721001687665624525


Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCC-CHHHHHHHHHHHHHCCCCHHHHHH-
Q ss_conf             763365899999963103322234444668878828898845389997700068-878899999999827999779871-
Q gi|254780999|r  431 DLYKTQVFQLASWRNSHGITSGLGPLTEVIPPSILEKSPSAELRPHQTDQESLP-PYPILDDIIKRIVENEESFINNDQ-  508 (562)
Q Consensus       431 ~l~Kt~v~~la~~~n~~~~~~~~~~~~~~ip~~i~~~~psaeL~~~Q~ded~l~-~Y~~lD~il~~~i~~~~~~~~~~~-  508 (562)
                      |||||+||+||+|+|              ||++|++|||||||||+|+|||+|| ||++||.||+++++++.+..++.. 
T Consensus       162 dL~Kt~V~~La~~l~--------------vP~~Ii~k~PSa~L~~~Q~DE~~LG~~Y~~lD~iL~~~ie~~~~~~~i~~~  227 (264)
T PRK13980        162 DLYKTQVRELARHLG--------------VPEDIIEKPPSADLWEGQTDEDELGFSYEEIDEILYALFDKKMPREEILAQ  227 (264)
T ss_pred             CCCHHHHHHHHHHHC--------------CCHHHEECCCCCCCCCCCCCHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHH
T ss_conf             873999999999939--------------966440369997767999987771999999999999999769999999987


Q ss_pred             -CCCHHHHHHHHHHHHHHHHHHHHCCCCCEECCCCCCC
Q ss_conf             -8999999999999987456687389702472645378
Q gi|254780999|r  509 -EYNDETVRYVEHLLYGSEYKRRQAPVGTKITAKSFGR  545 (562)
Q Consensus       509 -~~~~~~v~~~~~~~~~~~~KR~~~pp~~~is~~sfg~  545 (562)
                       +++++.|++|.+++.+|||||+ +||+||||.|+||.
T Consensus       228 ~g~~~~~v~~i~~~~~~se~KR~-~Pp~~kis~~~fg~  264 (264)
T PRK13980        228 LGIDEELVDRVRRRVQRSQHKRR-MPPIAKISGRTIGI  264 (264)
T ss_pred             CCCCHHHHHHHHHHHHHCCCCCC-CCCCCEECCCCCCC
T ss_conf             19899999999999985402337-99943151776789


No 5  
>cd00553 NAD_synthase NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD+ occurs via an NAD-adenylate intermediate and requires ATP and Mg2+. The intemediate is subsequently cleaved into NAD+ and AMP. In many prokaryotes, such as E. coli , NAD synthetase consists of a single domain and is strictly ammonia dependent. In contrast, eukaryotes and other prokaryotes have an additional N-terminal amidohydrolase domain that prefer glutamine, Interestingly, NAD+ synthases in these prokaryotes, can also utilize ammonia as an amide source .
Probab=100.00  E-value=0  Score=542.56  Aligned_cols=245  Identities=43%  Similarity=0.589  Sum_probs=237.8

Q ss_pred             HHHHHHCCHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCC
Q ss_conf             88864220203588876422454057521587236899999984149544679732466665221356999999721354
Q gi|254780999|r  271 EEEADYNACVLSLRDYVQKNNFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKY  350 (562)
Q Consensus       271 ~~e~~~~Alvlgl~d~~~~~g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~  350 (562)
                      +.++++++++.||+||++|+|++++||||||||||||||+||++|+|++||+|++||+++||+++.++|+.+|++||+++
T Consensus         2 ~~~~~~~~lv~~l~~y~~~~g~~~~viGlSGGIDSav~a~La~~Alg~~~v~~v~mP~~~ss~~s~~~A~~la~~lgi~~   81 (248)
T cd00553           2 DLEEIINALVLFLRDYLRKSGFKGVVLGLSGGIDSALVAALAVRALGRENVLALFMPSRYSSEETREDAKELAEALGIEH   81 (248)
T ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCHHHHHHHHHHHHHCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHCCCE
T ss_conf             68999999999999999981999199958888999999999999728875999889997898758999999999958916


Q ss_pred             CCCCHHHHHHHHHHHHCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHCCCEECCCCCHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             26775899999886313234687431011012330466779888751695443643244775411023666555401017
Q gi|254780999|r  351 DVLPIHDLVNHFFSLMSQFLQEEPSGIVAENIQSRIRGNILMALSNHSKAMLLTTSNKSEISVGYGTLYGDMSGGFNPLK  430 (562)
Q Consensus       351 ~~i~I~~~~~~~~~~~~~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~nksE~~~Gy~T~~GD~~g~~~p~~  430 (562)
                      .+++|+++++++...+.+..+....+++.+|+|||+||.+||++||++|+||+|||||||.++||||+|||++|+++||+
T Consensus        82 ~~i~I~~~~~~~~~~~~~~~~~~~~~~~~~NiqaRlRm~~Ly~~An~~~~lVlgTgNksE~~~Gy~TkyGD~~~d~~Pi~  161 (248)
T cd00553          82 VNIDIDPAVEAFLALLGESGGSELEDLALGNIQARLRMVILYALANKLGGLVLGTGNKSELLLGYFTKYGDGAADINPIG  161 (248)
T ss_pred             EEECHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCEEECCCCHHHHHHCCCEECCCCCCCCCCCC
T ss_conf             87155999999999864404870556787424878889999999974499896287460787572100078775822136


Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCC-CHHHHHHHHHHHHHCCCCHHHHH-H
Q ss_conf             763365899999963103322234444668878828898845389997700068-87889999999982799977987-1
Q gi|254780999|r  431 DLYKTQVFQLASWRNSHGITSGLGPLTEVIPPSILEKSPSAELRPHQTDQESLP-PYPILDDIIKRIVENEESFINND-Q  508 (562)
Q Consensus       431 ~l~Kt~v~~la~~~n~~~~~~~~~~~~~~ip~~i~~~~psaeL~~~Q~ded~l~-~Y~~lD~il~~~i~~~~~~~~~~-~  508 (562)
                      |||||+||+||+|+|              ||++|++|||||||||+|+|||+|| ||+.||.||+.+++.+.+..++. .
T Consensus       162 ~L~Kt~V~~la~~l~--------------vp~~Ii~k~PSaeL~~~Q~DE~~lg~~Y~~lD~~L~~~~~~~~~~~~~~~~  227 (248)
T cd00553         162 DLYKTQVRELARYLG--------------VPESIIDKPPSAELWPGQTDEDELGMPYEELDQFLYLRLEGGLGPEEILAP  227 (248)
T ss_pred             CCCHHHHHHHHHHHC--------------CHHHHHCCCCCCCCCCCCCCHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHC
T ss_conf             884999999999968--------------889873479996667999898775999999999999999659998999868


Q ss_pred             CCCHHHHHHHHHHHHHHHHHH
Q ss_conf             899999999999998745668
Q gi|254780999|r  509 EYNDETVRYVEHLLYGSEYKR  529 (562)
Q Consensus       509 ~~~~~~v~~~~~~~~~~~~KR  529 (562)
                      ++.++.|++|.+++.+|||||
T Consensus       228 ~~~~~~v~~i~~~~~~~~hKR  248 (248)
T cd00553         228 GIIEEVVKRVFRLYKKNEHKR  248 (248)
T ss_pred             CCCHHHHHHHHHHHHHCCCCC
T ss_conf             999999999999999717072


No 6  
>pfam02540 NAD_synthase NAD synthase. NAD synthase (EC:6.3.5.1) is involved in the de novo synthesis of NAD and is induced by stress factors such as heat shock and glucose limitation.
Probab=100.00  E-value=0  Score=526.06  Aligned_cols=238  Identities=43%  Similarity=0.610  Sum_probs=228.3

Q ss_pred             CCHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHH
Q ss_conf             20203588876422454057521587236899999984149544679732466665221356999999721354267758
Q gi|254780999|r  277 NACVLSLRDYVQKNNFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIH  356 (562)
Q Consensus       277 ~Alvlgl~d~~~~~g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~  356 (562)
                      +.++-+|+||++|+|++++||||||||||||+|+||++|+|++||++++||+++|++.+.++|+.+|++||+++.+++|+
T Consensus         3 ~~i~~~l~dyv~k~g~~gvViGlSGGIDSav~a~La~~AlG~~~v~~v~mP~~~ss~~s~~~A~~la~~lgi~~~~i~I~   82 (243)
T pfam02540         3 ERLVDFLRDYVQKSGAKGVVLGLSGGIDSAVVAYLAVKALGKENVLALIMPSINSSEEDVQDALALAENLGINYKTIDIK   82 (243)
T ss_pred             HHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHHCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHCCCEEEEECH
T ss_conf             79999999999981999199978887999999999999559742899964777898889999999999968926999888


Q ss_pred             HHHHHHHHHHCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHCCCEECCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCHHH
Q ss_conf             99999886313234687431011012330466779888751695443643244775411023666555401017763365
Q gi|254780999|r  357 DLVNHFFSLMSQFLQEEPSGIVAENIQSRIRGNILMALSNHSKAMLLTTSNKSEISVGYGTLYGDMSGGFNPLKDLYKTQ  436 (562)
Q Consensus       357 ~~~~~~~~~~~~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~nksE~~~Gy~T~~GD~~g~~~p~~~l~Kt~  436 (562)
                      ++++++...+.+    ...+++.+|+|||+||++||++||++|+||+|||||||+++||+|+|||++++++||+|||||+
T Consensus        83 ~~~~~~~~~~~~----~~~~~a~~Ni~aR~Rm~~ly~~A~~~~~lVlgT~NksE~~~Gy~TkyGD~~~di~Pi~dL~Kte  158 (243)
T pfam02540        83 PIVRAFSQLFQP----AKDDLAKGNLKARIRMIILYAHANKFNRLVLGTGNKSELALGYFTKYGDGACDIAPIGDLYKTQ  158 (243)
T ss_pred             HHHHHHHHHHCC----CHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCEEEEEEEECCCCCCCHHHHCCCCHHH
T ss_conf             999999988532----0137787455788889999986233791898168704200543231277765515416881899


Q ss_pred             HHHHHHHHHHCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCC-CHHHHHHHHHHHHHCCCCHHHHHH--CCCHH
Q ss_conf             899999963103322234444668878828898845389997700068-878899999999827999779871--89999
Q gi|254780999|r  437 VFQLASWRNSHGITSGLGPLTEVIPPSILEKSPSAELRPHQTDQESLP-PYPILDDIIKRIVENEESFINNDQ--EYNDE  513 (562)
Q Consensus       437 v~~la~~~n~~~~~~~~~~~~~~ip~~i~~~~psaeL~~~Q~ded~l~-~Y~~lD~il~~~i~~~~~~~~~~~--~~~~~  513 (562)
                      ||+||+|+|              ||++|++|+|||||||+|+||++|| ||+.||.||+.+++++.++.++.+  +++++
T Consensus       159 V~~la~~l~--------------vP~~ii~k~Psa~L~~~qtDE~~lg~~Y~~lD~~l~~~~~~~~~~~~i~~~~g~~~~  224 (243)
T pfam02540       159 VYELAKRLN--------------VPERIIKKPPSADLWPGQTDEDELGITYDELDQILKGLIEKKLSPEEIIGDLGLPAE  224 (243)
T ss_pred             HHHHHHHHC--------------CCHHHHHCCCCCCCCCCCCCHHCCCCCHHHHHHHHHHHHHCCCCHHHHHHHCCCCHH
T ss_conf             999999949--------------888898379998888899861003899999999999998759999999987298999


Q ss_pred             HHHHHHHHHHHHHHHHHHCC
Q ss_conf             99999999987456687389
Q gi|254780999|r  514 TVRYVEHLLYGSEYKRRQAP  533 (562)
Q Consensus       514 ~v~~~~~~~~~~~~KR~~~p  533 (562)
                      .|++|.+++++|||||+ +|
T Consensus       225 ~v~~i~~~~~~~e~KR~-~P  243 (243)
T pfam02540       225 VVERVENLIQKSEHKRR-LP  243 (243)
T ss_pred             HHHHHHHHHHHHHHCCC-CC
T ss_conf             99999999997405529-97


No 7  
>PTZ00323 NAD+ synthase; Provisional
Probab=100.00  E-value=0  Score=513.89  Aligned_cols=248  Identities=23%  Similarity=0.282  Sum_probs=227.6

Q ss_pred             CHHHHHHCCHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCCCHHHE-----EEEECCCCCCCCCCHHHHHHHHH
Q ss_conf             9888642202035888764224540575215872368999999841495446-----79732466665221356999999
Q gi|254780999|r  270 QEEEADYNACVLSLRDYVQKNNFHKVIIGLSGGIDSALCAAIAVDALGKENV-----QTIMLPYKYTSPQSLEDAAACAK  344 (562)
Q Consensus       270 ~~~e~~~~Alvlgl~d~~~~~g~~~~viglSGGiDSal~a~la~~alg~~~v-----~~~~mp~~~~s~~s~~~a~~la~  344 (562)
                      ++++++ +.-|-.||||++|+||+++|||||||||||||++||++|||++|+     .+++||. ++|+.+.++|+.+++
T Consensus        25 dp~~eI-~~rv~fLrDYv~k~GfkgvVLGlSGGIDSAl~aaLA~~Alg~env~~~r~~gv~~P~-~ss~~s~~~a~~~a~  102 (294)
T PTZ00323         25 DPVAWI-EMKCAKLNEYMRRCGLKACVTSVSGGIDSAVVLALCSRAMRMPNSPIVRNVGICQPI-CSSAWALARGRENIA  102 (294)
T ss_pred             CHHHHH-HHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCEEEEEECCC-CCCHHHHHHHHHHHH
T ss_conf             989999-999999999999829985999586369999999999998655457530356776785-457665987999999


Q ss_pred             HHCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHCCCCHHHHHHHH---HHHHHCC--CEECCCCCHHH-HHHHHCCC
Q ss_conf             721354267758999998863132346874310110123304667798---8875169--54436432447-75411023
Q gi|254780999|r  345 ALGCKYDVLPIHDLVNHFFSLMSQFLQEEPSGIVAENIQSRIRGNILM---ALSNHSK--AMLLTTSNKSE-ISVGYGTL  418 (562)
Q Consensus       345 ~lg~~~~~i~I~~~~~~~~~~~~~~~~~~~~~~~~eN~qaR~R~~~L~---~~an~~~--~lvl~t~nksE-~~~Gy~T~  418 (562)
                      ++|+...+++|.+++..+...+...++....|++.||+|||+||.++|   +++|+.|  +|||||||||| +++||||+
T Consensus       103 ~~g~~~~~~~~~~i~~~~~~~~~~~~g~~~~d~~~gNlqAR~Rm~~~~~la~l~n~~g~~~LVlgTgNkSE~~~vGY~Tk  182 (294)
T PTZ00323        103 ACGATEVVVDQTELHKQLSTLVETAVGIDGGDFARGQLRSYMRTPVGYYVAQLLSQEGTPAIVMGTGNMDEDGYLGYFCK  182 (294)
T ss_pred             HCCCCEEECCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCHHCEEEEE
T ss_conf             76885232360777999999999860886104678899999988899999998600488707862897554212004420


Q ss_pred             CCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCC-CHHHHHHHHHHHH
Q ss_conf             666555401017763365899999963103322234444668878828898845389997700068-8788999999998
Q gi|254780999|r  419 YGDMSGGFNPLKDLYKTQVFQLASWRNSHGITSGLGPLTEVIPPSILEKSPSAELRPHQTDQESLP-PYPILDDIIKRIV  497 (562)
Q Consensus       419 ~GD~~g~~~p~~~l~Kt~v~~la~~~n~~~~~~~~~~~~~~ip~~i~~~~psaeL~~~Q~ded~l~-~Y~~lD~il~~~i  497 (562)
                      |||++|||+||+|||||+||+||+|+|              ||++|++|||||||||+|+|||+|| ||++||.+|+.|+
T Consensus       183 YGD~agd~apI~DL~Kt~V~~Lar~Lg--------------iPe~ii~K~PSAeL~~gQ~DedsLg~~Yd~LD~~l~~yv  248 (294)
T PTZ00323        183 AGDGVVDVQLISDLHKSEVFLVAEELG--------------VPENTLQAAPSADLWEGQTDEEELGFPYDFVELYTGWYL  248 (294)
T ss_pred             ECCCCCCCHHHCCCCHHHHHHHHHHCC--------------CCHHHHCCCCCCCCCCCCCCHHHCCCCHHHHHHHHHHHH
T ss_conf             347754703304683999999999809--------------989993089897667899708775999899999999998


Q ss_pred             HCCCCHHHH-HHCCCHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             279997798-718999999999999987456687389
Q gi|254780999|r  498 ENEESFINN-DQEYNDETVRYVEHLLYGSEYKRRQAP  533 (562)
Q Consensus       498 ~~~~~~~~~-~~~~~~~~v~~~~~~~~~~~~KR~~~p  533 (562)
                      +.+.+..++ .+||++|.|++|.+++..+||||||..
T Consensus       249 e~~~~~~~i~~~g~~~e~v~~v~rlv~~~Eykrrq~a  285 (294)
T PTZ00323        249 KLSETERQSFLHSLSSEARQQFERYVAACELTHRRNA  285 (294)
T ss_pred             HCCCCHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             6465698999834999999999999999999998752


No 8  
>COG0171 NadE NAD synthase [Coenzyme metabolism]
Probab=100.00  E-value=0  Score=504.49  Aligned_cols=253  Identities=46%  Similarity=0.680  Sum_probs=236.7

Q ss_pred             CHHHHHHCCHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCCC----HHHEEEEECCCCCCCCCCHHHHHHHHHH
Q ss_conf             988864220203588876422454057521587236899999984149----5446797324666652213569999997
Q gi|254780999|r  270 QEEEADYNACVLSLRDYVQKNNFHKVIIGLSGGIDSALCAAIAVDALG----KENVQTIMLPYKYTSPQSLEDAAACAKA  345 (562)
Q Consensus       270 ~~~e~~~~Alvlgl~d~~~~~g~~~~viglSGGiDSal~a~la~~alg----~~~v~~~~mp~~~~s~~s~~~a~~la~~  345 (562)
                      .+.++.+++++.+|++|++++|++++|+|||||||||++++||++|+|    ++||++++||++++++.+.+||+.+++.
T Consensus         3 ~d~~~~~~~~v~fl~~~l~~~~~k~~VlGiSGGiDSa~~~~La~~A~~~~~~~~~~~av~mP~~~~~~~~~~da~~~~~~   82 (268)
T COG0171           3 IDLEEEINRLVDFLRDYLKKAGFKGVVLGLSGGIDSALVLALAVRALGKGDSKENVLAVRLPYGYTVQADEEDAQDLAEA   82 (268)
T ss_pred             CCHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCHHHHHHHHHHHHHHCCCCCHHHEEEEECCCCCCCCCCHHHHHHHHHH
T ss_conf             67999999999999999997399986997666819999999999985656512432668678877653479999999998


Q ss_pred             HCCCCCCCCHHHHHHHHHHHHCCCCCC-CCCCHHHHCCCCHHHHHHHHHHHHHCCCEECCCCCHHHHHHHHCCCCCCCCC
Q ss_conf             213542677589999988631323468-7431011012330466779888751695443643244775411023666555
Q gi|254780999|r  346 LGCKYDVLPIHDLVNHFFSLMSQFLQE-EPSGIVAENIQSRIRGNILMALSNHSKAMLLTTSNKSEISVGYGTLYGDMSG  424 (562)
Q Consensus       346 lg~~~~~i~I~~~~~~~~~~~~~~~~~-~~~~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~nksE~~~Gy~T~~GD~~g  424 (562)
                      ||+.+.+++|.+++.+|...+.+.+.+ ...++++||+|||+||.+||++||++|+||+||||+||+++||||+|||+++
T Consensus        83 lg~~~~~i~I~~~v~~~~~~~~~~~~~~~~~~~~~~NikaR~Rm~~lY~~An~~~~lVlGTgn~sE~~~Gy~TkyGDg~~  162 (268)
T COG0171          83 LGIDYKEINIKPAVDAFLKKLLKLFLGIYLEDLALGNIKARLRMVILYAIANKLGGLVLGTGNKSELALGYFTKYGDGAV  162 (268)
T ss_pred             HCCCEEEEECHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCEEECCCCHHHHHCCCEECCCCCCC
T ss_conf             29966997528889998876666523442112777645099999999999855597897588487786074432067644


Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHCCCCCCCCCCCC---CCCCCCCC-CHHHHHHHHHHHHHCC
Q ss_conf             4010177633658999999631033222344446688788288988453899---97700068-8788999999998279
Q gi|254780999|r  425 GFNPLKDLYKTQVFQLASWRNSHGITSGLGPLTEVIPPSILEKSPSAELRPH---QTDQESLP-PYPILDDIIKRIVENE  500 (562)
Q Consensus       425 ~~~p~~~l~Kt~v~~la~~~n~~~~~~~~~~~~~~ip~~i~~~~psaeL~~~---Q~ded~l~-~Y~~lD~il~~~i~~~  500 (562)
                      ||+||++||||+||+|+++++              ||++|++|||||||||+   |+||+++| ||+.+|.+|+.++++ 
T Consensus       163 d~~Pi~~L~KtqV~~La~~l~--------------ipe~I~~k~PTAeL~~~~~~q~DE~~lg~~Y~~lD~~L~~~~~~-  227 (268)
T COG0171         163 DINPIADLYKTQVYALARHLG--------------IPEEILKKPPTADLWPDEPGQTDEAELGMPYEELDDILYGLLEN-  227 (268)
T ss_pred             CHHHHCCCCHHHHHHHHHHCC--------------CCHHHHCCCCCCCCCCCCCCCCCHHHHCCCHHHHHHHHHHHHHH-
T ss_conf             705414875899999998739--------------99999639999112479888877777499999999999976531-


Q ss_pred             CCHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCEEC---CCCCC
Q ss_conf             997798718999999999999987456687389702472---64537
Q gi|254780999|r  501 ESFINNDQEYNDETVRYVEHLLYGSEYKRRQAPVGTKIT---AKSFG  544 (562)
Q Consensus       501 ~~~~~~~~~~~~~~v~~~~~~~~~~~~KR~~~pp~~~is---~~sfg  544 (562)
                            ..+++++.++++.+++..+||||+ +|++|+++   .++|+
T Consensus       228 ------~~~i~~~~~~~i~~~~~~~~~KR~-~p~~~~~~~~~~~~~~  267 (268)
T COG0171         228 ------GQEISEELVKKIERLYKKSEHKRR-LPIGPKITPWKFLSFG  267 (268)
T ss_pred             ------HCCCCHHHHHHHHHHHHHHHHHHC-CCCCCCCCCCCCCCCC
T ss_conf             ------112688999999999987776323-9998675422135668


No 9  
>PRK00768 nadE NAD synthetase; Reviewed
Probab=100.00  E-value=0  Score=472.46  Aligned_cols=235  Identities=26%  Similarity=0.350  Sum_probs=206.0

Q ss_pred             HHHHCCHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCC---CHH------HEEEEECCCCCCCCCCHHHHHHHH
Q ss_conf             86422020358887642245405752158723689999998414---954------467973246666522135699999
Q gi|254780999|r  273 EADYNACVLSLRDYVQKNNFHKVIIGLSGGIDSALCAAIAVDAL---GKE------NVQTIMLPYKYTSPQSLEDAAACA  343 (562)
Q Consensus       273 e~~~~Alvlgl~d~~~~~g~~~~viglSGGiDSal~a~la~~al---g~~------~v~~~~mp~~~~s~~s~~~a~~la  343 (562)
                      ++..+..|-+||||++++|++|+||||||||||||||+||+.|+   +++      +++++.||  ++++.+.+||+..+
T Consensus        21 ~~~i~~iv~~Lrdyv~k~g~~g~VlGLSGGIDSAvta~L~~~Av~al~~~~~~~~~~~iav~mP--~~~~~~~~da~~~~   98 (274)
T PRK00768         21 EEEIRRRVDFLKDYLKKSGLKTLVLGISGGQDSTLAGRLAQLAVEELRAETGDASYQFIAVRLP--YGVQADEDDAQDAL   98 (274)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEECC--CCCCCCHHHHHHHH
T ss_conf             9999999999999999849983998188576889999999999998653047664226897689--88657999999998


Q ss_pred             HHHCCC-CCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHCCCEECCCCCHHHHHHHHCCCCCCC
Q ss_conf             972135-4267758999998863132346874310110123304667798887516954436432447754110236665
Q gi|254780999|r  344 KALGCK-YDVLPIHDLVNHFFSLMSQFLQEEPSGIVAENIQSRIRGNILMALSNHSKAMLLTTSNKSEISVGYGTLYGDM  422 (562)
Q Consensus       344 ~~lg~~-~~~i~I~~~~~~~~~~~~~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~nksE~~~Gy~T~~GD~  422 (562)
                      +.++.. ..+++|.++++++...+.... ....+++.+|+|||+||++||++||++|+||+|||||||.++||+|+|||+
T Consensus        99 ~~i~~~~~~~i~I~~~~d~~~~~l~~~~-~~~~d~~~~NiqaRiRM~~LY~~An~~g~LVlGTgNksE~~vGYfTkYGDg  177 (274)
T PRK00768         99 AFIQPDEVLTVNIKPAVDASVAALRAAG-IELSDFVKGNIKARERMIAQYAIAGARGGLVVGTDHAAEAITGFFTKFGDG  177 (274)
T ss_pred             HHCCCCEEEEECCCHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHCCCCEEECCCCHHHHHCCCEEEECCC
T ss_conf             5227660488617099999999998727-751167888857989999999998278998864886404440850102677


Q ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHCCCCCCCCCC---CCCCCCCCCC-CHHHHHHHHHHHHH
Q ss_conf             5540101776336589999996310332223444466887882889884538---9997700068-87889999999982
Q gi|254780999|r  423 SGGFNPLKDLYKTQVFQLASWRNSHGITSGLGPLTEVIPPSILEKSPSAELR---PHQTDQESLP-PYPILDDIIKRIVE  498 (562)
Q Consensus       423 ~g~~~p~~~l~Kt~v~~la~~~n~~~~~~~~~~~~~~ip~~i~~~~psaeL~---~~Q~ded~l~-~Y~~lD~il~~~i~  498 (562)
                      ++|++||+|||||+||+||+|+|              ||++|++|||||+||   |+|+|||+|| +|+.||.+|+    
T Consensus       178 ~~Di~PI~dL~KteV~~lA~~Lg--------------vP~~Ii~k~PSA~Lwe~~pgQtDE~elG~~Y~~lD~~L~----  239 (274)
T PRK00768        178 GADLLPLFGLNKRQGRALLAALG--------------APEHLYEKVPTADLEDDRPGLPDEVALGVTYDQIDDYLE----  239 (274)
T ss_pred             CCCHHHHCCCCHHHHHHHHHHHC--------------CCHHHHCCCCCCCCCCCCCCCCCHHHHCCCHHHHHHHHC----
T ss_conf             51737632561999999999959--------------799983689899754458999777775949999999983----


Q ss_pred             CCCCHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCE
Q ss_conf             799977987189999999999999874566873897024
Q gi|254780999|r  499 NEESFINNDQEYNDETVRYVEHLLYGSEYKRRQAPVGTK  537 (562)
Q Consensus       499 ~~~~~~~~~~~~~~~~v~~~~~~~~~~~~KR~~~pp~~~  537 (562)
                              .++++++.+++|.+++.+|+||| ++||.|-
T Consensus       240 --------g~~~~~~~~~~i~~~~~~s~hKR-~~P~~~~  269 (274)
T PRK00768        240 --------GKPVSEEAAETIENWYLKTQHKR-HLPITIF  269 (274)
T ss_pred             --------CCCCCHHHHHHHHHHHHCCCCCC-CCCCCCC
T ss_conf             --------89999999999999997254565-7989964


No 10 
>cd07570 GAT_Gln-NAD-synth Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases). Glutamine-dependent NAD synthetases are bifunctional enzymes, which have an N-terminal GAT domain and a C-terminal NAD+ synthetase domain. The GAT domain is a glutaminase (EC 3.5.1.2) which hydrolyses L-glutamine to L-glutamate and ammonia. The ammonia is used by the NAD+ synthetase domain in the ATP-dependent amidation of nicotinic acid adenine dinucleotide. Glutamine aminotransferases are categorized depending on their active site residues into different unrelated classes. This class of GAT domain belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this sub
Probab=100.00  E-value=0  Score=458.34  Aligned_cols=247  Identities=40%  Similarity=0.711  Sum_probs=235.4

Q ss_pred             EEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCEEE
Q ss_conf             89999638836889999999999999999859989991664447998445414889999999999999999887697899
Q gi|254780999|r    6 KIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQACSSAIDTLKSDTHDGGAGIV   85 (562)
Q Consensus         6 kIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~~~~l~~La~~~~~~~i~ii   85 (562)
                      |||++|+++.+||+++|++++.+++++|+++||||||||||++|||+|+|+++++.+.+.+.+++++|++.++++++.++
T Consensus         1 kIa~~Q~~~~~gd~~~Nl~~~~~~i~~A~~~ga~livfPEl~ltGY~~~d~~~~~~~~~~~~~~l~~l~~~~~~~~i~iv   80 (261)
T cd07570           1 RIALAQLNPTVGDLEGNAEKILEAIREAKAQGADLVVFPELSLTGYPPEDLLLRPDFLEAAEEALEELAAATADLDIAVV   80 (261)
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEECCCCCCCCCCHHHHHHCHHHHHHHHHHHHHHHHHHHHCCEEEE
T ss_conf             99999899987899999999999999999889979998889544799788763656789999999999998865796999


Q ss_pred             EEEEEEECCEEEEEEEEEECCEEEEEEEEEEECCCCCCCCCCCCCCCCCCCEEEECCEEEEECCCCCCCHHHHHHHHHHH
Q ss_conf             99999888987899999969979998877762355433321003778887614764745620111111101689999971
Q gi|254780999|r   86 VGFPRQDQEGVLNSVVILDAGNIIAVRDKINLPNYSEFHEKRTFISGYSNDPIVFRDIRLGILICEDIWKNSNICKHLKK  165 (562)
Q Consensus        86 vG~p~~~~~~~yNsa~vi~~G~il~~y~K~~LP~y~~FdE~r~F~~G~~~~~~~~~g~kiGv~ICeDlw~~~~~~~~la~  165 (562)
                      +|+|++.++++|||+++|.+|++++.|+|+|||+|++|+|++||++|+...+|+++++|+|++||||+|+|+.+.+.+++
T Consensus        81 ~G~~~~~~~~~yNsa~~i~~G~i~~~y~K~hLp~~~~f~E~~~f~~G~~~~~~~~~~~kiG~~ICyD~~fpe~~~r~la~  160 (261)
T cd07570          81 VGLPLRHDGKLYNAAAVLQNGKILGVVPKQLLPNYGVFDEKRYFTPGDKPDVLFFKGLRIGVEICEDLWVPDPPSAELAL  160 (261)
T ss_pred             EEEEEEECCEEEEEEEEEECCEEEEEEEEEECCCCCCCCCHHHCCCCCCCCEEEECCEEEEEEEECCCCCCCHHHHHHHH
T ss_conf             96789889978888899649928889988916999863602312368877337868968887655146788779999997


Q ss_pred             CCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCCCCEEECCCCEEEEECCCCCCCEEEEEE
Q ss_conf             47775993155533358078887889998543370464213568876621048643555898599961677763799999
Q gi|254780999|r  166 QGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQDELIFDGASFCFDGQQQLAFQMKHFSEQNFMTEW  245 (562)
Q Consensus       166 ~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d~lvf~G~S~I~d~~G~ii~~~~~f~e~~~i~d~  245 (562)
                      +|||+|++||||||..+|.+.|+.++++||.||+++++++|++|++++++|.|+|+|+||+|+++++++.++|.  ++++
T Consensus       161 ~Gadii~~psA~p~~~~k~~~~~~l~~arA~en~~~vv~~N~vG~~~~~~f~G~S~I~~P~G~vla~~~~~ee~--~a~i  238 (261)
T cd07570         161 AGADLILNLSASPFHLGKQDYRRELVSSRSARTGLPYVYVNQVGGQDDLVFDGGSFIADNDGELLAEAPRFEED--LADV  238 (261)
T ss_pred             CCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHHCCEEEEEECCCCCCCEEECCEEEEECCCCCEEEECCCCCEE--EEEE
T ss_conf             59979996478865568289999999999998298599993557899669836089999997389985999489--9998


Q ss_pred             EECCCCCCC
Q ss_conf             833521236
Q gi|254780999|r  246 HYDQQLSQW  254 (562)
Q Consensus       246 d~d~~~~~~  254 (562)
                      |+|+....+
T Consensus       239 Dld~~~~~R  247 (261)
T cd07570         239 DLDRLRSER  247 (261)
T ss_pred             EHHHHHHHH
T ss_conf             729989998


No 11 
>PRK00876 nadE NAD synthetase; Reviewed
Probab=100.00  E-value=0  Score=457.63  Aligned_cols=241  Identities=28%  Similarity=0.381  Sum_probs=210.4

Q ss_pred             HHHHCCHHHHHHHHHHHC-CCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCC
Q ss_conf             864220203588876422-4540575215872368999999841495446797324666652213569999997213542
Q gi|254780999|r  273 EADYNACVLSLRDYVQKN-NFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYD  351 (562)
Q Consensus       273 e~~~~Alvlgl~d~~~~~-g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~  351 (562)
                      +..-+..+-.||||+.++ +.+|+||||||||||||+++||++|||++||+|+.||++.|++++.++|+.+|+.||+++.
T Consensus        13 ~~e~~riv~fir~~v~~~~~~kG~VlGlSGGIDSAv~a~Lav~AlG~e~V~gl~MP~~~s~~~s~~~a~~la~~lGi~~~   92 (325)
T PRK00876         13 AAEAERIRAFIREQVLGTLKRRGVVLGLSGGIDSSVTLALCVRALGKDRVLGLLMPERDSSPDSLRLGRMLAESLGVEYV   92 (325)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCEE
T ss_conf             99999999999999985169867999687688899999999997485516999788656887789999999998199359


Q ss_pred             CCCHHHHHHHHH------HHH---CCC--------------CCC---------------C-----------CCCHHHHCC
Q ss_conf             677589999988------631---323--------------468---------------7-----------431011012
Q gi|254780999|r  352 VLPIHDLVNHFF------SLM---SQF--------------LQE---------------E-----------PSGIVAENI  382 (562)
Q Consensus       352 ~i~I~~~~~~~~------~~~---~~~--------------~~~---------------~-----------~~~~~~eN~  382 (562)
                      +++|+++++++-      ..+   -+.              ++.               .           ...++.+|+
T Consensus        93 ~idI~~~l~~~~~y~~~d~~i~~~~p~~~~~~~~~i~~~~~l~~~~~~~~~l~~~~~~~~~~~~~l~~~~~l~~~a~~Ni  172 (325)
T PRK00876         93 VEDISPALEALGCYERRDEAIRRVVPEYGPGWKSKLVLPNFLEGDLLNVPYLVVQDPGGEVRKKRLPPADYLQIVAATNF  172 (325)
T ss_pred             EEECHHHHHHHHHHHHHHHHHHHHCCCCCCCHHCCCCCCCHHCCCCCCCHHHHCCCCCCCCCCCCCCHHHHHHHHHHCCH
T ss_conf             98448999875431356888875033324200000002311102322310121046421000013550344445553233


Q ss_pred             CCHHHHHHHHHHHHHCCCEECCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCH
Q ss_conf             33046677988875169544364324477541102366655540101776336589999996310332223444466887
Q gi|254780999|r  383 QSRIRGNILMALSNHSKAMLLTTSNKSEISVGYGTLYGDMSGGFNPLKDLYKTQVFQLASWRNSHGITSGLGPLTEVIPP  462 (562)
Q Consensus       383 qaR~R~~~L~~~an~~~~lvl~t~nksE~~~Gy~T~~GD~~g~~~p~~~l~Kt~v~~la~~~n~~~~~~~~~~~~~~ip~  462 (562)
                      |||+||.+||++||++|++|+||+||||+.+||||||||+++|++||+||||||||+||+|++              ||+
T Consensus       173 KaR~RM~~lY~~A~~~n~lVlGT~NksE~~~GyfTKyGDGa~Di~PI~~LyKtQV~~LA~~Lg--------------vPe  238 (325)
T PRK00876        173 KQRTRKMVEYYHADRLNYAVAGTPNRLEYDQGFFVKYGDGAADLKPIAHLYKTQVYALAEYLG--------------VPE  238 (325)
T ss_pred             HHHHHHHHHHHHHHHCCCEEECCCCHHHHHHCCEEEECCCCCCCCCCCCCCHHHHHHHHHHCC--------------CCH
T ss_conf             689999999999987398776588465566351475447887845135775899999999809--------------999


Q ss_pred             HHCCCCCCCCCCCCCCCCCCC--C-CHHHHHHHHHHHHHCCCCHHHHHH--CCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             882889884538999770006--8-878899999999827999779871--89999999999999874566873
Q gi|254780999|r  463 SILEKSPSAELRPHQTDQESL--P-PYPILDDIIKRIVENEESFINNDQ--EYNDETVRYVEHLLYGSEYKRRQ  531 (562)
Q Consensus       463 ~i~~~~psaeL~~~Q~ded~l--~-~Y~~lD~il~~~i~~~~~~~~~~~--~~~~~~v~~~~~~~~~~~~KR~~  531 (562)
                      +|++|+|||+||++|+|||++  + ||+.+|.+|+.+ +++.+.+++.+  +.+.|.|++|++.+   +.||+.
T Consensus       239 ~Ii~K~PSadLw~~~~~edE~~~g~~Y~~lD~~L~~~-~~~~~~~~~~~~~g~~~e~v~~v~~~i---~~kr~~  308 (325)
T PRK00876        239 EIRRRPPTTDTYSLYQTQEEFYFRLPYDIMDLCLYAQ-NHGVPAEVVAAALGLTPEQVERVWRDI---EAKRRT  308 (325)
T ss_pred             HHHCCCCCCCCCCCCCCHHHHCCCCCHHHHHHHHHHH-HCCCCHHHHHHHHCCCHHHHHHHHHHH---HHHHHH
T ss_conf             9936999813358999724540599889999999987-649999999988398999999999999---987530


No 12 
>cd07586 nitrilase_8 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=100.00  E-value=0  Score=404.81  Aligned_cols=246  Identities=28%  Similarity=0.446  Sum_probs=219.4

Q ss_pred             EEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCEEE
Q ss_conf             89999638836889999999999999999859989991664447998445414889999999999999999887697899
Q gi|254780999|r    6 KIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQACSSAIDTLKSDTHDGGAGIV   85 (562)
Q Consensus         6 kIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~~~~l~~La~~~~~~~i~ii   85 (562)
                      |||++|+++++||+++|++++++++++|+++|||||||||+++|||+++|+..+.. .......+..+++.++  ++.|+
T Consensus         1 kiA~~Q~~~~~gD~~~Nl~~~~~~i~~A~~~ga~livfPE~~~tGy~~~d~~~~~a-~~~~~~~~~~l~~~a~--~~~iv   77 (269)
T cd07586           1 RVAIAQIDPVLGDVEENLEKHLEIIETARERGADLVVFPELSLTGYNLGDLVYEVA-MHADDPRLQALAEASG--GICVV   77 (269)
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCHHHHHHHHH-CCCCHHHHHHHHHHCC--CCEEE
T ss_conf             99999899976899999999999999999881969998889401798567655543-0476799999999879--98399


Q ss_pred             EEEEEEE-CCEEEEEEEEEECCEEEEEEEEEEECCCCCCCCCCCCCCCCCCCEEEECCEEEEECCCCCCCHHHHHHHHHH
Q ss_conf             9999988-898789999996997999887776235543332100377888761476474562011111110168999997
Q gi|254780999|r   86 VGFPRQD-QEGVLNSVVILDAGNIIAVRDKINLPNYSEFHEKRTFISGYSNDPIVFRDIRLGILICEDIWKNSNICKHLK  164 (562)
Q Consensus        86 vG~p~~~-~~~~yNsa~vi~~G~il~~y~K~~LP~y~~FdE~r~F~~G~~~~~~~~~g~kiGv~ICeDlw~~~~~~~~la  164 (562)
                      +|.+++. ++++||+++++.+|++++.|+|+|||+|+.|+|.+||++|+...+|+++++|+|++||||+|+|+ +++.++
T Consensus        78 ~G~~~~~~~~~~~Ns~~~~~~G~i~~~yrK~hLp~~~~~~E~~~f~~G~~~~v~~~~~~~iG~~ICyD~~fPe-~~r~la  156 (269)
T cd07586          78 FGFVEEGRDGRFYNSAAYLEDGRVVHVHRKVYLPTYGLFEEGRYFAPGSHLRAFDTRFGRAGVLICEDAWHPS-LPYLLA  156 (269)
T ss_pred             EEEEEECCCCCEEEEEEEEECCEEEEEEEEEECCCCCCCCCCCEECCCCCCEEEEECCEEEEEEEECCCCCHH-HHHHHH
T ss_conf             9968987999199999999799299997179659999716221113999506899789089987750104769-999999


Q ss_pred             HCCCCEEEECCCCCCCCCC-----HHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCCCCEEECCCCEEEEECCCCCCC
Q ss_conf             1477759931555333580-----78887889998543370464213568876621048643555898599961677763
Q gi|254780999|r  165 KQGAEFLFSLNASPYYHNK-----LKKRHEIVTGQISHVHLPIIYVNQVGGQDELIFDGASFCFDGQQQLAFQMKHFSEQ  239 (562)
Q Consensus       165 ~~Gadlii~psASp~~~~k-----~~~R~~~~~~~a~e~~~~vvy~N~vGg~d~lvf~G~S~I~d~~G~ii~~~~~f~e~  239 (562)
                      .+|||+|++|+|||+...+     ...|+.++++||.||++|++++|++|.+++..|.|+|+|++|+|+++++++.|+|+
T Consensus       157 ~~Ga~ii~~paa~p~~~~~~~~~~~~~w~~l~~arA~en~~~vv~~N~~G~~~~~~~~G~S~ii~P~G~ila~~~~~~e~  236 (269)
T cd07586         157 LDGADVIFIPANSPARGVGGDFDNEENWETLLKFYAMMNGVYVVFANRVGVEDGVYFWGGSRVVDPDGEVVAEAPLFEED  236 (269)
T ss_pred             HCCCCEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCEEEECCCEEECCCCCEEEECCCCCCE
T ss_conf             87998999936886536666446799999999999997097899986622789907956448997998398875899987


Q ss_pred             EEEEEEEECCCCCCCC
Q ss_conf             7999998335212365
Q gi|254780999|r  240 NFMTEWHYDQQLSQWN  255 (562)
Q Consensus       240 ~~i~d~d~d~~~~~~~  255 (562)
                      ++++|+|++.....+.
T Consensus       237 vi~adiDl~~i~~~R~  252 (269)
T cd07586         237 LLVAELDRSAIRRARF  252 (269)
T ss_pred             EEEEEEEHHHHHHHHH
T ss_conf             9999975599999986


No 13 
>cd07576 R-amidase_like Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases). Pseudomonas sp. MCI3434 R-amidase hydrolyzes (R,S)-piperazine-2-tert-butylcarboxamide to form (R)-piperazine-2-carboxylic acid. It does so with strict R-stereoselectively. Its preferred substrates are carboxamide compounds which have the amino or imino group connected to their beta- or gamma-carbon. This subgroup belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), class 13 represents proteins that at the time were difficult to place in a distinct similarity group. It has been suggested that this subgroup represents a new class. Members of the nitrilase superfamily generally form homomeric compl
Probab=100.00  E-value=0  Score=391.55  Aligned_cols=240  Identities=25%  Similarity=0.379  Sum_probs=214.9

Q ss_pred             EEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCEEE
Q ss_conf             89999638836889999999999999999859989991664447998445414889999999999999999887697899
Q gi|254780999|r    6 KIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQACSSAIDTLKSDTHDGGAGIV   85 (562)
Q Consensus         6 kIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~~~~l~~La~~~~~~~i~ii   85 (562)
                      |||++|+++.+||+++|++++++++++|+++|||||||||+++|||++.|.+.+... ......++.|++.+++++++++
T Consensus         1 kiA~~Q~~~~~gD~~~N~~~~~~~i~~A~~~ga~lvvfPE~~l~Gy~~~~~~~~~a~-~~~~~~~~~l~~~A~~~~i~iv   79 (254)
T cd07576           1 RLALYQGPARDGDVAANLARLDEAAARAAAAGADLLVFPELFLTGYNIGDAVARLAE-PADGPALQALRAIARRHGIAIV   79 (254)
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCHHHHHHC-CCCCHHHHHHHHHHHHCCCEEE
T ss_conf             999998999889999999999999999998869799948886358986612344311-4786999999999997298699


Q ss_pred             EEEEEEECCEEEEEEEEEE-CCEEEEEEEEEEECCCCCCCCCCCCCCCCCCCEEEECCEEEEECCCCCCCHHHHHHHHHH
Q ss_conf             9999988898789999996-997999887776235543332100377888761476474562011111110168999997
Q gi|254780999|r   86 VGFPRQDQEGVLNSVVILD-AGNIIAVRDKINLPNYSEFHEKRTFISGYSNDPIVFRDIRLGILICEDIWKNSNICKHLK  164 (562)
Q Consensus        86 vG~p~~~~~~~yNsa~vi~-~G~il~~y~K~~LP~y~~FdE~r~F~~G~~~~~~~~~g~kiGv~ICeDlw~~~~~~~~la  164 (562)
                      +|++++.++++||++++|. +|+++++|+|+|||++   +|++||.+|+...+|+++++|+|++||||+|+|+ +++.++
T Consensus        80 ~G~~e~~~~~~yNs~~~i~~~G~i~~~y~K~hL~~~---~E~~~f~~G~~~~vf~~~~~~iG~~IC~D~~fpe-~~r~la  155 (254)
T cd07576          80 VGYPERAGGAVYNAAVLIDEDGTVLANYRKTHLFGD---SERAAFTPGDRFPVVELRGLRVGLLICYDVEFPE-LVRALA  155 (254)
T ss_pred             EEEEEEECCEEEEEEEEECCCCEEEEEECCCCCCCC---CCCEEECCCCCCEEEEECCEEEEEEEECCCCCCH-HHHHHH
T ss_conf             989997599788999999289839885714446886---6305883898634668898799988861543879-999999


Q ss_pred             HCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCCCCEEECCCCEEEEECCCCCCCEEEEE
Q ss_conf             14777599315553335807888788999854337046421356887662104864355589859996167776379999
Q gi|254780999|r  165 KQGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQDELIFDGASFCFDGQQQLAFQMKHFSEQNFMTE  244 (562)
Q Consensus       165 ~~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d~lvf~G~S~I~d~~G~ii~~~~~f~e~~~i~d  244 (562)
                      ++|||+|++|+|++...++.  +..++++||.||++|++++|++|.+++++|+|+|+|+||+|+++++++. +|+++++|
T Consensus       156 ~~Ga~ii~~psa~~~~~~~~--~~~~~~arA~en~~~vv~~n~~G~~~~~~~~G~S~ii~P~G~ila~~~~-~e~~~~ad  232 (254)
T cd07576         156 LAGADLVLVPTALMEPYGFV--ARTLVPARAFENQIFVAYANRCGAEDGLTYVGLSSIAGPDGTVLARAGR-GEALLVAD  232 (254)
T ss_pred             HCCCCEEEECCCCCCCHHHH--HHHHHHHHHHHCCCEEEEEECCCCCCCEEECCCEEEEECCCEEEEECCC-CCEEEEEE
T ss_conf             86997999887888852069--9999999999829949999664158980772876999189829876699-88699999


Q ss_pred             EEECCCCCC
Q ss_conf             983352123
Q gi|254780999|r  245 WHYDQQLSQ  253 (562)
Q Consensus       245 ~d~d~~~~~  253 (562)
                      +|.+.....
T Consensus       233 iD~~~i~~~  241 (254)
T cd07576         233 LDPAALAAA  241 (254)
T ss_pred             ECHHHHHHH
T ss_conf             719999999


No 14 
>cd07585 nitrilase_7 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=100.00  E-value=0  Score=385.08  Aligned_cols=241  Identities=20%  Similarity=0.266  Sum_probs=214.9

Q ss_pred             EEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCEEE
Q ss_conf             89999638836889999999999999999859989991664447998445414889999999999999999887697899
Q gi|254780999|r    6 KIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQACSSAIDTLKSDTHDGGAGIV   85 (562)
Q Consensus         6 kIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~~~~l~~La~~~~~~~i~ii   85 (562)
                      |||++|+++++||+++|++++.+++++|+++|||||||||+++|||++.+......... ....++.|++.++++++.++
T Consensus         1 kial~Q~~~~~gd~~~Nl~~~~~~i~~A~~~ga~lvvfPE~~ltGy~~~~~~~~~~~~~-~~~~~~~l~~~a~~~~i~iv   79 (261)
T cd07585           1 RIALVQFEARVGDKARNLAVIARWTRKAAAQGAELVCFPEMCITGYTHVRALSREAEVP-DGPSTQALSDLARRYGLTIL   79 (261)
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCHHHHHHHHHCCC-CCHHHHHHHHHHHHHCCEEE
T ss_conf             99999898987889999999999999999886929998988302687024566651468-98999999999987596999


Q ss_pred             EEEEEEECCEEEEEEEEEECCEEEEEEEEEEECCCCCCCCCCCCCCCCCCCEEEECCEEEEECCCCCCCHHHHHHHHHHH
Q ss_conf             99999888987899999969979998877762355433321003778887614764745620111111101689999971
Q gi|254780999|r   86 VGFPRQDQEGVLNSVVILDAGNIIAVRDKINLPNYSEFHEKRTFISGYSNDPIVFRDIRLGILICEDIWKNSNICKHLKK  165 (562)
Q Consensus        86 vG~p~~~~~~~yNsa~vi~~G~il~~y~K~~LP~y~~FdE~r~F~~G~~~~~~~~~g~kiGv~ICeDlw~~~~~~~~la~  165 (562)
                      +|++++.++++||+++++.+|..++.|+|+||+.    .|++||++|+...+|++.++|+|++||||+|+|+ +++.+++
T Consensus        80 ~g~~e~~~~~~yNs~~~i~~~g~i~~yrK~hl~~----~E~~~f~~G~~~~vf~~~~~~iG~~IC~D~~fPe-~~r~la~  154 (261)
T cd07585          80 AGLIEKAGDRPYNTYLVCLPDGLVHRYRKLHLFR----REHPYIAAGDEYPVFATPGVRFGILICYDNHFPE-NVRATAL  154 (261)
T ss_pred             EEEEEECCCCEEEEEEEEECCCEEEEEECCCCCC----CCCCCCCCCCCCEEEEECCEEEEEEECCCCCCCH-HHHHHHH
T ss_conf             9679906994899999996996168885377886----5434347998424897689279867613555879-9999998


Q ss_pred             CCCCEEEECCCCCCCCCC--HHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCCCCEEECCCCEEEEECCCCCCCEEEE
Q ss_conf             477759931555333580--788878899985433704642135688766210486435558985999616777637999
Q gi|254780999|r  166 QGAEFLFSLNASPYYHNK--LKKRHEIVTGQISHVHLPIIYVNQVGGQDELIFDGASFCFDGQQQLAFQMKHFSEQNFMT  243 (562)
Q Consensus       166 ~Gadlii~psASp~~~~k--~~~R~~~~~~~a~e~~~~vvy~N~vGg~d~lvf~G~S~I~d~~G~ii~~~~~f~e~~~i~  243 (562)
                      +||++|++|||||.....  ...++.++++||.+|+++++++|++|++++.+|+|+|+|+||+|+++++++.++|+++++
T Consensus       155 ~Ga~ii~~psa~~~~~~~~~~~~~~~~~~aRA~en~~~v~~~N~vG~~~~~~~~G~S~Iv~P~G~il~~~~~~~e~~~~a  234 (261)
T cd07585         155 LGAEILFAPHATPGTTSPKGREWWMRWLPARAYDNGVFVAACNGVGRDGGEVFPGGAMILDPYGRVLAETTSGGDGMVVA  234 (261)
T ss_pred             CCCCEEEECCCCCCCCCCCHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCEEEECEEEEECCCCCEEEECCCCCCEEEEE
T ss_conf             79979998865678777421889999999999972994898456656898157142799989983987338999889999


Q ss_pred             EEEECCCCC
Q ss_conf             998335212
Q gi|254780999|r  244 EWHYDQQLS  252 (562)
Q Consensus       244 d~d~d~~~~  252 (562)
                      |+|++....
T Consensus       235 diDl~~i~~  243 (261)
T cd07585         235 DLDLDLINT  243 (261)
T ss_pred             EEEHHHHHH
T ss_conf             988599999


No 15 
>cd07583 nitrilase_5 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=100.00  E-value=0  Score=381.87  Aligned_cols=239  Identities=24%  Similarity=0.365  Sum_probs=213.4

Q ss_pred             EEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCEEE
Q ss_conf             89999638836889999999999999999859989991664447998445414889999999999999999887697899
Q gi|254780999|r    6 KIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQACSSAIDTLKSDTHDGGAGIV   85 (562)
Q Consensus         6 kIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~~~~l~~La~~~~~~~i~ii   85 (562)
                      |||++|+++++||+++|+++|++++++|+++||||||||||++|||++.++.....  ......++.|++.+++++++++
T Consensus         1 kIA~~Q~~~~~gd~~~Nl~~i~~~i~~A~~~ga~lvvfPE~~ltGY~~~~~~~~a~--~~~~~~~~~l~~~a~~~~i~iv   78 (253)
T cd07583           1 KIALIQLDIVWGDPEANIERVESLIEEAAAAGADLIVLPEMWNTGYFLDDLYELAD--EDGGETVSFLSELAKKHGVNIV   78 (253)
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCCHHHHHHHCC--CCCCHHHHHHHHHHHHHCCEEE
T ss_conf             99999898987999999999999999999883989991898635899789986333--4782999999999887497999


Q ss_pred             EE-EEEEECCEEEEEEEEEE-CCEEEEEEEEEEECCCCCCCCCCCCCCCCCCCEEEECCEEEEECCCCCCCHHHHHHHHH
Q ss_conf             99-99988898789999996-99799988777623554333210037788876147647456201111111016899999
Q gi|254780999|r   86 VG-FPRQDQEGVLNSVVILD-AGNIIAVRDKINLPNYSEFHEKRTFISGYSNDPIVFRDIRLGILICEDIWKNSNICKHL  163 (562)
Q Consensus        86 vG-~p~~~~~~~yNsa~vi~-~G~il~~y~K~~LP~y~~FdE~r~F~~G~~~~~~~~~g~kiGv~ICeDlw~~~~~~~~l  163 (562)
                      +| .+++.++++||++++|. +|+++++|+|+||+++  ++|++||.+|+...+|+++++|+|++||||+|+|+ +++.+
T Consensus        79 ~G~~~e~~~~~~yNsa~~i~~~G~i~~~yrK~hl~~~--~~E~~~f~~G~~~~v~~~~~~~iG~~IC~D~~fPe-~~r~~  155 (253)
T cd07583          79 AGSVAEKEGGKLYNTAYVIDPDGELIATYRKIHLFGL--MGEDKYLTAGDELEVFELDGGKVGLFICYDLRFPE-LFRKL  155 (253)
T ss_pred             EEEEEEEECCEEEEEEEEECCCCEEEEEEECCCCCCC--CCCCEEEECCCCCCEEEECCEEEEEEEECCCCCHH-HHHHH
T ss_conf             9006980099499999999089859999923026997--66153786488641376445278857860333789-99999


Q ss_pred             HHCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCCCCEEECCCCEEEEECCCCCCCEEEE
Q ss_conf             71477759931555333580788878899985433704642135688766210486435558985999616777637999
Q gi|254780999|r  164 KKQGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQDELIFDGASFCFDGQQQLAFQMKHFSEQNFMT  243 (562)
Q Consensus       164 a~~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d~lvf~G~S~I~d~~G~ii~~~~~f~e~~~i~  243 (562)
                      +.+|||+|++|++||+..  .+.+..++++||.||++|++++|++|.+++..|+|+|+|+||+|+++++++. +|+++++
T Consensus       156 a~~Gadii~~psa~p~~~--~~~w~~~~~arA~en~~~vv~aN~~G~~~~~~~~G~S~Iv~P~G~ila~~~~-~e~~i~a  232 (253)
T cd07583         156 ALEGAEILFVPAEWPAAR--IEHWRTLLRARAIENQAFVVACNRVGTDGGNEFGGHSMVIDPWGEVLAEAGE-EEEILTA  232 (253)
T ss_pred             HHCCCCEEEECCCCCCCC--HHHHHHHHHHHHHHCCCCEEEECCCCCCCCCEECCEEEEECCCCCEEEECCC-CCEEEEE
T ss_conf             987997999906999742--2667668999999839949997662158997873448999999869888799-9849999


Q ss_pred             EEEECCCCC
Q ss_conf             998335212
Q gi|254780999|r  244 EWHYDQQLS  252 (562)
Q Consensus       244 d~d~d~~~~  252 (562)
                      |+|++....
T Consensus       233 diDl~~~~~  241 (253)
T cd07583         233 EIDLEEVAE  241 (253)
T ss_pred             EECHHHHHH
T ss_conf             973999999


No 16 
>cd07584 nitrilase_6 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=100.00  E-value=0  Score=380.59  Aligned_cols=241  Identities=26%  Similarity=0.337  Sum_probs=212.5

Q ss_pred             EEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHH-HHHHH-HHHHHHHHHHHHHCCCE
Q ss_conf             89999638836889999999999999999859989991664447998445414889-99999-99999999998876978
Q gi|254780999|r    6 KIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKS-FIQAC-SSAIDTLKSDTHDGGAG   83 (562)
Q Consensus         6 kIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~-f~~~~-~~~l~~La~~~~~~~i~   83 (562)
                      |||++|+++++||+++|++++.+++++|+++||||||||||++|||++.++..+.. +.+.. ...++.|++.++++++.
T Consensus         1 riA~~Q~~~~~gD~~~N~~~~~~~i~~A~~~gadlvvfPEl~ltGy~~~~~~~~~~~~a~~~~~~~~~~l~~~a~~~~i~   80 (258)
T cd07584           1 KVALIQMDSVLGDVKANLKKAAELCKEAAAEGADLICFPELATTGYRPDLLGPKLWELSEPIDGPTVRLFSELAKELGVY   80 (258)
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCE
T ss_conf             99999898987899999999999999999887949995877424799578512489876407849999999998870938


Q ss_pred             EEEEEEEEEC--CEEEEEEEEEE-CCEEEEEEEEEEECCCCCCCCCCCCCCCCCCCEEEECCEEEEECCCCCCCHHHHHH
Q ss_conf             9999999888--98789999996-99799988777623554333210037788876147647456201111111016899
Q gi|254780999|r   84 IVVGFPRQDQ--EGVLNSVVILD-AGNIIAVRDKINLPNYSEFHEKRTFISGYSNDPIVFRDIRLGILICEDIWKNSNIC  160 (562)
Q Consensus        84 iivG~p~~~~--~~~yNsa~vi~-~G~il~~y~K~~LP~y~~FdE~r~F~~G~~~~~~~~~g~kiGv~ICeDlw~~~~~~  160 (562)
                      |++|++++.+  +++||++++|. +|+++++|+|+||+.    +|.+||.+|+...+|++.++|+|++||||+|+|+ ..
T Consensus        81 iv~g~~e~~~~~~~~yNs~~~i~~~G~i~~~yrK~hl~~----~E~~~f~~G~~~~v~~~~~gkiG~~IC~D~~fPe-~~  155 (258)
T cd07584          81 IVCGFVEKGGVPGKVYNSAVVIDPEGESLGVYRKIHLWG----LEKQYFREGEQYPVFDTPFGKIGVMICYDMGFPE-VA  155 (258)
T ss_pred             EEEECCEECCCCCCEEEEEEEECCCCCEEEEEECCCCCC----CCCCCCCCCCCCEEEEECCCEEEEEEECCCCCCH-HH
T ss_conf             999403144899958888999948983898797576676----5212357897310576068467778871678717-99


Q ss_pred             HHHHHCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCCCCEEECCCCEEEEECCCCCCCE
Q ss_conf             99971477759931555333580788878899985433704642135688766210486435558985999616777637
Q gi|254780999|r  161 KHLKKQGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQDELIFDGASFCFDGQQQLAFQMKHFSEQN  240 (562)
Q Consensus       161 ~~la~~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d~lvf~G~S~I~d~~G~ii~~~~~f~e~~  240 (562)
                      +.++.+|||+|++|++||..  +.+.+..++++||.+|+++++++|++|.+++..|+|+|+|++|+|+++++++.|+|++
T Consensus       156 r~la~~Gadii~~psa~~~~--~~~~~~~~~~arA~en~~~vv~~N~vG~~~~~~~~G~S~iv~p~G~~la~~~~~~e~l  233 (258)
T cd07584         156 RILTLKGAEVIFCPSAWREQ--DADIWDINLPARALENTVFVAAVNRVGNEGDLVLFGKSKILNPRGQVLAEASEEAEEI  233 (258)
T ss_pred             HHHHHCCCCEEEECCCCCCC--CCHHHHHHHHHHHHHCCCEEEEEEEECCCCCEEEEEEEEEECCCCEEEEECCCCCCEE
T ss_conf             99998699899987888886--4379999999999986994899810115899078311489989990967538999889


Q ss_pred             EEEEEEECCCCCC
Q ss_conf             9999983352123
Q gi|254780999|r  241 FMTEWHYDQQLSQ  253 (562)
Q Consensus       241 ~i~d~d~d~~~~~  253 (562)
                      +++|+|++.....
T Consensus       234 ~~adiDl~~~~~~  246 (258)
T cd07584         234 LYAEIDLDAIADY  246 (258)
T ss_pred             EEEEECHHHHHHH
T ss_conf             9999639999999


No 17 
>TIGR03381 agmatine_aguB N-carbamoylputrescine amidase. Members of this family are N-carbamoylputrescine amidase (3.5.1.53). Bacterial genes are designated AguB. The AguAB pathway replaces SpeB for conversion of agmatine to putrescine in two steps rather than one.
Probab=100.00  E-value=0  Score=377.25  Aligned_cols=246  Identities=26%  Similarity=0.387  Sum_probs=214.3

Q ss_pred             EEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHHH-----HHHHHHHHHHHH
Q ss_conf             289999638836889999999999999999859989991664447998445414889999999-----999999999887
Q gi|254780999|r    5 LKIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQACS-----SAIDTLKSDTHD   79 (562)
Q Consensus         5 mkIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~~-----~~l~~La~~~~~   79 (562)
                      ||||++|+++. +|+++|++++.+++++|+++||||||||||++|||++.+.  .+.+.+...     ..+..+++.+++
T Consensus         1 mkvA~vQ~~~~-~d~~~Nl~~~~~~i~~A~~~ga~livfPEl~~tgy~~~~~--~~~~~~~a~~~~~~~~~~~l~~~A~~   77 (279)
T TIGR03381         1 VTVAALQMACS-DDVETNIARAERLVREAAARGAQIILLPELFEGPYFCKDQ--DEDYFALAQPVEGHPAIKRFQALAKE   77 (279)
T ss_pred             CEEEEEECCCC-CCHHHHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCC--CHHHHHHHCCCCCCHHHHHHHHHHHH
T ss_conf             98999945489-9999999999999999998849899938876677754455--44478740325798999999999987


Q ss_pred             CCCEEEEEEEEEECCEEEEEEEEEE-CCEEEEEEEEEEECCCCCCCCCCCCCCCCC-CCEEEECCEEEEECCCCCCCHHH
Q ss_conf             6978999999988898789999996-997999887776235543332100377888-76147647456201111111016
Q gi|254780999|r   80 GGAGIVVGFPRQDQEGVLNSVVILD-AGNIIAVRDKINLPNYSEFHEKRTFISGYS-NDPIVFRDIRLGILICEDIWKNS  157 (562)
Q Consensus        80 ~~i~iivG~p~~~~~~~yNsa~vi~-~G~il~~y~K~~LP~y~~FdE~r~F~~G~~-~~~~~~~g~kiGv~ICeDlw~~~  157 (562)
                      +++.+++|++++.++++||+++++. +|+++++|+|+|||++..|+|++||.+|+. ..+|++.++|+|++||||+|+|+
T Consensus        78 ~~i~i~~g~~e~~~~~~yNt~~vi~~~G~i~~~yrK~hlp~~~~~~E~~~f~~G~~~~~v~~~~~~kiG~~ICyD~~fPe  157 (279)
T TIGR03381        78 LGVVIPVSFFEKAGNAYYNSLAMIDADGSVLGVYRKSHIPDGPGYQEKFYFRPGDTGFKVWDTRYGRIGVGICWDQWFPE  157 (279)
T ss_pred             CCEEEEEEEEEEECCEEEEEEEEECCCCCEEEEEEEECCCCCCCEEEEEEECCCCCCCCEEEECCCEEEEEEEECCCCCH
T ss_conf             39599994478608823788999989980999998853899996347875148887661598589369876660435748


Q ss_pred             HHHHHHHHCCCCEEEECCCC---CCCC--CCHHHHHHHHHHHHHHCCCEEEECCCCCCC----CCCCCCCCCEEECCCCE
Q ss_conf             89999971477759931555---3335--807888788999854337046421356887----66210486435558985
Q gi|254780999|r  158 NICKHLKKQGAEFLFSLNAS---PYYH--NKLKKRHEIVTGQISHVHLPIIYVNQVGGQ----DELIFDGASFCFDGQQQ  228 (562)
Q Consensus       158 ~~~~~la~~Gadlii~psAS---p~~~--~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~----d~lvf~G~S~I~d~~G~  228 (562)
                       ..+.++++||++|++|+|+   |+..  .....+..++++||.+|+++++++|++|.+    ++..|.|+|+|++|+|+
T Consensus       158 -~~r~la~~Ga~ii~~Psa~~~~p~~~~~~~~~~w~~~~~arA~en~~~vv~an~~G~~~~~~~~~~f~G~S~Iv~P~G~  236 (279)
T TIGR03381       158 -TARAMALMGAEVLFYPTAIGSEPHDPDLDSRDHWQRVMQGHAAANLVPVVAANRIGTEIGDGGEQTFYGSSFIADHTGE  236 (279)
T ss_pred             -HHHHHHHCCCCEEEECCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCEEEECCCCCCCCCCCCCCCCCCCEEEECCCCC
T ss_conf             -9999998699799988414687776556628999999999999829536510310035788887658498389999999


Q ss_pred             EEEECCCCCCCEEEEEEEECCCCCCC
Q ss_conf             99961677763799999833521236
Q gi|254780999|r  229 LAFQMKHFSEQNFMTEWHYDQQLSQW  254 (562)
Q Consensus       229 ii~~~~~f~e~~~i~d~d~d~~~~~~  254 (562)
                      ++++++.++|+++++|+|++.....+
T Consensus       237 ila~~~~~~e~~i~a~iDl~~i~~~R  262 (279)
T TIGR03381       237 LVAEAGRSEEAVLVATFDLDEIAKQR  262 (279)
T ss_pred             EEEECCCCCCEEEEEEEEHHHHHHHH
T ss_conf             98766899878999997599999999


No 18 
>cd07573 CPA N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases). CPA (EC 3.5.1.53, also known as N-carbamoylputrescine amidase and carbamoylputrescine hydrolase) converts N-carbamoylputrescine to putrescine, a step in polyamine biosynthesis in plants and bacteria. This subgroup includes Arabidopsis thaliana CPA, also known as nitrilase-like 1 (NLP1), and Pseudomonas aeruginosa AguB. This subgroup belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 11. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer; P. aeruginosa AugB is a homohexamer, Arabidopsis thaliana NLP1 is a homooctomer.
Probab=100.00  E-value=0  Score=375.64  Aligned_cols=246  Identities=24%  Similarity=0.342  Sum_probs=211.8

Q ss_pred             EEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHH-----HHHHHHHHHHHHH
Q ss_conf             28999963883688999999999999999985998999166444799844541488999999-----9999999999887
Q gi|254780999|r    5 LKIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQAC-----SSAIDTLKSDTHD   79 (562)
Q Consensus         5 mkIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~-----~~~l~~La~~~~~   79 (562)
                      ||||++|+++. +|+++|++++.+++++|+++|||||||||+++|||++.+.  ...+.+..     ...++.|++.+++
T Consensus         1 mkiA~~Q~~~~-~d~~~Nl~~~~~~i~~A~~~ga~lvvfPE~~~tgy~~~~~--~~~~~~~a~~~~~~~~~~~l~~~A~~   77 (284)
T cd07573           1 VTVALVQMACS-EDPEANLAKAEELVREAAAQGAQIVCLQELFETPYFCQEE--DEDYFDLAEPPIPGPTTARFQALAKE   77 (284)
T ss_pred             CEEEEEECCCC-CCHHHHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCC--CHHHHHHHHHCCCCHHHHHHHHHHHH
T ss_conf             98999967189-9999999999999999998859799978883348981214--64789874231799899999999998


Q ss_pred             CCCEEEEEEEEEEC-CEEEEEEEEEE-CCEEEEEEEEEEECCCCCCCCCCCCCCCCC-CCEEEECCEEEEECCCCCCCHH
Q ss_conf             69789999999888-98789999996-997999887776235543332100377888-7614764745620111111101
Q gi|254780999|r   80 GGAGIVVGFPRQDQ-EGVLNSVVILD-AGNIIAVRDKINLPNYSEFHEKRTFISGYS-NDPIVFRDIRLGILICEDIWKN  156 (562)
Q Consensus        80 ~~i~iivG~p~~~~-~~~yNsa~vi~-~G~il~~y~K~~LP~y~~FdE~r~F~~G~~-~~~~~~~g~kiGv~ICeDlw~~  156 (562)
                      ++++|++|++++.+ +.+||++++|+ +|++++.|+|+|||++..|+|++||++|+. ..+|++.++|+|++||||+|+|
T Consensus        78 ~~i~i~~g~~e~~~~~~~~Nta~~i~~~G~i~~~yrK~hLp~~~~~~E~~~f~~G~~~~~v~~~~~g~iG~~ICyD~~fP  157 (284)
T cd07573          78 LGVVIPVSLFEKRGNGLYYNSAVVIDADGSLLGVYRKMHIPDDPGYYEKFYFTPGDTGFKVFDTRYGRIGVLICWDQWFP  157 (284)
T ss_pred             HCCEEEECCEEECCCCCEEEEEEEECCCCCEEEEEEEECCCCCCCEEEEEECCCCCCCCEEEEECCCEEEEEEEECCCCC
T ss_conf             29189963157769981798899986899446448720106899563664012688652058508855875475000473


Q ss_pred             HHHHHHHHHCCCCEEEECCCCCC-------CCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCC----CCCCCCCCEEECC
Q ss_conf             68999997147775993155533-------358078887889998543370464213568876----6210486435558
Q gi|254780999|r  157 SNICKHLKKQGAEFLFSLNASPY-------YHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQD----ELIFDGASFCFDG  225 (562)
Q Consensus       157 ~~~~~~la~~Gadlii~psASp~-------~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d----~lvf~G~S~I~d~  225 (562)
                      + .++.++++|||+|++|+|..+       .....+.+..++++||.+|++|++++|++|.++    .+.|.|+|+|++|
T Consensus       158 E-~~r~la~~Ga~iil~PsA~g~~~~~~~~~~~~~~~w~~l~~arA~eN~~yvv~~N~vG~~~~~~~~~~f~G~S~Iv~P  236 (284)
T cd07573         158 E-AARLMALQGAEILFYPTAIGSEPQEPPEGLDQRDAWQRVQRGHAIANGVPVAAVNRVGVEGDPGSGITFYGSSFIADP  236 (284)
T ss_pred             H-HHHHHHHCCCCEEEECCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCCCCCCEECCCEEEEEC
T ss_conf             9-999999869909997841467766655553369999999999887628827730233357889998407487289938


Q ss_pred             CCEEEEECCCCCCCEEEEEEEECCCCCCC
Q ss_conf             98599961677763799999833521236
Q gi|254780999|r  226 QQQLAFQMKHFSEQNFMTEWHYDQQLSQW  254 (562)
Q Consensus       226 ~G~ii~~~~~f~e~~~i~d~d~d~~~~~~  254 (562)
                      +|+++++++.++|+++++|+|++.....+
T Consensus       237 ~G~vla~~~~~~e~~i~adiDl~~l~~~R  265 (284)
T cd07573         237 FGEILAQASRDEEEILVAEFDLDEIEEVR  265 (284)
T ss_pred             CCCEEEECCCCCCEEEEEEEEHHHHHHHH
T ss_conf             99898734899878999997099999999


No 19 
>cd07580 nitrilase_2 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=100.00  E-value=0  Score=370.91  Aligned_cols=243  Identities=21%  Similarity=0.241  Sum_probs=208.1

Q ss_pred             EEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHH--HHHHHHHHHHHHHCCCE
Q ss_conf             8999963883688999999999999999985998999166444799844541488999999--99999999998876978
Q gi|254780999|r    6 KIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQAC--SSAIDTLKSDTHDGGAG   83 (562)
Q Consensus         6 kIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~--~~~l~~La~~~~~~~i~   83 (562)
                      |||++|+++++||+++|++++.+++++|+++||||||||||++|||++.|.-......+..  ...++.|++.+++++++
T Consensus         1 riA~~Q~~~~~gd~~~Nl~k~~~~i~~A~~~ga~lvvfPE~~ltGy~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~i~   80 (268)
T cd07580           1 RVACVQFDPRVGDLDANLARSIELIREAADAGANLVVLPELANTGYVFESRDEAFALAEEVPDGASTRAWAELAAELGLY   80 (268)
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEECCCCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHCCEE
T ss_conf             98999898987999999999999999999888919998888411698468899999865427988999999999972949


Q ss_pred             EEEEEEEEECCEEEEEEEEEECCEEEEEEEEEEECCCCCCCCCCCCCCCCC-CCEEEECCEEEEECCCCCCCHHHHHHHH
Q ss_conf             999999988898789999996997999887776235543332100377888-7614764745620111111101689999
Q gi|254780999|r   84 IVVGFPRQDQEGVLNSVVILDAGNIIAVRDKINLPNYSEFHEKRTFISGYS-NDPIVFRDIRLGILICEDIWKNSNICKH  162 (562)
Q Consensus        84 iivG~p~~~~~~~yNsa~vi~~G~il~~y~K~~LP~y~~FdE~r~F~~G~~-~~~~~~~g~kiGv~ICeDlw~~~~~~~~  162 (562)
                      +++|++++.++++|||+++|.+|.++++|+|+||++    +|++||.+|+. ..+|+++++|+|++||||+|+|+ .++.
T Consensus        81 iv~g~~e~~~~~~yNs~~~i~~~g~i~~yrK~hl~~----~E~~~f~~G~~~~~v~~~~~g~iG~~IC~D~~fPe-~~r~  155 (268)
T cd07580          81 IVAGFAERDGDRLYNSAVLVGPDGVIGTYRKAHLWN----EEKLLFEPGDLGLPVFDTPFGRIGVAICYDGWFPE-TFRL  155 (268)
T ss_pred             EEEEEEECCCCEEEEEEEEECCCCEEEEEECCCCCC----CHHHEEECCCCCCEEEEECCCEEEEEEECCCCCHH-HHHH
T ss_conf             998357732996999899963995899995356897----07854857998703898078579998840113709-9999


Q ss_pred             HHHCCCCEEEECCCCCCCCCCHH----HHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCCCCEEECCCCEEEEE-CCCCC
Q ss_conf             97147775993155533358078----88788999854337046421356887662104864355589859996-16777
Q gi|254780999|r  163 LKKQGAEFLFSLNASPYYHNKLK----KRHEIVTGQISHVHLPIIYVNQVGGQDELIFDGASFCFDGQQQLAFQ-MKHFS  237 (562)
Q Consensus       163 la~~Gadlii~psASp~~~~k~~----~R~~~~~~~a~e~~~~vvy~N~vGg~d~lvf~G~S~I~d~~G~ii~~-~~~f~  237 (562)
                      ++.+|||+|++|+++|.......    .+..+.++||.+|+++++++|++|.+++..|+|+|+|+||+|+++++ .+.++
T Consensus       156 la~~Ga~ii~~p~~~~~~~~~~~~~~~~~~~l~~arA~en~~~v~~~n~~G~~~~~~~~G~S~IvdP~G~vla~~~~~~~  235 (268)
T cd07580         156 LALQGADIVCVPTNWVPMPRPPEGGPPMANILAMAAAHSNGLFIACADRVGTERGQPFIGQSLIVGPDGWPLAGPASGDE  235 (268)
T ss_pred             HHHCCCCEEEEECCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCCEECCCCEEECCCCCEEEECCCCCC
T ss_conf             99869979999266888677531036899999999998779889996776776896564888799999988841068998


Q ss_pred             CCEEEEEEEECCCCCC
Q ss_conf             6379999983352123
Q gi|254780999|r  238 EQNFMTEWHYDQQLSQ  253 (562)
Q Consensus       238 e~~~i~d~d~d~~~~~  253 (562)
                      |+++++|+|++.....
T Consensus       236 e~ll~adiDl~~~~~~  251 (268)
T cd07580         236 EEILLADIDLTAARRK  251 (268)
T ss_pred             CEEEEEEECHHHHHHH
T ss_conf             7899999716999998


No 20 
>cd07568 ML_beta-AS_like mammalian-like beta-alanine synthase (beta-AS) and similar proteins (class 5 nitrilases). This family includes mammalian-like beta-AS (EC 3.5.1.6, also known as beta-ureidopropionase or N-carbamoyl-beta-alanine amidohydrolase). This enzyme catalyzes the third and final step in the catabolic pyrimidine catabolic pathway responsible for the degradation of uracil and thymine, the hydrolysis of N-carbamyl-beta-alanine and N-carbamyl-beta-aminoisobutyrate to the beta-amino acids, beta-alanine and beta-aminoisobutyrate respectively. This family belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 5. Members of this superfamily generally form homomeric
Probab=100.00  E-value=0  Score=369.58  Aligned_cols=250  Identities=17%  Similarity=0.191  Sum_probs=214.7

Q ss_pred             CCCEEEEEEECC-------CCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCC-HHHHHHH--HHHHH
Q ss_conf             886289999638-------8368899999999999999998599899916644479984454148-8999999--99999
Q gi|254780999|r    2 LKKLKIAIAQLN-------PVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFK-KSFIQAC--SSAID   71 (562)
Q Consensus         2 ~~~mkIal~Q~n-------~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~-~~f~~~~--~~~l~   71 (562)
                      ++++|||++|+.       |.++|.++|++|+++++++|+++|||||||||+++|||.+.+.-.. ..+.+..  ...++
T Consensus         1 ~~~~~~~~~q~~~~~~~~aPv~~d~eanl~k~~~li~eAa~~Ga~LivfPE~~~tgy~~~~~~~~~~~~a~~~~~gp~~~   80 (287)
T cd07568           1 SRIVRVGLIQASNVIPTDAPIEKQKEAMIQKHVTMIREAAEAGAQIVCLQEIFYGPYFCAEQDTKWYEFAEEIPNGPTTK   80 (287)
T ss_pred             CCEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCCCHHHHHHHCCCCCCHHHH
T ss_conf             94699999914378898887123399999999999999998859199878886568776544447888617058988999


Q ss_pred             HHHHHHHHCCCEEEEEEEEEE-CCEEEEEEEEEE-CCEEEEEEEEEEECCCCCCCCCCCCCCCCC-CCEEEECCEEEEEC
Q ss_conf             999998876978999999988-898789999996-997999887776235543332100377888-76147647456201
Q gi|254780999|r   72 TLKSDTHDGGAGIVVGFPRQD-QEGVLNSVVILD-AGNIIAVRDKINLPNYSEFHEKRTFISGYS-NDPIVFRDIRLGIL  148 (562)
Q Consensus        72 ~La~~~~~~~i~iivG~p~~~-~~~~yNsa~vi~-~G~il~~y~K~~LP~y~~FdE~r~F~~G~~-~~~~~~~g~kiGv~  148 (562)
                      .|++.++++++++++|+.++. ++.+||++++|. +|++++.|+|+|||+++.|.|++||.+|+. ..+|+++++|+|++
T Consensus        81 ~l~~~Ar~~~i~iv~g~~e~~~~g~lyNt~~~i~~~G~ii~~yrK~hlp~~~~~~E~~~f~~G~~~~~Vf~t~~g~iG~l  160 (287)
T cd07568          81 RFAALAKEYNMVLILPIYEKEQGGTLYNTAAVIDADGTYLGKYRKNHIPHVGGFWEKFYFRPGNLGYPVFDTAFGKIGVY  160 (287)
T ss_pred             HHHHHHHHCCCEEEEEEEEECCCCCEEEEEEEECCCCCEEEEECCCCCCCCCCCCEEEEECCCCCCCEEEEECCEEEEEE
T ss_conf             99999998592899635787699968999999999997966880134979998470035768898845999799069886


Q ss_pred             CCCCCCHHHHHHHHHHHCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCC---CCCCCCCCEEECC
Q ss_conf             1111110168999997147775993155533358078887889998543370464213568876---6210486435558
Q gi|254780999|r  149 ICEDIWKNSNICKHLKKQGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQD---ELIFDGASFCFDG  225 (562)
Q Consensus       149 ICeDlw~~~~~~~~la~~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d---~lvf~G~S~I~d~  225 (562)
                      ||||+|+|+ .++.++.+||++|++|+|++...+.. .+....++||.+|+++++++|++|.++   ...|.|+|+|++|
T Consensus       161 ICyD~~fPE-~~r~la~~Ga~ii~~Psa~~~~~~~~-~w~~~~~arA~en~~yv~~~n~~G~e~~~~~~~~~G~S~Ii~P  238 (287)
T cd07568         161 ICYDRHFPE-GWRALGLNGAEIVFNPSATVAGLSEY-LWKLEQPAAAVANGYFVGAINRVGTEAPWNIGEFYGSSYFVDP  238 (287)
T ss_pred             ECCCCCCHH-HHHHHHHCCCCEEEECCCCCCCCCHH-HHHHHHHHHHHHCCCEEEEECCCCCCCCCCCCCCCCCEEEECC
T ss_conf             512325729-99999987997998377777775504-5778988888875936999545566678877856375089889


Q ss_pred             CCEEEEECCCCCCCEEEEEEEECCCCCC
Q ss_conf             9859996167776379999983352123
Q gi|254780999|r  226 QQQLAFQMKHFSEQNFMTEWHYDQQLSQ  253 (562)
Q Consensus       226 ~G~ii~~~~~f~e~~~i~d~d~d~~~~~  253 (562)
                      +|+++++++.++|+++++|+|++.....
T Consensus       239 ~G~via~~~~~~e~ii~adiDl~~~~~~  266 (287)
T cd07568         239 RGQFVASASRDKDELLVAELDLDLIREV  266 (287)
T ss_pred             CCCEEEECCCCCCEEEEEEECHHHHHHH
T ss_conf             9988865379988899999658999999


No 21 
>cd07581 nitrilase_3 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=100.00  E-value=0  Score=367.32  Aligned_cols=239  Identities=21%  Similarity=0.257  Sum_probs=209.9

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCEEEE
Q ss_conf             99996388368899999999999999998599899916644479984454148899999999999999998876978999
Q gi|254780999|r    7 IAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQACSSAIDTLKSDTHDGGAGIVV   86 (562)
Q Consensus         7 Ial~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~~~~l~~La~~~~~~~i~iiv   86 (562)
                      ||++|+++. ||+++|++++++++++|+++|||||||||++++||+..+..+.+.........++.|++.++++++++++
T Consensus         1 IA~~Q~~~~-gd~~~Nl~ki~~~i~~A~~~gadlvvfPE~~l~~~~~~~~~~~~~a~~~~~~~~~~l~~~A~~~~i~iv~   79 (255)
T cd07581           1 VALAQFASS-GDKEENLEKVRRLLAEAAAAGADLVVFPEYTMARFGDGLDDYARVAEPLDGPFVSALARLARELGITVVA   79 (255)
T ss_pred             CEEEECCCC-CCHHHHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHCCCEEEE
T ss_conf             489994799-9999999999999999998839899989882005994377888764246869999999999877997998


Q ss_pred             EEEEEEC-CEEEEEEEEEE-CCEEEEEEEEEEECCCCCCCCCCCCCCCCCCC--EEEECCEEEEECCCCCCCHHHHHHHH
Q ss_conf             9999888-98789999996-99799988777623554333210037788876--14764745620111111101689999
Q gi|254780999|r   87 GFPRQDQ-EGVLNSVVILD-AGNIIAVRDKINLPNYSEFHEKRTFISGYSND--PIVFRDIRLGILICEDIWKNSNICKH  162 (562)
Q Consensus        87 G~p~~~~-~~~yNsa~vi~-~G~il~~y~K~~LP~y~~FdE~r~F~~G~~~~--~~~~~g~kiGv~ICeDlw~~~~~~~~  162 (562)
                      |++++.+ +++||++++|. +|++++.|+|+||++...|+|++||.+|+...  +|+++++|+|++||||+|+|+ +++.
T Consensus        80 G~~e~~~~~~~yNta~~i~~~G~i~~~y~K~hL~~~~~~~E~~~f~~G~~~~~~~~~~~g~~iG~~IC~D~~fPe-~~r~  158 (255)
T cd07581          80 GMFEPAGDGRVYNTLVVVGPDGEIIAVYRKIHLYDAFGFRESDTVAPGDELPPVVFVVGGVKVGLATCYDLRFPE-LARA  158 (255)
T ss_pred             EEEEECCCCCEEEEEEEEECCCCEEEEEEEEECCCCCCCCEEEEEECCCCCCEEEEEECCEEEEEEEEEECCCCH-HHHH
T ss_conf             003788999489999999689965889953425777887623457359987518998299589978877067819-9999


Q ss_pred             HHHCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCCCCEEECCCCEEEEECCCCCCCEEE
Q ss_conf             97147775993155533358078887889998543370464213568876621048643555898599961677763799
Q gi|254780999|r  163 LKKQGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQDELIFDGASFCFDGQQQLAFQMKHFSEQNFM  242 (562)
Q Consensus       163 la~~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d~lvf~G~S~I~d~~G~ii~~~~~f~e~~~i  242 (562)
                      ++++||++|++|++|+....+.+.|..++++||.||++|++++|++|.+    |.|+|+|++|+|+++++++. +|++++
T Consensus       159 la~~Ga~li~~psa~~~~~~~~~~w~~~~~arA~en~~~vv~~n~~G~~----~~G~S~Iv~P~G~ila~~~~-~E~~i~  233 (255)
T cd07581         159 LALAGADVIVVPAAWVAGPGKEEHWETLLRARALENTVYVAAAGQAGPR----GIGRSMVVDPLGVVLADLGE-REGLLV  233 (255)
T ss_pred             HHHCCCCEEEECCCCCCCCCHHHHHHHHHHHHHHHCCCEEEEEECCCCC----CCCEEEEECCCCCEEEECCC-CCCEEE
T ss_conf             9987997999877888988759999999999999659879999471799----74159999899749775599-982899


Q ss_pred             EEEEECCCCC
Q ss_conf             9998335212
Q gi|254780999|r  243 TEWHYDQQLS  252 (562)
Q Consensus       243 ~d~d~d~~~~  252 (562)
                      +|+|++....
T Consensus       234 a~iDl~~~~~  243 (255)
T cd07581         234 ADIDPERVEE  243 (255)
T ss_pred             EEECHHHHHH
T ss_conf             9954999999


No 22 
>cd07572 nit Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases). This subgroup includes mammalian Nit1 and Nit2, the Nit1-like domain of the invertebrate NitFhit, and various uncharacterized bacterial and archaeal Nit-like proteins. Nit1 and Nit2 are candidate tumor suppressor proteins. In NitFhit, the Nit1-like domain is encoded as a fusion protein with the non-homologous tumor suppressor, fragile histidine triad (Fhit). Mammalian Nit1 and Fhit may affect distinct signal pathways, and both may participate in DNA damage-induced apoptosis. Nit1 is a negative regulator in T cells. Overexpression of Nit2 in HeLa cells leads to a suppression of cell growth through cell cycle arrest in G2. These Nit proteins and the Nit1-like domain of NitFhit belong to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in t
Probab=100.00  E-value=0  Score=370.15  Aligned_cols=243  Identities=21%  Similarity=0.268  Sum_probs=211.1

Q ss_pred             EEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCEEE
Q ss_conf             89999638836889999999999999999859989991664447998445414889999999999999999887697899
Q gi|254780999|r    6 KIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQACSSAIDTLKSDTHDGGAGIV   85 (562)
Q Consensus         6 kIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~~~~l~~La~~~~~~~i~ii   85 (562)
                      |||++|+++. +|+++|++++++++++|+++|||||||||++++||................+.++.|++.+++++++++
T Consensus         1 rIA~~Q~~~~-~d~~~Nl~k~~~~i~~Aa~~gadlivfPE~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~A~~~~i~iv   79 (265)
T cd07572           1 RVALIQMTST-ADKEANLARAKELIEEAAAQGAKLVVLPECFNYPGGTDAFKLALAEEEGDGPTLQALSELAKEHGIWLV   79 (265)
T ss_pred             CEEEEECCCC-CCHHHHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCHHHHHHHCCCCCCHHHHHHHHHHHHHCCEEE
T ss_conf             9999968898-899999999999999999885979998865247788603556652454799899999999998098899


Q ss_pred             EE-EEEEE--CCEEEEEEEEEE-CCEEEEEEEEEEE-----CCCCCCCCCCCCCCCCCCCEEEECCEEEEECCCCCCCHH
Q ss_conf             99-99988--898789999996-9979998877762-----355433321003778887614764745620111111101
Q gi|254780999|r   86 VG-FPRQD--QEGVLNSVVILD-AGNIIAVRDKINL-----PNYSEFHEKRTFISGYSNDPIVFRDIRLGILICEDIWKN  156 (562)
Q Consensus        86 vG-~p~~~--~~~~yNsa~vi~-~G~il~~y~K~~L-----P~y~~FdE~r~F~~G~~~~~~~~~g~kiGv~ICeDlw~~  156 (562)
                      +| ++++.  ++++||++++|. +|+++++|+|+||     |++..|+|.+||.+|+...+|+++++|+|++||||+|+|
T Consensus        80 ~G~~~e~~~~~g~~yNsa~vi~~~G~i~~~yrK~HLf~~~~p~~~~~~E~~~f~~G~~~~vf~~~~~riG~~ICyD~~fP  159 (265)
T cd07572          80 GGSIPERDDDDGKVYNTSLVFDPDGELVARYRKIHLFDVDVPGGISYRESDTLTPGDEVVVVDTPFGKIGLGICYDLRFP  159 (265)
T ss_pred             EEEEEEEECCCCEEEEEEEEECCCCCEEEEEEEEEEECCCCCCCCCEEEEEEEECCCEEEEECCCCCCCCEEEEECCCCC
T ss_conf             52489985789948999999879986887861378603468997623013368779852450227843412676044584


Q ss_pred             HHHHHHHHHCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCC-CCCCCCCCCEEECCCCEEEEECCC
Q ss_conf             6899999714777599315553335807888788999854337046421356887-662104864355589859996167
Q gi|254780999|r  157 SNICKHLKKQGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQ-DELIFDGASFCFDGQQQLAFQMKH  235 (562)
Q Consensus       157 ~~~~~~la~~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~-d~lvf~G~S~I~d~~G~ii~~~~~  235 (562)
                      + +++.++.+|||+|++|+|+++..++.+ +..++++||.||+++++++|++|.+ +...|.|+|+|+||+|+++++++.
T Consensus       160 E-~~r~la~~Ga~ii~~Psa~~~~~g~~~-w~~~~~aRA~en~~~v~~~N~~G~~~~~~~~~G~S~I~~P~G~ila~~~~  237 (265)
T cd07572         160 E-LARALARQGADILTVPAAFTMTTGPAH-WELLLRARAIENQCYVVAAAQAGDHEAGRETYGHSMIVDPWGEVLAEAGE  237 (265)
T ss_pred             H-HHHHHHHCCCCEEEECCCCCCCCCHHH-HHHHHHHHHHHCCCEEEEECCCCCCCCCCEECCCEEEECCCCCEEEECCC
T ss_conf             9-899877649969997453577752889-99999999987794698414644589985870335999599988876599


Q ss_pred             CCCCEEEEEEEECCCCC
Q ss_conf             77637999998335212
Q gi|254780999|r  236 FSEQNFMTEWHYDQQLS  252 (562)
Q Consensus       236 f~e~~~i~d~d~d~~~~  252 (562)
                       +|+++++|+|++....
T Consensus       238 -~E~ll~adiDl~~i~~  253 (265)
T cd07572         238 -GEGVVVAEIDLDRLEE  253 (265)
T ss_pred             -CCEEEEEEECHHHHHH
T ss_conf             -9879999964999999


No 23 
>cd07197 nitrilase Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes. This superfamily (also known as the C-N hydrolase superfamily) contains hydrolases that break carbon-nitrogen bonds; it includes nitrilases, cyanide dihydratases, aliphatic amidases, N-terminal amidases, beta-ureidopropionases, biotinidases, pantotheinase, N-carbamyl-D-amino acid amidohydrolases, the glutaminase domain of glutamine-dependent NAD+ synthetase, apolipoprotein N-acyltransferases, and N-carbamoylputrescine amidohydrolases, among others. These enzymes depend on a Glu-Lys-Cys catalytic triad, and work through a thiol acylenzyme intermediate. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer. These oligomers include dimers, tetramers, hexamers, octamers, tetradecamers, octadecamers, as well as variable length helical arrangements and homo-oligomeric spirals. These proteins have roles in vitamin and
Probab=100.00  E-value=0  Score=360.50  Aligned_cols=238  Identities=28%  Similarity=0.423  Sum_probs=216.0

Q ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHH-HHHHHHHHHHHHHCCCEEE
Q ss_conf             999963883688999999999999999985998999166444799844541488999999-9999999999887697899
Q gi|254780999|r    7 IAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQAC-SSAIDTLKSDTHDGGAGIV   85 (562)
Q Consensus         7 Ial~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~-~~~l~~La~~~~~~~i~ii   85 (562)
                      ||++|+++.+||+++|++++++++++|+++|+|||||||+++|||++.+......+.+.. ...++.|++.+++++++++
T Consensus         1 IA~~Q~~~~~~d~~~Nl~~i~~~i~~A~~~gadlvv~PE~~l~Gy~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~i~i~   80 (253)
T cd07197           1 IAAVQLAPKIGDVEANLAKALRLIKEAAEQGADLIVLPELFLTGYSFESAKEDLDLAEELDGPTLEALAELAKELGIYIV   80 (253)
T ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEECCCCCCCCCCHHHHHHCHHHHHHCCCHHHHHHHHHHHHCCCEEE
T ss_conf             09999998768899999999999999998859099958873035983565557766543772999999999988097899


Q ss_pred             EEEEEEECCEEEEEEEEEE-CCEEEEEEEEEEECCCCCCCCCCCCCCCCCCCEEEECCEEEEECCCCCCCHHHHHHHHHH
Q ss_conf             9999988898789999996-997999887776235543332100377888761476474562011111110168999997
Q gi|254780999|r   86 VGFPRQDQEGVLNSVVILD-AGNIIAVRDKINLPNYSEFHEKRTFISGYSNDPIVFRDIRLGILICEDIWKNSNICKHLK  164 (562)
Q Consensus        86 vG~p~~~~~~~yNsa~vi~-~G~il~~y~K~~LP~y~~FdE~r~F~~G~~~~~~~~~g~kiGv~ICeDlw~~~~~~~~la  164 (562)
                      +|++++.++++||+++++. +|+++++|+|+|||+   |+|.+||.+|+...+|+++++|+|++||+|+|+|+ +++.++
T Consensus        81 ~G~~e~~~~~~yNs~~~i~~~G~~i~~y~K~~l~~---~~E~~~~~~G~~~~v~~~~~~~ig~~IC~D~~~pe-~~r~~~  156 (253)
T cd07197          81 AGIAEKDGDKLYNTAVVIDPDGEIIGKYRKIHLFD---FGERRYFSPGDEFPVFDTPGGKIGLLICYDLRFPE-LARELA  156 (253)
T ss_pred             EEEEEEECCEEEEEEEEECCCCCEEEEEEECCCCC---CCHHHCCCCCCCCEEEEECCEEEEEEEECCCCCHH-HHHHHH
T ss_conf             73689439988898999879986898887569999---41420337999754776299689866720535779-999999


Q ss_pred             HCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCCCCEEECCCCEEEEECCCCCCCEEEEE
Q ss_conf             14777599315553335807888788999854337046421356887662104864355589859996167776379999
Q gi|254780999|r  165 KQGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQDELIFDGASFCFDGQQQLAFQMKHFSEQNFMTE  244 (562)
Q Consensus       165 ~~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d~lvf~G~S~I~d~~G~ii~~~~~f~e~~~i~d  244 (562)
                      .+|||+|++|+|+|+..  ...+..++++||.+|+++++++|++|.+++..|.|+|+|++|+|+++++++. .|+++++|
T Consensus       157 ~~Ga~lil~psa~~~~~--~~~~~~~~~arA~en~~~vv~~n~vG~~~~~~~~G~S~Ii~P~G~~l~~~~~-~e~~i~a~  233 (253)
T cd07197         157 LKGADIILVPAAWPTAR--REHWELLLRARAIENGVYVVAANRVGEEGGLEFAGGSMIVDPDGEVLAEASE-EEGILVAE  233 (253)
T ss_pred             HCCCCEEEEECCCCCCC--CHHHHHHHHHHHHHCCCEEEEECCCCCCCCCCCCCEEEEECCCCCEEEECCC-CCEEEEEE
T ss_conf             75999999926789987--2145677888888549779997663368996044657999599829863599-98299999


Q ss_pred             EEECCCC
Q ss_conf             9833521
Q gi|254780999|r  245 WHYDQQL  251 (562)
Q Consensus       245 ~d~d~~~  251 (562)
                      +|++...
T Consensus       234 idl~~~~  240 (253)
T cd07197         234 LDLDELR  240 (253)
T ss_pred             ECHHHHH
T ss_conf             7099999


No 24 
>cd07577 Ph0642_like Pyrococcus horikoshii Ph0642 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases). Uncharacterized subgroup of the nitrilase superfamily. This superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. Pyrococcus horikoshii Ph0642 is a hypothetical protein belonging to this subgroup. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). This subgroup was classified as belonging to class 13, which represents proteins that at the time were difficult to place in a distinct similarity group. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=100.00  E-value=0  Score=362.65  Aligned_cols=234  Identities=23%  Similarity=0.298  Sum_probs=200.1

Q ss_pred             EEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHH--HHHHHHHHHHHHHCCCE
Q ss_conf             8999963883688999999999999999985998999166444799844541488999999--99999999998876978
Q gi|254780999|r    6 KIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQAC--SSAIDTLKSDTHDGGAG   83 (562)
Q Consensus         6 kIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~--~~~l~~La~~~~~~~i~   83 (562)
                      |||++|+++.+||+++|++++.+++++|   +|||||||||++|||+..+.-....+.+..  ...++.|++.+++++++
T Consensus         1 kIA~~Q~~~~~gd~~~Nl~k~~~~i~~a---~adlvvfPEl~ltGY~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~i~   77 (259)
T cd07577           1 KVGYVQFNPKFGEVEKNLKKVESLIKGV---EADLIVLPELFNTGYAFTSKEEVASLAESIPDGPTTRFLQELARETGAY   77 (259)
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHHC---CCCEEECCCCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHCCCE
T ss_conf             9999989898899999999999999975---9989997886102688899899998742536988999999999972958


Q ss_pred             EEEEEEEEECCEEEEEEEEEECCEEEEEEEEEEECCCCCCCCCCCCCCCCC-CCEEEECCEEEEECCCCCCCHHHHHHHH
Q ss_conf             999999988898789999996997999887776235543332100377888-7614764745620111111101689999
Q gi|254780999|r   84 IVVGFPRQDQEGVLNSVVILDAGNIIAVRDKINLPNYSEFHEKRTFISGYS-NDPIVFRDIRLGILICEDIWKNSNICKH  162 (562)
Q Consensus        84 iivG~p~~~~~~~yNsa~vi~~G~il~~y~K~~LP~y~~FdE~r~F~~G~~-~~~~~~~g~kiGv~ICeDlw~~~~~~~~  162 (562)
                      +++|+|++.++++||+++++.+|.+++.|+|+||.    |+|++||.+|+. ..+|+++++|+|++||||+|+|+ +++.
T Consensus        78 iv~G~~e~~~~~~yNs~~~i~~~g~i~~y~K~hl~----~~E~~~f~~G~~~~~v~~~~~~kiG~~IC~D~~fPe-~~r~  152 (259)
T cd07577          78 IVAGLPERDGDKFYNSAVVVGPEGYIGIYRKTHLF----YEEKLFFEPGDTGFRVFDIGDIRIGVMICFDWYFPE-AART  152 (259)
T ss_pred             EEEEEEEEECCEEEEEEEEECCCCEEEEEECCCCC----CCCCEEEECCCCCCEEEEECCEEEEEEEEHHCCCHH-HHHH
T ss_conf             99979997799899999998199338999654799----752128827997504997799898645782117719-9999


Q ss_pred             HHHCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCC----CCCCCCCCCCEEECCCCEEEEECCCCCC
Q ss_conf             971477759931555333580788878899985433704642135688----7662104864355589859996167776
Q gi|254780999|r  163 LKKQGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGG----QDELIFDGASFCFDGQQQLAFQMKHFSE  238 (562)
Q Consensus       163 la~~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg----~d~lvf~G~S~I~d~~G~ii~~~~~f~e  238 (562)
                      ++.+|||+|++|++++..     .+...+++||.+|+++++++|++|.    .+.+.|+|+|+|++|+|+++++++.++|
T Consensus       153 la~~Ga~ii~~ps~~~~~-----~~~~~~~arA~en~~~vv~~n~vG~~~~~~~~~~f~G~S~i~~P~G~ila~~~~~~E  227 (259)
T cd07577         153 LALKGADIIAHPANLVLP-----YCPKAMPIRALENRVFTITANRIGTEERGGETLRFIGKSQITSPKGEVLARAPEDGE  227 (259)
T ss_pred             HHHCCCCEEEEEECCCCH-----HHHHHHHHHHHHCCCEEEEEEEEECCCCCCCCCEECCCEEEECCCCCEEEECCCCCC
T ss_conf             998799899990046872-----159999999997498699997555157898873475894999899989887799988


Q ss_pred             CEEEEEEEECCCCC
Q ss_conf             37999998335212
Q gi|254780999|r  239 QNFMTEWHYDQQLS  252 (562)
Q Consensus       239 ~~~i~d~d~d~~~~  252 (562)
                      +++++|+|++....
T Consensus       228 ~~l~adiDl~~~~~  241 (259)
T cd07577         228 EVLVAEIDPRLARD  241 (259)
T ss_pred             EEEEEEEEHHHHHH
T ss_conf             89999970699898


No 25 
>cd07569 DCase N-carbamyl-D-amino acid amidohydrolase (DCase, class 6 nitrilases). DCase hydrolyses N-carbamyl-D-amino acids to produce D-amino acids. It is an important biocatalyst in the pharmaceutical industry, producing useful D-amino acids for example in the preparation of beta-lactam antibiotics. This subgroup belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 6. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer. Agrobacterium radiobacter DCase forms a tetramer (dimer of dimers). Some DCases may form trimers.
Probab=100.00  E-value=0  Score=360.09  Aligned_cols=252  Identities=18%  Similarity=0.242  Sum_probs=210.2

Q ss_pred             CCCEEEEEEECCCCCC--CHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHH----HHHH--HHHHHHH
Q ss_conf             8862899996388368--899999999999999998599899916644479984454148899----9999--9999999
Q gi|254780999|r    2 LKKLKIAIAQLNPVVG--DIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSF----IQAC--SSAIDTL   73 (562)
Q Consensus         2 ~~~mkIal~Q~n~~~g--d~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f----~~~~--~~~l~~L   73 (562)
                      .+|||||++|++|+..  |.++|++|++++|++|+++||+|||||||++|||.|..+......    .+..  ...++.|
T Consensus         1 ~~~~rvA~~Q~~p~~~~~~~e~nl~k~~~~i~~Aa~~GA~LvvfPE~~~tgy~p~~~~~~~~~~~~~~e~~~~gp~~~~l   80 (302)
T cd07569           1 SRQVILAAAQMGPIARAETRESVVARLIALLEEAASRGAQLVVFPELALTTFFPRWYFPDEAELDSFFETEMPNPETQPL   80 (302)
T ss_pred             CCEEEEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCHHHHHH
T ss_conf             92789999900267786459999999999999999880999987899766887443458999999766431899899999


Q ss_pred             HHHHHHCCCEEEEEEEEEEC----CEEEEEEEEEE-CCEEEEEEEEEEECCCCCCC--------CCCCCCCCCC-CCEEE
Q ss_conf             99988769789999999888----98789999996-99799988777623554333--------2100377888-76147
Q gi|254780999|r   74 KSDTHDGGAGIVVGFPRQDQ----EGVLNSVVILD-AGNIIAVRDKINLPNYSEFH--------EKRTFISGYS-NDPIV  139 (562)
Q Consensus        74 a~~~~~~~i~iivG~p~~~~----~~~yNsa~vi~-~G~il~~y~K~~LP~y~~Fd--------E~r~F~~G~~-~~~~~  139 (562)
                      ++.++++++.+++|++++..    +++||++++|. +|++++.|+|+|||++.+|+        |++||.+|+. ..+|+
T Consensus        81 ~~~A~~~~i~v~~G~~e~~~~~~~~~~yNt~~~i~~~G~il~~yrK~HLp~~~~~~~~~~~~~~E~~~f~~Gd~~~~V~~  160 (302)
T cd07569          81 FDRAKELGIGFYLGYAELTEDGGVKRRFNTSILVDKSGKIVGKYRKVHLPGHKEPEPYRPFQHLEKRYFEPGDLGFPVFR  160 (302)
T ss_pred             HHHHHHCCCEEEECCCCCCCCCCCCCEEEEEEEECCCCCEEEEEECCCCCCCCCCCCCCCCCCCEEEEECCCCCCCEEEE
T ss_conf             99999849899965641345567864277899998998499888701178865545787644331467658987640476


Q ss_pred             ECCEEEEECCCCCCCHHHHHHHHHHHCCCCEEEECCCCCCC----CCCHHHH----HHHHHHHHHHCCCEEEECCCCCCC
Q ss_conf             64745620111111101689999971477759931555333----5807888----788999854337046421356887
Q gi|254780999|r  140 FRDIRLGILICEDIWKNSNICKHLKKQGAEFLFSLNASPYY----HNKLKKR----HEIVTGQISHVHLPIIYVNQVGGQ  211 (562)
Q Consensus       140 ~~g~kiGv~ICeDlw~~~~~~~~la~~Gadlii~psASp~~----~~k~~~R----~~~~~~~a~e~~~~vvy~N~vGg~  211 (562)
                      +.++|+|++||||+|+|+ ..+.++.+||+||+++..+|..    ......|    .-.+++||.+|+++++++|++|.+
T Consensus       161 t~~griG~~ICyD~~fPE-~~r~la~~GA~li~~~~~~p~~~~~~~~~~~~~~~~~~l~~~arA~en~~~vv~~n~~G~~  239 (302)
T cd07569         161 VPGGIMGMCICNDRRWPE-TWRVMGLQGVELVLLGYNTPTHNPPAPEHDHLRLFHNLLSMQAGAYQNGTWVVAAAKAGME  239 (302)
T ss_pred             ECCEEEEEEEECCCCCHH-HHHHHHHCCCCEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCC
T ss_conf             388379998604656749-9999997799599962677666888664356789999999863255347717850456677


Q ss_pred             CCCCCCCCCEEECCCCEEEEECCCCCCCEEEEEEEECCCCCCC
Q ss_conf             6621048643555898599961677763799999833521236
Q gi|254780999|r  212 DELIFDGASFCFDGQQQLAFQMKHFSEQNFMTEWHYDQQLSQW  254 (562)
Q Consensus       212 d~lvf~G~S~I~d~~G~ii~~~~~f~e~~~i~d~d~d~~~~~~  254 (562)
                      +...|.|+|+|+||+|+++++++..+|+++++|+|++.....+
T Consensus       240 ~~~~~~G~S~Ii~P~G~vlaea~~~~e~ll~AdlDl~~~~~~R  282 (302)
T cd07569         240 DGCDLIGGSCIVAPTGEIVAQATTLEDEVIVADCDLDLCREGR  282 (302)
T ss_pred             CCCEEECCCEEECCCCCEEEECCCCCCEEEEEEECHHHHHHHH
T ss_conf             8973763418998999987604889986999995699999998


No 26 
>PRK10438 hypothetical protein; Provisional
Probab=100.00  E-value=0  Score=353.63  Aligned_cols=243  Identities=17%  Similarity=0.229  Sum_probs=204.7

Q ss_pred             CCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             88628999963883688999999999999999985998999166444799844541488999999999999999988769
Q gi|254780999|r    2 LKKLKIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQACSSAIDTLKSDTHDGG   81 (562)
Q Consensus         2 ~~~mkIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~~~~l~~La~~~~~~~   81 (562)
                      |++||||++|+++..+|+++|++++.+++++|  +|+|||||||||+|||..++...  . . ...+.++.+.+.+++.+
T Consensus         1 M~~mkial~Q~~~~~~D~~~Nl~~~~~~i~~a--~gadlivlPElf~tGy~~~~~~~--~-~-~~~~~~~~l~~~A~~~~   74 (256)
T PRK10438          1 MSGLKITLLQQPLVWMDGPANLRHFDRQLEGI--TGRDVIVLPEMFTTGFAMEAAAS--S-L-PQDDVVNWMTAKAQQTN   74 (256)
T ss_pred             CCCCEEEEEECCCCCCCHHHHHHHHHHHHHHC--CCCCEEECCCCCCCCCCCHHHHH--H-H-CCCHHHHHHHHHHHHCC
T ss_conf             99778999956676379999999999999745--49999990875567887215566--4-2-17589999999998789


Q ss_pred             CEEEEEEEEEECCEEEEEEEEEEC-CEEEEEEEEEEECCCCCCCCCCCCCCCCCCCEEEECCEEEEECCCCCCCHHHHHH
Q ss_conf             789999999888987899999969-9799988777623554333210037788876147647456201111111016899
Q gi|254780999|r   82 AGIVVGFPRQDQEGVLNSVVILDA-GNIIAVRDKINLPNYSEFHEKRTFISGYSNDPIVFRDIRLGILICEDIWKNSNIC  160 (562)
Q Consensus        82 i~iivG~p~~~~~~~yNsa~vi~~-G~il~~y~K~~LP~y~~FdE~r~F~~G~~~~~~~~~g~kiGv~ICeDlw~~~~~~  160 (562)
                      +.|+.+.+++.+++.||+++++.+ |+ ++.|+|+||  ++.++|.+||.+|+...+|+++++|+|++||||+|||+ .+
T Consensus        75 ~~i~g~~~~~~~~~~~N~~~~i~~~G~-v~~YrK~HL--f~~~~E~~~f~~G~~~~v~~~~g~~iG~~ICYDlrFPe-~~  150 (256)
T PRK10438         75 ALIAGSVALQTESGAVNRFLLVEPGGT-VHFYDKRHL--FRMADEHLHYKAGNARVIVEWRGWRILPLVCYDLRFPV-WS  150 (256)
T ss_pred             EEEEEEEEEECCCCCEEEEEEEECCCE-EEEECCEEC--CCCCCCEEEECCCCCCEEEEECCCEEEEEEEECCCCHH-HH
T ss_conf             099999989729972899999928966-988522405--89888201587999707999789137998862346849-99


Q ss_pred             HHHHHCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCC-CCCCCCCCEEECCCCEEEEECCCCCCC
Q ss_conf             9997147775993155533358078887889998543370464213568876-621048643555898599961677763
Q gi|254780999|r  161 KHLKKQGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQD-ELIFDGASFCFDGQQQLAFQMKHFSEQ  239 (562)
Q Consensus       161 ~~la~~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d-~lvf~G~S~I~d~~G~ii~~~~~f~e~  239 (562)
                      +.  ++|++++++|+++|...  ...+..++++||.||+++++++|++|.++ .+.|.|+|+|+||+|+++++++..++.
T Consensus       151 r~--l~~~~~~~~~a~~p~~~--~~hW~~llrARAiENq~fv~~~N~~G~~~~g~~~~G~S~ivdP~G~vla~a~~~e~~  226 (256)
T PRK10438        151 RN--LNDYDLALYVANWPAPR--SLHWQTLLTARAIENQAYVAGCNRVGSDGNGHHYRGDSRIINPQGEIIATADPHQAT  226 (256)
T ss_pred             HH--HCCCCEEEEECCCCCCC--CHHHHHHHHHHHHHCCCEEEEECCCCCCCCCCEEEECEEEECCCCCEEEECCCCCCE
T ss_conf             96--47597999966787641--178999999999865828999714445899988841309994997053647899978


Q ss_pred             EEEEEEEECCCCCCCCCCC
Q ss_conf             7999998335212365557
Q gi|254780999|r  240 NFMTEWHYDQQLSQWNYMS  258 (562)
Q Consensus       240 ~~i~d~d~d~~~~~~~~~~  258 (562)
                      ++++++|.+.....+...+
T Consensus       227 ~i~a~id~~~v~~~R~~~P  245 (256)
T PRK10438        227 RIDAELSLVALQEYREKFP  245 (256)
T ss_pred             EEEEEECHHHHHHHHHHCC
T ss_conf             9999951999999998787


No 27 
>cd07578 nitrilase_1_R1 First nitrilase domain of an uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). Members of this subgroup have two nitrilase domains. This is the first of those two domains. The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=100.00  E-value=0  Score=353.80  Aligned_cols=239  Identities=21%  Similarity=0.222  Sum_probs=204.2

Q ss_pred             EEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHH-HHHHHHHHHHHHHCCCE
Q ss_conf             28999963883688999999999999999985998999166444799844541488999999-99999999998876978
Q gi|254780999|r    5 LKIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQAC-SSAIDTLKSDTHDGGAG   83 (562)
Q Consensus         5 mkIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~-~~~l~~La~~~~~~~i~   83 (562)
                      .|||++|+++.+||+++|++++.+++++|+++||+|||||||++|||+..|.-....+.+.. ....+.+++.+++++++
T Consensus         1 fkvA~vQ~~~~~gd~~~Nl~~~~~~i~~A~~~ga~lvvfPEl~~tGy~~~~~~~~~~~~e~~~g~~~~~l~~~A~~~~i~   80 (258)
T cd07578           1 YKAAAIQFEPEMGEKERNIERLLALCEEAARAGARLIVTPEMATTGYCWYDRAEIAPFVEPIPGPTTARFAELAREHDCY   80 (258)
T ss_pred             CEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHCCCC
T ss_conf             98999968887889999999999999999988697999898963479866988989877648988999999999873992


Q ss_pred             EEEEEEEEE--CCEEEEEEEEEECCEEEEEEEEEEECCCCCCCCCCCCCCCCC-CCEEEECCEEEEECCCCCCCHHHHHH
Q ss_conf             999999988--898789999996997999887776235543332100377888-76147647456201111111016899
Q gi|254780999|r   84 IVVGFPRQD--QEGVLNSVVILDAGNIIAVRDKINLPNYSEFHEKRTFISGYS-NDPIVFRDIRLGILICEDIWKNSNIC  160 (562)
Q Consensus        84 iivG~p~~~--~~~~yNsa~vi~~G~il~~y~K~~LP~y~~FdE~r~F~~G~~-~~~~~~~g~kiGv~ICeDlw~~~~~~  160 (562)
                      +++|+++..  ++.+||+++++.++.++++|+|+|+.    +.|++||.+|+. ..+|++.++|+|++||||+|+|+ ++
T Consensus        81 iv~G~~e~~~~~g~~yNt~~~i~~~G~i~~yrK~h~~----~~E~~~~~~G~~~~~vf~t~~gkiG~~ICyD~~fpE-~~  155 (258)
T cd07578          81 IVVGLPEVDSRSGIYYNSAVLIGPSGVIGRHRKTHPY----ISEPKWAADGDLGHQVFDTEIGRIALLICMDIHFFE-TA  155 (258)
T ss_pred             EEEEEEEEECCCCCEEEEEEEECCCCEEEEEECCCCC----CCCCCCCCCCCCCCEEEEECCCCEEEEEECCCCCHH-HH
T ss_conf             7976546887999599999998399589998345776----342311048997623899589637767874653679-99


Q ss_pred             HHHHHCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCCCCEEECCCCEEEEECCCCCCCE
Q ss_conf             99971477759931555333580788878899985433704642135688766210486435558985999616777637
Q gi|254780999|r  161 KHLKKQGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQDELIFDGASFCFDGQQQLAFQMKHFSEQN  240 (562)
Q Consensus       161 ~~la~~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d~lvf~G~S~I~d~~G~ii~~~~~f~e~~  240 (562)
                      |.++++|||+|++|++++........    ..+||.||+++++++|++|.+++..|.|+|+|+||+|++++++.. +|++
T Consensus       156 R~la~~Ga~ii~~psa~~~~~~~~~~----~~arA~eN~~~vv~~n~~G~~~~~~~~G~S~Iv~P~G~vla~~~~-~e~i  230 (258)
T cd07578         156 RLLALGGADVICHISNWLAERTPAPY----WINRAFENGCYLIESNRWGLERGVQFSGGSCIIEPDGTIQASIDS-GDGV  230 (258)
T ss_pred             HHHHHCCCCEEEECCCCCCCCCHHHH----HHHHHHHCCCEEEEECCCCCCCCEEEECCEEEECCCCCEEECCCC-CCEE
T ss_conf             99998799899986678887872799----999999769879997743267880783323999899878852799-9869


Q ss_pred             EEEEEEECCCCCC
Q ss_conf             9999983352123
Q gi|254780999|r  241 FMTEWHYDQQLSQ  253 (562)
Q Consensus       241 ~i~d~d~d~~~~~  253 (562)
                      +++|+|++.....
T Consensus       231 ~~adiDl~~~~~~  243 (258)
T cd07578         231 ALGEIDLDRARHR  243 (258)
T ss_pred             EEEEEEHHHHHHH
T ss_conf             9999607998998


No 28 
>cd07575 Xc-1258_like Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases). Uncharacterized subgroup belonging to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup either represents a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer. XC1258 is a homotetramer.
Probab=100.00  E-value=0  Score=351.47  Aligned_cols=236  Identities=17%  Similarity=0.249  Sum_probs=201.4

Q ss_pred             EEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCEE
Q ss_conf             28999963883688999999999999999985998999166444799844541488999999999999999988769789
Q gi|254780999|r    5 LKIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQACSSAIDTLKSDTHDGGAGI   84 (562)
Q Consensus         5 mkIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~~~~l~~La~~~~~~~i~i   84 (562)
                      ||||++|+++.+||+++|++++.+++++|+ +||||||||||++|||++....+...   .....++.|++.++++++.|
T Consensus         1 mkial~Q~~~~~~d~e~Nl~~~~~~i~~a~-~~adlivfPEl~~tGy~~~~~~~ae~---~~~~~~~~l~~~A~~~~i~i   76 (252)
T cd07575           1 LKIALIQTDLVWEDPEANLAHFEEKIEQLK-EKTDLIVLPEMFTTGFSMNAEALAEP---MNGPTLQWMKAQAKKKGAAI   76 (252)
T ss_pred             CEEEEEECCCCCCCHHHHHHHHHHHHHHHH-CCCCEEECCCCCCCCCCCCHHHHCCC---CCCHHHHHHHHHHHHCCCEE
T ss_conf             989999667887999999999999999986-69999999886556899896884635---78889999999997569889


Q ss_pred             EEEEEEEECCEEEEEEEEEE-CCEEEEEEEEEEECCCCCCCCCCCCCCCCCCCEEEECCEEEEECCCCCCCHHHHHHHHH
Q ss_conf             99999988898789999996-99799988777623554333210037788876147647456201111111016899999
Q gi|254780999|r   85 VVGFPRQDQEGVLNSVVILD-AGNIIAVRDKINLPNYSEFHEKRTFISGYSNDPIVFRDIRLGILICEDIWKNSNICKHL  163 (562)
Q Consensus        85 ivG~p~~~~~~~yNsa~vi~-~G~il~~y~K~~LP~y~~FdE~r~F~~G~~~~~~~~~g~kiGv~ICeDlw~~~~~~~~l  163 (562)
                      +.|+++++++++||+++++. +|++ ..|+|+||+  +.++|.+||++|+...+|+++++|+|++||||+|||+ .+|. 
T Consensus        77 ~g~~~~~~~~~~yNta~~i~~~G~i-~~YrK~hL~--~~~~E~~~f~~G~~~~v~~~~g~riGl~ICyDl~FPe-~~R~-  151 (252)
T cd07575          77 TGSLIIKEGGKYYNRLYFVTPDGEV-YHYDKRHLF--RMAGEHKVYTAGNERVIVEYKGWKILLQVCYDLRFPV-WSRN-  151 (252)
T ss_pred             EEEEEEEECCEEEEEEEEEECCCEE-EEEEEEECC--CCCCCCCCCCCCCCCEEEEECCEEEEEEEECCCCCHH-HHHH-
T ss_conf             9999998799589999999199669-998027669--9888660003898657998589667778864657679-9875-


Q ss_pred             HHCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCC-CCCCCCCCCEEECCCCEEEEECCCCCCCEEE
Q ss_conf             714777599315553335807888788999854337046421356887-6621048643555898599961677763799
Q gi|254780999|r  164 KKQGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQ-DELIFDGASFCFDGQQQLAFQMKHFSEQNFM  242 (562)
Q Consensus       164 a~~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~-d~lvf~G~S~I~d~~G~ii~~~~~f~e~~~i  242 (562)
                       ..|+|++++|+++|..  +.+.++.++++||.||+++++++|++|.+ ++..|.|+|+|+||+|+++++++. +|++++
T Consensus       152 -~~~~dil~~~a~~P~~--~~~~w~~l~~aRA~eN~~~vv~~N~~G~~~~~~~~~G~S~Iv~P~G~ila~a~~-~e~~~~  227 (252)
T cd07575         152 -TNDYDLLLYVANWPAP--RRAAWDTLLKARAIENQAYVIGVNRVGTDGNGLEYSGDSAVIDPLGEPLAEAEE-DEGVLT  227 (252)
T ss_pred             -HCCCCEEEEEECCCCC--CHHHHHHHHHHHHHHCCCEEEEECCCCCCCCCCEEEEEEEEECCCCCEEEECCC-CCEEEE
T ss_conf             -3478747987148763--168999999999997497699965666689998884247999999778797799-985999


Q ss_pred             EEEEECCCCCC
Q ss_conf             99983352123
Q gi|254780999|r  243 TEWHYDQQLSQ  253 (562)
Q Consensus       243 ~d~d~d~~~~~  253 (562)
                      +++|.+.....
T Consensus       228 a~iD~~~i~~~  238 (252)
T cd07575         228 ATLDKEALQEF  238 (252)
T ss_pred             EEECHHHHHHH
T ss_conf             99658999999


No 29 
>TIGR00552 nadE NAD+ synthetase; InterPro: IPR003694 NAD+ synthase (6.3.5.1 from EC) catalyzes the last step in the biosynthesis of nicotinamide adenine dinucleotide and is induced by stress factors such as heat shock and glucose limitation. The three-dimensional structure of NH3-dependent NAD+ synthetase from Bacillus subtilis, in its free form and in complex with ATP shows that the enzyme consists of a tight homodimer with alpha/beta subunit topology .; GO: 0003952 NAD+ synthase (glutamine-hydrolyzing) activity, 0005524 ATP binding, 0009435 NAD biosynthetic process.
Probab=100.00  E-value=0  Score=354.97  Aligned_cols=262  Identities=35%  Similarity=0.485  Sum_probs=226.4

Q ss_pred             HHHHHHCCHHHHHHHHHHHC-CCCEEEEECCCCCHH--------HHHHHHHHHCCCHHHEEEEECCCCCC-CCCCHHHHH
Q ss_conf             88864220203588876422-454057521587236--------89999998414954467973246666-522135699
Q gi|254780999|r  271 EEEADYNACVLSLRDYVQKN-NFHKVIIGLSGGIDS--------ALCAAIAVDALGKENVQTIMLPYKYT-SPQSLEDAA  340 (562)
Q Consensus       271 ~~e~~~~Alvlgl~d~~~~~-g~~~~viglSGGiDS--------al~a~la~~alg~~~v~~~~mp~~~~-s~~s~~~a~  340 (562)
                      ..+++++++. .+++|+.+. |++++|+|+|||+||        ++++++|++++|+++++++.||+..+ ++.+.++|.
T Consensus         5 ~~~~~~~~~~-~~~~~~~~~~~~~g~v~GlsGG~ds~l~g~l~~~~v~~~~~~~~~~~~~~~~~~p~~~~~~~~d~~~a~   83 (286)
T TIGR00552         5 VVEELEDAVD-FLRGYVKKSPGAKGVVLGLSGGVDSTLAGKLCQAVVAALCVEALGKEQNHALLLPHSNTTPEDDVQDAL   83 (286)
T ss_pred             HHHHHHHHHH-HHHHHHHHCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHCCHHHHEEEEECCCCCCCHHHHHHHH
T ss_conf             7899999898-888887632576504673047620356778999999999985046114203321466788412179999


Q ss_pred             HHHHHHCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHCCCEECCCCCHHHHHHHHCCCCC
Q ss_conf             99997213542677589999988631323468743101101233046677988875169544364324477541102366
Q gi|254780999|r  341 ACAKALGCKYDVLPIHDLVNHFFSLMSQFLQEEPSGIVAENIQSRIRGNILMALSNHSKAMLLTTSNKSEISVGYGTLYG  420 (562)
Q Consensus       341 ~la~~lg~~~~~i~I~~~~~~~~~~~~~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~nksE~~~Gy~T~~G  420 (562)
                      .+++.+|+.+..++|++....+...... .......++.+|++||+||.++|++||+++++|+||||++|+.+||+|+||
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~gn~~~r~r~~~~y~~a~~~~~lv~gt~n~~e~~~Gy~t~~G  162 (286)
T TIGR00552        84 ALAEPLGINYKTIDIAPIAASFQAQTET-GDPLADFLAEGNLKARLRMALLYAHANKHNLLVLGTGNKSELLLGYFTKYG  162 (286)
T ss_pred             HHHHHCCCCCEECCCHHHHHHHHHHHCC-CCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHHCC
T ss_conf             9887405442111304677887764203-443331023322247889999988731016356404613445432001014


Q ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHCCCCCCCCCCCC---CCCCCCCC-CHHHHHHHHHHH
Q ss_conf             65554010177633658999999631033222344446688788288988453899---97700068-878899999999
Q gi|254780999|r  421 DMSGGFNPLKDLYKTQVFQLASWRNSHGITSGLGPLTEVIPPSILEKSPSAELRPH---QTDQESLP-PYPILDDIIKRI  496 (562)
Q Consensus       421 D~~g~~~p~~~l~Kt~v~~la~~~n~~~~~~~~~~~~~~ip~~i~~~~psaeL~~~---Q~ded~l~-~Y~~lD~il~~~  496 (562)
                      |++++++|+++|+|++||+|++|+|..         ..++|+.+++|||||+||++   |+||.++| +|+.+|.+|..+
T Consensus       163 dg~~d~~p~~~l~k~~~~~l~~~l~~~---------~~~~P~~~~~k~P~a~l~~g~p~q~de~~~g~~y~~ld~~l~~~  233 (286)
T TIGR00552       163 DGGCDILPLGGLFKTEVYELAKRLGVE---------QTIIPEEIIEKPPTADLWPGKPSQTDETELGIPYDELDDYLKGL  233 (286)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHCCC---------CCCCCHHHHCCCCCCCCCCCCCCCCCHHHHCCCHHHHHHHHHHH
T ss_conf             420003455322378899999981753---------10146667337887554678887765445057777777887766


Q ss_pred             HHCCCCH---HHH-HHCCCHHHHHHHHHHHHHHHHHHHHCCCCCEECCCCCC
Q ss_conf             8279997---798-71899999999999998745668738970247264537
Q gi|254780999|r  497 VENEESF---INN-DQEYNDETVRYVEHLLYGSEYKRRQAPVGTKITAKSFG  544 (562)
Q Consensus       497 i~~~~~~---~~~-~~~~~~~~v~~~~~~~~~~~~KR~~~pp~~~is~~sfg  544 (562)
                      .+...+.   .+. ...+. +.++++..++.++||||+|++|+.....+.|+
T Consensus       234 ~~~~~~~p~d~~~~~~~~~-~~~~~~~~~~~~~~hk~~~~~P~~~~~~~~~~  284 (286)
T TIGR00552       234 EELSQPKPIDQEVLATLLP-ELVKRIESLVQKSEHKREQALPPVPTIFDLFW  284 (286)
T ss_pred             HHHCCCCCHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHC
T ss_conf             6412677514687862016-89999999887555555423786113545305


No 30 
>cd07564 nitrilases_CHs Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases). Nitrilases (nitrile aminohydrolases, EC:3.5.5.1) hydrolyze nitriles (RCN) to ammonia and the corresponding carboxylic acid. Most nitrilases prefer aromatic nitriles, some prefer arylacetonitriles and others aliphatic nitriles. This group includes the nitrilase cyanide dihydratase (CDH), which hydrolyzes inorganic cyanide (HCN) to produce formate. It also includes cyanide hydratase (CH), which hydrolyzes HCN to formamide. This group includes four Arabidopsis thaliana nitrilases (Ath)NIT1-4. AthNIT1-3 have a strong substrate preference for phenylpropionitrile (PPN) and other nitriles which may originate from the breakdown of glucosinolates. The product of PPN hydrolysis, phenylacetic acid has auxin activity. AthNIT1-3 can also convert indoacetonitrile to indole-3-acetic acid (IAA, auxin), but with a lower affinity and velocity. From their expression patterns, it has been speculated that
Probab=100.00  E-value=0  Score=342.78  Aligned_cols=244  Identities=22%  Similarity=0.279  Sum_probs=202.3

Q ss_pred             EEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHC--------CHHHHHHH----HHHHHH
Q ss_conf             289999638836889999999999999999859989991664447998445414--------88999999----999999
Q gi|254780999|r    5 LKIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVF--------KKSFIQAC----SSAIDT   72 (562)
Q Consensus         5 mkIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~--------~~~f~~~~----~~~l~~   72 (562)
                      ||||++|+++.+||+++|++++.+++++|+++||||||||||++||||....+.        ...+.+.+    ...++.
T Consensus         1 mkVA~vQ~~~~~~d~~~Nl~~~~~~i~~Aa~~ga~lvvfPE~~~tGYp~~~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~   80 (297)
T cd07564           1 VKVAAVQAAPVFLDLAATVEKACRLIEEAAANGAQLVVFPEAFIPGYPYWIWFGAPAEGRELFARYYENSVEVDGPELER   80 (297)
T ss_pred             CEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCHHHCCCCCCCHHHHHHHHHHCCCCCCHHHHH
T ss_conf             98999957787799999999999999999988995999589986578724431684003799999997464699989999


Q ss_pred             HHHHHHHCCCEEEEEEEEEECCEEEEEEEEEE-CCEEEEEEEEEEECCCCCCCCCCCCCCCC--CCCEEEECCEEEEECC
Q ss_conf             99998876978999999988898789999996-99799988777623554333210037788--8761476474562011
Q gi|254780999|r   73 LKSDTHDGGAGIVVGFPRQDQEGVLNSVVILD-AGNIIAVRDKINLPNYSEFHEKRTFISGY--SNDPIVFRDIRLGILI  149 (562)
Q Consensus        73 La~~~~~~~i~iivG~p~~~~~~~yNsa~vi~-~G~il~~y~K~~LP~y~~FdE~r~F~~G~--~~~~~~~~g~kiGv~I  149 (562)
                      |++.+++++++|++|++++.++++||++++|. +|+++++|+|+| |+|   .|+.+|.+|+  ...+|++.++|+|++|
T Consensus        81 l~~~A~~~~i~iv~G~~E~~~~~~yNtav~i~~~G~i~~~yrKi~-p~~---~E~~~f~~G~g~~~~v~~t~~griG~~I  156 (297)
T cd07564          81 LAEAARENGIYVVLGVSERDGGTLYNTQLLIDPDGELLGKHRKLK-PTH---AERLVWGQGDGSGLRVVDTPIGRLGALI  156 (297)
T ss_pred             HHHHHHHCCCEEEEEEEECCCCCEEEEEEEECCCCCEEEEECCCC-CCC---CCEEEECCCCCCCCEEECCCCEEEEEEE
T ss_conf             999999829599984166369956867999879995898965767-786---6224663578877457525871688786


Q ss_pred             CCCCCHHHHHHHHHHHCCCCEEEE--CCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCC---------------C
Q ss_conf             111110168999997147775993--15553335807888788999854337046421356887---------------6
Q gi|254780999|r  150 CEDIWKNSNICKHLKKQGAEFLFS--LNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQ---------------D  212 (562)
Q Consensus       150 CeDlw~~~~~~~~la~~Gadlii~--psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~---------------d  212 (562)
                      |||+|+|+ ..+.|+.+|++|++.  |++.+...++ +.+..++++||.||+++++++|++|.+               +
T Consensus       157 CyD~~fP~-~~~~l~~~ga~i~va~~P~~~~~~~~~-~~w~~l~rarAiEnq~fVva~n~~g~~~~~~~~~~~~~~~~~~  234 (297)
T cd07564         157 CWENYMPL-ARYALYAQGEQIHVAPWPDFSPYYLSR-EAWLAASRHYALEGRCFVLSACQVVTEEDIPADCEDDEEADPL  234 (297)
T ss_pred             CCCCHHHH-HHHHHHHCCCEEEEECCCCCCCCCCCH-HHHHHHHHHHHHHCCCEEEEECCCCCCCCCCCCCCCCCCCCCC
T ss_conf             25410699-999998589809997378644677878-9999999999985595899965313633332003565445567


Q ss_pred             CCCCCCCCEEECCCCEEEEECCCCCCCEEEEEEEECCCCCCC
Q ss_conf             621048643555898599961677763799999833521236
Q gi|254780999|r  213 ELIFDGASFCFDGQQQLAFQMKHFSEQNFMTEWHYDQQLSQW  254 (562)
Q Consensus       213 ~lvf~G~S~I~d~~G~ii~~~~~f~e~~~i~d~d~d~~~~~~  254 (562)
                      +..|.|+|+|+||+|++++++...+|+++++|+|++.....+
T Consensus       235 ~~~~~G~S~Ii~P~G~vla~~~~~~e~ii~adiDl~~i~~~R  276 (297)
T cd07564         235 EVLGGGGSAIVGPDGEVLAGPLPDEEGILYADIDLDDIVEAK  276 (297)
T ss_pred             CCCCCCEEEEECCCCCEEECCCCCCCEEEEEEECHHHHHHHH
T ss_conf             764375589998999786564799974999995699999999


No 31 
>COG0388 Predicted amidohydrolase [General function prediction only]
Probab=100.00  E-value=0  Score=339.18  Aligned_cols=250  Identities=25%  Similarity=0.388  Sum_probs=218.1

Q ss_pred             CCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHH-HHCCHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             86289999638836889999999999999999859989991664447998445-41488999999999999999988769
Q gi|254780999|r    3 KKLKIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPED-LVFKKSFIQACSSAIDTLKSDTHDGG   81 (562)
Q Consensus         3 ~~mkIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~D-l~~~~~f~~~~~~~l~~La~~~~~~~   81 (562)
                      ..||||++|+++..+|+++|++++++++++|+++|||||||||+++|||+++| ++++..........+..+.+.++ ..
T Consensus         1 ~~~riA~~Q~~~~~~d~~~N~~~~~~~i~~A~~~ga~LvvfPEl~~tgy~~~~~~~~~~~~~~~~~~~~~~l~~~a~-~~   79 (274)
T COG0388           1 SMMRVAAAQMAPKAGDPAENLARILRLIREAAARGADLVVFPELFLTGYPCEDDLFLEEAAAEAGEETLEFLAALAE-EG   79 (274)
T ss_pred             CCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEECCCCCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHH-HC
T ss_conf             94799998036666897999999999999998769989993784355798412567665430356289999999887-69


Q ss_pred             CEEEEEEEEEECCEEEEEEEEE-ECCEEEEEEEEEEECCCCCCCCCCCCCCCCCCC-EEEECCEEEEECCCCCCCHHHHH
Q ss_conf             7899999998889878999999-699799988777623554333210037788876-14764745620111111101689
Q gi|254780999|r   82 AGIVVGFPRQDQEGVLNSVVIL-DAGNIIAVRDKINLPNYSEFHEKRTFISGYSND-PIVFRDIRLGILICEDIWKNSNI  159 (562)
Q Consensus        82 i~iivG~p~~~~~~~yNsa~vi-~~G~il~~y~K~~LP~y~~FdE~r~F~~G~~~~-~~~~~g~kiGv~ICeDlw~~~~~  159 (562)
                      ..+++|.+.......||+++++ .+|+++++|+|+|||++ .|+|+++|.+|+... +|++.++|+|+.||||+|+|+ .
T Consensus        80 ~~~ivg~~~~~~~~~~~~~~~i~~~G~ii~~y~K~hl~~~-~~~e~~~~~~G~~~~~v~~~~~~kiG~~IC~D~~fPe-~  157 (274)
T COG0388          80 GVIIVGGPLPEREKLYNNAALIDPDGEILGKYRKLHLFDA-FYEERRFFTPGDEGVVVFETDGGKIGLLICYDLRFPE-L  157 (274)
T ss_pred             CEEEEEEEEEECCCCEEEEEEECCCCEEEEEEEEECCCCC-CCCHHHCCCCCCCCCEEEEECCEEEEEEECCCCCCCH-H
T ss_conf             8899985066134416789998689869999865827987-5224313147876650696688578999814547837-8


Q ss_pred             HHHH-HHCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCCC-CCCCCCCEEECCCCEEEEECCCCC
Q ss_conf             9999-71477759931555333580788878899985433704642135688766-210486435558985999616777
Q gi|254780999|r  160 CKHL-KKQGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQDE-LIFDGASFCFDGQQQLAFQMKHFS  237 (562)
Q Consensus       160 ~~~l-a~~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d~-lvf~G~S~I~d~~G~ii~~~~~f~  237 (562)
                      .+.+ +.+||++|++|+|+++..+ .+.|..++++||.+|+++++++|++|.+++ ..|+|+|+|+||+|++++++..++
T Consensus       158 ~~~~~~~~Gaeii~~p~a~~~~~~-~~~w~~l~~arA~en~~~vi~~n~~g~~~~~~~~~G~S~i~~p~G~v~~~~~~~~  236 (274)
T COG0388         158 ARRLLALGGAELLLVPAAWPAERG-LDHWEVLLRARAIENQVYVLAANRAGFDGAGLEFCGHSAIIDPDGEVLAEAGEEE  236 (274)
T ss_pred             HHHHHHHCCCEEEEECCCCCCCCC-HHHHHHHHHHHHHHHCCEEEEECCCCCCCCCCEECCEEEEECCCCCEEEECCCCC
T ss_conf             999886269659998887755433-6789999975278536269996676776763255110499848997787437888


Q ss_pred             CCEEEEEEEECCCCCCCCC
Q ss_conf             6379999983352123655
Q gi|254780999|r  238 EQNFMTEWHYDQQLSQWNY  256 (562)
Q Consensus       238 e~~~i~d~d~d~~~~~~~~  256 (562)
                      |+++++|+|.+.....+..
T Consensus       237 e~~~~~~id~~~~~~~r~~  255 (274)
T COG0388         237 EGVLLADIDLAELAEVRRK  255 (274)
T ss_pred             CCEEEEEECHHHHHHHHCC
T ss_conf             8689999746677553045


No 32 
>cd07565 aliphatic_amidase aliphatic amidases (class 2 nitrilases). Aliphatic amidases catalyze the hydrolysis of short-chain aliphatic amides to form ammonia and the corresponding organic acid. This group includes Pseudomonas aeruginosa (Pa) AmiE, the amidase from Geobacillus pallidus RAPc8 (RAPc8 amidase), and Helicobacter pylori (Hp) AmiE and AmiF. PaAimE and HpAmiE hydrolyze various very short aliphatic amides, including propionamide, acetamide and acrylamide. HpAmiF is a formamidase which specifically hydrolyzes formamide. These proteins belong to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 2. Members of this superfamily generally form homomeric complexes, the basic 
Probab=100.00  E-value=0  Score=328.80  Aligned_cols=238  Identities=15%  Similarity=0.133  Sum_probs=195.2

Q ss_pred             EEEEEEECCC----CCCCHHHHHHHHHHHHHHHHH--CCCCEEEECCCCCCCCCHHHHHCCHHHHHH-HHHHHHHHHHHH
Q ss_conf             2899996388----368899999999999999998--599899916644479984454148899999-999999999998
Q gi|254780999|r    5 LKIAIAQLNP----VVGDIAGNIAKARRAREEANR--QGMDLILFTELFISGYPPEDLVFKKSFIQA-CSSAIDTLKSDT   77 (562)
Q Consensus         5 mkIal~Q~n~----~~gd~~~N~~~i~~~i~~A~~--~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~-~~~~l~~La~~~   77 (562)
                      ++||++|+.+    ...|++.|+++|.+.+++|++  .|||||||||+++|||.+.... ...+.+. -...++.|++.+
T Consensus         1 v~va~vQ~~~~~~~~~~dv~~n~~~i~~~i~~a~a~~~GadLIVlPE~~~tG~~~~~~~-~~~~a~~~~Gp~~~~l~~~A   79 (291)
T cd07565           1 VGVAVVQYKVPVLHTKEEVLENAERIADMVEGTKRGLPGMDLIVFPEYSTQGLMYDKWT-MDETACTVPGPETDIFAEAC   79 (291)
T ss_pred             CEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCCCCCCCCCHHH-HHHHHHCCCCHHHHHHHHHH
T ss_conf             96999963488889989999999999999999973499986998888655789977678-88754229987999999999


Q ss_pred             HHCCCEEEEEEEEEE---CCEEEEEEEEEE-CCEEEEEEEEEEECCCCCCCCCCCCCCCCCCC-EEEE-CCEEEEECCCC
Q ss_conf             876978999999988---898789999996-99799988777623554333210037788876-1476-47456201111
Q gi|254780999|r   78 HDGGAGIVVGFPRQD---QEGVLNSVVILD-AGNIIAVRDKINLPNYSEFHEKRTFISGYSND-PIVF-RDIRLGILICE  151 (562)
Q Consensus        78 ~~~~i~iivG~p~~~---~~~~yNsa~vi~-~G~il~~y~K~~LP~y~~FdE~r~F~~G~~~~-~~~~-~g~kiGv~ICe  151 (562)
                      +++++++++|.+++.   ++.+||++++|+ +|+++++|||+|+...    +.+| .+|+... +++. .|+|+|++|||
T Consensus        80 ~~~~v~iv~g~~E~~~~~~~~~yNtavvid~~G~ii~~YRKiHl~~~----~e~~-~pGd~~~~v~~t~~G~kiGl~ICy  154 (291)
T cd07565          80 KEAKVWGVFSIMERNPDHGKNPYNTAIIIDDQGEIVLKYRKLHPWVP----IEPW-YPGDLGTPVCEGPKGSKIALIICH  154 (291)
T ss_pred             HHCCCEEEEEEEEECCCCCCCEEEEEEEECCCCCEEEEECCCCCCCC----CCCC-CCCCCCCEEEECCCCCEEEEEEEC
T ss_conf             86692899986876478789768899999899839989864168887----7784-468887547876898689999863


Q ss_pred             CCCHHHHHHHHHHHCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCCCCEEECCCCEEEE
Q ss_conf             11101689999971477759931555333580788878899985433704642135688766210486435558985999
Q gi|254780999|r  152 DIWKNSNICKHLKKQGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQDELIFDGASFCFDGQQQLAF  231 (562)
Q Consensus       152 Dlw~~~~~~~~la~~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d~lvf~G~S~I~d~~G~ii~  231 (562)
                      |+|||+ .+|.++++|||+|++|++++...  .+.+..+.++||.+|+++++++|++|.++.+.|.|+|+|+||+|++++
T Consensus       155 D~~FPE-~~R~lal~GAeli~~Psa~~~~~--~~~W~~l~rARAieN~~yvv~~Nr~G~e~~~~f~G~S~IvdP~G~vla  231 (291)
T cd07565         155 DGMYPE-IARECAYKGAELIIRIQGYMYPA--KDQWIITNKANAWCNLMYTASVNLAGFDGVFSYFGESMIVNFDGRTLG  231 (291)
T ss_pred             CCCCHH-HHHHHHHCCCEEEEECCCCCCCC--HHHHHHHHHHHHHHHCCEEEEECCCCCCCCEEEEEEEEEECCCCCEEE
T ss_conf             424289-99999978994999888789885--178999999999970978999856646898477446699999988877


Q ss_pred             ECCCCCCCEEEEEEEECCCC
Q ss_conf             61677763799999833521
Q gi|254780999|r  232 QMKHFSEQNFMTEWHYDQQL  251 (562)
Q Consensus       232 ~~~~f~e~~~i~d~d~d~~~  251 (562)
                      ++..-+|+++++|+|++...
T Consensus       232 ~a~~~~eei~~AeiDl~~~~  251 (291)
T cd07565         232 EGGREPDEIVTAELSPSLVR  251 (291)
T ss_pred             ECCCCCCEEEEEEECHHHHH
T ss_conf             75799987999998789999


No 33 
>cd07574 nitrilase_Rim1_like Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases). Some members of this subgroup are implicated in post-translational modification, as they contain an N-terminal GCN5-related N-acetyltransferase (GNAT) protein RimI family domain. The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 12. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=100.00  E-value=0  Score=321.07  Aligned_cols=245  Identities=18%  Similarity=0.210  Sum_probs=196.8

Q ss_pred             EEEEEEECCC-CCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCC---HHHHHCCHHHHHH----HHHHHHHHHHH
Q ss_conf             2899996388-36889999999999999999859989991664447998---4454148899999----99999999999
Q gi|254780999|r    5 LKIAIAQLNP-VVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYP---PEDLVFKKSFIQA----CSSAIDTLKSD   76 (562)
Q Consensus         5 mkIal~Q~n~-~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~---~~Dl~~~~~f~~~----~~~~l~~La~~   76 (562)
                      ||||++|++. ..+|++.|++++.+++++|+++|||||||||++.+||.   +.+.-........    ....++.+++.
T Consensus         1 ~rvA~vQ~~~~~~~d~e~nl~~~~~~i~~Aa~~GA~lvvfPE~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l   80 (280)
T cd07574           1 VRVAAAQYPLRRYASFEEFAAKVEYWVAEAAGYGADLLVFPEYFTMELLSLLPEAIDGLDEAIRALAALTPDYVALFSEL   80 (280)
T ss_pred             CEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCHHHHHHHHH
T ss_conf             98999957898999999999999999999998859699958875463401476210028999764242486999999999


Q ss_pred             HHHCCCEEEEE-EEEEECCEEEEEEEEEE-CCEEEEEEEEEEECCCCCCCCCCCCCCCCCCCEEEECCEEEEECCCCCCC
Q ss_conf             88769789999-99988898789999996-99799988777623554333210037788876147647456201111111
Q gi|254780999|r   77 THDGGAGIVVG-FPRQDQEGVLNSVVILD-AGNIIAVRDKINLPNYSEFHEKRTFISGYSNDPIVFRDIRLGILICEDIW  154 (562)
Q Consensus        77 ~~~~~i~iivG-~p~~~~~~~yNsa~vi~-~G~il~~y~K~~LP~y~~FdE~r~F~~G~~~~~~~~~g~kiGv~ICeDlw  154 (562)
                      +++++++|+.| ++++.++++||++++|+ +|+ ++.|+|+||+.+.  .|..+|.+|+...+|+++++|+|++||||+|
T Consensus        81 A~~~~i~iv~G~~~~~~~~~~yNta~vi~~~G~-i~~~rK~hl~~~e--~~~~~~~~G~~~~v~~~~~griG~~ICyD~~  157 (280)
T cd07574          81 ARKYGINIIAGSMPVREDGRLYNRAYLFGPDGT-IGHQDKLHMTPFE--REEWGISGGDKLKVFDTDLGKIGILICYDSE  157 (280)
T ss_pred             HHHHCCEEEEEEEEEEECCEEEEEEEEECCCCC-EEEEEEEECCCCC--CEEEEECCCCCCEEEEECCEEEEEEEECCCC
T ss_conf             998296999936999769989999999958981-9999864059986--3155226999557999799279877861002


Q ss_pred             HHHHHHHHHHHCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCC----CCCCCCCCEEECCC----
Q ss_conf             0168999997147775993155533358078887889998543370464213568876----62104864355589----
Q gi|254780999|r  155 KNSNICKHLKKQGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQD----ELIFDGASFCFDGQ----  226 (562)
Q Consensus       155 ~~~~~~~~la~~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d----~lvf~G~S~I~d~~----  226 (562)
                      +|+ .++.++++|||+|++|+++|...+....+ ...++||.||+++++++|++|.+.    ...|.|+|+|++|.    
T Consensus       158 fPe-~~r~la~~Ga~ii~~Psa~~~~~~~~~~~-~~~~ARAieN~~yvv~~n~vG~~~~~~~~~~~~G~S~I~~P~~~~~  235 (280)
T cd07574         158 FPE-LARALAEAGADLLLVPSCTDTRAGYWRVR-IGAQARALENQCYVVQSGTVGNAPWSPAVDVNYGQAAVYTPCDFGF  235 (280)
T ss_pred             CHH-HHHHHHHCCCCEEEECCCCCCCCHHHHHH-HHHHHHHHHCEEEEEEECCCCCCCCCCCCCEECCEEEEECCCCCCC
T ss_conf             569-99999987996999899888755589999-9999998858079999256247888787654412239988866767


Q ss_pred             --CEEEEECCCCCCCEEEEEEEECCCCCCC
Q ss_conf             --8599961677763799999833521236
Q gi|254780999|r  227 --QQLAFQMKHFSEQNFMTEWHYDQQLSQW  254 (562)
Q Consensus       227 --G~ii~~~~~f~e~~~i~d~d~d~~~~~~  254 (562)
                        |.++++++..+|+++++|+|++.....+
T Consensus       236 ~~~gvla~~~~~~E~il~AdiDl~~v~~~R  265 (280)
T cd07574         236 PEDGILAEGEPNTEGWLIADLDLEALRRLR  265 (280)
T ss_pred             CCCCEEEECCCCCCEEEEEEEEHHHHHHHH
T ss_conf             899989712799988999997469999999


No 34 
>cd07579 nitrilase_1_R2 Second nitrilase domain of an uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). Members of this subgroup have two nitrilase domains. This is the second of those two domains. The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=100.00  E-value=1.4e-45  Score=318.01  Aligned_cols=233  Identities=21%  Similarity=0.227  Sum_probs=191.3

Q ss_pred             EEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCEEE
Q ss_conf             89999638836889999999999999999859989991664447998445414889999999999999999887697899
Q gi|254780999|r    6 KIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQACSSAIDTLKSDTHDGGAGIV   85 (562)
Q Consensus         6 kIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~~~~l~~La~~~~~~~i~ii   85 (562)
                      |||++|+++. +|++.|++++.+++++|+++||+||||||+++|||+......    .......++.|++.+++++++|+
T Consensus         1 rvA~~Q~~~~-~d~~~Nl~~~~~~i~~Aa~~ga~lvvlPE~~~tg~~~~~~~a----~~~~g~~~~~l~~lA~~~~i~iv   75 (279)
T cd07579           1 RIAVAQFAPT-PDIAGNLATIDRLAAEAKATGAELVVFPELALTGLDDPASEA----ESDTGPAVSALRRLARRLRLYLV   75 (279)
T ss_pred             CEEEEECCCC-CCHHHHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCHHHHC----CCCCCHHHHHHHHHHHHCCEEEE
T ss_conf             9999946589-999999999999999999879959997999411599547743----55998899999999997591999


Q ss_pred             EEEEEEECCEEEEEEEEEEC-CEEEEEEEEEEECCCCCCCCCCCCCCCCCCCEEEECCEEEEECCCCCCCHHHHHHHHHH
Q ss_conf             99999888987899999969-97999887776235543332100377888761476474562011111110168999997
Q gi|254780999|r   86 VGFPRQDQEGVLNSVVILDA-GNIIAVRDKINLPNYSEFHEKRTFISGYSNDPIVFRDIRLGILICEDIWKNSNICKHLK  164 (562)
Q Consensus        86 vG~p~~~~~~~yNsa~vi~~-G~il~~y~K~~LP~y~~FdE~r~F~~G~~~~~~~~~g~kiGv~ICeDlw~~~~~~~~la  164 (562)
                      +|++++.++++||++++|.+ | +++.|+|+||..    .|++||++|+...+|++.++|+|++||||+|||+ .++.++
T Consensus        76 ~G~~e~~~~~~yNs~~~i~~~G-~i~~YrK~HL~~----~E~~~~~~G~~~~v~~t~~griGl~ICyD~rFPE-~~R~la  149 (279)
T cd07579          76 AGFAEADGDGLYNSAVLVGPEG-LVGTYRKTHLIE----PERSWATPGDTWPVYDLPLGRVGLLIGHDALFPE-AGRVLA  149 (279)
T ss_pred             EEEEECCCCEEEEEEEEECCCC-CEEEEEECCCCC----CCCEEECCCCCCEEEEECCEEEEEEEECCCCHHH-HHHHHH
T ss_conf             9899945993788899985997-678997025897----5441133898055999899889988880201289-999999


Q ss_pred             HCCCCEEEECCCCC--C---------------CCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCCCCEEECCCC
Q ss_conf             14777599315553--3---------------358078887889998543370464213568876621048643555898
Q gi|254780999|r  165 KQGAEFLFSLNASP--Y---------------YHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQDELIFDGASFCFDGQQ  227 (562)
Q Consensus       165 ~~Gadlii~psASp--~---------------~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d~lvf~G~S~I~d~~G  227 (562)
                      ++|||+|++|+|+.  +               ..++....+.++++||.||+++++++|++|.+++  |.|+|+|++|+|
T Consensus       150 ~~GA~il~~PaA~~~~~~~~~~~~~~~~~~~~~~g~~~~hw~llraRAieN~~~v~~an~~~~~~~--~~G~s~i~gp~~  227 (279)
T cd07579         150 LRGCDLLACPAAIAIPFVGAHAGTSVPQPYPIPTGADPTHWHLARVRAGENNVYFAFANVPDPARG--YTGWSGVFGPDT  227 (279)
T ss_pred             HCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCEEEEEECCCCCCCC--CCCEEEEEECCC
T ss_conf             879939997663466755333453233455544465347999999888646759999435467678--663469996575


Q ss_pred             EEEEEC---CCCCCCEEEEEEEECCCC
Q ss_conf             599961---677763799999833521
Q gi|254780999|r  228 QLAFQM---KHFSEQNFMTEWHYDQQL  251 (562)
Q Consensus       228 ~ii~~~---~~f~e~~~i~d~d~d~~~  251 (562)
                      .+....   ..-+|+++++|+|.+...
T Consensus       228 ~~~p~~~~~~~~~egi~~A~iDl~~~~  254 (279)
T cd07579         228 FAFPRQEAAIGDEEGIAWALIDTSNLD  254 (279)
T ss_pred             CCCCCEEEECCCCCCEEEEEECHHHHH
T ss_conf             543531350388772799997589974


No 35 
>cd07582 nitrilase_4 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=100.00  E-value=4.5e-44  Score=307.46  Aligned_cols=243  Identities=18%  Similarity=0.144  Sum_probs=190.6

Q ss_pred             EEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCC-----CEEEECCCCCCCCCHHHHHCCHHHHHHH----HHHHHHHHH
Q ss_conf             2899996388368899999999999999998599-----8999166444799844541488999999----999999999
Q gi|254780999|r    5 LKIAIAQLNPVVGDIAGNIAKARRAREEANRQGM-----DLILFTELFISGYPPEDLVFKKSFIQAC----SSAIDTLKS   75 (562)
Q Consensus         5 mkIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~ga-----dLvvfPEl~LtGY~~~Dl~~~~~f~~~~----~~~l~~La~   75 (562)
                      +..++.|++.+ .|+++|++++.++|++|+++||     |||||||+++|||+..+......+.+..    ...++.|++
T Consensus         6 ~~~~~~~~~~~-~D~~aNl~~~~~~I~~Aa~~ga~~~~~~LvvfPE~~~tGy~~~~~~~~~~~~~~a~~~~Gp~~~~l~~   84 (294)
T cd07582           6 LQPTCEAAEDR-ADILANIDRINEQIDAAVGFSGPGLPVRLVVLPEYALQGFPMGEPREVWQFDKAAIDIPGPETEALGE   84 (294)
T ss_pred             EEEEEEEECCH-HHHHHHHHHHHHHHHHHHHCCCCCCCCCEEECCCCCCCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHH
T ss_conf             98666520371-00999999999999999976875469968999898554798776224477886355799989999999


Q ss_pred             HHHHCCCEEEEEEEEEEC---CEEEEEEEEEE-CCEEEEEEEEEEECCCC-------CCCCCCCCCCCCCC----CEEEE
Q ss_conf             988769789999999888---98789999996-99799988777623554-------33321003778887----61476
Q gi|254780999|r   76 DTHDGGAGIVVGFPRQDQ---EGVLNSVVILD-AGNIIAVRDKINLPNYS-------EFHEKRTFISGYSN----DPIVF  140 (562)
Q Consensus        76 ~~~~~~i~iivG~p~~~~---~~~yNsa~vi~-~G~il~~y~K~~LP~y~-------~FdE~r~F~~G~~~----~~~~~  140 (562)
                      .+++++++|++|+.++.+   +++||++++|. +|++++.|+|+|++.+.       +|++ .++.+|...    .++++
T Consensus        85 ~Ak~~~i~iv~G~~Er~~~~~g~~yNta~li~~~G~i~~~yrKihl~~~~~~~~~~~~~~~-~~~~~g~~~~~~f~V~dt  163 (294)
T cd07582          85 KAKELNVYIAANAYERDPDFPGLYFNTAFIIDPSGEIILRYRKMNSLAAEGSPSPHDVWDE-YIEVYGYGLDALFPVADT  163 (294)
T ss_pred             HHHHCCEEEEEEEEEECCCCCCCEEEEEEEECCCCCEEEEECCCCCCCCCCCCCCCCCCEE-EEEEECCCCCCCCEEEEC
T ss_conf             9998795999756885488899589999999999879999836677854567876644327-899844789865556753


Q ss_pred             CCEEEEECCCCCCCHHHHHHHHHHHCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCCC----CCC
Q ss_conf             4745620111111101689999971477759931555333580788878899985433704642135688766----210
Q gi|254780999|r  141 RDIRLGILICEDIWKNSNICKHLKKQGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQDE----LIF  216 (562)
Q Consensus       141 ~g~kiGv~ICeDlw~~~~~~~~la~~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d~----lvf  216 (562)
                      ..+|+|++||||+|||+ ..+.++.+|||+|++|+++....+ ...++.+.++||.||+|+++.+|++|-++.    ..|
T Consensus       164 ~~GriG~~ICyD~~fPE-~~R~la~~GA~vi~~paa~~~~~~-~~~w~~~~raRAieN~~yVv~~n~~g~~~~~~~~~~~  241 (294)
T cd07582         164 EIGNLGCLACEEGLYPE-VARGLAMNGAEVLLRSSSEVPSVE-LDPWEIANRARALENLAYVVSANSGGIYGSPYPADSF  241 (294)
T ss_pred             CCCEEEEEEECCCCCHH-HHHHHHHCCCCEEEECCCCCCCCC-HHHHHHHHHHHHHHCCCEEEEEECCCCCCCCCCCCEE
T ss_conf             66608899704302489-999999889979998975899864-7799999999999739779998053457877877466


Q ss_pred             CCCCEEECCCCEEEEECCCCC-CCEEEEEEEECCCC
Q ss_conf             486435558985999616777-63799999833521
Q gi|254780999|r  217 DGASFCFDGQQQLAFQMKHFS-EQNFMTEWHYDQQL  251 (562)
Q Consensus       217 ~G~S~I~d~~G~ii~~~~~f~-e~~~i~d~d~d~~~  251 (562)
                      .|+|+|+||+|+++++++..+ |.++++|+|++...
T Consensus       242 ~G~S~IvdP~G~vla~a~~~~~e~iv~AeiDl~~~~  277 (294)
T cd07582         242 GGGSMIVDYKGRVLAEAGYGPGSMVAGAEIDIEALR  277 (294)
T ss_pred             EEEEEEECCCCCEEEECCCCCCCEEEEEEECHHHHH
T ss_conf             003699879998888888998778999997289999


No 36 
>pfam00795 CN_hydrolase Carbon-nitrogen hydrolase. This family contains hydrolases that break carbon-nitrogen bonds. The family includes: Nitrilase EC:3.5.5.1, Aliphatic amidase EC:3.5.1.4, Biotidinase EC:3.5.1.12, Beta-ureidopropionase EC:3.5.1.6. Nitrilase-related proteins generally have a conserved E-K-C catalytic triad, and are multimeric alpha-beta-beta-alpha sandwich proteins.
Probab=100.00  E-value=1e-40  Score=285.52  Aligned_cols=170  Identities=31%  Similarity=0.469  Sum_probs=155.7

Q ss_pred             EEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCEEE
Q ss_conf             89999638836889999999999999999859989991664447998445414889999999999999999887697899
Q gi|254780999|r    6 KIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQACSSAIDTLKSDTHDGGAGIV   85 (562)
Q Consensus         6 kIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~~~~l~~La~~~~~~~i~ii   85 (562)
                      |||++|+++..||+++|++++++++++|.++|+|||||||+++|||++.+........+.....++.|++.+++++++++
T Consensus         1 kiA~~Q~~~~~~d~~~Nl~~~~~~i~~A~~~gadlvv~PE~~l~gy~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~i~i~   80 (172)
T pfam00795         1 RVALVQLPPSAFDLEANLQKLLELIEEAARQGADLIVFPELFIPGYAHGAAEYLELAEAIPGEVLQALSALARKNGITVV   80 (172)
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEECCCCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHCCCEEE
T ss_conf             99999899876899999999999999999879989995641246787206777776454683999999999988596999


Q ss_pred             EEEEEEECCEEEEEEEEEE-CCEEEEEEEEEEECCCCCCCCCCCCCCCCC-CCEEEECCEEEEECCCCCCCHHHHHHHHH
Q ss_conf             9999988898789999996-997999887776235543332100377888-76147647456201111111016899999
Q gi|254780999|r   86 VGFPRQDQEGVLNSVVILD-AGNIIAVRDKINLPNYSEFHEKRTFISGYS-NDPIVFRDIRLGILICEDIWKNSNICKHL  163 (562)
Q Consensus        86 vG~p~~~~~~~yNsa~vi~-~G~il~~y~K~~LP~y~~FdE~r~F~~G~~-~~~~~~~g~kiGv~ICeDlw~~~~~~~~l  163 (562)
                      +|++++.++++||++++|. +|+++++|+|+||++++.|+|.+||.+|.. ..+|+++++|+|++||||+|+|+ .++.+
T Consensus        81 ~G~~~~~~~~~yNs~~~i~~~G~i~~~Y~K~hL~~~~~~~E~~~~~~G~~~~~v~~~~~~riG~~ICyD~~fpe-~~r~l  159 (172)
T pfam00795        81 AGIPERDGGGLYNTLVLIDPDGELLGKYRKRHLVPFGEWVERPLFGPGGATFPVFDTPVGKLGLLICYEIRFPE-LARML  159 (172)
T ss_pred             EEEEEEECCEEEEEEEEECCCCEEEEEEEEECCCCCCCEEEEEECCCCCCCCCEECCCCEEEEEEEECCCCCHH-HHHHH
T ss_conf             94689528888888899969986999993375899764127875157887440104698899999860006579-99999


Q ss_pred             HHCCCCEEEECCC
Q ss_conf             7147775993155
Q gi|254780999|r  164 KKQGAEFLFSLNA  176 (562)
Q Consensus       164 a~~Gadlii~psA  176 (562)
                      +.+|||+|++|||
T Consensus       160 a~~Ga~ii~~PsA  172 (172)
T pfam00795       160 ALKGAEILANPSA  172 (172)
T ss_pred             HHCCCCEEEECCC
T ss_conf             9889969996999


No 37 
>cd07587 ML_beta-AS mammalian-like beta-alanine synthase (beta-AS) and similar proteins (class 5 nitrilases). This subgroup includes mammalian-like beta-AS (EC 3.5.1.6, also known as beta-ureidopropionase or N-carbamoyl-beta-alanine amidohydrolase). This enzyme catalyzes the third and final step in the catabolic pyrimidine catabolic pathway responsible for the degradation of uracil and thymine, the hydrolysis of N-carbamyl-beta-alanine and N-carbamyl-beta-aminoisobutyrate to the beta-amino acids, beta-alanine and beta-aminoisobutyrate respectively. This subgroup belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 5. Members of this superfamily generally form homomeric 
Probab=100.00  E-value=1.9e-36  Score=257.55  Aligned_cols=248  Identities=15%  Similarity=0.171  Sum_probs=199.2

Q ss_pred             CCEEEEEEECCCCC-------CCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCC-CHH-HHHCCHHHHHHHH--HHHH
Q ss_conf             86289999638836-------88999999999999999985998999166444799-844-5414889999999--9999
Q gi|254780999|r    3 KKLKIAIAQLNPVV-------GDIAGNIAKARRAREEANRQGMDLILFTELFISGY-PPE-DLVFKKSFIQACS--SAID   71 (562)
Q Consensus         3 ~~mkIal~Q~n~~~-------gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY-~~~-Dl~~~~~f~~~~~--~~l~   71 (562)
                      +.+||+++|-...+       -..++-.+||.++++.|+..|+.+|||.|.+-..| +|- .-+---.|.+.+.  ....
T Consensus        62 r~vrvg~iqn~i~~pt~~p~~~q~~ai~~~i~~~i~~Aa~~gvni~c~qe~w~mpfafctrek~pw~efae~a~~Gptt~  141 (363)
T cd07587          62 RIVRVGLIQNKIVLPTTAPIAEQREAIHDRIKKIIEAAAMAGVNIICFQEAWTMPFAFCTREKLPWCEFAESAEDGPTTK  141 (363)
T ss_pred             CEEEEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEHHHCCCCEECCCCCCCHHHHCCCCCCCCHHH
T ss_conf             47899787404559998668999999999999999999975987998400105872111357776022126677793699


Q ss_pred             HHHHHHHHCCCEEEEEEEEEEC---CEEEEEEEEEE-CCEEEEEEEEEEECCCCCCCCCCCCCCCCC-CCEEEECCEEEE
Q ss_conf             9999988769789999999888---98789999996-997999887776235543332100377888-761476474562
Q gi|254780999|r   72 TLKSDTHDGGAGIVVGFPRQDQ---EGVLNSVVILD-AGNIIAVRDKINLPNYSEFHEKRTFISGYS-NDPIVFRDIRLG  146 (562)
Q Consensus        72 ~La~~~~~~~i~iivG~p~~~~---~~~yNsa~vi~-~G~il~~y~K~~LP~y~~FdE~r~F~~G~~-~~~~~~~g~kiG  146 (562)
                      .+++.++++++.|+....+++.   +.+||+++||+ +|+++++|||+|+|....|.|+-||.||+. ..+|++.-.|+|
T Consensus       142 ~~~~~A~k~~mViv~pi~Erd~~~~~~~~NTavVId~dG~~lGkyRK~HIP~~~~f~EkfYf~pGn~G~~Vf~T~~GkIG  221 (363)
T cd07587         142 FCQELAKKYNMVIVSPILERDEEHGDTIWNTAVVISNSGNVLGKSRKNHIPRVGDFNESTYYMEGNTGHPVFETQFGKIA  221 (363)
T ss_pred             HHHHHHHHCCEEEEEECCCCCCCCCCEEEEEEEEECCCCCEEEEEECCCCCCCCCCCEEECCCCCCCCCCCEECCCCEEE
T ss_conf             99999998496999842003344587578668999789866422211338999995531213688789875543641166


Q ss_pred             ECCCCCCCHHHHHHHHHHHCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCC---C------C---
Q ss_conf             011111110168999997147775993155533358078887889998543370464213568876---6------2---
Q gi|254780999|r  147 ILICEDIWKNSNICKHLKKQGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQD---E------L---  214 (562)
Q Consensus       147 v~ICeDlw~~~~~~~~la~~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d---~------l---  214 (562)
                      +.||||.|+|+ -++.++++||+|+++|||.--.. ....+....+.+|..|++|++.+|+||-|.   +      .   
T Consensus       222 V~IC~DqwfPe-~aR~~aL~GAEIvf~PtAt~g~~-se~~W~~eqr~hAiAN~~~v~aiNRVG~E~~pne~tsGdg~~a~  299 (363)
T cd07587         222 VNICYGRHHPL-NWLMYGLNGAEIVFNPSATVGAL-SEPMWPIEARNAAIANSYFTVGINRVGTEVFPNEFTSGDGKPAH  299 (363)
T ss_pred             EEEECCCCCHH-HHHHHHHCCCEEEECCCCCCCCC-CHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCCCCCCCCCCCCC
T ss_conf             45631543748-89986416864997545545652-36789998899999708837982355625676544567775343


Q ss_pred             ----CCCCCCEEECCCCEEEEECCCCCCCEEEEEEEECCCCC
Q ss_conf             ----10486435558985999616777637999998335212
Q gi|254780999|r  215 ----IFDGASFCFDGQQQLAFQMKHFSEQNFMTEWHYDQQLS  252 (562)
Q Consensus       215 ----vf~G~S~I~d~~G~ii~~~~~f~e~~~i~d~d~d~~~~  252 (562)
                          -|.|+|||.+|+|+.+.+++.-+|+++++++|++....
T Consensus       300 ~d~g~FYGSSfia~P~G~~~~~lsr~~eglLV~eiDL~~~rq  341 (363)
T cd07587         300 KDFGHFYGSSYVAAPDGSRTPGLSRTRDGLLVAELDLNLCRQ  341 (363)
T ss_pred             CCCCCCCCCCEEECCCCCCCCCCCCCCCCEEEEEECHHHHHH
T ss_conf             557642252147889987645778887636999933689999


No 38 
>cd07566 ScNTA1_like Saccharomyces cerevisiae N-terminal amidase NTA1, and related proteins (class 3 nitrilases). Saccharomyces cerevisiae NTA1 functions in the N-end rule protein degradation pathway. It specifically deaminates the N-terminal asparagine and glutamine residues of substrates of this pathway, to aspartate and glutamate respectively, these latter are the destabilizing residues. This subgroup belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 3.
Probab=100.00  E-value=5.4e-36  Score=254.62  Aligned_cols=220  Identities=18%  Similarity=0.319  Sum_probs=162.5

Q ss_pred             EEEEEECCCCCCCHHHHHHHHHHHHHHHHH----CCCCEEEECCCCCCCCCHHHHHCCHHHHHHHH--HHHHHHHHHHHH
Q ss_conf             899996388368899999999999999998----59989991664447998445414889999999--999999999887
Q gi|254780999|r    6 KIAIAQLNPVVGDIAGNIAKARRAREEANR----QGMDLILFTELFISGYPPEDLVFKKSFIQACS--SAIDTLKSDTHD   79 (562)
Q Consensus         6 kIal~Q~n~~~gd~~~N~~~i~~~i~~A~~----~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~~--~~l~~La~~~~~   79 (562)
                      |||++|++|.+||+++|++|+.++++++..    .|+||||||||++|||...++-.-..+++...  .......+.+++
T Consensus         1 RIA~lQ~~P~~GdV~~Nl~ra~~ll~~~~~~~~~~~~dLlVlPEl~~TGY~f~~~~ei~~~~e~~~~G~s~~~~~~~A~k   80 (295)
T cd07566           1 RIACLQLNPQIGQVEENLSRAWELLDKTKKRAKLKKPDILVLPELALTGYNFHSLEHIKPYLEPTTSGPSFEWAREVAKK   80 (295)
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCEEECCCCCCCCCCCCCHHHHHHHHCCCCCCCHHHHHHHHHHH
T ss_conf             97999728847877888999999999998653125999898687355688989978988765025887189999999997


Q ss_pred             CCCEEEEEEEEEECC---EEEEEEEEEE-CCEEEEEEEEEEECCCCCCCCCCCCCCCCCCC----------------EEE
Q ss_conf             697899999998889---8789999996-99799988777623554333210037788876----------------147
Q gi|254780999|r   80 GGAGIVVGFPRQDQE---GVLNSVVILD-AGNIIAVRDKINLPNYSEFHEKRTFISGYSND----------------PIV  139 (562)
Q Consensus        80 ~~i~iivG~p~~~~~---~~yNsa~vi~-~G~il~~y~K~~LP~y~~FdE~r~F~~G~~~~----------------~~~  139 (562)
                      +++++++|+|++.++   ++|||+++|. +|++++.|||+||-..    ++.|...|....                ...
T Consensus        81 ~~~~vvvGypE~~~~~~~~~YNSa~vv~p~G~~l~~YRK~hL~~t----de~Wa~~g~~~~~~~~~~~~~~~~~~~~~~~  156 (295)
T cd07566          81 FNCHVVIGYPEKVDESSPKLYNSALVVDPEGEVVFNYRKSFLYYT----DEEWGCEENPGGFQTFPLPFAKDDDFDGGSV  156 (295)
T ss_pred             CCEEEEEEEEEECCCCCCCEEEEEEEECCCCCEEEEEECCCCCCC----CHHHHCCCCCCCCCEECCCCCCCCCCCCCCC
T ss_conf             791899973032588776234347998789866115611136555----5023235788875101035566666676433


Q ss_pred             ECCEEEEECCCCCC--------CHHHHHHHHHHHCCCCEEEECCCCCCCCC--------------CHHHHHH-HHH-HHH
Q ss_conf             64745620111111--------10168999997147775993155533358--------------0788878-899-985
Q gi|254780999|r  140 FRDIRLGILICEDI--------WKNSNICKHLKKQGAEFLFSLNASPYYHN--------------KLKKRHE-IVT-GQI  195 (562)
Q Consensus       140 ~~g~kiGv~ICeDl--------w~~~~~~~~la~~Gadlii~psASp~~~~--------------k~~~R~~-~~~-~~a  195 (562)
                      ...+++|+.||.|+        |+..++++..+.+|++||++|+||-....              ....+.+ +.. ..+
T Consensus       157 ~~~~~~~~gICmDiNPYkFeaP~~~~Efa~~~~~~~a~lii~~maWl~~~s~~~~~~~~~~p~~~t~~yW~~R~~pl~~~  236 (295)
T cd07566         157 DVTLKTSIGICMDLNPYKFEAPFTDFEFATHVLDNGTELIICPMAWLHSLSPTELTVLPQEPDTETVSYWLQRFEPLRAE  236 (295)
T ss_pred             CCCEEEEEEEEECCCCCCCCCCCCHHHHHHHHHHCCCCEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHCHHHCC
T ss_conf             57402699998348852356896288999999866998999977556778831013677886113899999973433227


Q ss_pred             HHCCCEEEECCCCCCCCCCCCCCCCEEECCCCEE
Q ss_conf             4337046421356887662104864355589859
Q gi|254780999|r  196 SHVHLPIIYVNQVGGQDELIFDGASFCFDGQQQL  229 (562)
Q Consensus       196 ~e~~~~vvy~N~vGg~d~lvf~G~S~I~d~~G~i  229 (562)
                      .++++.++++|++|-+++..|.|+|+|+.-...+
T Consensus       237 ~~~~~~vv~aNR~G~E~~~~f~G~S~v~~~~~~~  270 (295)
T cd07566         237 PLEGTQVVFCNRIGTENDTLYAGSSAVIGIYDGL  270 (295)
T ss_pred             CCCCCEEEEEECCCCCCCEEECCCCEEEEECCCC
T ss_conf             6666189997012254883451553688401589


No 39 
>KOG0807 consensus
Probab=100.00  E-value=2.2e-33  Score=237.50  Aligned_cols=239  Identities=20%  Similarity=0.286  Sum_probs=190.9

Q ss_pred             EEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCC-CCCCCHHHHHCCHHHHH-HHHHHHHHHHHHHHHCCC
Q ss_conf             2899996388368899999999999999998599899916644-47998445414889999-999999999999887697
Q gi|254780999|r    5 LKIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELF-ISGYPPEDLVFKKSFIQ-ACSSAIDTLKSDTHDGGA   82 (562)
Q Consensus         5 mkIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~-LtGY~~~Dl~~~~~f~~-~~~~~l~~La~~~~~~~i   82 (562)
                      -+||++|++.. +|+..|++..++++++|+.+||+++.|||.| .-|-.+..   .-.+.+ ...+.+++..+.+++.+|
T Consensus        16 ~~vAv~Qm~S~-~Dl~kNl~~~keLi~eA~~k~A~~iflPE~~dFi~~n~~e---si~Lae~l~~k~m~~y~elar~~nI   91 (295)
T KOG0807          16 KRVAVAQMTSS-NDLTKNLATCKELISEAAQKGAKLIFLPEAFDFIGQNPLE---SIELAEPLDGKFMEQYRELARSHNI   91 (295)
T ss_pred             CEEEEEEECCC-HHHHHHHHHHHHHHHHHHHCCCCEEECCHHHHHHCCCCCC---CEECCCCCCHHHHHHHHHHHHHCCE
T ss_conf             10477752165-6788889999999999997399799732133233279622---1322256684899999998774482


Q ss_pred             EEEEEEE-EEE---CCEEEEEEEEEE-CCEEEEEEEEEEE-----CCCCCCCCCCCCCCCCCCC-EEEECCEEEEECCCC
Q ss_conf             8999999-988---898789999996-9979998877762-----3554333210037788876-147647456201111
Q gi|254780999|r   83 GIVVGFP-RQD---QEGVLNSVVILD-AGNIIAVRDKINL-----PNYSEFHEKRTFISGYSND-PIVFRDIRLGILICE  151 (562)
Q Consensus        83 ~iivG~p-~~~---~~~~yNsa~vi~-~G~il~~y~K~~L-----P~y~~FdE~r~F~~G~~~~-~~~~~g~kiGv~ICe  151 (562)
                      ++.+|.. ++.   +++++|+-++|+ +|+|...|+|.||     |+.....|...-.||.... |++..-+|+|..|||
T Consensus        92 wlSlgg~~~r~~~~~~k~~N~hl~id~~G~i~a~Y~KlHLFDVeipg~~~lkES~~t~pG~~i~~pv~tP~GklGlaICY  171 (295)
T KOG0807          92 WLSLGGHHERSDDGNQKLRNTHLLIDSKGEIRAEYQKLHLFDVEIPGGPRLKESNTTQPGTAIESPVDTPLGKLGLAICY  171 (295)
T ss_pred             EEEECCCCCCCCCCCCEEEEEEEEECCCCHHHHHHHHHCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEE
T ss_conf             58730435777300130343579986776689997652056763599961013467678865588567862201102354


Q ss_pred             CCCHHHHHHHHHHHCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCCC--CCCCCCCEEECCCCEE
Q ss_conf             11101689999971477759931555333580788878899985433704642135688766--2104864355589859
Q gi|254780999|r  152 DIWKNSNICKHLKKQGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQDE--LIFDGASFCFDGQQQL  229 (562)
Q Consensus       152 Dlw~~~~~~~~la~~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d~--lvf~G~S~I~d~~G~i  229 (562)
                      |++||+ ++..++..||+||..|||+....|+.+ |.-++++||.|++|||+.+.|+|-.++  -.| |+|||+||+|.+
T Consensus       172 DiRFpE-~sl~LR~~gA~iLtyPSAFT~~TG~AH-WEiLlRARAietQCYVvaaaQ~G~HneKR~Sy-GhSMiVDPWGtV  248 (295)
T KOG0807         172 DIRFPE-LSLKLRKMGAQILTYPSAFTIKTGEAH-WEILLRARAIETQCYVVAAAQVGKHNEKRESY-GHSMIVDPWGTV  248 (295)
T ss_pred             ECCCCH-HHHHHHHCCCCEEECCCHHHHCCCHHH-HHHHHHHHHHHCCEEEEEHHHCCCCCCHHHCC-CCCEEECCHHHH
T ss_conf             225736-889998729827963515431344889-99999988764021898565426656022304-864687654555


Q ss_pred             EEECCCCC-CCEEEEEEEECCC
Q ss_conf             99616777-6379999983352
Q gi|254780999|r  230 AFQMKHFS-EQNFMTEWHYDQQ  250 (562)
Q Consensus       230 i~~~~~f~-e~~~i~d~d~d~~  250 (562)
                      +++++.-+ .++.++|+|+..-
T Consensus       249 va~~se~~~~~l~~AdiDlsll  270 (295)
T KOG0807         249 VARCSERTGPGLILADIDLSLL  270 (295)
T ss_pred             HEECCCCCCCCEEEEECCHHHH
T ss_conf             3026877899658997568999


No 40 
>cd07571 ALP_N-acyl_transferase Apolipoprotein N-acyl transferase (class 9 nitrilases). ALP N-acyl transferase (Lnt), is an essential membrane-bound enzyme in gram-negative bacteria, which catalyzes the N-acylation of apolipoproteins, the final step in lipoprotein maturation. This is a reverse amidase (i.e. condensation) reaction. This subgroup belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 9.
Probab=99.98  E-value=1.7e-29  Score=212.15  Aligned_cols=224  Identities=19%  Similarity=0.298  Sum_probs=178.3

Q ss_pred             EEEEEEECCCCC------CCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             289999638836------88999999999999999985998999166444799844541488999999999999999988
Q gi|254780999|r    5 LKIAIAQLNPVV------GDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQACSSAIDTLKSDTH   78 (562)
Q Consensus         5 mkIal~Q~n~~~------gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~~~~l~~La~~~~   78 (562)
                      +||+++|.|...      .....++++..++.+++.++++|||||||.+++.+...           ....++.+...++
T Consensus         1 ~~V~lVQ~Ni~~~~k~~~~~~~~~~~~~~~ls~~~~~~~~dlIVwPEta~p~~~~~-----------~~~~~~~~~~~~~   69 (270)
T cd07571           1 LRVALVQGNIPQDEKWDPEQRQATLDRYLDLTRELADEKPDLVVWPETALPFDLQR-----------DPDALARLARAAR   69 (270)
T ss_pred             CEEEEEECCCCHHHHCCHHHHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCHHH-----------CHHHHHHHHHHHH
T ss_conf             98999907998145128546999999999999877617999999489466765111-----------8899999999987


Q ss_pred             HCCCEEEEEEEEEECC--EEEEEEEEEE-CCEEEEEEEEEEECCCCCC---------------CCCCCCCCCCCCCEEEE
Q ss_conf             7697899999998889--8789999996-9979998877762355433---------------32100377888761476
Q gi|254780999|r   79 DGGAGIVVGFPRQDQE--GVLNSVVILD-AGNIIAVRDKINLPNYSEF---------------HEKRTFISGYSNDPIVF  140 (562)
Q Consensus        79 ~~~i~iivG~p~~~~~--~~yNsa~vi~-~G~il~~y~K~~LP~y~~F---------------dE~r~F~~G~~~~~~~~  140 (562)
                      +.+..+++|.+..+++  +.||+++++. +|++..+|+|+||-.+++|               .+...|.+|+...++.+
T Consensus        70 ~~~~~li~G~~~~~~~~~~~yNs~~~~~~~g~~~~~Y~K~hLVPFGEyiP~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~  149 (270)
T cd07571          70 AVGAPLLTGAPRREPGGGRYYNSALLLDPGGGILGRYDKHHLVPFGEYVPLRDLLRFLGLLFDLPMGDFSPGTGPQPLLL  149 (270)
T ss_pred             HCCCEEEEEEEEEECCCCCEEEEEEEECCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCEEC
T ss_conf             55997999554565698867889999989998420784332206541366177777788752466586314999864652


Q ss_pred             CC-EEEEECCCCCCCHHHHHHHHHHHCCCCEEEECCC-CCCCC-CCHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCC
Q ss_conf             47-4562011111110168999997147775993155-53335-807888788999854337046421356887662104
Q gi|254780999|r  141 RD-IRLGILICEDIWKNSNICKHLKKQGAEFLFSLNA-SPYYH-NKLKKRHEIVTGQISHVHLPIIYVNQVGGQDELIFD  217 (562)
Q Consensus       141 ~g-~kiGv~ICeDlw~~~~~~~~la~~Gadlii~psA-Sp~~~-~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d~lvf~  217 (562)
                      .+ .++|++||||..+++ ..+.++.+||++|+|++- +.|.. ....+...+.+.||.|++.|++.++..         
T Consensus       150 ~~~~~~~~~ICYE~~f~~-~~r~~~~~ga~~lv~~tNdaWfg~s~~~~Qhl~~ar~RAiE~~r~~vr~~nt---------  219 (270)
T cd07571         150 GGGVRVGPLICYESIFPE-LVRDAVRQGADLLVNITNDAWFGDSAGPYQHLAMARLRAIETGRPLVRAANT---------  219 (270)
T ss_pred             CCCCEEEEEEEEHHHCHH-HHHHHHHCCCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCC---------
T ss_conf             798258889975343649-9999864487099997366456788417999999898899829963986696---------


Q ss_pred             CCCEEECCCCEEEEECCCCCCCEEEEEEEECC
Q ss_conf             86435558985999616777637999998335
Q gi|254780999|r  218 GASFCFDGQQQLAFQMKHFSEQNFMTEWHYDQ  249 (562)
Q Consensus       218 G~S~I~d~~G~ii~~~~~f~e~~~i~d~d~d~  249 (562)
                      |-|.++||.|+++.+.+.|+++++..++....
T Consensus       220 GiSa~Id~~G~i~~~~~~~~~~~l~~~v~~~~  251 (270)
T cd07571         220 GISAVIDPDGRIVARLPLFEAGVLVAEVPLRT  251 (270)
T ss_pred             EEEEEECCCCCEEEECCCCCCEEEEEEEECCC
T ss_conf             26899999987888747998279999950588


No 41 
>KOG0806 consensus
Probab=99.98  E-value=6.4e-32  Score=227.97  Aligned_cols=248  Identities=17%  Similarity=0.146  Sum_probs=202.4

Q ss_pred             CCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHHH------HHHHHHHH
Q ss_conf             886289999638836889999999999999999859989991664447998445414889999999------99999999
Q gi|254780999|r    2 LKKLKIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQACS------SAIDTLKS   75 (562)
Q Consensus         2 ~~~mkIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~~------~~l~~La~   75 (562)
                      +.++++|++|+....++...|++.....+++|+++|++||||||++++||...+-+.  .+++...      .....+..
T Consensus        11 ~~~~~~a~vq~~~~l~~~~~Ni~~~~~~i~~aa~~g~~iIv~PE~~~~gy~~~~sf~--py~E~i~~~~~~~ps~~~ls~   88 (298)
T KOG0806          11 LPNATEALVSLEEALLLMNENIDILEKAVKEAAKQGAKIIVFPEDGLYGYNFTESFY--PYLEDIPDPGCRDPSRQGLSE   88 (298)
T ss_pred             CCCCCEEEEECCCCHHHHHHHHHHHHHHHHHHHHCCCCEEECHHHCCCCCCCCCCCC--CHHHHCCCCCCCCHHHHHHHH
T ss_conf             534533221012211233465899999999998649809987313256524565312--144308996668836887688


Q ss_pred             HHHHCCCEEEEEEEEEEC--CEEEEEEEEEE-CCEEEEEEEEEEECCCCC-----CCCCCCCCCCCCCCEEEECCEEEEE
Q ss_conf             988769789999999888--98789999996-997999887776235543-----3321003778887614764745620
Q gi|254780999|r   76 DTHDGGAGIVVGFPRQDQ--EGVLNSVVILD-AGNIIAVRDKINLPNYSE-----FHEKRTFISGYSNDPIVFRDIRLGI  147 (562)
Q Consensus        76 ~~~~~~i~iivG~p~~~~--~~~yNsa~vi~-~G~il~~y~K~~LP~y~~-----FdE~r~F~~G~~~~~~~~~g~kiGv  147 (562)
                      .++++.+.++.|.++...  ++.||+..++. +|+.++.|+|+||++.++     |.|...|.+|....++....+|||+
T Consensus        89 va~~~~~~~i~g~i~~~~~~~k~yns~~~~~~~g~l~~~yrk~hlFD~d~~~~~ry~e~~~~~~g~~f~~~~~~~gkfGi  168 (298)
T KOG0806          89 VAERLSCYIIGGSIEEEALGDKLYNSCADSSCPGDGLAKYRKNHLFDTDGPGVIRYRESHLLSPGDQFTVVDTSYGKFGI  168 (298)
T ss_pred             HHHHCEEEEECCCCHHHCCCCCCCCCCCCCCCCCCHHHEEEEEEEECCCCCCCEEEEEEECCCCCCCCCCCCCCCCCEEE
T ss_conf             87744589965761431146644575122588805112452347733678662022321013776667744578871579


Q ss_pred             CCCCCCCHHHHHHHHHHHCCCCEEEECCCCC---CCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCC-CCCCCCC-CCEE
Q ss_conf             1111111016899999714777599315553---335807888788999854337046421356887-6621048-6435
Q gi|254780999|r  148 LICEDIWKNSNICKHLKKQGAEFLFSLNASP---YYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQ-DELIFDG-ASFC  222 (562)
Q Consensus       148 ~ICeDlw~~~~~~~~la~~Gadlii~psASp---~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~-d~lvf~G-~S~I  222 (562)
                      .||+|+|+++ +++.++++||++|+.|.|+.   -..+. ..+..+.++|+-.+.+++..+|..+.. ..+...| +|.+
T Consensus       169 ~IC~Di~F~d-~A~~~~~~g~~~ivyPtaw~~~~l~~~~-~hw~~~~~~~a~~n~~~v~~~s~~~~~s~~y~~~gshs~~  246 (298)
T KOG0806         169 FICFDIRFYD-PAMILVKDGADLIVYPTAWNNELLSAVP-LHWALLMRARANDNAANVHAPSPARTGSGIYAPRGSHSIM  246 (298)
T ss_pred             EEEECCCCCC-HHHHHHHCCCCEEEECCHHHHHCCCCCC-HHHHHHHHCCCCCCEEEEECCCCCCCCCEEEECCCCCEEE
T ss_conf             9983145523-6799997188489936067400146651-5799997477552203321157676786024158763220


Q ss_pred             ECCCCEEEEECCCCCCCEEEEEEEECCCCCCC
Q ss_conf             55898599961677763799999833521236
Q gi|254780999|r  223 FDGQQQLAFQMKHFSEQNFMTEWHYDQQLSQW  254 (562)
Q Consensus       223 ~d~~G~ii~~~~~f~e~~~i~d~d~d~~~~~~  254 (562)
                      .+|.|++++.... ++.+...++|.+...+.+
T Consensus       247 ~~p~gkvl~a~~~-~~e~~~a~~d~~~~~~~r  277 (298)
T KOG0806         247 VNPTGKVLAAAVE-KEEIIYADVDPSAIASRR  277 (298)
T ss_pred             CCCCCEEEEECCC-CCCCCCCCCCHHHHHHHH
T ss_conf             2885247630257-776312447989988886


No 42 
>PRK13287 amiF formamidase; Provisional
Probab=99.97  E-value=1.1e-29  Score=213.47  Aligned_cols=268  Identities=15%  Similarity=0.149  Sum_probs=202.2

Q ss_pred             CCEEEEEEECCC----CCCCHHHHHHHHHHHHHHHHHC--CCCEEEECCCCCCCCCHHHHHCCHHHHHH-HHHHHHHHHH
Q ss_conf             862899996388----3688999999999999999985--99899916644479984454148899999-9999999999
Q gi|254780999|r    3 KKLKIAIAQLNP----VVGDIAGNIAKARRAREEANRQ--GMDLILFTELFISGYPPEDLVFKKSFIQA-CSSAIDTLKS   75 (562)
Q Consensus         3 ~~mkIal~Q~n~----~~gd~~~N~~~i~~~i~~A~~~--gadLvvfPEl~LtGY~~~Dl~~~~~f~~~-~~~~l~~La~   75 (562)
                      +.+-||++|...    +..|+..|+++|.+++..++..  |.|||||||.++.|....-. ...++... -....+.+++
T Consensus        12 d~v~v~~vqy~~P~~~t~~ev~~n~~~I~~~v~~~k~G~PgmDLvVFPEYSt~G~~~d~~-~~~e~~~~ipGpet~~f~~   90 (333)
T PRK13287         12 EGVLVGLIQYPVPVVNSREDIDKQIEQIIKTVHKTKAGYPGMDLIVFPEYSTQGLNTKKW-TTEEFLCTVDGPEVDAFAQ   90 (333)
T ss_pred             CCEEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCCHH-HHHHHHHCCCCHHHHHHHH
T ss_conf             856999995278866899999999999999999975689997489802413466678734-5577761499778999999


Q ss_pred             HHHHCCCEEEEEEEEEECC--EEEEEEEEEE-CCEEEEEEEEEEECCCCCCCCCCCCCCCCC-CCEEEEC-CEEEEECCC
Q ss_conf             9887697899999998889--8789999996-997999887776235543332100377888-7614764-745620111
Q gi|254780999|r   76 DTHDGGAGIVVGFPRQDQE--GVLNSVVILD-AGNIIAVRDKINLPNYSEFHEKRTFISGYS-NDPIVFR-DIRLGILIC  150 (562)
Q Consensus        76 ~~~~~~i~iivG~p~~~~~--~~yNsa~vi~-~G~il~~y~K~~LP~y~~FdE~r~F~~G~~-~~~~~~~-g~kiGv~IC  150 (562)
                      .+++.+++.+++..++..+  +.||++++|+ +|+|+.+|||+|.-   +=.|. | .||+. ..+++.. |.|+|+.||
T Consensus        91 acr~~~vwgvfSi~E~np~~~~pYNT~iLIn~~Geiv~kYRKi~PW---vPiE~-W-~PGd~~~pV~dgPkG~KI~liIC  165 (333)
T PRK13287         91 ACKENKVWGVFSIMERNPDGNEPYNTAIIIDDQGEIILKYRKLHPW---VPVEP-W-EPGDLGIPVCDGPGGSKLAVCIC  165 (333)
T ss_pred             HHHHCCEEEEEEEEEECCCCCCCCEEEEEECCCCCEEEEEEECCCC---CCCCC-C-CCCCCCCEEEECCCCCEEEEEEE
T ss_conf             9997794899998887689998630289988998188899822565---56777-3-58986515654688757899997


Q ss_pred             CCCCHHHHHHHHHHHCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCCCCEEECCCCEEE
Q ss_conf             11110168999997147775993155533358078887889998543370464213568876621048643555898599
Q gi|254780999|r  151 EDIWKNSNICKHLKKQGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQDELIFDGASFCFDGQQQLA  230 (562)
Q Consensus       151 eDlw~~~~~~~~la~~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d~lvf~G~S~I~d~~G~ii  230 (562)
                      +|.|+|| ++|.++.+||+||+-+++  |..-..+++.-..++.|-.|.++++.+|.+|.++.+.|-|+|+|++-+|+++
T Consensus       166 ~DG~fPE-iaRe~A~kGAEviiR~~G--Ym~p~~~qw~~t~k~~A~~N~~yva~vn~~G~Dgv~~yfG~s~i~~fDG~~L  242 (333)
T PRK13287        166 HDGMFPE-MAREAAYKGANVMIRISG--YSTQVNDQWILTNRSNAWQNLMYTASVNLAGYDGVFYYFGEGQVCNFDGTTL  242 (333)
T ss_pred             CCCCCHH-HHHHHHHCCCEEEEEECC--CCCCHHHHHHHHHHHHHHHHCCEEEEEEECCCCCCEEEECCCEEECCCCCEE
T ss_conf             5899818-999987468879998357--6561356799999998886255799975025676414404616966788682


Q ss_pred             EECCCCCCCEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCHHHHHHHHHHHCCCCEEEEECCCCCH
Q ss_conf             96167776379999983352123655575555544789998886422020358887642245405752158723
Q gi|254780999|r  231 FQMKHFSEQNFMTEWHYDQQLSQWNYMSDDSASTMYIPLQEEEADYNACVLSLRDYVQKNNFHKVIIGLSGGID  304 (562)
Q Consensus       231 ~~~~~f~e~~~i~d~d~d~~~~~~~~~~~~~~~~~~~p~~~~e~~~~Alvlgl~d~~~~~g~~~~viglSGGiD  304 (562)
                      .++..-+.++..+++..+....                   .+..     -++..++-+-+-+|++ |+.||.-
T Consensus       243 ~~~~~~~~~i~~Ael~~~~ir~-------------------aR~~-----~~~eN~ly~l~HRGYt-~v~gG~~  291 (333)
T PRK13287        243 VQGHRNPWEIVTAEVRPDLADE-------------------ARLG-----WGLENNIYNLGHRGYV-AVPGGAK  291 (333)
T ss_pred             EECCCCCCCEEEEEECHHHHHH-------------------HHHC-----CCHHHHHHHHCCCCEE-CCCCCCC
T ss_conf             1047888824999966999999-------------------9864-----1011013441245400-4658623


No 43 
>PRK00302 lnt apolipoprotein N-acyltransferase; Reviewed
Probab=99.95  E-value=1.1e-25  Score=187.16  Aligned_cols=224  Identities=20%  Similarity=0.289  Sum_probs=167.1

Q ss_pred             CCEEEEEEECCCCCC------CHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHH
Q ss_conf             862899996388368------89999999999999999859989991664447998445414889999999999999999
Q gi|254780999|r    3 KKLKIAIAQLNPVVG------DIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQACSSAIDTLKSD   76 (562)
Q Consensus         3 ~~mkIal~Q~n~~~g------d~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~~~~l~~La~~   76 (562)
                      ++++|+++|.|....      +.+.++++..++.+++ .+++|+||+||.+++-+.           +...+..+.+.+.
T Consensus       224 ~~l~V~iVQpNi~q~~k~~~~~~~~~~~~~~~lt~~~-~~~~dlIvWPEta~p~~~-----------~~~~~~~~~i~~~  291 (509)
T PRK00302        224 EPLKVALVQGNIPQDLKWDPAGREATLEKYLDLSEPG-LGPADLIIWPETAIPFLE-----------ENPPPFLAAIDAL  291 (509)
T ss_pred             CCEEEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHCC-CCCCCEEEEECCCCCCCH-----------HHCHHHHHHHHHH
T ss_conf             8549999927988100247345999999999976403-688868996376676641-----------1158999999999


Q ss_pred             HHHCCCEEEEEEEEEECC---EEEEEEEEEE-CCEEEEEEEEEEECCCCCCCC---------------CCCCCCCCCCC-
Q ss_conf             887697899999998889---8789999996-997999887776235543332---------------10037788876-
Q gi|254780999|r   77 THDGGAGIVVGFPRQDQE---GVLNSVVILD-AGNIIAVRDKINLPNYSEFHE---------------KRTFISGYSND-  136 (562)
Q Consensus        77 ~~~~~i~iivG~p~~~~~---~~yNsa~vi~-~G~il~~y~K~~LP~y~~FdE---------------~r~F~~G~~~~-  136 (562)
                      +++.+..+++|.+..+++   +.|||+++++ +|++..+|+|+||-.+|||--               ..-|++|++.. 
T Consensus       292 ~~~~~~~ll~G~~~~~~~~~~~~yNs~~~~~~~g~~~~~YdK~~LVPFGEyiP~~~~~~~~~~~~~~~~~~~~~G~~~~~  371 (509)
T PRK00302        292 LREKGSPLITGAVGADKGGQGRYYNSIYVLGPNGEILGRYDKHHLVPFGEYVPLESLLRPLVPFFALPMGDFSRGPGVQP  371 (509)
T ss_pred             HHHCCCEEEEEEEECCCCCCCCEEEEEEEECCCCCCCCEECCEEEECCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCC
T ss_conf             87569849998511004887667889999879997101663111026632267598888899984566466778988776


Q ss_pred             EEEECCEEEEECCCCCCCHHHHHHHHHHHCCCCEEEECCCCCCC--CCCHHHHHHHHHHHHHHCCCEEEECCCCCCCCCC
Q ss_conf             14764745620111111101689999971477759931555333--5807888788999854337046421356887662
Q gi|254780999|r  137 PIVFRDIRLGILICEDIWKNSNICKHLKKQGAEFLFSLNASPYY--HNKLKKRHEIVTGQISHVHLPIIYVNQVGGQDEL  214 (562)
Q Consensus       137 ~~~~~g~kiGv~ICeDlw~~~~~~~~la~~Gadlii~psASp~~--~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d~l  214 (562)
                      ++..++.++|++||||.-+++ ..+..+.+|||+|+|++.--|.  .....+...+.+-||.|++.|++-+...      
T Consensus       372 ~~~~~~~~~~~~ICyE~~f~~-~~r~~~~~ga~~lvn~TND~Wfg~s~~~~QHl~~ar~RAiE~~r~~vraant------  444 (509)
T PRK00302        372 PLLAKGFKLAPLICYEIIFPE-LVRRYKAQGADLLLNITNDAWFGDSIGPYQHFQMARMRALELGRPLIRATNT------  444 (509)
T ss_pred             CCCCCCCEEEEEEEEECCCHH-HHHHHHHCCCCEEEECCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCC------
T ss_conf             535788347778886320679-9997641588589991576545798558999999999998547887998186------


Q ss_pred             CCCCCCEEECCCCEEEEECCCCCCCEEEEEEEEC
Q ss_conf             1048643555898599961677763799999833
Q gi|254780999|r  215 IFDGASFCFDGQQQLAFQMKHFSEQNFMTEWHYD  248 (562)
Q Consensus       215 vf~G~S~I~d~~G~ii~~~~~f~e~~~i~d~d~d  248 (562)
                         |-|.++||.|+++.+.+.|+++++..++...
T Consensus       445 ---GiSa~Id~~G~i~~~~~~~~~~~l~~~vp~~  475 (509)
T PRK00302        445 ---GITAVIDPLGRIIAQLPLFTEGVLDGTVPPT  475 (509)
T ss_pred             ---EEEEEECCCCCEEEECCCCCCEEEEEEECCC
T ss_conf             ---4689999998888763899736999993178


No 44 
>PRK13286 amiE acylamide amidohydrolase; Provisional
Probab=99.94  E-value=6.2e-25  Score=182.26  Aligned_cols=234  Identities=13%  Similarity=0.136  Sum_probs=180.7

Q ss_pred             CCEEEEEEECCC----CCCCHHHHHHHHHHHHHHHHHC--CCCEEEECCCCCCCCCHHHHHCCHHH-HHHH----HHHHH
Q ss_conf             862899996388----3688999999999999999985--99899916644479984454148899-9999----99999
Q gi|254780999|r    3 KKLKIAIAQLNP----VVGDIAGNIAKARRAREEANRQ--GMDLILFTELFISGYPPEDLVFKKSF-IQAC----SSAID   71 (562)
Q Consensus         3 ~~mkIal~Q~n~----~~gd~~~N~~~i~~~i~~A~~~--gadLvvfPEl~LtGY~~~Dl~~~~~f-~~~~----~~~l~   71 (562)
                      +.+-||++|...    +..|+..|.++|.+++..++..  |.|||||||+++.|-.-.     +.- .+..    ....+
T Consensus        11 d~v~vavvqy~~P~~~t~~ev~~n~~~I~~mv~~~k~G~PgmDLiVFPEYSt~Gi~yd-----~~~~~e~a~tipGpEt~   85 (343)
T PRK13286         11 DTVGVAVVNYKMPRLHTKAEVLENARKIADMIVGMKQGLPGMDLVIFPEYSTHGIMYD-----RQEMYDTASTIPGEETA   85 (343)
T ss_pred             CCEEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCEEECCCCCCCCCCCC-----HHHHHHHHHCCCCHHHH
T ss_conf             8559999952787668999999999999999999756999974797433003666678-----57888656359977899


Q ss_pred             HHHHHHHHCCCEEEEEEE-EEE----CCEEEEEEEEEE-CCEEEEEEEEEEECCCCCCCCCCCCCCCCCCCEEEE-CCEE
Q ss_conf             999998876978999999-988----898789999996-997999887776235543332100377888761476-4745
Q gi|254780999|r   72 TLKSDTHDGGAGIVVGFP-RQD----QEGVLNSVVILD-AGNIIAVRDKINLPNYSEFHEKRTFISGYSNDPIVF-RDIR  144 (562)
Q Consensus        72 ~La~~~~~~~i~iivG~p-~~~----~~~~yNsa~vi~-~G~il~~y~K~~LP~y~~FdE~r~F~~G~~~~~~~~-~g~k  144 (562)
                      .+++.+++.+++-++..- +++    +...||+.++|+ +|+|+.+|||+|.   .+=-|.  +.||+...+.+- +|.|
T Consensus        86 ~f~~ACr~~~vWGvFSi~ge~he~~P~k~PyNt~ilInd~GEIv~kYRKi~P---WvPiE~--W~PGd~~~V~eGPkG~K  160 (343)
T PRK13286         86 IFAAACRKAKVWGVFSLTGERHEEHPRKAPYNTLILINDKGEIVQKYRKIMP---WCPIEG--WYPGDCTYVSEGPKGLK  160 (343)
T ss_pred             HHHHHHHHCCEEEEEEEECCCCCCCCCCCCCCEEEEECCCCHHHHHHHHCCC---CCCCCC--CCCCCCCEEEECCCCCE
T ss_conf             9999998679589999622332338888985238998798612121010567---665568--65786207831788757


Q ss_pred             EEECCCCCCCHHHHHHHHHHHCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCCCCEEEC
Q ss_conf             62011111110168999997147775993155533358078887889998543370464213568876621048643555
Q gi|254780999|r  145 LGILICEDIWKNSNICKHLKKQGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQDELIFDGASFCFD  224 (562)
Q Consensus       145 iGv~ICeDlw~~~~~~~~la~~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d~lvf~G~S~I~d  224 (562)
                      +++.||.|.-+|+ .+|..+.+||+|++-+++  |..-..+++.-..++.|-.|.++++.+|..|.++.+.|-|+|+|++
T Consensus       161 isliIC~DG~yPE-i~RecA~KGAeliiR~~G--YmyP~~~qw~~tnk~~A~~N~~Yva~vn~aG~Dgvy~yfG~s~i~~  237 (343)
T PRK13286        161 ISLIICDDGNYPE-IWRDCAMKGAELIVRCQG--YMYPAKEQQVLIAKAMAWANNCYVAVANAAGFDGVYSYFGHSAIIG  237 (343)
T ss_pred             EEEEEECCCCCHH-HHHHHHHCCCEEEEEECC--CCCHHHHHHHHHHHHHHHHHCCEEEEEEECCCCCCCCCCCCEEEEC
T ss_conf             8899966998868-999987468879997335--6661777899988888875131577774035787511358706966


Q ss_pred             CCCEEEEECCCCCCCEEEEEEEECC
Q ss_conf             8985999616777637999998335
Q gi|254780999|r  225 GQQQLAFQMKHFSEQNFMTEWHYDQ  249 (562)
Q Consensus       225 ~~G~ii~~~~~f~e~~~i~d~d~d~  249 (562)
                      -+|+++.++..-+.++..+++..+.
T Consensus       238 fDG~tL~e~g~~~~~i~~Ael~~~~  262 (343)
T PRK13286        238 FDGRTLGECGEEEMGIQYAQLSKSL  262 (343)
T ss_pred             CCCCEEEECCCCCCCEEEEEECHHH
T ss_conf             8987742047887723899965999


No 45 
>KOG0805 consensus
Probab=99.93  E-value=5.7e-24  Score=176.01  Aligned_cols=238  Identities=18%  Similarity=0.215  Sum_probs=188.9

Q ss_pred             CCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHH----------CCHHHHHHHHH---
Q ss_conf             88628999963883688999999999999999985998999166444799844541----------48899999999---
Q gi|254780999|r    2 LKKLKIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLV----------FKKSFIQACSS---   68 (562)
Q Consensus         2 ~~~mkIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~----------~~~~f~~~~~~---   68 (562)
                      |...|++++|....++|....++|++.++.+|+++||.||+|||-++-|||-+.-|          -+..|......   
T Consensus        15 ~s~~~v~ivQ~~t~~~dtpaTL~K~~~~~~Eaa~~Ga~LV~fPEAfiGGYPrg~~Fg~~~G~r~~eGR~ef~kY~a~AIe   94 (337)
T KOG0805          15 SSIVRVTIVQASTVYNDTPATLDKAEKYIVEAASKGAELVLFPEAFIGGYPRGFRFGLAVGVRNEEGRDEFRKYHASAIE   94 (337)
T ss_pred             CCCEEEEEEECCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEEEHHHHCCCCCCCEEEEEEEECCHHHHHHHHHHHHHHHC
T ss_conf             55247999972667889877899999999998607854998116860688777503588850362317999999887750


Q ss_pred             ----HHHHHHHHHHHCCCEEEEEEEEEECCEEEEEEEEEE-CCEEEEEEEEEEECCCCCCCCCCCCC--CCCCCCEEEEC
Q ss_conf             ----999999998876978999999988898789999996-99799988777623554333210037--78887614764
Q gi|254780999|r   69 ----AIDTLKSDTHDGGAGIVVGFPRQDQEGVLNSVVILD-AGNIIAVRDKINLPNYSEFHEKRTFI--SGYSNDPIVFR  141 (562)
Q Consensus        69 ----~l~~La~~~~~~~i~iivG~p~~~~~~~yNsa~vi~-~G~il~~y~K~~LP~y~~FdE~r~F~--~G~~~~~~~~~  141 (562)
                          .+++|+..+++.++.+++|.+++++..+|.++++++ .|..++++||. +|+-.   |.-.+-  -|...++|++.
T Consensus        95 v~gpEv~~l~~la~~~~v~lv~G~iEreg~TLYCt~~f~~p~g~~lGKHRKl-mPTal---ERciWGqGDGSTiPV~dT~  170 (337)
T KOG0805          95 VPGPEVERLAELAKKNNVYLVMGAIEREGYTLYCTVLFFSPQGQFLGKHRKL-MPTAL---ERCIWGQGDGSTIPVYDTP  170 (337)
T ss_pred             CCCHHHHHHHHHHHCCCEEEEEEEEECCCCEEEEEEEEECCCCCCCCCCCCC-CCCHH---HHEEECCCCCCCCCEEECC
T ss_conf             7984799999986147758999898405617999999987877611000000-64144---5505505888422023045


Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCC------------
Q ss_conf             74562011111110168999997147775993155533358078887889998543370464213568------------
Q gi|254780999|r  142 DIRLGILICEDIWKNSNICKHLKKQGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVG------------  209 (562)
Q Consensus       142 g~kiGv~ICeDlw~~~~~~~~la~~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vG------------  209 (562)
                      -.|||-.||++-+.|. ....|-.+|++|.+.|.+     .....|..-++..|.|-+|+++.++|--            
T Consensus       171 iGKIG~AICWEN~MPl-~R~alY~KgieIycAPT~-----D~r~~w~~sM~~IAlEG~cFvlSA~QF~k~~d~p~~peyl  244 (337)
T KOG0805         171 IGKIGAAICWENRMPL-YRTALYAKGIEIYCAPTA-----DGRKEWQSSMLHIALEGGCFVLSACQFCKRKDFPDHPDYL  244 (337)
T ss_pred             CCCCCEEEECCCCCHH-HHHHHHHCCCEEEECCCC-----CCCHHHHHHHHHHEECCCEEEEEHHHHCCCCCCCCCCHHH
T ss_conf             5400101211133679-999987558579962677-----8618899864660102746999821204312589970442


Q ss_pred             --------CCCCCCCCCCCEEECCCCEEEEECCCCCCCEEEEEEEECC
Q ss_conf             --------8766210486435558985999616777637999998335
Q gi|254780999|r  210 --------GQDELIFDGASFCFDGQQQLAFQMKHFSEQNFMTEWHYDQ  249 (562)
Q Consensus       210 --------g~d~lvf~G~S~I~d~~G~ii~~~~~f~e~~~i~d~d~d~  249 (562)
                              +.|..+-.|+|.|++|-|++++.-..-+|.++++|+|++-
T Consensus       245 ~~~~~~~k~pD~vv~~GGSviI~PlG~VlagP~~~~EgL~tadldl~d  292 (337)
T KOG0805         245 FTDWYDDKEPDSVVSQGGSVIISPLGQVLAGPNFESEGLITADLDLGD  292 (337)
T ss_pred             CCCCHHHCCCCCCEECCCCEEECCCCCEECCCCCCCCCEEEEECCCHH
T ss_conf             262012028886234697388755423322688676603887306026


No 46 
>TIGR00546 lnt apolipoprotein N-acyltransferase; InterPro: IPR004563 Apolipoprotein N-acyltransferase 2.3.1 from EC transfers the acyl group to lipoproteins and is involved in lipoprotein biosynthesis. It is an integral membrane protein.; GO: 0016410 N-acyltransferase activity, 0042158 lipoprotein biosynthetic process, 0016021 integral to membrane.
Probab=99.90  E-value=1.3e-22  Score=167.21  Aligned_cols=214  Identities=21%  Similarity=0.318  Sum_probs=162.0

Q ss_pred             CCCEEEEEEECCCCCC------CHHHHHHHHHHHHHHHHHC-------CCCEEEECCCCCCCCCHHHHHCCHHHHHH---
Q ss_conf             8862899996388368------8999999999999999985-------99899916644479984454148899999---
Q gi|254780999|r    2 LKKLKIAIAQLNPVVG------DIAGNIAKARRAREEANRQ-------GMDLILFTELFISGYPPEDLVFKKSFIQA---   65 (562)
Q Consensus         2 ~~~mkIal~Q~n~~~g------d~~~N~~~i~~~i~~A~~~-------gadLvvfPEl~LtGY~~~Dl~~~~~f~~~---   65 (562)
                      .+++||+++|.|.-.-      .++.+++.+.++++++.++       +.||||+||.+++=+. .   ..+.-.++   
T Consensus       177 ~~~~~ValvQ~~~p~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlvvwPEta~~~~l-~---~~~~~~~~~Q~  252 (441)
T TIGR00546       177 EPTLKVALVQPNIPQDLKFDKEGLEAILELLTSLTKQAVEKVHAGLYEKPDLVVWPETALPFDL-E---NSPDKLHESQS  252 (441)
T ss_pred             CCEEEEEEECCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCEEEECCHHHCCCC-C---CCCHHCCCCCC
T ss_conf             7326899986888800134110179999999999885225667677787327884615332366-6---43211033673


Q ss_pred             HHHHHHHHHHHHHHCCCEEEEEEEEEECC-------EEEEEEEEEEC-C----EEEEEEEEEEE-------C--CCCCC-
Q ss_conf             99999999999887697899999998889-------87899999969-9----79998877762-------3--55433-
Q gi|254780999|r   66 CSSAIDTLKSDTHDGGAGIVVGFPRQDQE-------GVLNSVVILDA-G----NIIAVRDKINL-------P--NYSEF-  123 (562)
Q Consensus        66 ~~~~l~~La~~~~~~~i~iivG~p~~~~~-------~~yNsa~vi~~-G----~il~~y~K~~L-------P--~y~~F-  123 (562)
                      ..+.++.+.....+.++.+++|++...++       ..|||++++++ |    +++.+|+|+||       |  =...| 
T Consensus       253 ~f~~~~~~~~~~~~~~~p~~~G~~~~~~~~~~~~~~~~yNs~~~~~~~~~a~~~~~~~Y~K~~LVPFGEy~P~~~~~~f~  332 (441)
T TIGR00546       253 AFDLLKALKALVLSKGIPILIGAPDADPKGQKGEEYEYYNSVYLLDPGGKAVLEVVQRYDKVKLVPFGEYIPFGLKFVFK  332 (441)
T ss_pred             HHHHHHHHHHHHHHHCCCEEEEECCCCCCCCCCCCCCCCCEEEEECCCCCCCCCHHHHCCCEEECCCCCCCCCCCHHHHH
T ss_conf             78999999999874098489963010378888874311125899848862003505353874543562326776333444


Q ss_pred             ---------CCCCCCCCCCCCCEEEECC--EEEEECCCCCCCHHHHHHHHHHHCCCCEEEECCCCCCCCC--CHHHHHHH
Q ss_conf             ---------3210037788876147647--4562011111110168999997147775993155533358--07888788
Q gi|254780999|r  124 ---------HEKRTFISGYSNDPIVFRD--IRLGILICEDIWKNSNICKHLKKQGAEFLFSLNASPYYHN--KLKKRHEI  190 (562)
Q Consensus       124 ---------dE~r~F~~G~~~~~~~~~g--~kiGv~ICeDlw~~~~~~~~la~~Gadlii~psASp~~~~--k~~~R~~~  190 (562)
                               .+.+.|++|....++...+  +++++.||||.-+++ ..|..+++||++|+|+|.--|...  ...+...+
T Consensus       333 ~~~~~~~~~~~~~~~~~G~~~~v~~~~~~~~~~~~~ICYE~~Fp~-~~r~~~~~Ga~~L~~~tNDaWf~~~~~~~QH~~~  411 (441)
T TIGR00546       333 WLSKLFFLASEQESFARGNGPQVLKLPGGAVKLAPLICYESIFPE-LVRALARQGAELLVNLTNDAWFGDSSGPWQHFAL  411 (441)
T ss_pred             HHHHHHHHCCCCCCHHCCCCCCCCCCCCCCEEEEEEEEHHHHHHH-HHHHHCCCCCEEEEEEECCCCCCCCHHHHHHHHH
T ss_conf             776543200222331127887653447760277753115541168-8987425883289974005643666167889999


Q ss_pred             HHHHHHHCCCEEEECCCCCCCCCCCCCCCCEEECCCCEE
Q ss_conf             999854337046421356887662104864355589859
Q gi|254780999|r  191 VTGQISHVHLPIIYVNQVGGQDELIFDGASFCFDGQQQL  229 (562)
Q Consensus       191 ~~~~a~e~~~~vvy~N~vGg~d~lvf~G~S~I~d~~G~i  229 (562)
                      .+-||.|++.+++-++..         |-|.++||.|++
T Consensus       412 ~~~RA~E~~~~~~Ra~Nt---------G~sa~i~p~G~~  441 (441)
T TIGR00546       412 ARFRAIENGRPLVRAANT---------GISAVIDPRGRI  441 (441)
T ss_pred             HHHHHHHCCCEEEEEECC---------CCEEEEECCCCC
T ss_conf             888876448548999606---------625898067889


No 47 
>COG0815 Lnt Apolipoprotein N-acyltransferase [Cell envelope biogenesis, outer membrane]
Probab=99.90  E-value=1e-21  Score=161.31  Aligned_cols=224  Identities=19%  Similarity=0.276  Sum_probs=157.7

Q ss_pred             CEEEEEEECCCC---CCCHHHHHHHHHH---HHHHHH--HCCCCEEEECCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHH
Q ss_conf             628999963883---6889999999999---999999--85998999166444799844541488999999999999999
Q gi|254780999|r    4 KLKIAIAQLNPV---VGDIAGNIAKARR---AREEAN--RQGMDLILFTELFISGYPPEDLVFKKSFIQACSSAIDTLKS   75 (562)
Q Consensus         4 ~mkIal~Q~n~~---~gd~~~N~~~i~~---~i~~A~--~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~~~~l~~La~   75 (562)
                      .++|+++|.|..   ..|.++-...+..   ....+.  ..++|+||+||.+++ +...          +..+...++.+
T Consensus       227 ~~~V~lvQ~nI~q~lk~~~~~~~~~~~~~~~~~~~~~~~~~~~dlVIwPEtA~p-~~~~----------~~~~~~~~~~~  295 (518)
T COG0815         227 TLTVALVQGNIPQDLKWDADALARLIAGYLEEEFLAAVDKQKPDLVVWPETALP-FDLT----------RHPDALARLAE  295 (518)
T ss_pred             CEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCEEECCCCCCC-CCHH----------HCCHHHHHHHH
T ss_conf             547999647885002678888988887654333100123789888983675555-5411----------13127889999


Q ss_pred             HHHHCCCEEEEEEEEE--ECCE--EEEEEEEEEC-CEEEEEEEEEEECCCCCCC-------------C--CCCCCCCCCC
Q ss_conf             9887697899999998--8898--7899999969-9799988777623554333-------------2--1003778887
Q gi|254780999|r   76 DTHDGGAGIVVGFPRQ--DQEG--VLNSVVILDA-GNIIAVRDKINLPNYSEFH-------------E--KRTFISGYSN  135 (562)
Q Consensus        76 ~~~~~~i~iivG~p~~--~~~~--~yNsa~vi~~-G~il~~y~K~~LP~y~~Fd-------------E--~r~F~~G~~~  135 (562)
                      .....++.+++|....  .+++  .|||++++++ |++..+|+|+||-..|||-             .  ...|.+|...
T Consensus       296 ~~~~~~~~~iiG~~~~~~~~~~~~yyNSv~~~~~~~~~~~~ydK~~LVPFGEYiP~~~~l~~~~~~~~~~~~~f~~G~~~  375 (518)
T COG0815         296 ALQRVGAPLLIGTDVDGPAPGGGIYYNSVLVLDPGGEGVYRYDKVHLVPFGEYIPFPELLRPLYFFLNLPMSDFSRGPGP  375 (518)
T ss_pred             HHHCCCCCEEEEECCCCCCCCCCCEEEEEEEECCCCCCCCEECCEEEECCCCCCCCHHHHHHHHHHHCCCCCCCCCCCCC
T ss_conf             98604996899603445688875312479996689875550043443077057560777667777634552345579988


Q ss_pred             CEEEECC-EEEEECCCCCCCHHHHHHHHHHHCCCCEEEECCCCCCCCCC--HHHHHHHHHHHHHHCCCEEEECCCCCCCC
Q ss_conf             6147647-45620111111101689999971477759931555333580--78887889998543370464213568876
Q gi|254780999|r  136 DPIVFRD-IRLGILICEDIWKNSNICKHLKKQGAEFLFSLNASPYYHNK--LKKRHEIVTGQISHVHLPIIYVNQVGGQD  212 (562)
Q Consensus       136 ~~~~~~g-~kiGv~ICeDlw~~~~~~~~la~~Gadlii~psASp~~~~k--~~~R~~~~~~~a~e~~~~vvy~N~vGg~d  212 (562)
                      .++.+.+ .|+++.||||.-+++ ..|....+|+|+|+|+|.--|.-..  ..+...+.+.||.|++.|++-+...    
T Consensus       376 ~v~~~~~~~~~~~~ICYE~~F~~-~~r~~~~qga~~Lin~SNDAWf~~s~~p~QH~~~a~~RAiE~grp~iRAtNt----  450 (518)
T COG0815         376 QVLLLAGGPKIAPLICYEAIFPE-LVRASARQGAELLLNLSNDAWFGGSWGPYQHFQQARVRAVELGRPLVRATNT----  450 (518)
T ss_pred             CCCCCCCCCEEEEEEEEEHHCHH-HHHHHHCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEEECCC----
T ss_conf             76113888445025664223339-8887541776289975565345999338899999999988608728997178----


Q ss_pred             CCCCCCCCEEECCCCEEEEECCCCCCCEEEEEEEEC
Q ss_conf             621048643555898599961677763799999833
Q gi|254780999|r  213 ELIFDGASFCFDGQQQLAFQMKHFSEQNFMTEWHYD  248 (562)
Q Consensus       213 ~lvf~G~S~I~d~~G~ii~~~~~f~e~~~i~d~d~d  248 (562)
                           |-|.|+||.|+++++.+.|+.+++..++...
T Consensus       451 -----GiSavIdp~Gri~~~l~~~~~~~l~~~v~~~  481 (518)
T COG0815         451 -----GISAVIDPRGRILAQLPYFTRGVLDATVPLK  481 (518)
T ss_pred             -----CEEEEECCCCCEEEECCCCCCCEEEEECCCC
T ss_conf             -----4058999999766425787741023311345


No 48 
>cd07567 biotinidase_like biotinidase and vanins (class 4 nitrilases). These secondary amidases participate in vitamin recycling. Biotinidase (EC 3.5.1.12) has both a hydrolase and a transferase activity. It hydrolyzes free biocytin or small biotinyl-peptides produced during the proteolytic degradation of biotin-dependent carboxylases, to release free biotin (vitamin H), and it can transfer biotin to acceptor molecules such as histones. Biotinidase deficiency in humans is an autosomal recessive disorder characterized by neurological and cutaneous symptoms. This subgroup includes the three human vanins, vanin1-3. Vanins are ectoenzymes, Vanin-1, and -2 are membrane associated, vanin-3 is secreted. They are pantotheinases (EC 3.5.1.92, pantetheine hydrolase), which convert pantetheine, to pantothenic acid (vitamin B5) and cysteamine (2-aminoethanethiol, a potent anti-oxidant). They are potential targets for therapeutic intervention in inflammatory disorders. Vanin-1 deficient mice lacking
Probab=99.88  E-value=1.1e-20  Score=154.47  Aligned_cols=231  Identities=17%  Similarity=0.149  Sum_probs=160.2

Q ss_pred             EEEEECCCCC-CC------HHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHH----HCC-------------HHH
Q ss_conf             9999638836-88------99999999999999998599899916644479984454----148-------------899
Q gi|254780999|r    7 IAIAQLNPVV-GD------IAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDL----VFK-------------KSF   62 (562)
Q Consensus         7 Ial~Q~n~~~-gd------~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl----~~~-------------~~f   62 (562)
                      .|++-..+.. ++      .+.|++.-+++|++|+++|+|||||||..|+|+.....    +++             +..
T Consensus         3 AaVvE~~p~~~~~~~a~~~~~~Nl~~y~~~i~~a~~~~adIIVFPE~gl~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~   82 (299)
T cd07567           3 AAVVEHHPILSPDPDALQIMEKNLDIYEEIIKSAAKQGADIIVFPEDGLTGFIFTRFVIYPFLEDVPDPEVNWNPCLDPD   82 (299)
T ss_pred             EEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCEEECCCCCCCCCCCCCCEECCCCCCCCCCCCCCCCCCCCC
T ss_conf             99998725678997899999999999999999776559989988674446776577423521023799655666656844


Q ss_pred             HHHHHHHHHHHHHHHHHCCCEEEEEEEEEEC------------CEEEEEEEEEE-CCEEEEEEEEEEECCCCCCCCCCCC
Q ss_conf             9999999999999988769789999999888------------98789999996-9979998877762355433321003
Q gi|254780999|r   63 IQACSSAIDTLKSDTHDGGAGIVVGFPRQDQ------------EGVLNSVVILD-AGNIIAVRDKINLPNYSEFHEKRTF  129 (562)
Q Consensus        63 ~~~~~~~l~~La~~~~~~~i~iivG~p~~~~------------~~~yNsa~vi~-~G~il~~y~K~~LP~y~~FdE~r~F  129 (562)
                      .......+.+|.-.+++..+++++++.++..            -..||+.++++ +|+++++|||.||-     .|..+-
T Consensus        83 ~~~~~~~l~~LSC~Ar~~~~YvV~Nl~ek~~C~~~~~~Cp~dg~~~yNTnVVFdr~G~vVaRYrK~nLf-----~E~~~~  157 (299)
T cd07567          83 RFDYTEVLQRLSCAARENSIYVVANLGEKQPCDSSDPHCPPDGRYQYNTNVVFDRDGTLIARYRKYNLF-----GEPGFD  157 (299)
T ss_pred             CCCHHHHHHHHHHHHHHCCEEEEEECCCCCCCCCCCCCCCCCCCEEEECEEEECCCCCEEEEEECCCCC-----CCCCCC
T ss_conf             455189999877776417869999476454477888899755527860307875888378653022214-----664557


Q ss_pred             CCCC-CCCEEEECCE-EEEECCCCCCCHHHHHHHHHHHC-CCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECC
Q ss_conf             7788-8761476474-56201111111016899999714-7775993155533358078887889998543370464213
Q gi|254780999|r  130 ISGY-SNDPIVFRDI-RLGILICEDIWKNSNICKHLKKQ-GAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVN  206 (562)
Q Consensus       130 ~~G~-~~~~~~~~g~-kiGv~ICeDlw~~~~~~~~la~~-Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N  206 (562)
                      .+.. +..+|++..+ |||+.||.|+-|.+ |+..|..+ |++=++.|++|--..- .-.-.+.-++.|..+++.++.+|
T Consensus       158 ~~~~pe~~tF~TdFGV~FG~FiCFDiLF~~-PA~~Lv~~~~V~~iv~pt~W~s~lP-fLtAvq~q~aWA~~~~VNlLAA~  235 (299)
T cd07567         158 VPPEPEIVTFDTDFGVTFGIFTCFDILFKE-PALELVKKLGVDDIVFPTAWFSELP-FLTAVQIQQAWAYANGVNLLAAN  235 (299)
T ss_pred             CCCCCCCEEEECCCCCEEEEEEEEEECCCC-HHHHHHHHCCCCEEEECHHHHCCCC-CHHHHHHHHHHHHHCCCCEEECC
T ss_conf             889875137866876345269974114556-1799998639885994667744571-06788899999987597089236


Q ss_pred             CCCCCCCCCCCCCCEEECCC-CEEEEECCCC-CCCEEEEEEEE
Q ss_conf             56887662104864355589-8599961677-76379999983
Q gi|254780999|r  207 QVGGQDELIFDGASFCFDGQ-QQLAFQMKHF-SEQNFMTEWHY  247 (562)
Q Consensus       207 ~vGg~d~lvf~G~S~I~d~~-G~ii~~~~~f-~e~~~i~d~d~  247 (562)
                      .--   ...=.+||-|+.+. |.+......- +..++++++..
T Consensus       236 ~~~---p~~~~tGSGIY~g~~g~~~~~~~~~~~~kLlva~vpk  275 (299)
T cd07567         236 YNN---PSAGMTGSGIYAGRSGALVYHYDNEPGGKLLVAEVPK  275 (299)
T ss_pred             CCC---CCCCCCCCCEECCCCCCEEEEECCCCCCEEEEEECCC
T ss_conf             889---8778864656579985379983699974599997788


No 49 
>PRK12291 apolipoprotein N-acyltransferase; Reviewed
Probab=99.87  E-value=3.7e-20  Score=151.05  Aligned_cols=197  Identities=15%  Similarity=0.156  Sum_probs=145.6

Q ss_pred             CCEEEEEEECCCCCC------CHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHH
Q ss_conf             862899996388368------89999999999999999859989991664447998445414889999999999999999
Q gi|254780999|r    3 KKLKIAIAQLNPVVG------DIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQACSSAIDTLKSD   76 (562)
Q Consensus         3 ~~mkIal~Q~n~~~g------d~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~~~~l~~La~~   76 (562)
                      +.++|+++|.|....      ..+.+.++..+.++++.+.++||||+||.+++.|...           ....++.+.+.
T Consensus       195 ~~~~V~lVQ~NI~q~~Kw~~~~~~~~~~~~~~l~~~~~~~~~dLiIwPEta~P~~~~~-----------~~~~~~~l~~~  263 (420)
T PRK12291        195 LPLNIELVNTNISQDLKWDKEYLKSIINENLKEIDKAIDEKKTLIVLPESAFPLFLNN-----------SPFLLDELKEL  263 (420)
T ss_pred             CCEEEEEECCCCCHHHHHCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCCHHHHHH-----------CHHHHHHHHHH
T ss_conf             8717999818989677519545999999999987532147998899657444666740-----------89999999852


Q ss_pred             HHHCCCEEEEEEEEEECCEEEEEEEEEECCEEEEEEEEEEECCCCCCC----------------CCCCCCCCCCCCEEEE
Q ss_conf             887697899999998889878999999699799988777623554333----------------2100377888761476
Q gi|254780999|r   77 THDGGAGIVVGFPRQDQEGVLNSVVILDAGNIIAVRDKINLPNYSEFH----------------EKRTFISGYSNDPIVF  140 (562)
Q Consensus        77 ~~~~~i~iivG~p~~~~~~~yNsa~vi~~G~il~~y~K~~LP~y~~Fd----------------E~r~F~~G~~~~~~~~  140 (562)
                      +  .++.+++|.+..++++.|||++++++|+ ..+|+|+||-..|||-                ...-|++|+....+.+
T Consensus       264 ~--~~~~ii~G~~~~e~~~~yNS~~~~~~~~-~~~YdK~~LVPFGEyiPf~~~l~~~~~~~~~~~~~~f~~G~~~~~~~~  340 (420)
T PRK12291        264 S--YKIAIIAGALRYENEHIYNSTYLFSKGN-VQIADKVILVPFGEEIPLPEFLKDPINKLFFGGASDFSKASNFSDFTL  340 (420)
T ss_pred             C--CCCEEEECCEECCCCCEEEEEEEECCCC-CCEEEEEECCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCEEE
T ss_conf             6--7982997624424784566889966887-124744301265357657999999999971677666889999985547


Q ss_pred             CCEEEEECCCCCCCHHHHHHHHHHHCCCCEEEECCC--CCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCC
Q ss_conf             474562011111110168999997147775993155--533358078887889998543370464213568876621048
Q gi|254780999|r  141 RDIRLGILICEDIWKNSNICKHLKKQGAEFLFSLNA--SPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQDELIFDG  218 (562)
Q Consensus       141 ~g~kiGv~ICeDlw~~~~~~~~la~~Gadlii~psA--Sp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d~lvf~G  218 (562)
                      ++.+++.+||||.-+++     ...+++|+++|+|-  |--...-..+..++.+.||.|++.|++-+..         .|
T Consensus       341 ~~~~~~~~ICYE~~~~~-----~~~~~~~~lvniSNDaWFg~S~gP~Qh~~~a~~RAiE~g~~i~rsaN---------~G  406 (420)
T PRK12291        341 DGVKFRNAICYEATSEE-----LYEGPSKIIIAISNNAWFVPSIEPTLQKLLLKYYARKYGKTIYHAAN---------GS  406 (420)
T ss_pred             CCEEEEEEEEEEECCHH-----HHCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCEEEECC---------CE
T ss_conf             89179989847766734-----43378988999510432589626999999999999970998899838---------80


Q ss_pred             CCEEECCCC
Q ss_conf             643555898
Q gi|254780999|r  219 ASFCFDGQQ  227 (562)
Q Consensus       219 ~S~I~d~~G  227 (562)
                      -|.|+||+.
T Consensus       407 iSaiI~Pk~  415 (420)
T PRK12291        407 PSEIITPKK  415 (420)
T ss_pred             EEEEECHHH
T ss_conf             349998244


No 50 
>KOG0808 consensus
Probab=99.85  E-value=1.5e-20  Score=153.69  Aligned_cols=244  Identities=15%  Similarity=0.189  Sum_probs=181.7

Q ss_pred             CEEEEEEECCCC-------CCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCC-CH-HHHHCCHHHHHHHH--HHHHH
Q ss_conf             628999963883-------688999999999999999985998999166444799-84-45414889999999--99999
Q gi|254780999|r    4 KLKIAIAQLNPV-------VGDIAGNIAKARRAREEANRQGMDLILFTELFISGY-PP-EDLVFKKSFIQACS--SAIDT   72 (562)
Q Consensus         4 ~mkIal~Q~n~~-------~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY-~~-~Dl~~~~~f~~~~~--~~l~~   72 (562)
                      -+|+++.|-...       .....+-.+++...++.|+..|+.+++|.|-+-..+ +| ...+--..|.+.+.  .....
T Consensus        73 ~vrvgliqn~i~lpttapv~eq~~aih~r~kaiieaaa~agvniiclqeawtmpfafctrerlpwtefaesv~~gptt~f  152 (387)
T KOG0808          73 VVRVGLIQNSIALPTTAPVSEQTRAIHDRLKAIIEAAAVAGVNIICLQEAWTMPFAFCTRERLPWTEFAESVDTGPTTKF  152 (387)
T ss_pred             EEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEHHHCCCHHHHCCCCCCHHHHCCCCCCCCHHHH
T ss_conf             79986520445688887377888999999999999987548657974012247413330344760543042444835799


Q ss_pred             HHHHHHHCCCEEEEEEEEEE---CCEEEEEEEEEE-CCEEEEEEEEEEECCCCCCCCCCCCCCCCC-CCEEEECCEEEEE
Q ss_conf             99998876978999999988---898789999996-997999887776235543332100377888-7614764745620
Q gi|254780999|r   73 LKSDTHDGGAGIVVGFPRQD---QEGVLNSVVILD-AGNIIAVRDKINLPNYSEFHEKRTFISGYS-NDPIVFRDIRLGI  147 (562)
Q Consensus        73 La~~~~~~~i~iivG~p~~~---~~~~yNsa~vi~-~G~il~~y~K~~LP~y~~FdE~r~F~~G~~-~~~~~~~g~kiGv  147 (562)
                      +.+.++++++.|+-...+++   ++.+.|++++|. +|.++++.||.|+|.-|.|.|..|+..|+- .++|++..+||++
T Consensus       153 lqklakkhdmvivspilerd~ehgdvlwntavvisn~g~vigk~rknhiprvgdfnestyymeg~lghpvfet~fgriav  232 (387)
T KOG0808         153 LQKLAKKHDMVIVSPILERDIEHGDVLWNTAVVISNNGNVIGKHRKNHIPRVGDFNESTYYMEGDLGHPVFETVFGRIAV  232 (387)
T ss_pred             HHHHHHHCCEEEEEHHHHCCCCCCCEEEEEEEEECCCCCEECCCCCCCCCCCCCCCCCEEEEECCCCCCEEEEECCEEEE
T ss_conf             99988657869971013145434724554469982687533321235698535667522675057798300221033788


Q ss_pred             CCCCCCCHHHHHHHHHHHCCCCEEEECCCCCCCCCCHHHH--HHHHHHHHHHCCCEEEECCCCCCC----------C---
Q ss_conf             1111111016899999714777599315553335807888--788999854337046421356887----------6---
Q gi|254780999|r  148 LICEDIWKNSNICKHLKKQGAEFLFSLNASPYYHNKLKKR--HEIVTGQISHVHLPIIYVNQVGGQ----------D---  212 (562)
Q Consensus       148 ~ICeDlw~~~~~~~~la~~Gadlii~psASp~~~~k~~~R--~~~~~~~a~e~~~~vvy~N~vGg~----------d---  212 (562)
                      .|||---+|. -+-.+..+||+||+||||.   .|....-  ---.+..|+.|+++....|+||.+          +   
T Consensus       233 nicygrhhpl-nwlmy~lngaeiifnpsat---vgalseplwpiearnaaianh~ft~~inrvgtevfpneftsgdgkpa  308 (387)
T KOG0808         233 NICYGRHHPL-NWLMYGLNGAEIIFNPSAT---VGALSEPLWPIEARNAAIANHYFTGSINRVGTEVFPNEFTSGDGKPA  308 (387)
T ss_pred             EEECCCCCCH-HHHHHHCCCCEEEECCCCC---CCCCCCCCCCHHHHHHHHHHCEEEEEECCCCCCCCCCCCCCCCCCCC
T ss_conf             8622677735-6565414673599777532---00004766760231256542247876313434107886668999734


Q ss_pred             --C-CCCCCCCEEECCCCEEEEECCCCCCCEEEEEEEECCCC
Q ss_conf             --6-21048643555898599961677763799999833521
Q gi|254780999|r  213 --E-LIFDGASFCFDGQQQLAFQMKHFSEQNFMTEWHYDQQL  251 (562)
Q Consensus       213 --~-lvf~G~S~I~d~~G~ii~~~~~f~e~~~i~d~d~d~~~  251 (562)
                        + --|.|+|.+..|++.-.-.+++..++++++++|+....
T Consensus       309 h~dfghfygssy~aapd~srtp~lsr~rdgllia~ldlnlcr  350 (387)
T KOG0808         309 HNDFGHFYGSSYFAAPDASRTPSLSRYRDGLLIADLDLNLCR  350 (387)
T ss_pred             CCCCCCCCCCEEEECCCCCCCCCCCCCCCCEEEEECCHHHHH
T ss_conf             343540114301326887778650000365477614468899


No 51 
>cd01990 Alpha_ANH_like_I This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily  includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which  binds to Adenosine group.  This subfamily   of proteins probably binds ATP. This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N terminus.
Probab=99.54  E-value=3.4e-14  Score=112.01  Aligned_cols=161  Identities=27%  Similarity=0.348  Sum_probs=111.8

Q ss_pred             EEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCCCCCC
Q ss_conf             57521587236899999984149544679732466665221356999999721354267758999998863132346874
Q gi|254780999|r  295 VIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHDLVNHFFSLMSQFLQEEP  374 (562)
Q Consensus       295 ~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~~~~~~~~~~~~~~  374 (562)
                      |+|++|||+||+++|++|.+++| +++++|+.-+...++...+.|+.+|+.+|+++.+++.+.+....       +...+
T Consensus         1 V~vA~SGGVDSs~la~la~~alG-~~v~aV~~~s~~~~~~E~e~a~~~a~~~gi~~~~i~~~~l~~~~-------~~~N~   72 (202)
T cd01990           1 VAVAFSGGVDSTLLLKAAVDALG-DRVLAVTATSPLFPRRELEEAKRLAKEIGIRHEVIETDELDDPE-------FAKNP   72 (202)
T ss_pred             CEEECCCCHHHHHHHHHHHHHHC-CCEEEEEEECCCCCHHHHHHHHHHHHHCCCCEEEEECCHHHHHH-------HCCCC
T ss_conf             98982385999999999999768-78799997279899789999999998639857997341110165-------54597


Q ss_pred             CCHHHHCCCCHHHHHHHHHHHHHCCC--EECCCCCHHHH---HHHHCCCCCCCCCCCCCCCC--CCHHHHHHHHHHHHHC
Q ss_conf             31011012330466779888751695--44364324477---54110236665554010177--6336589999996310
Q gi|254780999|r  375 SGIVAENIQSRIRGNILMALSNHSKA--MLLTTSNKSEI---SVGYGTLYGDMSGGFNPLKD--LYKTQVFQLASWRNSH  447 (562)
Q Consensus       375 ~~~~~eN~qaR~R~~~L~~~an~~~~--lvl~t~nksE~---~~Gy~T~~GD~~g~~~p~~~--l~Kt~v~~la~~~n~~  447 (562)
                      .+..+-  =-+.....+...|.++|.  ++-|| |.++.   --|.-..  ...|-.+|+.+  ++|.+|++|+++++  
T Consensus        73 ~~RCy~--CK~~l~~~l~~~a~~~g~~~v~dGt-n~dDl~d~RPGl~A~--~e~~v~sPL~e~gl~K~eVR~la~~lg--  145 (202)
T cd01990          73 PDRCYL--CKKALYEALKEIAEELGLDVVLDGT-NADDLGDYRPGLKAL--RELGVRSPLAEAGLGKAEIRELARELG--  145 (202)
T ss_pred             HHHHHH--HHHHHHHHHHHHHHHCCCCEEEECC-CCCCCCCCCCCHHHH--HHCCCCCCHHHCCCCHHHHHHHHHHCC--
T ss_conf             556229--9899999999999967997894157-576323557868899--876998852651978899999999839--


Q ss_pred             CCCCCCCCCCCCCCHHHCCCCCCCCCC---C-C-CCCCCCCC
Q ss_conf             332223444466887882889884538---9-9-97700068
Q gi|254780999|r  448 GITSGLGPLTEVIPPSILEKSPSAELR---P-H-QTDQESLP  484 (562)
Q Consensus       448 ~~~~~~~~~~~~ip~~i~~~~psaeL~---~-~-Q~ded~l~  484 (562)
                                  +|  +.++||+|-|.   | + ..+++.|-
T Consensus       146 ------------Lp--~~~kp~~~CLasRip~g~~it~e~L~  173 (202)
T cd01990         146 ------------LP--TWDKPAMACLASRIPYGTEITEERLK  173 (202)
T ss_pred             ------------CC--CCCCCCCCCEEEECCCCCCCCHHHHH
T ss_conf             ------------98--56689987546665788848999999


No 52 
>cd01998 tRNA_Me_trans tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs. This family of enzyme only presents in bacteria and eukaryote. The  archaeal counterpart of this enzyme performs same function, but is completely unrelated in sequence.
Probab=99.39  E-value=2.9e-12  Score=99.45  Aligned_cols=147  Identities=27%  Similarity=0.358  Sum_probs=96.8

Q ss_pred             EEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCC--------CCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHH--H
Q ss_conf             0575215872368999999841495446797324666--------65221356999999721354267758999998--8
Q gi|254780999|r  294 KVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKY--------TSPQSLEDAAACAKALGCKYDVLPIHDLVNHF--F  363 (562)
Q Consensus       294 ~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~--------~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~~--~  363 (562)
                      +|+||||||+|||++|+|..++ |-+ |.|++|---.        +++....||+.+|+.|||+|.++++++.+...  .
T Consensus         1 kV~v~mSGGVDSsvaA~LL~~~-G~~-V~gv~m~~w~~~~~~~~C~~~~d~~dA~~va~~LgIp~~v~d~~~ef~~~V~~   78 (349)
T cd01998           1 KVVVAMSGGVDSSVAAALLKEQ-GYE-VIGVFMKNWDEDDGKGGCCSEEDLKDARRVADQLGIPHYVVNFEKEYWEKVFE   78 (349)
T ss_pred             CEEEECCCCHHHHHHHHHHHHC-CCC-EEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEECHHHHHHHHHHH
T ss_conf             9899907789999999999877-995-79999996788766789886778999999999869967996809988688899


Q ss_pred             HHHCCCCCCCCC--CHHHHCCCCHHHHHHHHHHHHHCCCEECCCCCHHHHHH---H-HCCCCC-C---------------
Q ss_conf             631323468743--10110123304667798887516954436432447754---1-102366-6---------------
Q gi|254780999|r  364 SLMSQFLQEEPS--GIVAENIQSRIRGNILMALSNHSKAMLLTTSNKSEISV---G-YGTLYG-D---------------  421 (562)
Q Consensus       364 ~~~~~~~~~~~~--~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~nksE~~~---G-y~T~~G-D---------------  421 (562)
                      ..+.....+..+  ++.= |  .++.--.|+..|.+.|.=-+.||.=.-...   | |.-+-| |               
T Consensus        79 ~f~~~Y~~G~TPNPcv~C-N--~~IKF~~l~~~A~~~g~d~iATGHYAri~~~~~~~~~L~r~~D~~KDQSYfL~~l~~~  155 (349)
T cd01998          79 PFLEEYKKGRTPNPDILC-N--KEIKFGALLDYAKKLGADYIATGHYARIEEDNNGRYRLLRGVDPNKDQSYFLSQLSQE  155 (349)
T ss_pred             HHHHHHHCCCCCCCCHHC-C--CEEEHHHHHHHHHHCCCCEECCCCEEEEEECCCCCEEEEECCCCCCCCCEEEECCCHH
T ss_conf             999999748999876211-8--7351999999998759986413514788975898489987689987820564012487


Q ss_pred             -CCCCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             -555401017763365899999963
Q gi|254780999|r  422 -MSGGFNPLKDLYKTQVFQLASWRN  445 (562)
Q Consensus       422 -~~g~~~p~~~l~Kt~v~~la~~~n  445 (562)
                       ..-.+-|+|+++|++|+++|+.++
T Consensus       156 ~L~~~~FPLG~~~K~eVR~iA~~~g  180 (349)
T cd01998         156 QLSRLIFPLGDLTKPEVREIAKELG  180 (349)
T ss_pred             HHHHEECCCCCCCHHHHHHHHHHCC
T ss_conf             6610387887865389999999859


No 53 
>PRK00143 trmU tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Reviewed
Probab=99.39  E-value=3.2e-12  Score=99.15  Aligned_cols=150  Identities=21%  Similarity=0.278  Sum_probs=99.0

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCC--------CCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHH
Q ss_conf             454057521587236899999984149544679732466--------665221356999999721354267758999998
Q gi|254780999|r  291 NFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYK--------YTSPQSLEDAAACAKALGCKYDVLPIHDLVNHF  362 (562)
Q Consensus       291 g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~--------~~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~~  362 (562)
                      .-++|+||+|||+|||++|+|..++ |- +|.|++|-.-        -.+.....||+.+|+.|||+|.+++.++.+...
T Consensus         3 sk~rV~VamSGGVDSsVaA~LL~~~-Gy-~V~Gv~m~~w~~~~~~~~C~~~~d~~dA~~va~~LgIp~~v~d~~~~f~~~   80 (355)
T PRK00143          3 SKKRVVVGMSGGVDSSVAAALLKEQ-GY-DVIGLFMKLWDDDDGSGGCCAEEDIADARAVADKLGIPLYVVDFAKEFWDN   80 (355)
T ss_pred             CCCEEEEEECCCHHHHHHHHHHHHC-CC-CEEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEECHHHHHHHH
T ss_conf             8888999916789999999999977-99-589999988768877789985788999999999869857996869987678


Q ss_pred             --HHHHCCCCCCCCC--CHHHHCCCCHHHHHHHHHHHHHCCCEECCCCCHHHHHH--HHCCC-CC-C----C--------
Q ss_conf             --8631323468743--10110123304667798887516954436432447754--11023-66-6----5--------
Q gi|254780999|r  363 --FSLMSQFLQEEPS--GIVAENIQSRIRGNILMALSNHSKAMLLTTSNKSEISV--GYGTL-YG-D----M--------  422 (562)
Q Consensus       363 --~~~~~~~~~~~~~--~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~nksE~~~--Gy~T~-~G-D----~--------  422 (562)
                        ...+.....+..+  ++. =|  .++.--.|+..|.+.|.=.+.||.=.-..-  |-..+ -| |    .        
T Consensus        81 Vi~~f~~~Y~~G~TPNPcv~-CN--~~IKFg~l~~~A~~lgad~iATGHYAri~~~~~~~~L~r~~D~~KDQSYfL~~l~  157 (355)
T PRK00143         81 VFDYFLDEYKAGRTPNPCVL-CN--KEIKFKAFLDYALELGADYIATGHYARIRDEDGRYELLRAVDPNKDQSYFLYQLT  157 (355)
T ss_pred             HHHHHHHHHHCCCCCCCCHH-CC--CCCCHHHHHHHHHHCCCCEECCCCEEEEEECCCEEEEEECCCCCCCCEEEEECCC
T ss_conf             89999999976999997334-08--7233999999998739984233525999915981899867889887205761057


Q ss_pred             ----CCCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             ----55401017763365899999963
Q gi|254780999|r  423 ----SGGFNPLKDLYKTQVFQLASWRN  445 (562)
Q Consensus       423 ----~g~~~p~~~l~Kt~v~~la~~~n  445 (562)
                          .-.+-|+|+++|++|+++|+-++
T Consensus       158 ~~~L~~~~FPLG~~~K~eVR~iA~~~g  184 (355)
T PRK00143        158 QEQLAKLLFPLGELTKPEVREIAAEIG  184 (355)
T ss_pred             HHHHHHEECCCCCCCHHHHHHHHHHCC
T ss_conf             988742075876773589999999758


No 54 
>COG1606 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]
Probab=99.38  E-value=4.8e-12  Score=97.95  Aligned_cols=150  Identities=23%  Similarity=0.371  Sum_probs=111.3

Q ss_pred             HHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHH
Q ss_conf             58887642245405752158723689999998414954467973246666522135699999972135426775899999
Q gi|254780999|r  282 SLRDYVQKNNFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHDLVNH  361 (562)
Q Consensus       282 gl~d~~~~~g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~  361 (562)
                      .|+.|++..+  +++|+-|||+||+++|.+|++|+| +||.+++.-+.+....+.++|+..|+.+|++|..+++..+-  
T Consensus         9 ~l~~~ik~~~--kv~vAfSGGvDSslLa~la~~~lG-~~v~AvTv~sP~~p~~e~e~A~~~A~~iGi~H~~i~~~~~~--   83 (269)
T COG1606           9 RLKKAIKEKK--KVVVAFSGGVDSSLLAKLAKEALG-DNVVAVTVDSPYIPRREIEEAKNIAKEIGIRHEFIKMNRMD--   83 (269)
T ss_pred             HHHHHHHHCC--EEEEEECCCCCHHHHHHHHHHHHC-CCEEEEEEECCCCCHHHHHHHHHHHHHHCCCCEEEEHHHCC--
T ss_conf             9999986437--399996588427999999999735-64699997168777666067899999948762465500025--


Q ss_pred             HHHHHCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHCCC-EECCCCCHHHHH---HHHCCCCCCCCCCCCCCC--CCCHH
Q ss_conf             886313234687431011012330466779888751695-443643244775---411023666555401017--76336
Q gi|254780999|r  362 FFSLMSQFLQEEPSGIVAENIQSRIRGNILMALSNHSKA-MLLTTSNKSEIS---VGYGTLYGDMSGGFNPLK--DLYKT  435 (562)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~~-lvl~t~nksE~~---~Gy~T~~GD~~g~~~p~~--~l~Kt  435 (562)
                            +.+.+.+.+..  ++=-|..-..|-..|-+.|+ .|+.-.|.|++-   =||-..+-.  |-.+|+.  ++.|.
T Consensus        84 ------~~~~~n~~~rC--Y~CK~~v~~~l~~~a~~~Gyd~V~dGtNasDl~~~RPG~rA~kE~--gi~sPl~e~gitk~  153 (269)
T COG1606          84 ------PEFKENPENRC--YLCKRAVYSTLVEEAEKRGYDVVADGTNASDLFDYRPGLRALKEL--GIRSPLAEFGITKK  153 (269)
T ss_pred             ------HHHCCCCCCCC--HHHHHHHHHHHHHHHHHCCCCEEEECCCHHHHCCCCCCHHHHHHC--CCCCHHHHHCCCHH
T ss_conf             ------23304998735--577899999999999973998897477578733788302357760--77771888397599


Q ss_pred             HHHHHHHHHHH
Q ss_conf             58999999631
Q gi|254780999|r  436 QVFQLASWRNS  446 (562)
Q Consensus       436 ~v~~la~~~n~  446 (562)
                      +++++|+.+|-
T Consensus       154 eIre~a~~lgl  164 (269)
T COG1606         154 EIREIAKSLGL  164 (269)
T ss_pred             HHHHHHHHCCC
T ss_conf             99999997599


No 55 
>pfam03054 tRNA_Me_trans tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs.
Probab=99.34  E-value=9.4e-12  Score=96.05  Aligned_cols=147  Identities=24%  Similarity=0.312  Sum_probs=93.8

Q ss_pred             EEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCC---------CCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHH--
Q ss_conf             0575215872368999999841495446797324666---------65221356999999721354267758999998--
Q gi|254780999|r  294 KVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKY---------TSPQSLEDAAACAKALGCKYDVLPIHDLVNHF--  362 (562)
Q Consensus       294 ~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~---------~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~~--  362 (562)
                      +|+||+|||+||||+|+|..++ |- .|.|++|---.         .++....||+..|+.|||+|.+++.++.+...  
T Consensus         2 kV~VamSGGVDSsVaA~LL~~~-Gy-~V~Gv~m~~w~~~~~~~~~C~~~~d~~dA~~va~~LgIp~~v~d~~~~f~~~Vi   79 (354)
T pfam03054         2 KVVVAMSGGVDSSVAAYLLKEQ-GY-EVIGVFMKNWDEEDEFGHGCCSEEDLADAQRVCEQLGIPLYVVNFEKEYWEKVF   79 (354)
T ss_pred             EEEEEECCCHHHHHHHHHHHHC-CC-CEEEEEEECCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEECHHHHHHHHHH
T ss_conf             6999904789999999999977-99-639999995668876678899889999999999986997899787998758999


Q ss_pred             HHHHCCCCCCCCC--CHHHHCCCCHHHHHHHHHHHHH-CCCEECCCCCHHHHHHH---HCCCCC-C--------------
Q ss_conf             8631323468743--1011012330466779888751-69544364324477541---102366-6--------------
Q gi|254780999|r  363 FSLMSQFLQEEPS--GIVAENIQSRIRGNILMALSNH-SKAMLLTTSNKSEISVG---YGTLYG-D--------------  421 (562)
Q Consensus       363 ~~~~~~~~~~~~~--~~~~eN~qaR~R~~~L~~~an~-~~~lvl~t~nksE~~~G---y~T~~G-D--------------  421 (562)
                      ...+.....+..+  ++. =|  .++.--.|+..|.+ .|.=.+.||.=.-...+   |.-+-| |              
T Consensus        80 ~~fv~~Y~~G~TPNPcv~-CN--~~IKFg~l~~~A~~~lGad~iATGHYAri~~~~~~~~L~r~~D~~KDQSYfL~~l~q  156 (354)
T pfam03054        80 EPFLDEYKNGRTPNPDIL-CN--REIKFGALLDYAKQVLGADYLATGHYARVSLNENESELLRGKDKNKDQSYFLSGLSQ  156 (354)
T ss_pred             HHHHHHHHCCCCCCCCHH-HC--CCCCHHHHHHHHHHHCCCCCCCCCCEEEEEECCCEEEEEECCCCCCCCCEEEECCCH
T ss_conf             999999976999984144-18--964389999999986699810447428999049938999899999980178610789


Q ss_pred             --CCCCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             --555401017763365899999963
Q gi|254780999|r  422 --MSGGFNPLKDLYKTQVFQLASWRN  445 (562)
Q Consensus       422 --~~g~~~p~~~l~Kt~v~~la~~~n  445 (562)
                        ..-.+-|+|+++|++|+++|+-++
T Consensus       157 ~~L~~~lFPLG~~~K~eVR~iA~~~g  182 (354)
T pfam03054       157 EQLEKLLFPLGDLTKEEVRKIAKEAG  182 (354)
T ss_pred             HHHHHEECCCCCCCHHHHHHHHHHCC
T ss_conf             87643182876885289999999769


No 56 
>PRK00074 guaA GMP synthase; Reviewed
Probab=99.27  E-value=8.6e-11  Score=89.78  Aligned_cols=162  Identities=20%  Similarity=0.282  Sum_probs=96.0

Q ss_pred             HCCCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCC-CCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHC
Q ss_conf             224540575215872368999999841495446797324666652-2135699999972135426775899999886313
Q gi|254780999|r  289 KNNFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSP-QSLEDAAACAKALGCKYDVLPIHDLVNHFFSLMS  367 (562)
Q Consensus       289 ~~g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~-~s~~~a~~la~~lg~~~~~i~I~~~~~~~~~~~~  367 (562)
                      +-|-++|++|||||+||+|+|+|..+|+| +|++|+..-.-.=.+ ++.+--+.+.+.+|++...++=.   +.|++.|.
T Consensus       213 ~Vg~~kVi~~lSGGVDStV~A~Ll~kAIG-d~l~cvfVD~GllRknE~~~V~~~~~~~lgl~~~~vdA~---~~Fl~~L~  288 (513)
T PRK00074        213 QVGDKKVILGLSGGVDSSVAAVLLHKAIG-DQLTCVFVDHGLLRKNEAEQVMEMFREHFGLNLIHVDAS---DRFLSALA  288 (513)
T ss_pred             HHCCCEEEEEECCCCCHHHHHHHHHHHHH-HCEEEEEECCCCCCCCCHHHHHHHHHHHCCCCEEEEEHH---HHHHHHHC
T ss_conf             83876289972388308999999999851-124899953771116729999999988619967992248---99999737


Q ss_pred             CCCCCCCCCHHHHCCCCHHHHHHHHHHHHHC---CCEECCCC--CHHHHHHH------HCC------CCCCCC-CCCCCC
Q ss_conf             2346874310110123304667798887516---95443643--24477541------102------366655-540101
Q gi|254780999|r  368 QFLQEEPSGIVAENIQSRIRGNILMALSNHS---KAMLLTTS--NKSEISVG------YGT------LYGDMS-GGFNPL  429 (562)
Q Consensus       368 ~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~---~~lvl~t~--nksE~~~G------y~T------~~GD~~-g~~~p~  429 (562)
                      ...+.+..--.-++.=    ..+.-..|.+.   .+|+-||-  |--|.+-|      --|      +.-++. .-+.|+
T Consensus       289 gv~DPE~KRKIIG~~F----I~vfe~~a~~~~~~~~L~QGTlYPDvIES~~~~~~a~~IKsHHNVgglp~~~~~~lvEPl  364 (513)
T PRK00074        289 GVTDPEEKRKIIGREF----IEVFEEEAKKLGGVKFLAQGTLYPDVIESASGTGKAATIKSHHNVGGLPEDMKLKLVEPL  364 (513)
T ss_pred             CCCCHHHHHHHHHHHH----HHHHHHHHHHCCCCCEEECCCCCCCEEEECCCCCCCCCCCCCCCCCCCHHHCCCEEEEEH
T ss_conf             9989799678877899----999999997579983996467655068847989998860487758788566487545031


Q ss_pred             CCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHCCCCCCCC
Q ss_conf             7763365899999963103322234444668878828898845
Q gi|254780999|r  430 KDLYKTQVFQLASWRNSHGITSGLGPLTEVIPPSILEKSPSAE  472 (562)
Q Consensus       430 ~~l~Kt~v~~la~~~n~~~~~~~~~~~~~~ip~~i~~~~psae  472 (562)
                      .+|+|-+||.|.+.++              +|++++.+.|=|.
T Consensus       365 r~lfKDEVR~lg~~Lg--------------lp~~~~~RhPFPG  393 (513)
T PRK00074        365 RELFKDEVRKLGLELG--------------LPEEIVYRHPFPG  393 (513)
T ss_pred             HHHCCHHHHHHHHHHC--------------CCHHHHCCCCCCC
T ss_conf             7561589999999968--------------9777602489999


No 57 
>PRK00919 GMP synthase subunit B; Validated
Probab=99.25  E-value=1.1e-10  Score=89.17  Aligned_cols=169  Identities=21%  Similarity=0.283  Sum_probs=95.3

Q ss_pred             CHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHH
Q ss_conf             02035888764224540575215872368999999841495446797324666652213569999997213542677589
Q gi|254780999|r  278 ACVLSLRDYVQKNNFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHD  357 (562)
Q Consensus       278 Alvlgl~d~~~~~g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~  357 (562)
                      ..+--+|+   +-|-++|+++||||+||+|+|+|..+|+| +|++|+..-.-.-.....+.-....+. |++...++   
T Consensus         9 ~~i~~Ir~---~Vg~~kvi~~lSGGVDStV~A~Ll~kAig-~~l~~v~VD~GllR~~E~~~V~~~~~~-~~~l~~vd---   80 (306)
T PRK00919          9 EAIEEIRE---EVGDGKAIIALSGGVDSSVAAVLAHRAIG-DRLLAVYVDTGLMRKGETERIREIFKD-GLNLRIVD---   80 (306)
T ss_pred             HHHHHHHH---HHCCCCEEEEECCCCHHHHHHHHHHHHHH-CCEEEEEECCCCCCCCCHHHHHHHHHH-CCCCEEEE---
T ss_conf             99999999---84898599991688479999999998864-265999986898879869999999983-58928983---


Q ss_pred             HHHHHHHHHCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHCC--CEECCCC--CHHHHHHHHCCCCCC------CC-CCC
Q ss_conf             999988631323468743101101233046677988875169--5443643--244775411023666------55-540
Q gi|254780999|r  358 LVNHFFSLMSQFLQEEPSGIVAENIQSRIRGNILMALSNHSK--AMLLTTS--NKSEISVGYGTLYGD------MS-GGF  426 (562)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~--~lvl~t~--nksE~~~Gy~T~~GD------~~-g~~  426 (562)
                      +-+.|++.|....+.+..-..-++.=-    .+.-..+.+.|  +|+-||-  +--|.+-+--|-+-+      +. --+
T Consensus        81 a~~~Fl~~L~gv~DPE~KRKiIG~~Fi----~vfe~~~~~~~~~~LaQGTlyPDvIES~~~IKSHHNVggLp~~m~~kli  156 (306)
T PRK00919         81 ASDRFLEALKGVTDPEEKRKIIGETFI----RVFEEVAKEIGAEYLVQGTIAPDWIESEGGIKSHHNVGGLPEGMVLKIV  156 (306)
T ss_pred             HHHHHHHHHCCCCCHHHCCCHHHHHHH----HHHHHHHHHHCCCEEEECEECCCHHHCCCCCCCCCCCCCCHHHCCCCCC
T ss_conf             499999973799895674602579999----9999999982987685110737602046764341668877332356310


Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHCCCCCCCC
Q ss_conf             1017763365899999963103322234444668878828898845
Q gi|254780999|r  427 NPLKDLYKTQVFQLASWRNSHGITSGLGPLTEVIPPSILEKSPSAE  472 (562)
Q Consensus       427 ~p~~~l~Kt~v~~la~~~n~~~~~~~~~~~~~~ip~~i~~~~psae  472 (562)
                      .|+.+|+|-+|++|.+.++              +|++++.+.|=|.
T Consensus       157 EPLr~LfKDEVR~lG~~LG--------------lp~~iv~RhPFPG  188 (306)
T PRK00919        157 EPLRDLYKDEVREVARALG--------------LPEEISERMPFPG  188 (306)
T ss_pred             CHHHHHHHHHHHHHHHHHC--------------CCHHHCCCCCCCC
T ss_conf             3189985599999999969--------------7888704589999


No 58 
>TIGR00268 TIGR00268 conserved hypothetical protein TIGR00268; InterPro: IPR005232   This family of conserved hypothetical proteins has no known function but is predicted to be part of the wider PP-loop superfamily ..
Probab=99.22  E-value=4.4e-11  Score=91.69  Aligned_cols=213  Identities=23%  Similarity=0.342  Sum_probs=135.2

Q ss_pred             HHHHHHH-CCCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCC-CCHHHHHHHHHHHCCCCCCCCHHHHH-
Q ss_conf             8887642-24540575215872368999999841495446797324666652-21356999999721354267758999-
Q gi|254780999|r  283 LRDYVQK-NNFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSP-QSLEDAAACAKALGCKYDVLPIHDLV-  359 (562)
Q Consensus       283 l~d~~~~-~g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~-~s~~~a~~la~~lg~~~~~i~I~~~~-  359 (562)
                      |+.++.. -.-++++|.-||||||+++|++|.+.+|. +++||+.-|+.-|+ .+++||+..|+.+|+.|..|.|+.+. 
T Consensus         5 L~~fl~~kf~nk~~~IAySGGvDS~lla~v~~~v~g~-~~lait~~sP~~sp~~el~~A~~~A~~~g~~he~~~~d~~~n   83 (263)
T TIGR00268         5 LRNFLKEKFKNKKVLIAYSGGVDSSLLAAVCSDVAGT-EVLAITVVSPSISPRRELEDAKAIAKEIGVKHELVKIDKMAN   83 (263)
T ss_pred             HHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHHHH-CEEEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCC
T ss_conf             8889876764081699951746589999999875310-113578762775735448999999988083012110012368


Q ss_pred             HHHHHHHCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHCCC-EECCCCCHHHHH---HHHCCCCCCCCCCCCCCCC--CC
Q ss_conf             99886313234687431011012330466779888751695-443643244775---4110236665554010177--63
Q gi|254780999|r  360 NHFFSLMSQFLQEEPSGIVAENIQSRIRGNILMALSNHSKA-MLLTTSNKSEIS---VGYGTLYGDMSGGFNPLKD--LY  433 (562)
Q Consensus       360 ~~~~~~~~~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~~-lvl~t~nksE~~---~Gy~T~~GD~~g~~~p~~~--l~  433 (562)
                      ..|        .....+..| ==+ +.=-..|...|.+.|+ .|+-=.|-|.+.   =||-.. -.+.|.++|+++  ++
T Consensus        84 ~~f--------~~N~~~RCY-~CK-~~~~~~L~~~a~~~gy~~V~dGtN~dDL~~~RPG~~A~-~E~~g~~SP~aef~I~  152 (263)
T TIGR00268        84 PNF--------RANVEERCY-FCK-KKVLSILVKLAEKRGYDVVVDGTNADDLEDHRPGLRAV-KELNGVYSPWAEFGIT  152 (263)
T ss_pred             CCC--------CCCCCCCCH-HHH-HHHHHHHHHHHHHCCCCEEEECCCCCCCCCCCCHHHHH-HHCCCCCCCCCCCCCC
T ss_conf             500--------168854441-548-88999989999863995798234620002367513567-6607886872002568


Q ss_pred             HHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHCCCCCCCCCCC----CC-CCCCCCCCHHHHH-HHHHHHHHCCC---CHH
Q ss_conf             365899999963103322234444668878828898845389----99-7700068878899-99999982799---977
Q gi|254780999|r  434 KTQVFQLASWRNSHGITSGLGPLTEVIPPSILEKSPSAELRP----HQ-TDQESLPPYPILD-DIIKRIVENEE---SFI  504 (562)
Q Consensus       434 Kt~v~~la~~~n~~~~~~~~~~~~~~ip~~i~~~~psaeL~~----~Q-~ded~l~~Y~~lD-~il~~~i~~~~---~~~  504 (562)
                      |.+|++.|+-+|-                ++.+||..|=|.-    +. -|+..|---+.+. .+|+.+..+.-   +-.
T Consensus       153 K~eir~ia~~lg~----------------~~~DKP~~~CL~sR~p~g~EI~~ekL~~v~eaE~~~l~~~g~~qvRVR~y~  216 (263)
T TIGR00268       153 KKEIREIAKSLGL----------------SFYDKPSEACLASRFPFGEEIDVEKLKKVDEAEEIVLRRAGVKQVRVRNYD  216 (263)
T ss_pred             HHHHHHHHHHCCC----------------CCCCCCCCCHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCEEEECCC
T ss_conf             7999999997488----------------988886621021047687510489877699999999998356605765267


Q ss_pred             HHH-HCCCHHHHHHHHHHHH
Q ss_conf             987-1899999999999998
Q gi|254780999|r  505 NND-QEYNDETVRYVEHLLY  523 (562)
Q Consensus       505 ~~~-~~~~~~~v~~~~~~~~  523 (562)
                      .++ =+..+|.+.++++-..
T Consensus       217 nlAviE~~~~~l~kl~~~~~  236 (263)
T TIGR00268       217 NLAVIEVAEDELSKLLNEAE  236 (263)
T ss_pred             CEEEEEECHHHHHHHHHHHH
T ss_conf             65799628588999986313


No 59 
>COG0482 TrmU Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]
Probab=99.17  E-value=2.5e-10  Score=86.73  Aligned_cols=150  Identities=23%  Similarity=0.300  Sum_probs=93.1

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCC-------CCCCCHHHHHHHHHHHCCCCCCCCHHHHHHH--
Q ss_conf             4540575215872368999999841495446797324666-------6522135699999972135426775899999--
Q gi|254780999|r  291 NFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKY-------TSPQSLEDAAACAKALGCKYDVLPIHDLVNH--  361 (562)
Q Consensus       291 g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~-------~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~--  361 (562)
                      ...+|++|+|||+||||+|.|..+. |- +|.|++|-.-.       +|.....||+..|+.|||.+.++++++-+..  
T Consensus         2 ~~~kV~v~mSGGVDSSVaA~lLk~Q-Gy-eViGl~m~~~~~~~~~~C~s~~d~~da~~va~~LGIp~~~vdf~~~y~~~V   79 (356)
T COG0482           2 KKKKVLVGMSGGVDSSVAAYLLKEQ-GY-EVIGLFMKNWDEDGGGGCCSEEDLRDAERVADQLGIPLYVVDFEKEFWNKV   79 (356)
T ss_pred             CCCEEEEECCCCHHHHHHHHHHHHC-CC-EEEEEEEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECHHHHHHHHH
T ss_conf             8767999905777899999999976-97-499999996414788867725678999999998099559984689988888


Q ss_pred             HHHHHCCCCCCCCC--CHHHHCCCCHHHHHHHHHHHHHCCCEECCCCC---------HHHHHHH--------HCCCCC--
Q ss_conf             88631323468743--10110123304667798887516954436432---------4477541--------102366--
Q gi|254780999|r  362 FFSLMSQFLQEEPS--GIVAENIQSRIRGNILMALSNHSKAMLLTTSN---------KSEISVG--------YGTLYG--  420 (562)
Q Consensus       362 ~~~~~~~~~~~~~~--~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~n---------ksE~~~G--------y~T~~G--  420 (562)
                      +...+.....+..+  ++.= |=.  +-=-.+.+.|.+.|+=.+.||.         +.++..|        |+-...  
T Consensus        80 ~~~f~~~Y~~G~TPNPci~C-N~~--iKF~~~l~~a~~lgad~iATGHYar~~~~~~~~~l~r~~D~~KDQsYfL~~~~~  156 (356)
T COG0482          80 FEYFLAEYKAGKTPNPCILC-NKE--IKFKALLDYAKELGADYIATGHYARQREDEGIELLLRGVDLNKDQSYFLYALSQ  156 (356)
T ss_pred             HHHHHHHHHCCCCCCCCHHC-CHH--HHHHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCCCCCCCCCHHHEECCCCH
T ss_conf             88778998579999965104-878--899999999997599857874467654377600014678742030002012688


Q ss_pred             C-CCCCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             6-555401017763365899999963
Q gi|254780999|r  421 D-MSGGFNPLKDLYKTQVFQLASWRN  445 (562)
Q Consensus       421 D-~~g~~~p~~~l~Kt~v~~la~~~n  445 (562)
                      + ..--+-|+|++.|++||.+|...+
T Consensus       157 ~ql~~~lFPlG~l~K~evR~iA~~~g  182 (356)
T COG0482         157 EQLERLLFPLGDLEKLEVRPIAAEKG  182 (356)
T ss_pred             HHHHHCCCCCCCCCHHHHHHHHHHCC
T ss_conf             77753225677777789999999759


No 60 
>TIGR00884 guaA_Cterm GMP synthase, C-terminal domain; InterPro: IPR001674   The amidotransferase family of enzymes utilises the ammonia derived from the hydrolysis of glutamine for a subsequent chemical reaction catalyzed by the same enzyme. The ammonia intermediate does not dissociate into solution during the chemical transformations . GMP synthetase is a glutamine amidotransferase from the de novo purine biosynthetic pathway. The C-terminal domain is specific to the GMP synthases 6.3.5.2 from EC. In prokaryotes this domain mediates dimerisation. Eukaryotic GMP synthases are monomers. This domain in eukaryotes includes several large insertions that may form globular domains .; GO: 0003922 GMP synthase (glutamine-hydrolyzing) activity, 0005524 ATP binding, 0006164 purine nucleotide biosynthetic process, 0006177 GMP biosynthetic process.
Probab=99.14  E-value=7.5e-10  Score=83.64  Aligned_cols=162  Identities=21%  Similarity=0.289  Sum_probs=101.0

Q ss_pred             HCCCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCC-CHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHC
Q ss_conf             2245405752158723689999998414954467973246666522-135699999972135426775899999886313
Q gi|254780999|r  289 KNNFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQ-SLEDAAACAKALGCKYDVLPIHDLVNHFFSLMS  367 (562)
Q Consensus       289 ~~g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~-s~~~a~~la~~lg~~~~~i~I~~~~~~~~~~~~  367 (562)
                      +-|=.+++++||||+|||++|.|+.+|+| +|++||..=+-.=-.. .-+=-+.+-+.||++...||   +-+.|++.|+
T Consensus        13 ~VGD~~vi~ALSGGVDSsV~A~L~hrAIG-D~L~~vFVD~GLlR~gE~E~V~~~F~~~lg~nl~~VD---A~e~FL~~L~   88 (319)
T TIGR00884        13 QVGDAKVIIALSGGVDSSVAAVLLHRAIG-DRLTCVFVDHGLLRKGEAERVVKTFSDKLGLNLVVVD---AKERFLSALK   88 (319)
T ss_pred             HCCCCEEEEEECCCHHHHHHHHHHHHHHC-CCEEEEEECCCCCCCCCHHHHHHHHHHHHCCCCEEEC---CCHHHHHHCC
T ss_conf             22884689981088158999999986422-7604898227888766378999998753089827876---1079887528


Q ss_pred             CCCCCCCCCHHHHCCCCHHHHHHHHHHHHHCC------CEECCCC--CHHHHH-H-HH---CCCCCCC-CC---------
Q ss_conf             23468743101101233046677988875169------5443643--244775-4-11---0236665-55---------
Q gi|254780999|r  368 QFLQEEPSGIVAENIQSRIRGNILMALSNHSK------AMLLTTS--NKSEIS-V-GY---GTLYGDM-SG---------  424 (562)
Q Consensus       368 ~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~------~lvl~t~--nksE~~-~-Gy---~T~~GD~-~g---------  424 (562)
                      -..+.+..=--    ==|.=-...=..|++.+      +|+-||-  |--|.. . |-   .|.=--| .|         
T Consensus        89 GV~DPE~KRKI----IG~~FI~VFE~~A~~~~~~~~a~yL~QGTlYPDvIES~~~kG~~~a~~IKsHHNVGGLP~~m~l~  164 (319)
T TIGR00884        89 GVTDPEEKRKI----IGRVFIEVFEREAEKIGDKKKAEYLVQGTLYPDVIESASSKGTSGAATIKSHHNVGGLPEDMKLK  164 (319)
T ss_pred             CCCCCHHHCCH----HHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCEEE
T ss_conf             89870341311----22566777888998507997799997343447464602304776476456310668885426025


Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHCCCCCCCC
Q ss_conf             401017763365899999963103322234444668878828898845
Q gi|254780999|r  425 GFNPLKDLYKTQVFQLASWRNSHGITSGLGPLTEVIPPSILEKSPSAE  472 (562)
Q Consensus       425 ~~~p~~~l~Kt~v~~la~~~n~~~~~~~~~~~~~~ip~~i~~~~psae  472 (562)
                      =+.|+-.|||=+||.|++.++              +|++|+.+.|=|.
T Consensus       165 LvEPLR~LfKDEVR~lG~~LG--------------lP~ei~~R~PFPG  198 (319)
T TIGR00884       165 LVEPLRELFKDEVRKLGKELG--------------LPEEIVWRHPFPG  198 (319)
T ss_pred             EECCCHHCCHHHHHHHHHHCC--------------CCHHHHCCCCCCC
T ss_conf             875402302178999998718--------------8679964783686


No 61 
>cd01997 GMP_synthase_C The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched between helical layers. It has a signature nucleotide-binding motif, or P-loop, at the end of the first-beta strand.The dimerization domain formed by the C-terminal 115 amino acid for prokaryotic proteins. It is adjacent to teh ATP-binding site of the ATP-PPase subdomain. The largest difference between the primary sequence of prokaryotic and eukaryotic GMP synthetase map to the dimerization domain.Eukaryotic GMP synthetase has several large insertions relative to prokaryotes.
Probab=99.13  E-value=3.8e-10  Score=85.58  Aligned_cols=157  Identities=23%  Similarity=0.319  Sum_probs=92.1

Q ss_pred             EEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHH-HHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCCCC
Q ss_conf             057521587236899999984149544679732466665221356-9999997213542677589999988631323468
Q gi|254780999|r  294 KVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLED-AAACAKALGCKYDVLPIHDLVNHFFSLMSQFLQE  372 (562)
Q Consensus       294 ~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~-a~~la~~lg~~~~~i~I~~~~~~~~~~~~~~~~~  372 (562)
                      +|++++|||+||+++|+|..+|+| ++++|+..-.-+=.....+. -+.+.+.++++...++-.   +.|++.|....+.
T Consensus         1 kVi~~lSGGVDStV~A~Ll~kAig-~~l~~vfVDnGlmRk~E~e~V~~~~~~~~~~~~~~vdas---~~Fl~~L~gv~DP   76 (295)
T cd01997           1 KVILALSGGVDSTVAAVLLHKAIG-DRLTCVFVDNGLLRKNEAERVEELFSKLLGINLIVVDAS---ERFLSALKGVTDP   76 (295)
T ss_pred             CEEEEECCCHHHHHHHHHHHHHHH-CCEEEEEECCCCCCCCCHHHHHHHHHHHCCCCEEEECHH---HHHHHHHCCCCCH
T ss_conf             989990578289999999998865-056999985897888829999999987069977995669---9999986587792


Q ss_pred             CCCCHHHHCCCCHHHHHHHHHHHHHCC---CEECCCC--CHHHHHHHH------CCCC------CCCC-CCCCCCCCCCH
Q ss_conf             743101101233046677988875169---5443643--244775411------0236------6655-54010177633
Q gi|254780999|r  373 EPSGIVAENIQSRIRGNILMALSNHSK---AMLLTTS--NKSEISVGY------GTLY------GDMS-GGFNPLKDLYK  434 (562)
Q Consensus       373 ~~~~~~~eN~qaR~R~~~L~~~an~~~---~lvl~t~--nksE~~~Gy------~T~~------GD~~-g~~~p~~~l~K  434 (562)
                      +..-..-++.    -..+.-..|.+.+   +|+-||-  +--|.+-+-      -|-+      -++. .-+.|+.+|+|
T Consensus        77 E~KRKiIG~~----Fi~vf~~~~~~~~~~~~L~QGTlyPDvIES~~~~~~a~~IKsHHNvggLp~~~~~kliEPLr~LfK  152 (295)
T cd01997          77 EEKRKIIGET----FIEVFEEEAKKLGLAEYLAQGTLYPDVIESGSGKGSADTIKSHHNVGGLPEDMKLKLIEPLRDLFK  152 (295)
T ss_pred             HHHHHHHHHH----HHHHHHHHHHHCCCCCEEEECCCCCCEEECCCCCCCCCEEEEECCCCCCCHHCCCCCCHHHHHHHH
T ss_conf             5636565389----999999999755886189724302625750788888751452245677723226540016788745


Q ss_pred             HHHHHHHHHHHHCCCCCCCCCCCCCCCHHHCCCCCCCC
Q ss_conf             65899999963103322234444668878828898845
Q gi|254780999|r  435 TQVFQLASWRNSHGITSGLGPLTEVIPPSILEKSPSAE  472 (562)
Q Consensus       435 t~v~~la~~~n~~~~~~~~~~~~~~ip~~i~~~~psae  472 (562)
                      -+|++|.+.++              +|++++.+.|=|.
T Consensus       153 DEVR~lG~~LG--------------lp~~iv~RhPFPG  176 (295)
T cd01997         153 DEVRELGRELG--------------LPEEIVERHPFPG  176 (295)
T ss_pred             HHHHHHHHHHC--------------CCHHHEEECCCCC
T ss_conf             99999999868--------------9788822079999


No 62 
>TIGR00420 trmU tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; InterPro: IPR004506 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase (2.1.1.61 from EC) catalyses the addition of 5-methylaminomethyl-2-thiouridylate to tRNAs using S-adenosyl-L-methionine as a substrate and releasing S-adenosyl-L-homocysteine. The enzyme is cytoplasmic and is involved in tRNA processing.; GO: 0004808 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity, 0008033 tRNA processing, 0005737 cytoplasm.
Probab=99.13  E-value=5.1e-10  Score=84.70  Aligned_cols=146  Identities=25%  Similarity=0.347  Sum_probs=88.5

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCC--------------------CCCCCCCHHHHHHHHHHHCCCCCC
Q ss_conf             405752158723689999998414954467973246--------------------666522135699999972135426
Q gi|254780999|r  293 HKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPY--------------------KYTSPQSLEDAAACAKALGCKYDV  352 (562)
Q Consensus       293 ~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~--------------------~~~s~~s~~~a~~la~~lg~~~~~  352 (562)
                      ++|+||||||+||||+|++...- |. +|.||+|-.                    .=++.+...+|++.|+.|||+++.
T Consensus         1 ~kv~VglSGGVDSSVsA~lL~~q-g~-~v~G~ylk~W~~~~~~d~~GH~~~N~~K~~C~~~~dl~~a~~ic~~LGi~l~~   78 (394)
T TIGR00420         1 KKVIVGLSGGVDSSVSAYLLKQQ-GY-EVVGVYLKNWDEDEKNDILGHKKINENKSGCSSAEDLRDAQAICEKLGIPLEK   78 (394)
T ss_pred             CEEEEECCCCHHHHHHHHHHHHC-CC-EEEEEEEEEEECCCCCCCCCHHHHHCCCCCCCHHHHHHHHHHHHHHCCCCEEE
T ss_conf             94899806854789999999714-96-58999877651246666443165624677883688799999999855981898


Q ss_pred             CCHHHHHHH--HHHHHCCCCCCCC--CCH-HHHCCCCHHH-HHHHHHHHHH-C--CCEECCCCCHHHHH-H---------
Q ss_conf             775899999--8863132346874--310-1101233046-6779888751-6--95443643244775-4---------
Q gi|254780999|r  353 LPIHDLVNH--FFSLMSQFLQEEP--SGI-VAENIQSRIR-GNILMALSNH-S--KAMLLTTSNKSEIS-V---------  413 (562)
Q Consensus       353 i~I~~~~~~--~~~~~~~~~~~~~--~~~-~~eN~qaR~R-~~~L~~~an~-~--~~lvl~t~nksE~~-~---------  413 (562)
                      ++....+..  +...|...-.+..  +|+ .  |=  ++- |. +..++++ .  |.=.+.||.=.-.. .         
T Consensus        79 ~nf~~~Y~~~Vf~~~i~~y~~G~TPnPDi~C--N~--~iKFG~-~~e~~~~~~Gtg~~~~aTGHYAr~~q~~~~~~~~~L  153 (394)
T TIGR00420        79 VNFQKEYWNKVFEPFIQEYKEGLTPNPDILC--NK--LIKFGL-LLEYAKQLLGTGNDKIATGHYARIAQEIENKSLFEL  153 (394)
T ss_pred             ECHHHHHHHHHHHHHHHHHHCCCCCCCCCCC--CC--CCCHHH-HHHHHHHHCCCCCCEEECCHHHHHHHHHCCCCHHHH
T ss_conf             5507887888889999987367777862004--71--200378-999999852899543442447654434213101444


Q ss_pred             --H--------HCCC--C-CCCCCCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             --1--------1023--6-66555401017763365899999963
Q gi|254780999|r  414 --G--------YGTL--Y-GDMSGGFNPLKDLYKTQVFQLASWRN  445 (562)
Q Consensus       414 --G--------y~T~--~-GD~~g~~~p~~~l~Kt~v~~la~~~n  445 (562)
                        +        ||=.  - -=++.-+=|+|+|.|++||.||+..+
T Consensus       154 ~~~~D~~KDQSYFL~~l~~~~~~~~~FPlG~L~K~~vR~iA~~~~  198 (394)
T TIGR00420       154 LRALDKNKDQSYFLYHLSQEQLAKLLFPLGELLKPEVRQIAKNAG  198 (394)
T ss_pred             HCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHCC
T ss_conf             304678886117376401898887505301036778999998648


No 63 
>TIGR00364 TIGR00364 exsB protein; InterPro: IPR004479   This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome.    In Sinorhizobium meliloti, a species in which the exo genes make succinoglycan, a symbiotically important exopolysaccharide, exsB is located nearby and affects succinoglycan levels, probably through polar effects on exsA expression or the same polycistronic mRNA , .    In Arthrobacter viscosus, the homologous gene is designated alu1 and is associated with an aluminum tolerance phenotype. When expressed in Escherichia coli, it conferred aliminium tolerance .   The entry also contains the gene queC, which is responsible for the conversion of GTP to 7-cyano-7-deazaguanine (preQ0). The biosynthesis of hypermodified tRNA nucleoside queuosine only occurs in eubacteria. It occupies the wobble position for all known tRNAs that are specific for Asp, Asn, His or Tyr ..
Probab=98.98  E-value=3.5e-09  Score=79.23  Aligned_cols=150  Identities=25%  Similarity=0.259  Sum_probs=97.5

Q ss_pred             EEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCC-CCCCHHHHHHHHHHHCCCCC-CCCHHHHHHHHH-HHHCCCCC
Q ss_conf             5752158723689999998414954467973246666-52213569999997213542-677589999988-63132346
Q gi|254780999|r  295 VIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYT-SPQSLEDAAACAKALGCKYD-VLPIHDLVNHFF-SLMSQFLQ  371 (562)
Q Consensus       295 ~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~-s~~s~~~a~~la~~lg~~~~-~i~I~~~~~~~~-~~~~~~~~  371 (562)
                      .|+.+|||+|||+++++|.+..|+++|++|+--.-=- -..-++-|+.+|+.|||+++ .||++-+-+-.. +.|-..-.
T Consensus         1 Av~~lSGG~DStT~~~~a~~~~GkyeV~a~TF~YGQR~H~~Ele~A~~ia~~Lgi~~~~~~Dl~~l~~l~~YsaLt~~~~   80 (227)
T TIGR00364         1 AVVVLSGGQDSTTVLLIALDEGGKYEVHAITFDYGQRAHSRELESARKIAEALGIRHHFVIDLSLLKQLGKYSALTDEQE   80 (227)
T ss_pred             CEEEEECCHHHHHHHHHHHHCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHCCCCEEEECHHHHHHHHCCCCCCCCCC
T ss_conf             96874373468999999996179507998546501378999999999999980897078617799985540452357875


Q ss_pred             C-----CCC--CHHHHCCCCH---HH----HHHHHHHHHHCCC--EECC---------CCCHHHHH------HHHC-CCC
Q ss_conf             8-----743--1011012330---46----6779888751695--4436---------43244775------4110-236
Q gi|254780999|r  372 E-----EPS--GIVAENIQSR---IR----GNILMALSNHSKA--MLLT---------TSNKSEIS------VGYG-TLY  419 (562)
Q Consensus       372 ~-----~~~--~~~~eN~qaR---~R----~~~L~~~an~~~~--lvl~---------t~nksE~~------~Gy~-T~~  419 (562)
                      .     ...  +-++|-+.+=   =|    ..+..-+|.+.|+  +.+|         +.|+.|+.      +-+. +.+
T Consensus        81 ~~~~~~~e~d~~~~~E~~p~tfVPgRN~~fl~~a~~yA~~~gA~~v~~G~~~~DfSgYPDCr~EFvka~n~~l~Lgn~~~  160 (227)
T TIGR00364        81 IPEQKSNEEDKEKALETLPNTFVPGRNLIFLSLAASYAEALGAEAVITGVCETDFSGYPDCRDEFVKALNHALNLGNMLT  160 (227)
T ss_pred             CCCCCCCCCCHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHCHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCC
T ss_conf             67666653202356531133337804799999999988861842522001000365798886889999999999741268


Q ss_pred             CCCCCC-----CCCCCCCCHHHHHHHHHHHHH
Q ss_conf             665554-----010177633658999999631
Q gi|254780999|r  420 GDMSGG-----FNPLKDLYKTQVFQLASWRNS  446 (562)
Q Consensus       420 GD~~g~-----~~p~~~l~Kt~v~~la~~~n~  446 (562)
                      +  .--     .+|+-+++|.+.++||..+++
T Consensus       161 ~--v~i~Piql~aPL~~ltKaeiv~la~elGk  190 (227)
T TIGR00364       161 P--VEIRPIQLEAPLMDLTKAEIVKLADELGK  190 (227)
T ss_pred             C--CEEEEEEEECCEEECCHHHHHHHHHHHCC
T ss_conf             8--11202466667012698999999887351


No 64 
>KOG2805 consensus
Probab=98.98  E-value=2.6e-09  Score=80.09  Aligned_cols=150  Identities=18%  Similarity=0.219  Sum_probs=84.2

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECC---------CCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHH--
Q ss_conf             4540575215872368999999841495446797324---------66665221356999999721354267758999--
Q gi|254780999|r  291 NFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLP---------YKYTSPQSLEDAAACAKALGCKYDVLPIHDLV--  359 (562)
Q Consensus       291 g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp---------~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~--  359 (562)
                      .+..|||++|||+|||++|.|.+.+ | -||.||.|-         +.-..+....||+..|+.|+|.++.++...-.  
T Consensus         4 ~~~~VvvamSgGVDSsVaa~Ll~~~-g-~~v~gv~M~nWd~~de~~s~cp~e~D~~da~~Vc~~LnI~~~~Vnf~kEYW~   81 (377)
T KOG2805           4 KPDRVVVAMSGGVDSSVAARLLAAR-G-YNVTGVFMKNWDSLDEFGSQCPAERDWKDAKRVCKQLNIPLHQVNFVKEYWN   81 (377)
T ss_pred             CCCEEEEEECCCCHHHHHHHHHHHC-C-CCEEEEEEECCCCCCCCCCCCCCHHHHHHHHHHHHHHCCEEEEEEEHHHHHH
T ss_conf             6654899953771189999999741-8-8716996622012223566898112089999999870970278743799999


Q ss_pred             ---HHHHHHHCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHCCCEECCCCCHHHHHHHHCC-----------------CC
Q ss_conf             ---9988631323468743101101233046677988875169544364324477541102-----------------36
Q gi|254780999|r  360 ---NHFFSLMSQFLQEEPSGIVAENIQSRIRGNILMALSNHSKAMLLTTSNKSEISVGYGT-----------------LY  419 (562)
Q Consensus       360 ---~~~~~~~~~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~nksE~~~Gy~T-----------------~~  419 (562)
                         +.++..-.... .+.+|+.- |-+-..-...-++. +..|+=-|+||.-.-..++-.+                 ++
T Consensus        82 ~Vfs~~L~~Y~~G~-TPNPDI~C-N~~IKFg~~~~~a~-en~~~d~latGHYAr~~~~~~~~~~~~l~~~~d~~KDQt~F  158 (377)
T KOG2805          82 DVFSPFLEEYENGR-TPNPDILC-NKHIKFGKFFKHAI-ENLGYDWLATGHYARVVLEDEDNAESHLLISKDMVKDQTYF  158 (377)
T ss_pred             HHHHHHHHHHHCCC-CCCCCCCC-CCEEECCHHHHHHH-HHCCCCEEEEEEEEEEECCCCCCCCEEEEECCCCCCCCEEE
T ss_conf             99999988876589-99997134-45142117899998-75588737742121440375567623576125666773267


Q ss_pred             CC------CCCCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             66------555401017763365899999963
Q gi|254780999|r  420 GD------MSGGFNPLKDLYKTQVFQLASWRN  445 (562)
Q Consensus       420 GD------~~g~~~p~~~l~Kt~v~~la~~~n  445 (562)
                      =.      .-..+-|++++.|.+|++||++.+
T Consensus       159 L~~in~~~L~r~lfPlg~~~K~eVk~lA~~~g  190 (377)
T KOG2805         159 LSTINQTQLKRLLFPLGCLTKSEVKKLAKQAG  190 (377)
T ss_pred             EECCCHHHHHHHHCCCCCCCHHHHHHHHHHCC
T ss_conf             63036999986206676567799999998659


No 65 
>COG0519 GuaA GMP synthase, PP-ATPase domain/subunit [Nucleotide transport and metabolism]
Probab=98.84  E-value=4.6e-08  Score=71.91  Aligned_cols=187  Identities=22%  Similarity=0.299  Sum_probs=106.7

Q ss_pred             HHCCCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCC-CHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHH
Q ss_conf             42245405752158723689999998414954467973246666522-13569999997213542677589999988631
Q gi|254780999|r  288 QKNNFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQ-SLEDAAACAKALGCKYDVLPIHDLVNHFFSLM  366 (562)
Q Consensus       288 ~~~g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~-s~~~a~~la~~lg~~~~~i~I~~~~~~~~~~~  366 (562)
                      ++-|-.++++|||||.||+++|+|+.+|+| +++.|++.-...-... ..+-.+.+.+.+|++...++   +-+.|.+.+
T Consensus        17 ~~vg~~kvi~alSGGVDSsv~a~L~~~AiG-d~l~cvfVD~GLlR~~E~e~V~~~f~~~~~~nl~~Vd---A~~~Fl~~L   92 (315)
T COG0519          17 EQVGDGKVILALSGGVDSSVAAVLAHRAIG-DQLTCVFVDHGLLRKGEAEQVVEMFREHLGLNLIVVD---AKDRFLSAL   92 (315)
T ss_pred             HHHCCCEEEEEECCCCCHHHHHHHHHHHHH-CCEEEEEECCCCCCCCCHHHHHHHHHHHCCCCEEEEC---HHHHHHHHH
T ss_conf             972885399983387808999999999740-5248999637743478569999998753298459975---498899884


Q ss_pred             CCCCCCCCCCHHHHCCCCHHHHH---HHHHHHHHCC--CEECCCC--CHHHHHHHH-CC---------CCCCC-CCCCCC
Q ss_conf             32346874310110123304667---7988875169--5443643--244775411-02---------36665-554010
Q gi|254780999|r  367 SQFLQEEPSGIVAENIQSRIRGN---ILMALSNHSK--AMLLTTS--NKSEISVGY-GT---------LYGDM-SGGFNP  428 (562)
Q Consensus       367 ~~~~~~~~~~~~~eN~qaR~R~~---~L~~~an~~~--~lvl~t~--nksE~~~Gy-~T---------~~GD~-~g~~~p  428 (562)
                      ....+.+..       +-.+.-.   ..-..|.+.+  +|+-||-  +--|...|- .|         +.-|| ..-+.|
T Consensus        93 ~GvtDPE~K-------RKiIG~~Fi~VFe~ea~k~~~~~LaQGTiYpDvIES~~g~~~~IKSHHNVGGLP~~m~lkLvEP  165 (315)
T COG0519          93 KGVTDPEEK-------RKIIGREFIEVFEEEAKKLGAEFLAQGTIYPDVIESGTGKAGTIKSHHNVGGLPEDMKLKLVEP  165 (315)
T ss_pred             CCCCCHHHH-------HHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCEEEEHH
T ss_conf             399988998-------9998799999999999857860687044345046506888886213562688950142223077


Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHCCCCCCCC--CC---CCCCCCCCCCCHHHHHHHHHHHHHC
Q ss_conf             17763365899999963103322234444668878828898845--38---9997700068878899999999827
Q gi|254780999|r  429 LKDLYKTQVFQLASWRNSHGITSGLGPLTEVIPPSILEKSPSAE--LR---PHQTDQESLPPYPILDDIIKRIVEN  499 (562)
Q Consensus       429 ~~~l~Kt~v~~la~~~n~~~~~~~~~~~~~~ip~~i~~~~psae--L~---~~Q~ded~l~~Y~~lD~il~~~i~~  499 (562)
                      +-+|+|-+|+.|+++++              +|++++.+.|=|.  |.   .+-.+++.|---..-|.|+..-+++
T Consensus       166 Lr~LfKDEVR~lg~~LG--------------lp~~iv~RhPFPGPGLaiRilGevt~Ekl~ilR~Ad~I~~eEl~~  227 (315)
T COG0519         166 LRELFKDEVRELGRELG--------------LPEEIVYRHPFPGPGLAVRILGEVTREKLEILREADAIVEEELRK  227 (315)
T ss_pred             HHHHHHHHHHHHHHHHC--------------CCHHHHCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             89886899999999859--------------988884048999998678962544799999998876999999986


No 66 
>PTZ00077 asparagine synthetase; Provisional
Probab=98.62  E-value=4.5e-07  Score=65.42  Aligned_cols=137  Identities=23%  Similarity=0.251  Sum_probs=80.4

Q ss_pred             HHHHCCHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCCCH----------------------------------
Q ss_conf             8642202035888764224540575215872368999999841495----------------------------------
Q gi|254780999|r  273 EADYNACVLSLRDYVQKNNFHKVIIGLSGGIDSALCAAIAVDALGK----------------------------------  318 (562)
Q Consensus       273 e~~~~Alvlgl~d~~~~~g~~~~viglSGGiDSal~a~la~~alg~----------------------------------  318 (562)
                      +++...|.-+++.++.. - --+-+=|||||||+++++|+++-+.+                                  
T Consensus       220 ~~lr~~L~~AV~~rL~s-D-VPvG~lLSGGLDSSlIaAia~k~l~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  297 (610)
T PTZ00077        220 EEIRIHLEKAVIKRLMG-D-VPFGILLSGGLDSSIIAAILAKHLKIIDGEGGGGIQGGGAAAAHNAAHEANNNNGEDNCG  297 (610)
T ss_pred             HHHHHHHHHHHHHHHHC-C-CCEEEEECCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             99999999999998225-6-723666347705899999999865420111222222443210001111124444322123


Q ss_pred             ------HHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCC--HHHHHHHHHHHHCCCCCCCCCCHHHHCCCCHHHHHH
Q ss_conf             ------446797324666652213569999997213542677--589999988631323468743101101233046677
Q gi|254780999|r  319 ------ENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLP--IHDLVNHFFSLMSQFLQEEPSGIVAENIQSRIRGNI  390 (562)
Q Consensus       319 ------~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~--I~~~~~~~~~~~~~~~~~~~~~~~~eN~qaR~R~~~  390 (562)
                            .+++.+...-+.+ + ....|+..|+.||..|+++.  ++..++++.+.+-+.   +..|++  .++|-+-|-+
T Consensus       298 ~~~a~~~~l~tFsIGl~gs-p-Dl~~Ar~vA~~lGt~Hhe~~~t~ee~ldal~dvIy~l---Etyd~t--tirAs~pmYL  370 (610)
T PTZ00077        298 NNNADPCHLKSFSIGLKGS-P-DLKAAKEVAEFLGIEHTEFHFTVEEGIDSLHDVIYHI---ETYDIT--TIRASTPMYI  370 (610)
T ss_pred             CCCCCCCCCEEEEEECCCC-C-HHHHHHHHHHHHCCCCEEEEECHHHHHHHHHHHHHHC---CCCCCC--CCCHHHHHHH
T ss_conf             5666744422688625898-2-4899999999838834599977799987757665212---566755--4210358999


Q ss_pred             HHHHHHHCCC-EECCCCCHHHHHHHHCCC
Q ss_conf             9888751695-443643244775411023
Q gi|254780999|r  391 LMALSNHSKA-MLLTTSNKSEISVGYGTL  418 (562)
Q Consensus       391 L~~~an~~~~-lvl~t~nksE~~~Gy~T~  418 (562)
                      |.-.+...|- +||+----.|+--||--+
T Consensus       371 lsr~ik~~gvKVvLSGEGADElFgGYlyf  399 (610)
T PTZ00077        371 LSRLIKSSCVKMVLSGEGADEIFGGYLYF  399 (610)
T ss_pred             HHHHHHHCCCEEEECCCCCHHHHCCCHHH
T ss_conf             99999864988995388744653464477


No 67 
>COG0603 Predicted PP-loop superfamily ATPase [General function prediction only]
Probab=98.62  E-value=3.8e-07  Score=65.91  Aligned_cols=150  Identities=25%  Similarity=0.308  Sum_probs=91.8

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHH-HHHCCC-
Q ss_conf             540575215872368999999841495446797324666652213569999997213542677589999988-631323-
Q gi|254780999|r  292 FHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHDLVNHFF-SLMSQF-  369 (562)
Q Consensus       292 ~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~~~-~~~~~~-  369 (562)
                      .++.||-+|||+||+.+++.|.+..  +.|++++.-.-.-....++-|+.+|+.||+++++|+++-.-+ +. +.+... 
T Consensus         2 ~~kavvl~SGG~DStt~l~~a~~~~--~ev~alsfdYGQrh~~Ele~A~~iak~lgv~~~iid~~~~~~-~~~saLtd~~   78 (222)
T COG0603           2 MKKAVVLLSGGLDSTTCLAWAKKEG--YEVHALTFDYGQRHRKELEAAKELAKKLGVPHHIIDVDLLGE-IGGSALTDDS   78 (222)
T ss_pred             CCEEEEECCCCHHHHHHHHHHHHCC--CEEEEEEEECCCCCHHHHHHHHHHHHHCCCCEEEECHHHHHH-CCCCCCCCCC
T ss_conf             8349999168813899999999609--889999750789868999999999998199828954168753-5888675888


Q ss_pred             CCCCCCCHHHHCCC---CHHHHHHH----HHHHHHCC--CEECC---------CCCHHHH------HHHHCCCCCCCCCC
Q ss_conf             46874310110123---30466779----88875169--54436---------4324477------54110236665554
Q gi|254780999|r  370 LQEEPSGIVAENIQ---SRIRGNIL----MALSNHSK--AMLLT---------TSNKSEI------SVGYGTLYGDMSGG  425 (562)
Q Consensus       370 ~~~~~~~~~~eN~q---aR~R~~~L----~~~an~~~--~lvl~---------t~nksE~------~~Gy~T~~GD~~g~  425 (562)
                      ..-+....+.+.+.   -=-|-.++    ..+|-..|  .+++|         ..++-|+      ++-++|..|=-. -
T Consensus        79 ~~vp~~~~~~~~~p~t~VP~RN~iflsiA~~~Ae~~g~~~I~~Gv~~~D~sgYPDcrpefi~a~~~~~~l~~~~~~~~-i  157 (222)
T COG0603          79 IDVPKYEFAEEEIPATFVPARNLIFLSIAAAYAEALGADAIIIGVNEEDFSGYPDCRPEFIEALNEALNLGTEKGVRI-I  157 (222)
T ss_pred             CCCCCCCCCCCCCCCEEECCCCHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCE-E
T ss_conf             636666666666864476066099999999999875998599975321047899888899999999998625578617-7


Q ss_pred             CCCCCCCCHHHHHHHHHHHH
Q ss_conf             01017763365899999963
Q gi|254780999|r  426 FNPLKDLYKTQVFQLASWRN  445 (562)
Q Consensus       426 ~~p~~~l~Kt~v~~la~~~n  445 (562)
                      .+|+..+.|.++..++..++
T Consensus       158 ~aPl~~l~Ka~iv~l~~elg  177 (222)
T COG0603         158 HAPLMELTKAEIVKLADELG  177 (222)
T ss_pred             ECCEEECCHHHHHHHHHHHC
T ss_conf             67833134999999888868


No 68 
>PRK13825 conjugal transfer protein TraB; Provisional
Probab=98.61  E-value=5.2e-06  Score=58.48  Aligned_cols=160  Identities=14%  Similarity=0.175  Sum_probs=95.4

Q ss_pred             HHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEEEEEECCEEEEEEEEEECC-EEE
Q ss_conf             9999859989991664447998445414889999999999999999887697899999998889878999999699-799
Q gi|254780999|r   31 EEANRQGMDLILFTELFISGYPPEDLVFKKSFIQACSSAIDTLKSDTHDGGAGIVVGFPRQDQEGVLNSVVILDAG-NII  109 (562)
Q Consensus        31 ~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~~~~l~~La~~~~~~~i~iivG~p~~~~~~~yNsa~vi~~G-~il  109 (562)
                      +.+...|+++|||||..+.=+.|.        .+...+.      ..+..+..+++|....+.++..|+.+.|..+ ..+
T Consensus       217 ~~~~~~g~~vvvLPEs~lg~Wtp~--------~~~lw~~------~l~~~~~tvi~Ga~v~~~~Gydn~lv~i~~~~~ri  282 (389)
T PRK13825        217 RAAARAGARVVVLPESALGFWTPT--------TERLWRE------SLRGADATVIAGAAVVDPGGYDNVLVAISAGGGRI  282 (389)
T ss_pred             HHHCCCCCEEEEECCHHCCCCCCH--------HHHHHHH------HHCCCCCEEEEEEEECCCCCCCCEEEEECCCCCEE
T ss_conf             873479973999463211568713--------8999999------74689928998236758998744479971897268


Q ss_pred             EEEEEEEECCC------CCCCCCCCCCC-CCCCCEEEECCEEEEECCCCCCCHHHHHHHHHHHCCCCEEEECCCCCCCCC
Q ss_conf             98877762355------43332100377-888761476474562011111110168999997147775993155533358
Q gi|254780999|r  110 AVRDKINLPNY------SEFHEKRTFIS-GYSNDPIVFRDIRLGILICEDIWKNSNICKHLKKQGAEFLFSLNASPYYHN  182 (562)
Q Consensus       110 ~~y~K~~LP~y------~~FdE~r~F~~-G~~~~~~~~~g~kiGv~ICeDlw~~~~~~~~la~~Gadlii~psASp~~~~  182 (562)
                      ....++..|--      ..+.+.-.|.. -....+.+++|.|++.+||||.--.= |.-.......|+|+.++..=++.+
T Consensus       283 ly~~RmPVP~sMWqPW~~~~g~~g~~~a~~f~npv~~i~G~r~a~lICYEqll~w-p~l~sml~~Pdviva~~N~Wwt~g  361 (389)
T PRK13825        283 LYRERMPVPVSMWQPWLPWTGESGGARAHFFANPVVTVDGRRVAPLICYEQLIVW-PVLQSMLHAPDVIVAVGNGWWTKG  361 (389)
T ss_pred             EECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECCEEEEEEEEHHHHHHH-HHHHHHHCCCCEEEECCCCCCCCC
T ss_conf             5036776651036677522489997200124586364568068775418787888-999987429988997588661689


Q ss_pred             CHHHH--HHHHHHHHHHCCCEEEEC
Q ss_conf             07888--788999854337046421
Q gi|254780999|r  183 KLKKR--HEIVTGQISHVHLPIIYV  205 (562)
Q Consensus       183 k~~~R--~~~~~~~a~e~~~~vvy~  205 (562)
                      .....  +.-.++-++=.++|++.+
T Consensus       362 Tsi~aIQras~~awarLfg~Plv~A  386 (389)
T PRK13825        362 TSIVAIQRASAEAWARLFGVPLVRA  386 (389)
T ss_pred             CCHHHHHHHHHHHHHHHHCCCEEEE
T ss_conf             9709999999999999837844876


No 69 
>PRK11106 queuosine biosynthesis protein QueC; Provisional
Probab=98.49  E-value=2.2e-06  Score=60.96  Aligned_cols=150  Identities=21%  Similarity=0.255  Sum_probs=83.5

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCC-CCCCCHHHHHHHHHHHHCCC-
Q ss_conf             5405752158723689999998414954467973246666522135699999972135-42677589999988631323-
Q gi|254780999|r  292 FHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCK-YDVLPIHDLVNHFFSLMSQF-  369 (562)
Q Consensus       292 ~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~-~~~i~I~~~~~~~~~~~~~~-  369 (562)
                      .+++||=+|||+||+++++.|.+..  ++|+++..-.---...-++.|+.+|+.+|+. |.+++|+-+-+-..+.+... 
T Consensus         1 MkkavVLlSGGlDStt~L~~a~~~~--~~v~alsfdYGQrh~~El~~A~~ia~~~gv~~h~vidl~~l~~~~~SaLt~~~   78 (231)
T PRK11106          1 MKRAVVVFSGGQDSTTCLIQALQQY--DEVHCITFDYGQRHRAEIDVARELALKLGARAHKVLDVTLLNELAVSSLTRDS   78 (231)
T ss_pred             CCEEEEEECCCHHHHHHHHHHHHCC--CEEEEEEEECCCCCHHHHHHHHHHHHHCCCCCEEEECCHHHHHHCCCCCCCCC
T ss_conf             9808999078789999999999819--94999987778671999999999999859840067532777775235667778


Q ss_pred             CCCCCCCHHHHCCCC---HHHHHHHH----HHHHHCC--CEECCCC---------CHHHH------HHHHCCCCCCCCCC
Q ss_conf             468743101101233---04667798----8875169--5443643---------24477------54110236665554
Q gi|254780999|r  370 LQEEPSGIVAENIQS---RIRGNILM----ALSNHSK--AMLLTTS---------NKSEI------SVGYGTLYGDMSGG  425 (562)
Q Consensus       370 ~~~~~~~~~~eN~qa---R~R~~~L~----~~an~~~--~lvl~t~---------nksE~------~~Gy~T~~GD~~g~  425 (562)
                      ...+......+++.+   =-|-.++.    ++|-..|  .+++|.-         ++.|+      ++.+.|.  ...--
T Consensus        79 i~vp~~~~~~~~~p~T~VP~RN~ifLsiAaa~Ae~~ga~~I~~G~~~~D~sgYPDCr~eFi~a~~~al~~g~~--~~i~i  156 (231)
T PRK11106         79 IPVPDYEPEADGLPNTFVPGRNILFLTLAAIYAYQVKAEAVITGVCETDFSGYPDCRDEFVKALNHAVVLGMA--KDIRF  156 (231)
T ss_pred             CCCCCCCCCCCCCCCCEEECCHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHCCC--CCEEE
T ss_conf             7777765444578764671672999999999999859995998046556688998989999999999985178--98199


Q ss_pred             CCCCCCCCHHHHHHHHHHHH
Q ss_conf             01017763365899999963
Q gi|254780999|r  426 FNPLKDLYKTQVFQLASWRN  445 (562)
Q Consensus       426 ~~p~~~l~Kt~v~~la~~~n  445 (562)
                      .+|+.++.|.++..|++..+
T Consensus       157 ~aPl~~l~K~eiv~l~~~~~  176 (231)
T PRK11106        157 ETPLMWLDKAETWALADYYG  176 (231)
T ss_pred             EECCCCCCHHHHHHHHHHCC
T ss_conf             83777788889999998616


No 70 
>cd01712 ThiI ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide.
Probab=98.40  E-value=3.9e-06  Score=59.29  Aligned_cols=141  Identities=21%  Similarity=0.173  Sum_probs=79.2

Q ss_pred             EEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCC-CCCCCCCHHHHHHHHHHHC-----CCCCCCCHHHHHHHHHHHHC
Q ss_conf             05752158723689999998414954467973246-6665221356999999721-----35426775899999886313
Q gi|254780999|r  294 KVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPY-KYTSPQSLEDAAACAKALG-----CKYDVLPIHDLVNHFFSLMS  367 (562)
Q Consensus       294 ~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~-~~~s~~s~~~a~~la~~lg-----~~~~~i~I~~~~~~~~~~~~  367 (562)
                      ++++.+||||||+|+|.+..+. |- .|.++.|-+ .++++.+.+.+..+++.+.     .....++....+  +....+
T Consensus         1 kvl~L~SGGiDS~VAa~ll~kr-G~-~V~~l~f~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~--~~~~~~   76 (177)
T cd01712           1 KALALLSGGIDSPVAAWLLMKR-GI-EVDALHFNSGPFTSEKAREKVEDLARKLARYSPGHKLVVIIFTFFV--QKEIYG   76 (177)
T ss_pred             CEEEEECCCCHHHHHHHHHHHC-CC-EEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEECCHHH--HHHHHH
T ss_conf             9899957781699999999987-99-8999999899988889999999999999994899628999453899--999997


Q ss_pred             CCCCCCCCCHHHHCCCCHHH---HHHHHHHHHHCCCEECCCCCH-----HHHHHH-HCCCCCCCCCCCCCCCCCCHHHHH
Q ss_conf             23468743101101233046---677988875169544364324-----477541-102366655540101776336589
Q gi|254780999|r  368 QFLQEEPSGIVAENIQSRIR---GNILMALSNHSKAMLLTTSNK-----SEISVG-YGTLYGDMSGGFNPLKDLYKTQVF  438 (562)
Q Consensus       368 ~~~~~~~~~~~~eN~qaR~R---~~~L~~~an~~~~lvl~t~nk-----sE~~~G-y~T~~GD~~g~~~p~~~l~Kt~v~  438 (562)
                      .   +...     |-.--.|   .-+...+|.+.|+-.+-||.-     |.-.-. +.+-.+-..-=+-|+++..|.++.
T Consensus        77 ~---g~~~-----npcv~ckr~m~r~a~~~A~~~ga~~IvTGe~lGQvasqt~~nl~~i~~~~~~~ilRPL~~~dK~EI~  148 (177)
T cd01712          77 Y---GKEK-----YRCILCKRMMYRIAEKLAEELGADAIVTGESLGQVASQTLENLLVISSGTDLPILRPLIGFDKEEII  148 (177)
T ss_pred             H---CCCC-----CCCEEHHHHHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHH
T ss_conf             0---8888-----9863629999999999999869989986652220447689999999874256421488899989999


Q ss_pred             HHHHHHHH
Q ss_conf             99999631
Q gi|254780999|r  439 QLASWRNS  446 (562)
Q Consensus       439 ~la~~~n~  446 (562)
                      ++|+-++.
T Consensus       149 ~~A~~igt  156 (177)
T cd01712         149 GIARRIGT  156 (177)
T ss_pred             HHHHHHCC
T ss_conf             99998096


No 71 
>pfam02568 ThiI Thiamine biosynthesis protein (ThiI). ThiI is required for thiazole synthesis, required for thiamine biosynthesis.
Probab=98.39  E-value=4.4e-06  Score=58.96  Aligned_cols=144  Identities=19%  Similarity=0.150  Sum_probs=92.8

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEEC-CCCCCCCCCHHHHHHHHHHH-------CCCCCCCCHHHHHHHHHH
Q ss_conf             4057521587236899999984149544679732-46666522135699999972-------135426775899999886
Q gi|254780999|r  293 HKVIIGLSGGIDSALCAAIAVDALGKENVQTIML-PYKYTSPQSLEDAAACAKAL-------GCKYDVLPIHDLVNHFFS  364 (562)
Q Consensus       293 ~~~viglSGGiDSal~a~la~~alg~~~v~~~~m-p~~~~s~~s~~~a~~la~~l-------g~~~~~i~I~~~~~~~~~  364 (562)
                      .++++-+||||||.|++.+..+. |- +|+++.+ ...++++.+.+.++.+++.|       .+++..+|..+.......
T Consensus         4 gk~l~LlSGGiDSpVAa~lmmkR-G~-~V~~vhf~~~p~~~~~~~~k~~~l~~~l~~y~~~~~~~l~vv~~~~~~~~i~~   81 (197)
T pfam02568         4 GKVLALLSGGIDSPVAAYLMMRR-GC-RVVALHFINEPGTSEEAIEKVRKLAELLAEYGTSCEGKLVVVDFTKVQKEIIE   81 (197)
T ss_pred             CCEEEEECCCCHHHHHHHHHHHC-CC-EEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEECCHHHHHHHHH
T ss_conf             71898866871299999999987-99-79999987999998999999999999999737887544999574999999996


Q ss_pred             HHCCCCCCCCCCHHHHCCCCHHHH-HHHHHHHHHCCCEECCCCCH-HHHH-HH----HCCCCCCCCCCCCCCCCCCHHHH
Q ss_conf             313234687431011012330466-77988875169544364324-4775-41----10236665554010177633658
Q gi|254780999|r  365 LMSQFLQEEPSGIVAENIQSRIRG-NILMALSNHSKAMLLTTSNK-SEIS-VG----YGTLYGDMSGGFNPLKDLYKTQV  437 (562)
Q Consensus       365 ~~~~~~~~~~~~~~~eN~qaR~R~-~~L~~~an~~~~lvl~t~nk-sE~~-~G----y~T~~GD~~g~~~p~~~l~Kt~v  437 (562)
                      ...+.    ..     .+--|--| -+...+|.+.|+..+-||.- ...| .-    +.+-.+-..-=+-|+.++.|.++
T Consensus        82 ~~~~~----~~-----cv~cKr~M~r~A~~iA~~~ga~~IVTGEsLGQVaSQTl~nl~~i~~~~~~pilRPLig~DK~EI  152 (197)
T pfam02568        82 KAPEK----YR-----CVLCKRCMYRAAEKVAEEEGADALVTGESLGQVASQTLDNLRVISAATNLPILRPLIGLDKEEI  152 (197)
T ss_pred             CCCCC----CE-----EHHHHHHHHHHHHHHHHHCCCCEEEECCCHHHHHHCCCCHHHHHHHHHCCCCCCCCCCCCHHHH
T ss_conf             28987----65-----4569999999999999984998998473031210045310699987624853134346999999


Q ss_pred             HHHHHHHHHC
Q ss_conf             9999996310
Q gi|254780999|r  438 FQLASWRNSH  447 (562)
Q Consensus       438 ~~la~~~n~~  447 (562)
                      .++||-++..
T Consensus       153 i~~Ar~IGt~  162 (197)
T pfam02568       153 INLAKEIGTY  162 (197)
T ss_pred             HHHHHHHCCH
T ss_conf             9999994867


No 72 
>pfam00733 Asn_synthase Asparagine synthase. This family is always found associated with pfam00310. Members of this family catalyse the conversion of aspartate to asparagine.
Probab=98.37  E-value=8.8e-06  Score=57.00  Aligned_cols=124  Identities=22%  Similarity=0.266  Sum_probs=70.8

Q ss_pred             HHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHH--H
Q ss_conf             35888764224540575215872368999999841495446797324666652213569999997213542677589--9
Q gi|254780999|r  281 LSLRDYVQKNNFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHD--L  358 (562)
Q Consensus       281 lgl~d~~~~~g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~--~  358 (562)
                      -+++.+++  .-..+-+-|||||||+++++++.+-. ..++.+++.-...+.......|+.+|+.+|++|..+.++.  .
T Consensus         8 ~aV~~~l~--sdvpig~~LSGGlDSs~ia~l~~~~~-~~~i~~~s~~~~~~~~~E~~~a~~~a~~~~~~~~~v~~~~~~~   84 (195)
T pfam00733         8 DAVKRRLR--ADVPVGVLLSGGLDSSLIAALAARQS-SPPLKTFSVGFEGSDYDEAPYAELVADHLGTDHHEIIVTEEEL   84 (195)
T ss_pred             HHHHHHHC--CCCCEEEECCCCHHHHHHHHHHHHHC-CCCCEEEECCCCCCCCCHHHHHHHHHHHHCCCCEEEEECHHHH
T ss_conf             99999834--69836753067468999999999853-8995389557888997589999999965133517877255999


Q ss_pred             HHHHHHHHCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHCCC-EECCCCCHHHHHHHH
Q ss_conf             999886313234687431011012330466779888751695-443643244775411
Q gi|254780999|r  359 VNHFFSLMSQFLQEEPSGIVAENIQSRIRGNILMALSNHSKA-MLLTTSNKSEISVGY  415 (562)
Q Consensus       359 ~~~~~~~~~~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~~-lvl~t~nksE~~~Gy  415 (562)
                      .+.+...+.. .+.+..+      .+-+=..+++..+.+ |. .+|+-.--.|+.-||
T Consensus        85 ~~~~~~~i~~-~~~P~~~------~~~~~~~~l~k~~~~-~~kV~lsG~GaDElf~GY  134 (195)
T pfam00733        85 LDALPEVIYH-LEEPFGD------SSAIPLYLLSRLARK-GVKVVLSGEGADELFGGY  134 (195)
T ss_pred             HHHHHHHHHH-HCCCCCC------CCHHHHHHHHHHHHC-CCEEEEEEECHHHHHCCC
T ss_conf             9998888998-6298777------517899999999868-984999715688884798


No 73 
>TIGR03104 trio_amidotrans asparagine synthase family amidotransferase. Members of this protein family are closely related to several isoforms of asparagine synthetase (glutamine amidotransferase) and typically have been given this name in genome annotation to date. Each is part of a conserved three-gene cassette sparsely distributed across at least twenty different species known so far, including alpha, beta, and gamma Proteobacteria, Mycobacterium, and Prosthecochloris, which is a member of the Chlorobi. The other two members of the cassette are a probable protease and a member of the GNAT family of acetyltransferases.
Probab=98.35  E-value=4.9e-06  Score=58.70  Aligned_cols=132  Identities=15%  Similarity=0.163  Sum_probs=75.4

Q ss_pred             HCCHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCC---CCCCHHHHHHHHHHHCCCCCC
Q ss_conf             22020358887642245405752158723689999998414954467973246666---522135699999972135426
Q gi|254780999|r  276 YNACVLSLRDYVQKNNFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYT---SPQSLEDAAACAKALGCKYDV  352 (562)
Q Consensus       276 ~~Alvlgl~d~~~~~g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~---s~~s~~~a~~la~~lg~~~~~  352 (562)
                      .+.+.-+++.+++.  --.+-+-|||||||+++++++.+.. ..++.+++.-...+   .......|+.+|+.+|++|++
T Consensus       246 ~~~l~~sV~~rl~s--Dvpvg~~LSGGlDSS~i~a~~~~~~-~~~i~tfs~~f~~~~~~~~dE~~~a~~va~~~~~~h~~  322 (589)
T TIGR03104       246 LEALRLAVKRRLVA--DVPVGVLLSGGLDSSLIVGLLAEAG-VDGLRTFSIGFEDVGGEKGDEFEYSDIIAERFHTRHHK  322 (589)
T ss_pred             HHHHHHHHHHHHHC--CCCCCEECCCCCCHHHHHHHHHHHC-CCCCCEEEEEECCCCCCCCCHHHHHHHHHHHHCCCCEE
T ss_conf             99999999999744--6763000178754389999999956-99985278872468877666799999999973878579


Q ss_pred             CCHH--HHHHHHHHHHCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHCCCEECCCCCHHHHHHHHCC
Q ss_conf             7758--9999988631323468743101101233046677988875169544364324477541102
Q gi|254780999|r  353 LPIH--DLVNHFFSLMSQFLQEEPSGIVAENIQSRIRGNILMALSNHSKAMLLTTSNKSEISVGYGT  417 (562)
Q Consensus       353 i~I~--~~~~~~~~~~~~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~nksE~~~Gy~T  417 (562)
                      +.|+  ...+.+...+.. ++.+..+.      +-+-..+|+..+.+.--++|+-.--.|+--||.-
T Consensus       323 ~~~~~~~~~~~l~~~~~~-~deP~~~~------~~~~~~~l~~~~~~~~kV~LsG~GaDElfgGY~~  382 (589)
T TIGR03104       323 IRIPNHRVLPALPEAVAA-MSEPMVSH------DCVAFYLLSEEVSKHVKVVQSGQGADEVFGGYHW  382 (589)
T ss_pred             EEECCHHHHHHHHHHHHC-CCCCCCCC------HHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCC
T ss_conf             995717899988998852-68987683------0688999998732883699952033323479754


No 74 
>COG0037 MesJ tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]
Probab=98.33  E-value=8.7e-06  Score=57.02  Aligned_cols=143  Identities=17%  Similarity=0.139  Sum_probs=91.3

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCC--CCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCC
Q ss_conf             405752158723689999998414954467973246666--522135699999972135426775899999886313234
Q gi|254780999|r  293 HKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYT--SPQSLEDAAACAKALGCKYDVLPIHDLVNHFFSLMSQFL  370 (562)
Q Consensus       293 ~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~--s~~s~~~a~~la~~lg~~~~~i~I~~~~~~~~~~~~~~~  370 (562)
                      .+++||+|||-||++.+.+..+..+.-++.++..-....  ++......+.+|+.+|+.+.+..++..+.....      
T Consensus        22 ~~ilVavSGGkDS~~ll~~L~~l~~~~~~~a~~Vd~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~------   95 (298)
T COG0037          22 YKILVAVSGGKDSLALLHLLKELGRRIEVEAVHVDHGLRGYSDQEAELVEKLCEKLGIPLIVERVTDDLGRETL------   95 (298)
T ss_pred             CCEEEEECCCHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCHHHHHHHHHHHHHCCCCEEEEEHHHHHHHCCC------
T ss_conf             85899937878999999999984225738999970898864328999999999964998488620454310024------


Q ss_pred             CCCCCCHHHHCCCCHHHHHHHHHHHHHCCCEECCCC-CHHHHH----------------HHHCCCCCCCCC--CCCCCCC
Q ss_conf             687431011012330466779888751695443643-244775----------------411023666555--4010177
Q gi|254780999|r  371 QEEPSGIVAENIQSRIRGNILMALSNHSKAMLLTTS-NKSEIS----------------VGYGTLYGDMSG--GFNPLKD  431 (562)
Q Consensus       371 ~~~~~~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~-nksE~~----------------~Gy~T~~GD~~g--~~~p~~~  431 (562)
                      .    +...+..-.+.|-.+|...|...|.=++-|| |.++.+                .|...+..-..+  -+-|+-.
T Consensus        96 ~----~~~~c~~c~~~R~~~l~~~a~~~g~~~i~tgH~~dD~~et~lm~l~~g~~~~~l~~~~~~~~~~~~~~~iRPL~~  171 (298)
T COG0037          96 D----GKSICAACRRLRRGLLYKIAKELGADKIATGHHLDDQAETFLMNLLRGSGLRGLRGMPPKRPFEGGLLIIRPLLY  171 (298)
T ss_pred             C----CCCHHHHHHHHHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHHHHCCCCHHHHHCCCCCCCCCCCCEEECCCCC
T ss_conf             6----767879999999999999999859998985678468999999998617522456408852445788645475746


Q ss_pred             CCHHHHHHHHHHHH
Q ss_conf             63365899999963
Q gi|254780999|r  432 LYKTQVFQLASWRN  445 (562)
Q Consensus       432 l~Kt~v~~la~~~n  445 (562)
                      +++.++..++...+
T Consensus       172 ~~~~ei~~~~~~~~  185 (298)
T COG0037         172 VREKEIELYAKEKG  185 (298)
T ss_pred             CCHHHHHHHHHHCC
T ss_conf             88999999999759


No 75 
>KOG1622 consensus
Probab=98.32  E-value=1.2e-06  Score=62.71  Aligned_cols=156  Identities=24%  Similarity=0.310  Sum_probs=91.3

Q ss_pred             HHCCCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCC-CCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHH
Q ss_conf             422454057521587236899999984149544679732466665-2213569999997213542677589999988631
Q gi|254780999|r  288 QKNNFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTS-PQSLEDAAACAKALGCKYDVLPIHDLVNHFFSLM  366 (562)
Q Consensus       288 ~~~g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s-~~s~~~a~~la~~lg~~~~~i~I~~~~~~~~~~~  366 (562)
                      +.-|..+|++.+|||.||+|+++|...|+|+++++++..---+-. .++-.--+.|.+ ||+....++-...+   .+.+
T Consensus       226 k~vG~~~Vl~~vSGgvdStV~a~Ll~~alg~~R~~ai~vdNG~mrk~Ea~~V~~tl~~-lgi~i~v~~as~~f---~s~L  301 (552)
T KOG1622         226 KWVGDYKVLVAVSGGVDSTVCAALLRRALGPDRVHAIHVDNGFMRKKEAEQVEKTLVY-LGIPITVVDASETF---LSKL  301 (552)
T ss_pred             HHHCCCCEEEEECCCCHHHHHHHHHHHHHCCCCEEEEEECCCCHHHHHHHHHHHHHHH-CCCCEEEEECHHHH---HHHH
T ss_conf             9846445599834885089999999986378944899812640103677889999997-38844996215888---8761


Q ss_pred             CCCCCCCCC----CHHH--------------------HCCCCHHHHHHHHHHHHHCCCEECCCCCHHHHHHHHCCCC--C
Q ss_conf             323468743----1011--------------------0123304667798887516954436432447754110236--6
Q gi|254780999|r  367 SQFLQEEPS----GIVA--------------------ENIQSRIRGNILMALSNHSKAMLLTTSNKSEISVGYGTLY--G  420 (562)
Q Consensus       367 ~~~~~~~~~----~~~~--------------------eN~qaR~R~~~L~~~an~~~~lvl~t~nksE~~~Gy~T~~--G  420 (562)
                      ....+.+..    +.+.                    =++|+-+|--      +.+-+.+.|+| ++|..   -|-+  |
T Consensus       302 ~~~~dPE~KRkiIG~tfikv~~~~~~~l~~k~~~~~~flaQgtL~Pd------~ieS~s~~g~~-~a~tI---KThhn~~  371 (552)
T KOG1622         302 KGVTDPEEKRKIIGRTFIKVFDPVASELNKKHGEKESFLAQGTLRPD------LIESASVYGSG-HAETI---KTHHNDT  371 (552)
T ss_pred             CCCCCHHHHCEECCCCEEEECCHHHHHHHHCCCCCCEEEECCCCCCH------HHHHCCCCCCC-HHHHH---HCCCCCC
T ss_conf             26688788161024200240767888752065760004433501410------44313456773-45442---0102550


Q ss_pred             ----CC---CCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHCCCCCCC
Q ss_conf             ----65---5540101776336589999996310332223444466887882889884
Q gi|254780999|r  421 ----DM---SGGFNPLKDLYKTQVFQLASWRNSHGITSGLGPLTEVIPPSILEKSPSA  471 (562)
Q Consensus       421 ----D~---~g~~~p~~~l~Kt~v~~la~~~n~~~~~~~~~~~~~~ip~~i~~~~psa  471 (562)
                          |+   +--+.|+.|+.|-+|+.|-+-++              +|+.++.+.|=+
T Consensus       372 ~L~r~lrklgK~ieplk~~~kDEvr~lgk~lG--------------lp~~Lv~rhPfp  415 (552)
T KOG1622         372 GLIRDLRKLGKVIEPLKDFHKDEVRELGKDLG--------------LPESLVPRHPFP  415 (552)
T ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCC--------------CCHHHHCCCCCC
T ss_conf             58999998316574267888899987666508--------------724320258999


No 76 
>pfam07186 consensus
Probab=98.30  E-value=8.6e-05  Score=50.53  Aligned_cols=159  Identities=13%  Similarity=0.096  Sum_probs=92.4

Q ss_pred             HHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEEEEEECCEEEEEEEEEEC
Q ss_conf             99999999985998999166444799844541488999999999999999988769789999999888987899999969
Q gi|254780999|r   26 ARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQACSSAIDTLKSDTHDGGAGIVVGFPRQDQEGVLNSVVILDA  105 (562)
Q Consensus        26 i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~~~~l~~La~~~~~~~i~iivG~p~~~~~~~yNsa~vi~~  105 (562)
                      +....+.+..+|++++|+||-.+.=+.|.        .+..++      +..+..+..+++|....+..+.-|+.+.+..
T Consensus       219 li~tv~~~~~~g~rvvvLPEs~lg~Wtp~--------~~~lW~------~~l~~~~~Tvi~Ga~v~~~~GydnvlV~i~~  284 (396)
T pfam07186       219 LIATVRRAAGEEARVVVLPESALGFWTPT--------VERLWR------DGLRGADVTVIAGAAVIDAGGYDNVMVTISA  284 (396)
T ss_pred             HHHHHHHHCCCCCEEEECCCHHHCCCCCC--------HHHHHH------HHHCCCCCEEEEEEEECCCCCCEEEEEEECC
T ss_conf             99999975169986999052342267740--------688989------8735799379985443599870358999718


Q ss_pred             --CEEEEEEEEEE-ECC-----------CCCCCCCCCCCCCCCCCEEEECCEEEEECCCCCCCHHHHHHHHHHHCCCCEE
Q ss_conf             --97999887776-235-----------5433321003778887614764745620111111101689999971477759
Q gi|254780999|r  106 --GNIIAVRDKIN-LPN-----------YSEFHEKRTFISGYSNDPIVFRDIRLGILICEDIWKNSNICKHLKKQGAEFL  171 (562)
Q Consensus       106 --G~il~~y~K~~-LP~-----------y~~FdE~r~F~~G~~~~~~~~~g~kiGv~ICeDlw~~~~~~~~la~~Gadli  171 (562)
                        ++++  |+... .|-           ....-...||.    ..+++++|.|++.+||||.-..- |.-......-|+|
T Consensus       285 ~~~ril--y~~RmPVPvsMWqPW~~~~g~~g~a~a~~f~----npvv~i~g~rva~lICYEqLl~w-P~Lqsml~~PDvI  357 (396)
T pfam07186       285 DEARIL--YRERMPVPVSMWQPWLSWTGQGGGARAHFFA----NPFAEVAGSRNAPLICYEQLIVW-PVLQSMLYSPDAI  357 (396)
T ss_pred             CCCEEE--EECCCCCCHHHCCCCCCCCCCCCCCCCCCCC----CCEEEECCEEEEEEEEHHHHHHH-HHHHHHHCCCCEE
T ss_conf             983376--2047876422035664335898874245356----97489768068887658888878-9999875199889


Q ss_pred             EECCCCCCCCCCHHHH--HHHHHHHHHHCCCEEEEC
Q ss_conf             9315553335807888--788999854337046421
Q gi|254780999|r  172 FSLNASPYYHNKLKKR--HEIVTGQISHVHLPIIYV  205 (562)
Q Consensus       172 i~psASp~~~~k~~~R--~~~~~~~a~e~~~~vvy~  205 (562)
                      +.+...=++.+.....  ....++-++=.++|++-+
T Consensus       358 Va~~N~Wwt~gTsi~aIQrasv~AwaRLfg~Pvv~A  393 (396)
T pfam07186       358 VAVGNGWWTEGTSIVAIQRASVTAWAKLFGKPVVIA  393 (396)
T ss_pred             EECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCEEEE
T ss_conf             983787745898619999999999999837844887


No 77 
>TIGR03108 eps_aminotran_1 exosortase 1 system-associated amidotransferase 1. The predicted protein-sorting transpeptidase that we call exosortase (see TIGR02602) has distinct subclasses that associated with different types of exopolysaccharide production loci. This model represents a distinct clade among a set of amidotransferases largely annotated (not necessarily accurately) as glutatime-hydrolyzing asparagine synthases. Members of this clade are essentially restricted to the characteristic exopolysaccharide (EPS) regions that contain the exosortase 1 genome (xrtA), in genomes that also have numbers of PEP-CTERM domain (TIGR02595) proteins.
Probab=98.30  E-value=7.2e-06  Score=57.56  Aligned_cols=136  Identities=15%  Similarity=0.117  Sum_probs=77.2

Q ss_pred             HHHCCHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCC
Q ss_conf             64220203588876422454057521587236899999984149544679732466665221356999999721354267
Q gi|254780999|r  274 ADYNACVLSLRDYVQKNNFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVL  353 (562)
Q Consensus       274 ~~~~Alvlgl~d~~~~~g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i  353 (562)
                      ++.+.+.-+++.+++.  --.|=+=|||||||+++++++++.. .+++.+++.....+..+....|+.+|+.+|++|+++
T Consensus       242 ~~~~ll~~sV~~rl~s--DVpvG~~LSGGlDSS~I~a~~~~~~-~~~i~tfsi~f~~~~~DE~~~A~~vA~~~g~~h~~~  318 (628)
T TIGR03108       242 ELIERLREAVRSRMVA--DVPLGAFLSGGVDSSAVVALMAGLS-DTPVNTCSIAFDDPAFDESAYARQVAERYGTNHRVE  318 (628)
T ss_pred             HHHHHHHHHHHHHHCC--CCCEEEEECCCCCHHHHHHHHHHHC-CCCCCEEEEECCCCCCCHHHHHHHHHHHHCCCCEEE
T ss_conf             9999999999998057--8856876468863689999999842-998643665348887543699999998608764799


Q ss_pred             CHHHHHHHHHHHHCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHCCCEECCCCCHHHHHHHHCCC
Q ss_conf             75899999886313234687431011012330466779888751695443643244775411023
Q gi|254780999|r  354 PIHDLVNHFFSLMSQFLQEEPSGIVAENIQSRIRGNILMALSNHSKAMLLTTSNKSEISVGYGTL  418 (562)
Q Consensus       354 ~I~~~~~~~~~~~~~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~nksE~~~Gy~T~  418 (562)
                      .+++.--.....+....+.+..|.      +-+=+-.|+-.|.+.--++|+=.--.|+--||..+
T Consensus       319 ~~~~~~~~~~~~~~~~~deP~~d~------s~i~~~~l~~~a~~~vkV~LsG~GgDElF~GY~~y  377 (628)
T TIGR03108       319 TVDPDDFSLVDRLAGLYDEPFADS------SALPTYRVCELARKRVTVALSGDGGDELFAGYRRY  377 (628)
T ss_pred             ECCHHHHHHHHHHHHHHCCCCCCH------HHHHHHHHHHHHHCCCEEEEECCCCCCCCCCCHHH
T ss_conf             779899987999999846886667------89999999999864974999667754011585566


No 78 
>pfam06508 ExsB ExsB. This family includes putative transcriptional regulators from Bacteria and Archaea.
Probab=98.25  E-value=1.4e-06  Score=62.18  Aligned_cols=65  Identities=34%  Similarity=0.472  Sum_probs=51.3

Q ss_pred             EEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHHH
Q ss_conf             0575215872368999999841495446797324666652213569999997213542677589999
Q gi|254780999|r  294 KVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHDLVN  360 (562)
Q Consensus       294 ~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~~  360 (562)
                      ++|+-+|||+||+++++++.+. | .+|++++.-.--.....++.|+.+|+.||++|.+|+|..+-+
T Consensus         1 Kavvl~SGG~DSt~~l~~a~~~-~-~~v~ait~dYGQ~~~~Ei~~A~~ia~~l~i~h~vidl~~l~~   65 (137)
T pfam06508         1 KAVVLLSGGLDSTTCLAWAKKE-G-YEVYALTFDYGQRHSKELECAKKIAKALGVEHKIVDLDFLKQ   65 (137)
T ss_pred             CEEEEECCCHHHHHHHHHHHHC-C-CEEEEEEECCCCCHHHHHHHHHHHHHHCCCCCEEECCCHHHH
T ss_conf             9899917878999999999986-9-968999814788739999999999998299750303302444


No 79 
>cd01991 Asn_Synthase_B_C The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B  catalyzes the assembly of asparagine from aspartate, Mg(2+)ATP, and glutamine. The three-dimensional architecture of the N-terminal domain of asparagine synthetase B is similar to that observed for glutamine phosphoribosylpyrophosphate amidotransferase while the molecular motif of the C-domain is reminiscent to that observed for GMP synthetase .
Probab=98.24  E-value=7.2e-06  Score=57.56  Aligned_cols=126  Identities=24%  Similarity=0.304  Sum_probs=71.1

Q ss_pred             HHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHH--HH
Q ss_conf             5888764224540575215872368999999841495446797324666652213569999997213542677589--99
Q gi|254780999|r  282 SLRDYVQKNNFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHD--LV  359 (562)
Q Consensus       282 gl~d~~~~~g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~--~~  359 (562)
                      +++++++  .-..|-+-||||+||+++|+++.+-. ..++.++++-......+....|+.+|+.+|++++.+.+++  ..
T Consensus         7 sv~~~l~--sd~~vg~~LSGGlDSs~ia~~~~~~~-~~~~~~~s~~~~~~~~de~~~a~~va~~~~~~~~~i~~~~~~~~   83 (269)
T cd01991           7 AVRRRLR--SDVPVGVLLSGGLDSSLVAALAARLL-PEPVKTFSIGFGFEGSDEREYARRVAEHLGTEHHEVEFTPADLL   83 (269)
T ss_pred             HHHHHHC--CCCCEEEEECCHHHHHHHHHHHHHHC-CCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCEEEECCHHHHH
T ss_conf             9999954--48856865135699999999999836-89984799862899973789999999980988245314348899


Q ss_pred             HHHHHHHCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHCCCEECCCCC-HHHHHHHHCC
Q ss_conf             998863132346874310110123304667798887516954436432-4477541102
Q gi|254780999|r  360 NHFFSLMSQFLQEEPSGIVAENIQSRIRGNILMALSNHSKAMLLTTSN-KSEISVGYGT  417 (562)
Q Consensus       360 ~~~~~~~~~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~n-ksE~~~Gy~T  417 (562)
                      +.+.+.+.. .+.+..+   .+.   .-.-.++..|.+.|.=|+=||+ -.|+.-||..
T Consensus        84 ~~~~~~~~~-~~~p~~~---~~~---~~~~~l~~~a~~~g~~VllsG~GgDElf~Gy~~  135 (269)
T cd01991          84 AALPDVIWE-LDEPFAD---SSA---IPLYLLSRLARKHGIKVVLSGEGADELFGGYPR  135 (269)
T ss_pred             HHHHHHHHH-HCCCCHH---HHH---HHHHHHHHHHHHCCCEEEEECCCHHHHHCCCHH
T ss_conf             999999998-6396012---547---899999999985397799967761464138588


No 80 
>KOG0571 consensus
Probab=98.22  E-value=1.7e-05  Score=55.14  Aligned_cols=149  Identities=20%  Similarity=0.247  Sum_probs=88.2

Q ss_pred             HCCHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCCCH------HHEEEEECCCCCCCCCCHHHHHHHHHHHCCC
Q ss_conf             2202035888764224540575215872368999999841495------4467973246666522135699999972135
Q gi|254780999|r  276 YNACVLSLRDYVQKNNFHKVIIGLSGGIDSALCAAIAVDALGK------ENVQTIMLPYKYTSPQSLEDAAACAKALGCK  349 (562)
Q Consensus       276 ~~Alvlgl~d~~~~~g~~~~viglSGGiDSal~a~la~~alg~------~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~  349 (562)
                      -+++.-+++.++....  .+=+=||||+||+|+|+||..-+-.      ..++.+...-. .|+ .+.+|++.|+.||+.
T Consensus       211 r~~~~~aV~KRLM~d~--p~GvLLSGGLDSSLvAsia~R~lk~~~~~~~~~lhsFaIGle-~SP-DL~aarkVAd~igt~  286 (543)
T KOG0571         211 RHTLEKAVRKRLMTDV--PFGVLLSGGLDSSLVASIAARELKKAQAARGSKLHSFAIGLE-DSP-DLLAARKVADFIGTI  286 (543)
T ss_pred             HHHHHHHHHHHHHCCC--CEEEEEECCCHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCC-CCH-HHHHHHHHHHHHCCC
T ss_conf             9999999999863168--615895077318999999999998766412787547885289-985-378889999874885


Q ss_pred             CCCCC--HHHHHHHHHHHHCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHCCC-EECCCCCHHHHHHHHCCCCCCCCCCC
Q ss_conf             42677--5899999886313234687431011012330466779888751695-44364324477541102366655540
Q gi|254780999|r  350 YDVLP--IHDLVNHFFSLMSQFLQEEPSGIVAENIQSRIRGNILMALSNHSKA-MLLTTSNKSEISVGYGTLYGDMSGGF  426 (562)
Q Consensus       350 ~~~i~--I~~~~~~~~~~~~~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~~-lvl~t~nksE~~~Gy~T~~GD~~g~~  426 (562)
                      |++.-  +++-.++....+=+   -+..|+|  -|+|-+-|-+|.-.-.+.|- +||+----.|+--||--+.      =
T Consensus       287 Hhe~~ft~qegidal~eVI~h---LETYDvt--tIRastpmyLlsr~Ikk~gvkmvlSGEGsDEifggYlYfh------~  355 (543)
T KOG0571         287 HHEHTFTIQEGIDALDEVIYH---LETYDVT--TIRASTPMYLLSRKIKKLGVKMVLSGEGSDEIFGGYLYFH------K  355 (543)
T ss_pred             CEEEEECHHHHHHHHHHHHEE---EECCCCC--EEECCCCHHHHHHHHHHCCEEEEEECCCCHHHHCCEEEEE------C
T ss_conf             238997588877788877424---1013441--5861774678999997655289981577134421121100------3


Q ss_pred             CCCCCCCHHHHHH
Q ss_conf             1017763365899
Q gi|254780999|r  427 NPLKDLYKTQVFQ  439 (562)
Q Consensus       427 ~p~~~l~Kt~v~~  439 (562)
                      +|.+-=..++.-.
T Consensus       356 APs~~~fh~E~~r  368 (543)
T KOG0571         356 APSAEEFHEESVR  368 (543)
T ss_pred             CCCHHHHHHHHHH
T ss_conf             8897898899999


No 81 
>PRK09431 asnB asparagine synthetase B; Provisional
Probab=98.17  E-value=1.9e-05  Score=54.78  Aligned_cols=135  Identities=17%  Similarity=0.188  Sum_probs=76.0

Q ss_pred             HHHHCCHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCCCH------------HHEEEEECCCCCCCCCCHHHHH
Q ss_conf             8642202035888764224540575215872368999999841495------------4467973246666522135699
Q gi|254780999|r  273 EADYNACVLSLRDYVQKNNFHKVIIGLSGGIDSALCAAIAVDALGK------------ENVQTIMLPYKYTSPQSLEDAA  340 (562)
Q Consensus       273 e~~~~Alvlgl~d~~~~~g~~~~viglSGGiDSal~a~la~~alg~------------~~v~~~~mp~~~~s~~s~~~a~  340 (562)
                      +++.+.|.-+++.++..  --.+-+=|||||||+++++||.+-...            .+++++...-..+ + ....|+
T Consensus       210 ~~lr~lL~~AV~~rL~s--DvpvG~~LSGGLDSSlIaala~k~~~~~~~~~~~~~~~~~~l~tFsiG~~~s-~-D~~~Ar  285 (555)
T PRK09431        210 NELREALEAAVKKRLMS--DVPYGVLLSGGLDSSLISAIAKKYAARRIEDDERSEAWWPQLHSFAVGLEGS-P-DLKAAR  285 (555)
T ss_pred             HHHHHHHHHHHHHHHCC--CCCEEEEECCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEECCCCC-C-HHHHHH
T ss_conf             99999999999998356--8862432057706799999999852024433222223467875366047998-1-499999


Q ss_pred             HHHHHHCCCCCCCCHHH--HHHHHHHHHCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHCCC-EECCCCCHHHHHHHHC
Q ss_conf             99997213542677589--9999886313234687431011012330466779888751695-4436432447754110
Q gi|254780999|r  341 ACAKALGCKYDVLPIHD--LVNHFFSLMSQFLQEEPSGIVAENIQSRIRGNILMALSNHSKA-MLLTTSNKSEISVGYG  416 (562)
Q Consensus       341 ~la~~lg~~~~~i~I~~--~~~~~~~~~~~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~~-lvl~t~nksE~~~Gy~  416 (562)
                      ..|+.+|+.|+++.++.  ..+.+.+.+.+. +  ..|.+  .+.|-+-+-+|.-.+...|- +||+=---.|+--||-
T Consensus       286 ~vA~~lgt~h~ei~~t~~d~~~~l~~vi~~l-E--~~d~~--~~~asip~yllsk~i~~~gvKVvLSGeGADELFgGY~  359 (555)
T PRK09431        286 EVADYLGTVHHEIHFTVQEGLDALRDVIYHL-E--TYDVT--TIRASTPMYLMSRKIKAMGIKMVLSGEGADELFGGYL  359 (555)
T ss_pred             HHHHHHCCCCEEEEECHHHHHHHHHHHHHHH-H--CCCCC--CHHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHCCCH
T ss_conf             9999829956599954799999999999874-1--46875--0256899999999999639879992775044104877


No 82 
>TIGR01536 asn_synth_AEB asparagine synthase (glutamine-hydrolyzing); InterPro: IPR006426   These sequences represent glutamine-hydrolysing asparagine synthase. The group have a poorly conserved C-terminal extension while bacterial members of the family tend to have a long, poorly conserved insert lacking from archaeal and eukaryotic sequences. Multiple isozymes have been demonstrated, such as in Bacillus subtilis .; GO: 0004066 asparagine synthase (glutamine-hydrolyzing) activity, 0006529 asparagine biosynthetic process.
Probab=98.10  E-value=1.6e-05  Score=55.35  Aligned_cols=122  Identities=23%  Similarity=0.286  Sum_probs=76.5

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHCCCH------HHEEEEECCCCCCCCCCHH-----------HHHHHHHHHCCCCCCCCH
Q ss_conf             40575215872368999999841495------4467973246666522135-----------699999972135426775
Q gi|254780999|r  293 HKVIIGLSGGIDSALCAAIAVDALGK------ENVQTIMLPYKYTSPQSLE-----------DAAACAKALGCKYDVLPI  355 (562)
Q Consensus       293 ~~~viglSGGiDSal~a~la~~alg~------~~v~~~~mp~~~~s~~s~~-----------~a~~la~~lg~~~~~i~I  355 (562)
                      .-|-+=||||||||++|+||..-++.      ..|+.+...-...+ ...+           -|+++|+.||++|+++.|
T Consensus       312 vpvG~~LSGGlDSS~vaa~a~~~~~~~~~~W~~~~~tFsigf~~~~-~~~~Es~l~P~~D~P~A~~vA~~~G~~h~~~~~  390 (646)
T TIGR01536       312 VPVGVLLSGGLDSSLVAAIARREAPSEGVDWKGPVKTFSIGFEGDS-KDFDESKLRPDDDQPYARKVADELGTEHHEVLI  390 (646)
T ss_pred             CCEEEEEECHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEECCCCC-CCCEECCCCCCCCHHHHHHHHHHHCCCCEEEEE
T ss_conf             6068887171679999999999767643311774347886517787-653002578998618999999984983248984


Q ss_pred             H--HHHHHHHHHHCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHC-CCEECCCCC-HHHHHHHHCCCCC
Q ss_conf             8--999998863132346874310110123304667798887516-954436432-4477541102366
Q gi|254780999|r  356 H--DLVNHFFSLMSQFLQEEPSGIVAENIQSRIRGNILMALSNHS-KAMLLTTSN-KSEISVGYGTLYG  420 (562)
Q Consensus       356 ~--~~~~~~~~~~~~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~-~~lvl~t~n-ksE~~~Gy~T~~G  420 (562)
                      +  +.++.+.+.+-+ ++  ..+.+  ++.|=+=+-+++-++.+. |--|+=+|. -.|+-=||--+.+
T Consensus       391 s~~e~~~~l~~v~~~-~e--~y~p~--~~~~~~P~Yl~s~~ar~~Tg~kV~LSGeGaDElFgGY~~f~~  454 (646)
T TIGR01536       391 SEEEVLKALPEVIYH-LE--TYDPT--AIRASIPLYLLSKLAREDTGVKVVLSGEGADELFGGYEYFRE  454 (646)
T ss_pred             CHHHHHHHHHHHHHH-HC--CCCCC--CCCHHHHHHHHHHHHHHCCCCEEEECCCCHHHHHCCHHHHCC
T ss_conf             589999998887654-24--88543--031123589999999962883899748663555304244214


No 83 
>TIGR03573 WbuX N-acetyl sugar amidotransferase. This enzyme has been implicated in the formation of the acetamido moiety (sugar-NC(=NH)CH3) which is found on some exopolysaccharides and is positively charged at neutral pH. The reaction involves ligation of ammonia with a sugar N-acetyl group, displacing water. In E. coli (O145 strain) and Pseudomonas aeruginosa (O12 strain) this gene is known as wbuX and ifnA respectively and likely acts on sialic acid. In Campylobacter jejuni, the gene is known as pseA and acts on pseudaminic acid in the process of flagellin glycosylation. In other Pseudomonas strains and various organisms it is unclear what the identity of the sugar substrate is, and in fact, the phylogenetic tree of this family sports a considerably deep branching suggestive of possible major differences in substrate structure. Nevertheless, the family is characterized by a conserved tetracysteine motif (CxxC.....[GN]xCxxC) possibly indicative of a metal binding site, as well as an 
Probab=98.09  E-value=1e-05  Score=56.64  Aligned_cols=65  Identities=25%  Similarity=0.345  Sum_probs=57.5

Q ss_pred             EEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHH
Q ss_conf             057521587236899999984149544679732466665221356999999721354267758999
Q gi|254780999|r  294 KVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHDLV  359 (562)
Q Consensus       294 ~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~  359 (562)
                      .+|||+|||-||+-+|.+.+.-+| -|+++|+.-..+.++....+-..+++.||+.+..+.++.-+
T Consensus        61 DCiv~vSGGkDS~y~~~~l~~~~g-l~pL~vt~d~~~~t~~g~~Ni~~l~~~lgvD~i~~~~n~~~  125 (343)
T TIGR03573        61 DCIIGVSGGKDSTYQAHVLKKKLG-LNPLLVTVDPGWNTELGVKNLNNLIKKLGFDLHTITINPET  125 (343)
T ss_pred             CEEEECCCCHHHHHHHHHHHHHHC-CCEEEEEECCCCCCHHHHHHHHHHHHHCCCCEEEECCCHHH
T ss_conf             689868877289999999999829-92599983598779899999999998369985874699999


No 84 
>COG0367 AsnB Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]
Probab=98.09  E-value=2.9e-05  Score=53.65  Aligned_cols=158  Identities=25%  Similarity=0.208  Sum_probs=90.8

Q ss_pred             HHCCHHHHHHHHHHHCC--CCEEEEECCCCCHHHHHHHHHHHCCCHHHE--EEEECCCCCCCCCCHHHHHHHHHHHCCCC
Q ss_conf             42202035888764224--540575215872368999999841495446--79732466665221356999999721354
Q gi|254780999|r  275 DYNACVLSLRDYVQKNN--FHKVIIGLSGGIDSALCAAIAVDALGKENV--QTIMLPYKYTSPQSLEDAAACAKALGCKY  350 (562)
Q Consensus       275 ~~~Alvlgl~d~~~~~g--~~~~viglSGGiDSal~a~la~~alg~~~v--~~~~mp~~~~s~~s~~~a~~la~~lg~~~  350 (562)
                      ..+-+...|++-|.+.-  -..|-+=+|||+|||++|+++....+..-.  ..+-++.  +......-|+..|+.||..|
T Consensus       211 ~~~~l~~~l~~sV~~r~~advpvg~~lSGGlDSS~Iaa~a~~~~~~~~~~~fsvg~~~--~~~~D~~~a~~~A~~lg~~h  288 (542)
T COG0367         211 LAEHLRSLLEDAVKRRLVADVPVGVFLSGGLDSSLIAAIAAEELGKEGKTTFTVGFED--SDSPDAKYARAVAKFLGTPH  288 (542)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCEEEEECCCHHHHHHHHHHHHHHCCCCCEEEEEECCC--CCCCHHHHHHHHHHHHCCCC
T ss_conf             8899999999999866215887899967762299999999986234552158985489--99707999999999859985


Q ss_pred             CCCCHH--HHHHHHHHHHCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHCC-CEECCCCCHHHHHHHHC-CCCCCCCCCC
Q ss_conf             267758--9999988631323468743101101233046677988875169-54436432447754110-2366655540
Q gi|254780999|r  351 DVLPIH--DLVNHFFSLMSQFLQEEPSGIVAENIQSRIRGNILMALSNHSK-AMLLTTSNKSEISVGYG-TLYGDMSGGF  426 (562)
Q Consensus       351 ~~i~I~--~~~~~~~~~~~~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~-~lvl~t~nksE~~~Gy~-T~~GD~~g~~  426 (562)
                      +++.+.  +....+...+.. .+.  ++.    +.+-+=+-+++..+.+.| -+||+=---.|+--||. ..    ....
T Consensus       289 ~~~~~~~~e~~~~~~~vv~~-~~~--p~~----~~~~~ply~~~~~a~~~g~kVvLSGeGADElFgGY~~~~----~~~~  357 (542)
T COG0367         289 HEIILTNEELLNALPEVVKA-LDT--PGG----MAASIPLYLLSRKARAEGEKVVLSGEGADELFGGYPPYS----RFAP  357 (542)
T ss_pred             EEEEECHHHHHHHHHHHHHH-HCC--CCC----CHHHHHHHHHHHHHHHCCCEEEECCCCHHHHHCCCCHHH----HHCC
T ss_conf             79961789999999999987-078--862----004579999998765338789823874888754983554----2045


Q ss_pred             CCCCCCCHHHHHHHHHHHH
Q ss_conf             1017763365899999963
Q gi|254780999|r  427 NPLKDLYKTQVFQLASWRN  445 (562)
Q Consensus       427 ~p~~~l~Kt~v~~la~~~n  445 (562)
                      .+..-+-++....+.++..
T Consensus       358 ~~~~~~~~~~~~~~~~~~~  376 (542)
T COG0367         358 GPEELLNEALRRALALIDY  376 (542)
T ss_pred             CCHHHHHHHHHHHHHHHHH
T ss_conf             6355668999876555654


No 85 
>cd01993 Alpha_ANH_like_II This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily  includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which  binds to Adenosine group.  This subfamily   of proteins is predicted to  bind ATP. This domainhas  a strongly conserved motif SGGKD at the N terminus.
Probab=98.00  E-value=2.4e-05  Score=54.18  Aligned_cols=145  Identities=18%  Similarity=0.266  Sum_probs=81.0

Q ss_pred             EEEEECCCCCHHHHHHHHHHHC---CC-HHHEEEEECCC--CCCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHC
Q ss_conf             0575215872368999999841---49-54467973246--666522135699999972135426775899999886313
Q gi|254780999|r  294 KVIIGLSGGIDSALCAAIAVDA---LG-KENVQTIMLPY--KYTSPQSLEDAAACAKALGCKYDVLPIHDLVNHFFSLMS  367 (562)
Q Consensus       294 ~~viglSGGiDSal~a~la~~a---lg-~~~v~~~~mp~--~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~~~~~~~  367 (562)
                      +++||+|||.||.+.+.+..+-   .+ .-++.++..=.  +..|+...+..+.+|+.+++++..+.+........... 
T Consensus         1 kilva~SGG~DS~~Ll~ll~~~~~~~~~~~~l~~~hvnh~~r~~s~~~~~~v~~~~~~~~i~~~~~~~~~~~~~~~~~~-   79 (185)
T cd01993           1 RILVALSGGKDSLVLLHVLKKLQRRYPYGFELEALTVDEGIPGYRDESLEVVERLAEELGIELEIVSFKEEYTDDIEVK-   79 (185)
T ss_pred             CEEEEECCCHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCCHHHHHHHHHHHHHCCCCEEEEEEEECCCCCHHHH-
T ss_conf             9899965849999999999998886488956999995699888889999999998996299359987640367638999-


Q ss_pred             CCCCCCCCCHHHHCCCCHHHHHHHHHHHHHCCCEECCCCC----HHHHHH-----H--HCCC------CCCCCCC---CC
Q ss_conf             2346874310110123304667798887516954436432----447754-----1--1023------6665554---01
Q gi|254780999|r  368 QFLQEEPSGIVAENIQSRIRGNILMALSNHSKAMLLTTSN----KSEISV-----G--YGTL------YGDMSGG---FN  427 (562)
Q Consensus       368 ~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~n----ksE~~~-----G--y~T~------~GD~~g~---~~  427 (562)
                           .........+-+|+|-..|+.++.+.|.-+|-||.    ..|..+     |  ..++      ..+ .++   +=
T Consensus        80 -----~~~~~~~c~~c~r~Rr~~l~~~~~~~~~~~i~~gHh~dD~~ET~l~~l~rg~~~~~~~~~~~~~~~-~~~i~iiR  153 (185)
T cd01993          80 -----KRGGKSPCSLCGVLRRGLLNKIAKELGADKLATGHNLDDEAETLLMNLLRGGILRLMRPGPILYLD-EGDVTRIR  153 (185)
T ss_pred             -----HHHHCCHHHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHCCCCHHHCCCCCCCCCC-CCCEEEEE
T ss_conf             -----986406346899999999999999819988975330768999999999848970005676633356-89847995


Q ss_pred             CCCCCCHHHHHHHHHHHH
Q ss_conf             017763365899999963
Q gi|254780999|r  428 PLKDLYKTQVFQLASWRN  445 (562)
Q Consensus       428 p~~~l~Kt~v~~la~~~n  445 (562)
                      |+-+++|.++++.|+..+
T Consensus       154 PLL~~~k~ei~~y~~~~~  171 (185)
T cd01993         154 PLVYVREKEIVLYAELNG  171 (185)
T ss_pred             CCCCCCHHHHHHHHHHCC
T ss_conf             498898999999999879


No 86 
>pfam01171 ATP_bind_3 PP-loop family. This family of proteins belongs to the PP-loop superfamily.
Probab=97.99  E-value=2.8e-05  Score=53.70  Aligned_cols=137  Identities=18%  Similarity=0.249  Sum_probs=77.0

Q ss_pred             EEEEECCCCCHHHHHHHHHHHC---CCHHHEEEEEC--CCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCC
Q ss_conf             0575215872368999999841---49544679732--466665221356999999721354267758999998863132
Q gi|254780999|r  294 KVIIGLSGGIDSALCAAIAVDA---LGKENVQTIML--PYKYTSPQSLEDAAACAKALGCKYDVLPIHDLVNHFFSLMSQ  368 (562)
Q Consensus       294 ~~viglSGGiDSal~a~la~~a---lg~~~v~~~~m--p~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~~~~~~~~  368 (562)
                      +++||+|||.||.+.+.+..+.   .+ -++.++..  .-+..|.......+..|+.+|+++.+..++..         .
T Consensus         1 ki~vavSGG~DS~~Ll~~l~~~~~~~~-~~~~~~hvnh~lr~~s~~~~~~v~~~~~~~~i~~~i~~~~~~---------~   70 (182)
T pfam01171         1 KILVAVSGGPDSMALLYLLKKLKPKFG-IDLTAAHVDHGLREESDREAQFVKELCRQLNIPLEVLRVDVA---------K   70 (182)
T ss_pred             CEEEEECCCHHHHHHHHHHHHHHHHCC-CCEEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEEECC---------C
T ss_conf             999996785999999999999999759-978999987998654058999999999985997599997347---------6


Q ss_pred             CCCCCCCCHHHHCCCCHHHHHHHHHHHHHCCCEECCCC----CHHHHHH-----H--HCCCCC-------CCCCCCCCCC
Q ss_conf             34687431011012330466779888751695443643----2447754-----1--102366-------6555401017
Q gi|254780999|r  369 FLQEEPSGIVAENIQSRIRGNILMALSNHSKAMLLTTS----NKSEISV-----G--YGTLYG-------DMSGGFNPLK  430 (562)
Q Consensus       369 ~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~----nksE~~~-----G--y~T~~G-------D~~g~~~p~~  430 (562)
                           ......|..--+.|=..|..+|.+.|.-++-||    |..|..+     |  ...+.|       +..--+=|+-
T Consensus        71 -----~~~~~~e~~aR~~Ry~~l~~~a~~~~~~~i~lgHh~DD~~ET~lm~l~rG~~~~gl~gm~~~~~~~~~~iiRPLl  145 (182)
T pfam01171        71 -----KSGLNLEEAAREARYDFFEEIAKKNGAEVLLTAHHADDQAETFLMRLLRGSGLAGLAGIAPVRPLAGGRIVRPLL  145 (182)
T ss_pred             -----CCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEEECCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCEEECCCC
T ss_conf             -----678777578999999999998986176648874342329999999997289811033887513468943870211


Q ss_pred             CCCHHHHHHHHHHHH
Q ss_conf             763365899999963
Q gi|254780999|r  431 DLYKTQVFQLASWRN  445 (562)
Q Consensus       431 ~l~Kt~v~~la~~~n  445 (562)
                      .++|.+++++|+..+
T Consensus       146 ~~~k~ei~~~a~~~~  160 (182)
T pfam01171       146 KVTKSEIEEYLKEHG  160 (182)
T ss_pred             CCCHHHHHHHHHHCC
T ss_conf             488999999999869


No 87 
>PRK01269 thiamine biosynthesis protein ThiI; Provisional
Probab=97.88  E-value=6.4e-05  Score=51.36  Aligned_cols=185  Identities=16%  Similarity=0.223  Sum_probs=103.4

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEEC--CCCCCCCCCHHHHHHHHHHHC----CCCCCCCHHHHHHHHHHHH
Q ss_conf             4057521587236899999984149544679732--466665221356999999721----3542677589999988631
Q gi|254780999|r  293 HKVIIGLSGGIDSALCAAIAVDALGKENVQTIML--PYKYTSPQSLEDAAACAKALG----CKYDVLPIHDLVNHFFSLM  366 (562)
Q Consensus       293 ~~~viglSGGiDSal~a~la~~alg~~~v~~~~m--p~~~~s~~s~~~a~~la~~lg----~~~~~i~I~~~~~~~~~~~  366 (562)
                      .+++.=+||||||.|++-+.-+. |. +|+.+..  ++..+...-++-|+.|++..|    +++..+|.++++.......
T Consensus       178 GkvL~LlSGGiDSPVAa~~mmKR-G~-~v~~l~F~lg~~~~e~~V~~va~~L~~~~~~~~~vr~~~V~f~~v~~eI~~~v  255 (483)
T PRK01269        178 EDVLSLISGGFDSGVASYMLMRR-GS-RVHYCFFNLGGAAHEIGVKQVAHYLWNRYGSSHRVRFISVDFEPVVGEILEKV  255 (483)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHC-CC-EEEEEEECCCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEECCHHHHHHHHHHC
T ss_conf             86899952788838889999845-98-79999957998688999999999999973888870899976799999998738


Q ss_pred             CCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHCCCEECCCCCH-----HHHHHHHCCCC-CCCCCCCCCCCCCCHHHHHHH
Q ss_conf             323468743101101233046677988875169544364324-----47754110236-665554010177633658999
Q gi|254780999|r  367 SQFLQEEPSGIVAENIQSRIRGNILMALSNHSKAMLLTTSNK-----SEISVGYGTLY-GDMSGGFNPLKDLYKTQVFQL  440 (562)
Q Consensus       367 ~~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~nk-----sE~~~Gy~T~~-GD~~g~~~p~~~l~Kt~v~~l  440 (562)
                      .+    ....+.    .=|.=+-+--.+|.+.|+..|-||.-     |.-.-.-.+.. +-..-=+-|+-...|.++-++
T Consensus       256 ~~----~~~~vv----~KR~M~R~A~~iA~~~g~~ALVTGESLGQVASQTL~NL~~i~~~~~~pVlRPLIg~DK~eII~~  327 (483)
T PRK01269        256 DN----GQMGVV----LKRMMLRAASKVAERYGIQALVTGEALGQVSSQTLTNLRLIDNVTDTLILRPLIAMDKEDIIDL  327 (483)
T ss_pred             CH----HHEEHH----HHHHHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHH
T ss_conf             76----344399----9999999999999985998898555034567767878899887407740047667988999999


Q ss_pred             HHHHHHCCCCCCCCCCCCCCCH--HHCCCCCCCCCCCCCCCCCCCC-CHHHHHHHHH
Q ss_conf             9996310332223444466887--8828898845389997700068-8788999999
Q gi|254780999|r  441 ASWRNSHGITSGLGPLTEVIPP--SILEKSPSAELRPHQTDQESLP-PYPILDDIIK  494 (562)
Q Consensus       441 a~~~n~~~~~~~~~~~~~~ip~--~i~~~~psaeL~~~Q~ded~l~-~Y~~lD~il~  494 (562)
                      ||-+++.-..       +-+||  .++.+.|+.--.+....+++-- ++++||..++
T Consensus       328 Ar~IGTye~s-------~~~pEyCgvis~~P~~~a~~~~ie~ee~~fd~~vl~~~v~  377 (483)
T PRK01269        328 ARQIGTEDFA-------KTMPEYCGVISKKPTVKAVKEKIEAEEKKFDFAILDRVVE  377 (483)
T ss_pred             HHHHCHHHHH-------CCCCCCEEECCCCCCCCCCHHHHHHHHHHCCHHHHHHHHH
T ss_conf             9983928776-------0368650512689836558999899987199999999998


No 88 
>PRK01565 thiamine biosynthesis protein ThiI; Provisional
Probab=97.87  E-value=0.00017  Score=48.56  Aligned_cols=144  Identities=19%  Similarity=0.241  Sum_probs=89.7

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHCCCHHHEEEE-ECCCCCCCCCCHHHHHHHHHHH-----CCCCCCCCHHHHHHHHHHHH
Q ss_conf             40575215872368999999841495446797-3246666522135699999972-----13542677589999988631
Q gi|254780999|r  293 HKVIIGLSGGIDSALCAAIAVDALGKENVQTI-MLPYKYTSPQSLEDAAACAKAL-----GCKYDVLPIHDLVNHFFSLM  366 (562)
Q Consensus       293 ~~~viglSGGiDSal~a~la~~alg~~~v~~~-~mp~~~~s~~s~~~a~~la~~l-----g~~~~~i~I~~~~~~~~~~~  366 (562)
                      .++++=|||||||.|++-+..+. |- .|..+ +....++++.+++-++.|++.|     ++++.++|.+++........
T Consensus       177 Gk~l~LlSGGIDSPVAa~~mmkR-G~-~v~~v~f~~~p~t~~~a~~kv~~l~~~L~~y~~~~kl~~v~f~~~~~~i~~~~  254 (399)
T PRK01565        177 GKALLLLSGGIDSPVAGYLAMKR-GV-EIEAVHFHSPPYTSERAKEKVIDLARILAKYGGRIKLHVVPFTEIQEEIKKKV  254 (399)
T ss_pred             CCEEEEECCCCCHHHHHHHHHHC-CC-EEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHCC
T ss_conf             85799861787539999999855-98-79999986899877899999999999999728885599966399999998608


Q ss_pred             CCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHCCCEECCCCCH-----HHHHHH-HCCCCCCCCCCCCCCCCCCHHHHHHH
Q ss_conf             323468743101101233046677988875169544364324-----477541-10236665554010177633658999
Q gi|254780999|r  367 SQFLQEEPSGIVAENIQSRIRGNILMALSNHSKAMLLTTSNK-----SEISVG-YGTLYGDMSGGFNPLKDLYKTQVFQL  440 (562)
Q Consensus       367 ~~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~nk-----sE~~~G-y~T~~GD~~g~~~p~~~l~Kt~v~~l  440 (562)
                      .+    ...-+.    .=|.=+-+--.+|.+.|+..|-||.-     |.-.-. +++-.+-..--+-|+-+..|.++-++
T Consensus       255 ~~----~~~~vl----~RR~M~riA~~iA~~~~~~alvTGESLGQVASQTl~Nl~~i~~~~~~pVlRPLIg~DK~EII~~  326 (399)
T PRK01565        255 PE----SYLMTL----MRRFMMRIADKIAEKRGALAIVTGESLGQVASQTLESMQAINAVTNLPVLRPLIGMDKEEIIEI  326 (399)
T ss_pred             CC----CEEEHH----HHHHHHHHHHHHHHHCCCCEEEECCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHH
T ss_conf             80----038599----9999999999999985997898241355676755677888875217754466557898999999


Q ss_pred             HHHHHH
Q ss_conf             999631
Q gi|254780999|r  441 ASWRNS  446 (562)
Q Consensus       441 a~~~n~  446 (562)
                      ||-++.
T Consensus       327 Ar~IGT  332 (399)
T PRK01565        327 AKEIGT  332 (399)
T ss_pred             HHHCCC
T ss_conf             987096


No 89 
>cd01996 Alpha_ANH_like_III This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily  includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which  binds to Adenosine group.  This subfamily   of proteins is predicted to  bind ATP. This domain has  a strongly conserved motif SGGKD at the N terminus.
Probab=97.84  E-value=4e-05  Score=52.71  Aligned_cols=64  Identities=25%  Similarity=0.359  Sum_probs=53.2

Q ss_pred             EEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHH
Q ss_conf             057521587236899999984149544679732466665221356999999721354267758999
Q gi|254780999|r  294 KVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHDLV  359 (562)
Q Consensus       294 ~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~  359 (562)
                      .++||+|||-||+.+|.++++-.|- |+++|+....+.++...++.+.+++. |+.+..+.+++-.
T Consensus         3 DcIVpvSGGKDS~y~~~~lk~kygl-npL~Vt~~~~~~t~~g~~Nl~nl~~~-g~D~~~~~~~~~~   66 (154)
T cd01996           3 DCIIGVSGGKDSSYALYLLKEKYGL-NPLAVTVDNGFNSEEAVKNIKNLIKK-GLDLDHLVINPEE   66 (154)
T ss_pred             CEEEECCCCHHHHHHHHHHHHHHCC-CEEEEEECCCCCCHHHHHHHHHHHHC-CCCEEEEECCHHH
T ss_conf             7899688881899999999999499-65999967987546899999999974-9981699328889


No 90 
>cd01713 PAPS_reductase This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly modified version of the P loop, the fingerprint peptide of mononucleotide-binding proteins, is present in the active site of the protein, which appears to be a positively charged cleft containing a number of conserved arginine and lysine residues. Although PAPS reductase has no ATPase activity, it shows a striking similarity to the structure of the ATP pyrophosphatase (ATP PPase) domain of GMP synthetase, indicating that both enzyme families have evolved from a common ancestral nucleotide-binding fold.   The enzyme uses thioredoxin as an electron donor for the reduction of PAPS to phospho-adenosine-phosphate (PAP) . It is also found in NodP nodulation protein P from Rhizobium meliloti which has ATP sulphurylase acti
Probab=97.77  E-value=0.00015  Score=48.86  Aligned_cols=149  Identities=19%  Similarity=0.135  Sum_probs=82.1

Q ss_pred             EEEEECCCCCHHHHHHHHHHHCCCH-HHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCCCC
Q ss_conf             0575215872368999999841495-446797324666652213569999997213542677589999988631323468
Q gi|254780999|r  294 KVIIGLSGGIDSALCAAIAVDALGK-ENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHDLVNHFFSLMSQFLQE  372 (562)
Q Consensus       294 ~~viglSGGiDSal~a~la~~alg~-~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~~~~~~~~~~~~  372 (562)
                      .++++.|||-||++++.|+.++..+ .++..+..-+.+.-+++.+-.+++++.+|.+...+...................
T Consensus         1 ~~~vsfSGGKDS~vll~L~~~~~~~~~~~~vvf~DTg~e~pet~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (173)
T cd01713           1 NVVVSFSGGKDSTVLLHLALKALPELKPVPVIFLDTGYEFPETYEFVDRVAERYGLPLVVVRPPDSPAEGLALGLKGFPL   80 (173)
T ss_pred             CEEEEECCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHHCCCCCC
T ss_conf             95999646499999999999966555883799968889898999999999987399079996897289999861357799


Q ss_pred             CCCCHHHHCCCCHHH-HHHHHHHHHHCCCEECCCCC-HHHHHHHH------CCCCCCCCCCCCCCCCCCHHHHHHHHHHH
Q ss_conf             743101101233046-67798887516954436432-44775411------02366655540101776336589999996
Q gi|254780999|r  373 EPSGIVAENIQSRIR-GNILMALSNHSKAMLLTTSN-KSEISVGY------GTLYGDMSGGFNPLKDLYKTQVFQLASWR  444 (562)
Q Consensus       373 ~~~~~~~eN~qaR~R-~~~L~~~an~~~~lvl~t~n-ksE~~~Gy------~T~~GD~~g~~~p~~~l~Kt~v~~la~~~  444 (562)
                      ...+...  --...+ .++-.++.+ .+.-+.-+|- ++|..--.      .....+..--++||.|-...+|+...+..
T Consensus        81 ~~~~~~~--c~~~~K~~P~~~~~~~-~~~~~~~~GiR~~Es~~R~~~~~~~~~~~~~~~~~~~Pi~~Wt~~dVw~yi~~~  157 (173)
T cd01713          81 PSPDRRW--CCRILKVEPLRRALKE-LGVVAWITGIRRDESARRALLPVVWTDDGKGGILKVNPLLDWTYEDVWAYLARH  157 (173)
T ss_pred             CCCCHHH--HHHHHHHHHHHHHHHH-CCCCEEEEECCCCCCHHHCCCCCCCCCCCCCCEEEEECHHHCCHHHHHHHHHHC
T ss_conf             8322688--9888807899999983-298289994121462444437623432688998999322859999999999983


Q ss_pred             H
Q ss_conf             3
Q gi|254780999|r  445 N  445 (562)
Q Consensus       445 n  445 (562)
                      +
T Consensus       158 ~  158 (173)
T cd01713         158 G  158 (173)
T ss_pred             C
T ss_conf             9


No 91 
>PRK13795 hypothetical protein; Provisional
Probab=97.77  E-value=0.00045  Score=45.85  Aligned_cols=155  Identities=19%  Similarity=0.187  Sum_probs=86.7

Q ss_pred             HHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHH
Q ss_conf             58887642245405752158723689999998414954467973246666522135699999972135426775899999
Q gi|254780999|r  282 SLRDYVQKNNFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHDLVNH  361 (562)
Q Consensus       282 gl~d~~~~~g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~  361 (562)
                      .+|+-..+.+. .+.|..|||=||++++.||.+|++.  +.++..-+-.--++|.+.++..++.+|+++.+.+-...+-.
T Consensus       236 fir~~~~~~~~-pv~VsfSGGKDS~v~L~La~ka~~~--~~~~f~dTglEfPeT~e~v~~~~~~~gi~~~~~~a~~~fw~  312 (630)
T PRK13795        236 FIREVAEKYNL-PVVVSFSGGKDSLVVLDLAAEALRK--FKAFFNNTGLEFPETVENVKEVAEEYGVELIVADAGDAFWR  312 (630)
T ss_pred             HHHHHHHHCCC-CEEEECCCCHHHHHHHHHHHHHCCC--EEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEECCCHHHHH
T ss_conf             99987875489-7599526868999999999985498--28999507767646999999999986981899656367888


Q ss_pred             HHHHHCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHCC-CEECCCCCH-HHHHHHH-------CCCCCCCCCCCCCCCCC
Q ss_conf             88631323468743101101233046677988875169-544364324-4775411-------02366655540101776
Q gi|254780999|r  362 FFSLMSQFLQEEPSGIVAENIQSRIRGNILMALSNHSK-AMLLTTSNK-SEISVGY-------GTLYGDMSGGFNPLKDL  432 (562)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~-~lvl~t~nk-sE~~~Gy-------~T~~GD~~g~~~p~~~l  432 (562)
                      ....+++.    ..|.--=. ...=-+++.-++-+..+ +.+.=.|++ .|...-.       .++.+- .-..+||-+=
T Consensus       313 ~~~~~GpP----~rd~RWCc-kv~Kl~pl~~~i~~~~~~~~l~~~G~R~~ES~~R~~~~rv~~n~~i~~-q~~a~PI~~W  386 (630)
T PRK13795        313 AIEKFGPP----ARDYRWCC-KVCKLGPITRAIKSNFPQGCLSFVGQRKYESFARAKSPRVWRNPWVPN-QIGAAPIQDW  386 (630)
T ss_pred             HHHHCCCC----CCCCCCCC-CCCCCHHHHHHHHHHCCCCEEEEEECCHHHHHHHHCCCCCCCCCCCCC-EEEEECHHCC
T ss_conf             88874999----65564355-431005799999975899629998552466376604886144778777-2687203317


Q ss_pred             CHHHHHHHHHHHH
Q ss_conf             3365899999963
Q gi|254780999|r  433 YKTQVFQLASWRN  445 (562)
Q Consensus       433 ~Kt~v~~la~~~n  445 (562)
                      +-.+|+-..-+.+
T Consensus       387 s~~~VwLYi~~~~  399 (630)
T PRK13795        387 TALEVWLYIFSRK  399 (630)
T ss_pred             CHHHHHHHHHHCC
T ss_conf             3869999998848


No 92 
>cd01995 ExsB ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large ( 1000 genes) prokaryotic genome. In Rhizobium meliloti, a species in which the exo genes make succinoglycan, a symbiotically important exopolysaccharide, exsB is located nearby and affects succinoglycan levels, probably through polar effects on exsA expression or the same polycistronic mRNA. In Arthrobacter viscosus, the homologous gene is designated ALU1 and is associated with an aluminum tolerance phenotype. The function is unknown
Probab=97.70  E-value=0.0003  Score=46.94  Aligned_cols=52  Identities=33%  Similarity=0.436  Sum_probs=38.4

Q ss_pred             EEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHC
Q ss_conf             057521587236899999984149544679732466665221356999999721
Q gi|254780999|r  294 KVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALG  347 (562)
Q Consensus       294 ~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg  347 (562)
                      ++||=+|||+||++.++.+.+.-  ..|++++.-.---.....+.|+.+|+.||
T Consensus         1 kavvllSGGlDSt~~l~~~~~~g--~~v~~l~~dYGQr~~~E~~~a~~i~~~l~   52 (169)
T cd01995           1 KAVVLLSGGLDSTTCLAWAKKEG--YEVHALSFDYGQRHAKEEEAAKLIAEKLG   52 (169)
T ss_pred             CEEEEECCCHHHHHHHHHHHHCC--CEEEEEEEECCCCHHHHHHHHHHHHHHHC
T ss_conf             98999078788999999999849--96999997569854999999999999968


No 93 
>cd01992 PP-ATPase N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily  includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which  binds to Adenosine group.  This domain has  a strongly conserved motif SGGXD at the N terminus.
Probab=97.69  E-value=0.00019  Score=48.21  Aligned_cols=138  Identities=17%  Similarity=0.173  Sum_probs=74.1

Q ss_pred             EEEEECCCCCHHHHHHHHHHHCCC--HHHEEEEECCCCC--CCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCC
Q ss_conf             057521587236899999984149--5446797324666--652213569999997213542677589999988631323
Q gi|254780999|r  294 KVIIGLSGGIDSALCAAIAVDALG--KENVQTIMLPYKY--TSPQSLEDAAACAKALGCKYDVLPIHDLVNHFFSLMSQF  369 (562)
Q Consensus       294 ~~viglSGGiDSal~a~la~~alg--~~~v~~~~mp~~~--~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~~~~~~~~~  369 (562)
                      +++||+|||.||.+.+.++.+.-.  .-++.++..=...  .|....+..+..|+.+|+++.+..+..            
T Consensus         1 ki~vavSGG~DS~~Ll~~l~~~~~~~~~~l~a~hvdh~lr~~s~~~~~~v~~~~~~~~i~~~i~~~~~------------   68 (185)
T cd01992           1 KILVAVSGGPDSMALLHLLSELKPRLGLRLVAVHVDHGLRPESDEEAAFVADLCAKLGIPLYILVVAL------------   68 (185)
T ss_pred             CEEEEECCCHHHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEEE------------
T ss_conf             99999678499999999999999974994899998189888888999999999998599889999775------------


Q ss_pred             CCCCCCCHHHHCCCCHHHHHHHHHHHHHCCCEECCCCC----HHHHHH-------HHCCCCC-------CCCCCCCCCCC
Q ss_conf             46874310110123304667798887516954436432----447754-------1102366-------65554010177
Q gi|254780999|r  370 LQEEPSGIVAENIQSRIRGNILMALSNHSKAMLLTTSN----KSEISV-------GYGTLYG-------DMSGGFNPLKD  431 (562)
Q Consensus       370 ~~~~~~~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~n----ksE~~~-------Gy~T~~G-------D~~g~~~p~~~  431 (562)
                       . .......|+.--+.|-..+..++.+.|.-.+-||.    ..|-.+       |...+-|       +..--+=|+-+
T Consensus        69 -~-~~~~~~~e~~aR~~Ry~~l~~~~~~~~~~~i~lgHh~dD~~ET~lm~l~rg~~~~gl~gm~~~~~~~~~~iiRPLL~  146 (185)
T cd01992          69 -A-PKPGGNLEAAAREARYDFFAEIAKEHGADVLLTAHHADDQAETVLMRLLRGSGLRGLAGMPARIPFGGGRLIRPLLG  146 (185)
T ss_pred             -C-CCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEECCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCEEEEHHHH
T ss_conf             -3-67899999999999999999999873545042036303689999999871899641527784135799528715778


Q ss_pred             CCHHHHHHHHHHHH
Q ss_conf             63365899999963
Q gi|254780999|r  432 LYKTQVFQLASWRN  445 (562)
Q Consensus       432 l~Kt~v~~la~~~n  445 (562)
                      ++|.++++.|+..+
T Consensus       147 ~~k~ei~~~~~~~~  160 (185)
T cd01992         147 ITRAEIEAYLRENG  160 (185)
T ss_pred             HHHHHHHHHHHHCC
T ss_conf             53999999999849


No 94 
>PRK08349 hypothetical protein; Validated
Probab=97.65  E-value=0.00057  Score=45.17  Aligned_cols=144  Identities=15%  Similarity=0.143  Sum_probs=75.8

Q ss_pred             EEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHH----HHHCCC---CCCCCHHHHHHHHHHHH
Q ss_conf             05752158723689999998414954467973246666522135699999----972135---42677589999988631
Q gi|254780999|r  294 KVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACA----KALGCK---YDVLPIHDLVNHFFSLM  366 (562)
Q Consensus       294 ~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la----~~lg~~---~~~i~I~~~~~~~~~~~  366 (562)
                      +++.=+||||||.|+|.+..+. |- +|.++.+   .+++.+.+.+..++    +..|-.   +..++.......+...+
T Consensus         2 Kvl~LlSGGiDSPVAa~~mmKR-G~-~V~~lhf---~~~~~~~~kv~~~~~~L~~~~~~~~~~~~iv~~~~~~~~i~~~i   76 (198)
T PRK08349          2 KVVALLSSGIDSPVAIYLMLSR-GV-EIYPLHF---RQDEKKEHKARELVEILQEIHGGKVKDPVIVDAYEVQGPVFEKL   76 (198)
T ss_pred             EEEEEECCCCCHHHHHHHHHHC-CC-EEEEEEE---CCCHHHHHHHHHHHHHHHHHCCCCCCEEEEECCHHHHHHHHHHH
T ss_conf             4999965884389999999977-99-7999986---38778899999999999997088875289977225328999999


Q ss_pred             CCCCCCCCCCHHHHCCCCHHHH-HHHHHHHHHCCCEECCCCCH-----HHHHHH-HCCCCCCCCCCCCCCCCCCHHHHHH
Q ss_conf             3234687431011012330466-77988875169544364324-----477541-1023666555401017763365899
Q gi|254780999|r  367 SQFLQEEPSGIVAENIQSRIRG-NILMALSNHSKAMLLTTSNK-----SEISVG-YGTLYGDMSGGFNPLKDLYKTQVFQ  439 (562)
Q Consensus       367 ~~~~~~~~~~~~~eN~qaR~R~-~~L~~~an~~~~lvl~t~nk-----sE~~~G-y~T~~GD~~g~~~p~~~l~Kt~v~~  439 (562)
                      .........     .+--|--| -+--.+|.+.|+..+-||.-     |.-.-. +.+-.+-..--+-|+-+..|.++-+
T Consensus        77 ~~~~~~~~~-----~vl~rr~M~riA~~iA~~~g~~aivTGEsLGQVASQTl~NL~~i~~~~~~pVlRPLig~DK~EII~  151 (198)
T PRK08349         77 REIGKEKWT-----CLFCKYTMYRVAERYAHEIGAKAIVTGDSLGQVASQTLDNLMVISTATDLPILRPLIGLDKEEIVR  151 (198)
T ss_pred             HHCCCCCCE-----EHHHHHHHHHHHHHHHHHCCCCEEEECCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHH
T ss_conf             860776513-----099999999999999998599889845216788899998899998750676647766799899999


Q ss_pred             HHHHHHHC
Q ss_conf             99996310
Q gi|254780999|r  440 LASWRNSH  447 (562)
Q Consensus       440 la~~~n~~  447 (562)
                      +||-++..
T Consensus       152 ~Ar~IGTy  159 (198)
T PRK08349        152 IAKEIGTF  159 (198)
T ss_pred             HHHHHCCH
T ss_conf             99981955


No 95 
>PRK13794 hypothetical protein; Provisional
Probab=97.57  E-value=0.00051  Score=45.46  Aligned_cols=75  Identities=20%  Similarity=0.236  Sum_probs=56.9

Q ss_pred             HHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHH
Q ss_conf             03588876422454057521587236899999984149544679732466665221356999999721354267758
Q gi|254780999|r  280 VLSLRDYVQKNNFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIH  356 (562)
Q Consensus       280 vlgl~d~~~~~g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~  356 (562)
                      +-.+|+-+.+.+. .+.|.-|||=||++++.||.+|+|++ +.++..-+-.--++|.+..+..++.+|++.....=.
T Consensus       234 v~fir~~~~~~~~-pv~VSfSGGKDS~v~L~La~ka~~~~-~~vvF~DTglEfPeT~e~ve~v~~~~gv~ii~~~~~  308 (473)
T PRK13794        234 IGFMRNTIVKIGK-PPSVAYSGGKDSLATLLLALKAFGNE-FPVLFADTGLEFPETLENVEDVEELYGLEIIRTSSG  308 (473)
T ss_pred             HHHHHHHHHHCCC-CEEEEECCCHHHHHHHHHHHHHCCCC-EEEEEEECCCCCHHHHHHHHHHHHHHCCCEEEECCC
T ss_conf             9999999986699-83997068689999999999860897-169996088876769999999999859878991564


No 96 
>PRK00509 argininosuccinate synthase; Provisional
Probab=97.40  E-value=0.0089  Score=37.36  Aligned_cols=179  Identities=16%  Similarity=0.157  Sum_probs=96.3

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCCCHHHHHH-HHH-HHHC-
Q ss_conf             540575215872368999999841495446797324666652213569999997213-542677589999-988-6313-
Q gi|254780999|r  292 FHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGC-KYDVLPIHDLVN-HFF-SLMS-  367 (562)
Q Consensus       292 ~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~-~~~~i~I~~~~~-~~~-~~~~-  367 (562)
                      .++||+.-|||+|+++++....+-.|. .|++++.-. .+ .+..+..++-|..+|. ++.++|....+- .+. ..+. 
T Consensus         2 ~kKVvLAySGGLDTSv~l~wL~e~yg~-eVia~~~d~-Gq-~~d~~~i~~kA~~~GA~~~~v~D~r~ef~~~~i~p~I~a   78 (398)
T PRK00509          2 VKKVVLAYSGGLDTSVIIKWLKEEYGC-EVVAFTADV-GQ-GEELEPIREKALASGASEIYVEDLREEFVRDYVFPAIRA   78 (398)
T ss_pred             CCEEEEEECCCCHHHHHHHHHHHHCCC-EEEEEEEEC-CC-HHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHHC
T ss_conf             854999908984599999999875398-899999979-88-778899999999829978999630999999999999960


Q ss_pred             CCCCCCCCCHHHHCCC--CHHH-HHHHHHHHHHCCCEEC-----CCCC-HHHHHHHHCCCCCCCCCCCCCCCCC---CHH
Q ss_conf             2346874310110123--3046-6779888751695443-----6432-4477541102366655540101776---336
Q gi|254780999|r  368 QFLQEEPSGIVAENIQ--SRIR-GNILMALSNHSKAMLL-----TTSN-KSEISVGYGTLYGDMSGGFNPLKDL---YKT  435 (562)
Q Consensus       368 ~~~~~~~~~~~~eN~q--aR~R-~~~L~~~an~~~~lvl-----~t~n-ksE~~~Gy~T~~GD~~g~~~p~~~l---~Kt  435 (562)
                      +.+    ..-.+-..-  ||-- .--+..+|.+.|+-.+     |-|| .--+-+++.++.-+ .--++|+-|.   ..+
T Consensus        79 na~----Yeg~YpL~tslaRplia~~~ve~A~~~ga~aiaHG~TGkGNDQvRFe~~~~aL~P~-l~iiaP~Rd~~~~sR~  153 (398)
T PRK00509         79 NAL----YEGKYPLGTALARPLIAKKLVEIARKEGADAVAHGCTGKGNDQVRFELAIAALAPD-LKVIAPWREWDLMSRE  153 (398)
T ss_pred             CCC----CCCCEEEECCCHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCHHHHHHHHHHHCCC-CEEEEEEECCCCCCHH
T ss_conf             854----55854552203188999999999997198599854556786089999999985999-7686113213416899


Q ss_pred             HHHHHHHHHHHCCCCCCC--------------------CCCCCCCCHHHCCCCCCCCCCCCCCC
Q ss_conf             589999996310332223--------------------44446688788288988453899977
Q gi|254780999|r  436 QVFQLASWRNSHGITSGL--------------------GPLTEVIPPSILEKSPSAELRPHQTD  479 (562)
Q Consensus       436 ~v~~la~~~n~~~~~~~~--------------------~~~~~~ip~~i~~~~psaeL~~~Q~d  479 (562)
                      +.-+.|+-.+=..+....                    .| ....|+++.....+++..|+..+
T Consensus       154 ~~i~ya~~~gIpv~~~~~~~yS~D~NLwg~S~Egg~Ledp-~~~ppe~~~~~t~~p~~ap~~pe  216 (398)
T PRK00509        154 ELIAYAEEHGIPIPVTKKSPYSIDANLWHRSIEGGVLEDP-WNEPPEDVYEWTVSPEDAPDEPE  216 (398)
T ss_pred             HHHHHHHHCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCC-CCCCCHHHHHCCCCHHHCCCCCE
T ss_conf             9999999869988877788730256613210156754686-53450657535699778899975


No 97 
>PRK08576 hypothetical protein; Provisional
Probab=97.31  E-value=0.00082  Score=44.13  Aligned_cols=72  Identities=22%  Similarity=0.299  Sum_probs=57.5

Q ss_pred             HHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHH
Q ss_conf             88876422454057521587236899999984149544679732466665221356999999721354267758
Q gi|254780999|r  283 LRDYVQKNNFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIH  356 (562)
Q Consensus       283 l~d~~~~~g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~  356 (562)
                      -.+++++.+-..++|..|||=||+.++.||.+|++  +|.+|..-+-.--++|.+..+.+++.+|++....+.+
T Consensus       226 s~~fL~~~~~~~iiVp~SGGKDStA~LlLA~ea~~--dv~aVfvDTGlEfPeT~eyVe~va~klGv~lv~a~~d  297 (439)
T PRK08576        226 SIEFLEKFGEYTIIVPWSGGKDSTAALLLALKAFD--EVTAVYVDTGYEMPLTDEYVEKVAEKLGVDLIRAGVD  297 (439)
T ss_pred             HHHHHHHCCCCCEEEECCCCHHHHHHHHHHHHHHC--CEEEEEEECCCCCHHHHHHHHHHHHHHCCEEEEECCC
T ss_conf             99999962898889956887799999999998618--8369997079865758999999999859769994788


No 98 
>PRK08557 hypothetical protein; Provisional
Probab=97.28  E-value=0.0015  Score=42.46  Aligned_cols=73  Identities=22%  Similarity=0.334  Sum_probs=54.8

Q ss_pred             HHHHHHHHHCCCC--EEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCH
Q ss_conf             3588876422454--05752158723689999998414954467973246666522135699999972135426775
Q gi|254780999|r  281 LSLRDYVQKNNFH--KVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPI  355 (562)
Q Consensus       281 lgl~d~~~~~g~~--~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I  355 (562)
                      -.++....+..-+  -|.|..|||=||++++.||.+|++.  +..+..-+-.--++|.+..+..++.+|++..++.=
T Consensus       170 ~fir~~~~k~~~~~~pV~VSfSGGKDS~a~L~La~~a~~~--~~vvF~DTGlEfPeT~eyve~~~~~~~~~l~~~~~  244 (420)
T PRK08557        170 EILQDYVEKYKRKGYAINASFSGGKDSAVSTLLSKEVIPD--LDVVFIDTGLEYPETLNYVKDFAKKYDINLDTVDG  244 (420)
T ss_pred             HHHHHHHHHHCCCCCCEEEEECCCHHHHHHHHHHHHHCCC--CEEEEECCCCCCHHHHHHHHHHHHHCCCCEEEECC
T ss_conf             9999999971667974699606878999999999985488--16999628877723899999999980996799654


No 99 
>PRK10696 C32 tRNA thiolase; Provisional
Probab=97.18  E-value=0.0014  Score=42.65  Aligned_cols=162  Identities=17%  Similarity=0.201  Sum_probs=86.5

Q ss_pred             HHCCHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHC---CC-HHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCC
Q ss_conf             42202035888764224540575215872368999999841---49-544679732466665221356999999721354
Q gi|254780999|r  275 DYNACVLSLRDYVQKNNFHKVIIGLSGGIDSALCAAIAVDA---LG-KENVQTIMLPYKYTSPQSLEDAAACAKALGCKY  350 (562)
Q Consensus       275 ~~~Alvlgl~d~~~~~g~~~~viglSGGiDSal~a~la~~a---lg-~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~  350 (562)
                      +.+...-++.||=-=..-.+|+||||||-||...+.+...-   .+ .=.+.++++-.....-. .+--...++.||+++
T Consensus        22 l~r~vgkAI~dy~MIedGDRVlVglSGGKDS~~LL~iL~~Lq~~api~FeLvAv~lD~~~pGf~-~~~L~~yl~~lGvp~  100 (311)
T PRK10696         22 LRRNVGEAIADFNMIEEGDRIMVCLSGGKDSYTMLEILRNLQQSAPINFSLVAVNLDQKQPGFP-EHILPEYLEKLGVEY  100 (311)
T ss_pred             HHHHHHHHHHHHCCCCCCCEEEEECCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCC-HHHHHHHHHHCCCCC
T ss_conf             9999999999858778999999982678889999999999998589985599998378999988-068899999749970


Q ss_pred             CCCCHHHHHHHHHHHHCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHCCCEECCCCCHHH-HHHH--HCCCCCCC-----
Q ss_conf             267758999998863132346874310110123304667798887516954436432447-7541--10236665-----
Q gi|254780999|r  351 DVLPIHDLVNHFFSLMSQFLQEEPSGIVAENIQSRIRGNILMALSNHSKAMLLTTSNKSE-ISVG--YGTLYGDM-----  422 (562)
Q Consensus       351 ~~i~I~~~~~~~~~~~~~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~nksE-~~~G--y~T~~GD~-----  422 (562)
                      ..+.-+ ...-....+       +.+.+...+=||+|=-+||..|.+.|+=.+..|.--+ .+--  ...+||-.     
T Consensus       101 ~i~~~d-~~~iv~~~~-------~egks~CslCsRlRRg~Ly~~A~e~G~nKIALGHH~DDi~ETfLMNlf~gG~LktM~  172 (311)
T PRK10696        101 KIVEEN-TYGIVKEKI-------PEGKTTCSLCSRLRRGILYRTATELGATKIALGHHRDDILQTLFLNMFYGGKMKGMP  172 (311)
T ss_pred             EEEEEE-HHHHHHHHC-------CCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHHHHHCCCCCCCC
T ss_conf             799840-767998754-------368863789999999999999998699879860650558999999999668763679


Q ss_pred             ------CCC---CCCCCCCCHHHHHHHHHHHH
Q ss_conf             ------554---01017763365899999963
Q gi|254780999|r  423 ------SGG---FNPLKDLYKTQVFQLASWRN  445 (562)
Q Consensus       423 ------~g~---~~p~~~l~Kt~v~~la~~~n  445 (562)
                            -|+   +-|+.-+.-.++..+|+..+
T Consensus       173 Pkl~~d~g~~~VIRPL~y~~E~di~~~a~~~~  204 (311)
T PRK10696        173 PKLMSDDGKHIVIRPLAYCREKDIERFADAKA  204 (311)
T ss_pred             CEEECCCCCEEEEEECCCCCHHHHHHHHHHCC
T ss_conf             76674899759983042015999999999759


No 100
>PRK04527 argininosuccinate synthase; Provisional
Probab=97.12  E-value=0.017  Score=35.45  Aligned_cols=130  Identities=15%  Similarity=0.231  Sum_probs=63.6

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCCCHHHH-HHHHHH-HHCC
Q ss_conf             540575215872368999999841495446797324666652213569999997213-5426775899-999886-3132
Q gi|254780999|r  292 FHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGC-KYDVLPIHDL-VNHFFS-LMSQ  368 (562)
Q Consensus       292 ~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~-~~~~i~I~~~-~~~~~~-~~~~  368 (562)
                      .++||+.-|||+|+|+++....+- |-+ |++++.-.-.-.++..+..++-|..+|. ++.++|.... ++.+.. .+. 
T Consensus         3 ~kkVvLAySGGLDTSv~l~wL~e~-g~~-Vi~~~ad~G~~~~e~~~~i~~kA~~~GA~~~~v~D~~~ef~~~~v~~~i~-   79 (397)
T PRK04527          3 TKDIVLAFSGGLDTSFCIPYLQER-GYA-VHTVFADTGGVDAEERDFIEKRAAELGAASHVTVDGGPAIWEGFVKPFVW-   79 (397)
T ss_pred             CCEEEEEECCCCHHHHHHHHHHHC-CCC-EEEEEEECCCCCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHH-
T ss_conf             875999908972899999999875-994-79999978998615157899999981997799972899999999999986-


Q ss_pred             CCCCCCCCHHHHC----CCCHHHHH---HHHHHHHHCCCEECCC-----CCHH-HHHHHHCCCCCCCCCCCCCCCCCC
Q ss_conf             3468743101101----23304667---7988875169544364-----3244-775411023666555401017763
Q gi|254780999|r  369 FLQEEPSGIVAEN----IQSRIRGN---ILMALSNHSKAMLLTT-----SNKS-EISVGYGTLYGDMSGGFNPLKDLY  433 (562)
Q Consensus       369 ~~~~~~~~~~~eN----~qaR~R~~---~L~~~an~~~~lvl~t-----~nks-E~~~Gy~T~~GD~~g~~~p~~~l~  433 (562)
                            .+..|||    .-| -|-.   .+..+|.+.|.-.++-     ||-- -+-+++.++ +| ..-++|+-+..
T Consensus        80 ------ana~Yeg~YpL~ts-aRplIak~~ve~A~~~ga~~iaHG~TGkGNDQvRFe~~~~al-~~-~~viAP~R~~~  148 (397)
T PRK04527         80 ------AGEGYQGQYPLLVS-DRYLIVDAALKRAEELGTRIIAHGCTGMGNDQVRFDLAVKAL-GD-YQIVAPIREIQ  148 (397)
T ss_pred             ------HCHHHCCCCCCCCC-HHHHHHHHHHHHHHHCCCEEEECCCCCCCCCHHHHHHHHHHC-CC-CCCCCCHHHHH
T ss_conf             ------06454185556321-079999999999997298384047666787025677688863-67-65436556531


No 101
>pfam01507 PAPS_reduct Phosphoadenosine phosphosulfate reductase family. This domain is found in phosphoadenosine phosphosulfate (PAPS) reductase enzymes or PAPS sulfotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. The enzyme uses thioredoxin as an electron donor for the reduction of PAPS to phospho-adenosine-phosphate (PAP). It is also found in NodP nodulation protein P from Rizobium which has ATP sulfurylase activity (sulfate adenylate transferase).
Probab=97.06  E-value=0.0064  Score=38.29  Aligned_cols=143  Identities=19%  Similarity=0.184  Sum_probs=77.8

Q ss_pred             EEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCCCCC
Q ss_conf             05752158723689999998414954467973246666522135699999972135426775899999886313234687
Q gi|254780999|r  294 KVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHDLVNHFFSLMSQFLQEE  373 (562)
Q Consensus       294 ~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~~~~~~~~~~~~~  373 (562)
                      +++|+.|||-||++++.|+.++..+  +..+.+-+.+.-++|.+-.+.+++.+|++..+..-+.........-+.    .
T Consensus         1 ~v~vsfSGGKDS~vlL~L~~~~~~~--~~vvf~Dtg~efpet~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~   74 (174)
T pfam01507         1 ELVVSFSGGKDSLVLLHLASKAFPP--GPVIFIDTGYEFPETYEFVDELEEKYGLNLKVYRPEDSFAEGINPEGI----P   74 (174)
T ss_pred             CEEEEECCHHHHHHHHHHHHHHCCC--CCEEEEECCCCCHHHHHHHHHHHHHHCCEEEEEECCHHHHHHHHHCCC----C
T ss_conf             9999957609999999999984899--757999789986899999999999849818998086779877631279----5


Q ss_pred             CCCHHHHCCCCHHH--HHHHHHHHHHCCCEECCCCCHHH-HHHH----HCCCCCCCCC--CCCCCCCCCHHHHHHHHHHH
Q ss_conf             43101101233046--67798887516954436432447-7541----1023666555--40101776336589999996
Q gi|254780999|r  374 PSGIVAENIQSRIR--GNILMALSNHSKAMLLTTSNKSE-ISVG----YGTLYGDMSG--GFNPLKDLYKTQVFQLASWR  444 (562)
Q Consensus       374 ~~~~~~eN~qaR~R--~~~L~~~an~~~~lvl~t~nksE-~~~G----y~T~~GD~~g--~~~p~~~l~Kt~v~~la~~~  444 (562)
                      ..... .. -.+++  ..+.-++. .++.-++=+|-+.+ ..-.    +.-..++..+  -+.||.|-+..+|+...+..
T Consensus        75 ~~~~~-~~-~~~~~K~~p~~~~l~-~~~~~~~i~GiR~~Es~~R~~~~~~~~~~~~~~~~~~~PI~~Wt~~DVw~yi~~~  151 (174)
T pfam01507        75 SKLWE-DC-PCRLRKVEPLKRALK-KLDFDAWFTGLRRDESPSRAKLPIVSIDGDFPKVIKVFPLLNWTETDVWQYILAN  151 (174)
T ss_pred             HHHCC-CC-CHHHHHHHHHHHHHH-HCCCCEEEEEEECCCHHHHHHCCEEEEECCCCCEEEEECHHHCCHHHHHHHHHHC
T ss_conf             01145-45-214665179999998-6599689995100244566407167430578885999500529999999999983


Q ss_pred             H
Q ss_conf             3
Q gi|254780999|r  445 N  445 (562)
Q Consensus       445 n  445 (562)
                      +
T Consensus       152 ~  152 (174)
T pfam01507       152 N  152 (174)
T ss_pred             C
T ss_conf             9


No 102
>PRK13820 argininosuccinate synthase; Provisional
Probab=97.06  E-value=0.0015  Score=42.33  Aligned_cols=146  Identities=20%  Similarity=0.295  Sum_probs=85.2

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHHH-HH-HHHHCC
Q ss_conf             4540575215872368999999841495446797324666652213569999997213542677589999-98-863132
Q gi|254780999|r  291 NFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHDLVN-HF-FSLMSQ  368 (562)
Q Consensus       291 g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~~-~~-~~~~~~  368 (562)
                      ..++||+.-|||+|+++++....+-.|-+.|++++.-. ...++..+.+++-|..+|+++.++|....+- .+ ...+..
T Consensus         2 ~~kKVvLAySGGLDTSv~l~wL~e~yg~~eVi~~~~d~-Gq~~e~~~~~~~kA~~~G~~~~viD~r~ef~~~~i~paI~a   80 (395)
T PRK13820          2 MKKKVVLAYSGGLDTSVCIPLLKEKYGYDEVITVAVDV-GQPEEEIKEAEEKAKKLGVKHYTIDAKEEFAKDYIFPAIKA   80 (395)
T ss_pred             CCCEEEEEECCCCHHHHHHHHHHHHCCCCEEEEEEEEC-CCCHHHHHHHHHHHHHCCCCEEEEECHHHHHHHHHHHHHHC
T ss_conf             98729999689848999999999851998699999989-99767769999999970994999816999999999999970


Q ss_pred             -CCCCCCCCHHHHCCCCHHHH---HHHHHHHHHCCCEEC-----CCCC---HHHHHHHHCCCCCCCCCCCCCCCCCCHHH
Q ss_conf             -34687431011012330466---779888751695443-----6432---44775411023666555401017763365
Q gi|254780999|r  369 -FLQEEPSGIVAENIQSRIRG---NILMALSNHSKAMLL-----TTSN---KSEISVGYGTLYGDMSGGFNPLKDLYKTQ  436 (562)
Q Consensus       369 -~~~~~~~~~~~eN~qaR~R~---~~L~~~an~~~~lvl-----~t~n---ksE~~~Gy~T~~GD~~g~~~p~~~l~Kt~  436 (562)
                       ..-   .+  |-..-|=-|-   .-+..+|.+.|.-.+     |.||   +-|.+.  -  .-| ..-++|+-+..-+ 
T Consensus        81 na~Y---eg--YpL~tslaRplia~~~v~~A~~~ga~aiaHG~TGkGNDQvRFe~~~--~--ap~-~~iiaP~R~~~~~-  149 (395)
T PRK13820         81 NALY---EG--YPLGTALARPLIAKKIVEVAKKEGASAIAHGCTGKGNDQLRFEAVF--R--ATD-LDVIAPIRELNLT-  149 (395)
T ss_pred             CCCC---CC--CCCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCCCHHHHHHHHH--H--CCC-CEEEEEECCHHHH-
T ss_conf             8732---67--3032410468999999999997598298307778987099999998--6--789-8687210453345-


Q ss_pred             HHHHHHHHHHCC
Q ss_conf             899999963103
Q gi|254780999|r  437 VFQLASWRNSHG  448 (562)
Q Consensus       437 v~~la~~~n~~~  448 (562)
                      =-++..|..++.
T Consensus       150 R~~~i~ya~~~g  161 (395)
T PRK13820        150 REWEIEYAKEHG  161 (395)
T ss_pred             HHHHHHHHHHCC
T ss_conf             899999999859


No 103
>COG0301 ThiI Thiamine biosynthesis ATP pyrophosphatase [Coenzyme metabolism]
Probab=97.05  E-value=0.024  Score=34.52  Aligned_cols=168  Identities=20%  Similarity=0.229  Sum_probs=96.3

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEEC-CCCCCCCCCHHHHHHHH-HHHC-----CCCCCCCHHHHHHHHHHH
Q ss_conf             4057521587236899999984149544679732-46666522135699999-9721-----354267758999998863
Q gi|254780999|r  293 HKVIIGLSGGIDSALCAAIAVDALGKENVQTIML-PYKYTSPQSLEDAAACA-KALG-----CKYDVLPIHDLVNHFFSL  365 (562)
Q Consensus       293 ~~~viglSGGiDSal~a~la~~alg~~~v~~~~m-p~~~~s~~s~~~a~~la-~~lg-----~~~~~i~I~~~~~~~~~~  365 (562)
                      .+++.=|||||||.|++-++-+. |- .|+.+.. -..++++.....+..|+ +.+.     +.+..+|-.++.+.+...
T Consensus       176 Gk~l~LlSGGIDSPVA~~l~mkR-G~-~v~~v~f~~~p~~~~~a~~k~~~l~~~~~~~~~~~~~~~~v~f~~v~~~i~~~  253 (383)
T COG0301         176 GKVLLLLSGGIDSPVAAWLMMKR-GV-EVIPVHFGNPPYTSEKAREKVVALALLRLTSYGGKVRLYVVPFTEVQEEILEK  253 (383)
T ss_pred             CCEEEEEECCCCHHHHHHHHHHC-CC-EEEEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEEEECHHHHHHHHHHH
T ss_conf             74899970787749999999856-98-77999972799851889999999986430246872289997629999999863


Q ss_pred             HCCCCCCCCCCHHHHCCCCHHHHH-HHHHHHHHCCCEECCCCCHH-----HHHHH-HCCCCCCCCCCCCCCCCCCHHHHH
Q ss_conf             132346874310110123304667-79888751695443643244-----77541-102366655540101776336589
Q gi|254780999|r  366 MSQFLQEEPSGIVAENIQSRIRGN-ILMALSNHSKAMLLTTSNKS-----EISVG-YGTLYGDMSGGFNPLKDLYKTQVF  438 (562)
Q Consensus       366 ~~~~~~~~~~~~~~eN~qaR~R~~-~L~~~an~~~~lvl~t~nks-----E~~~G-y~T~~GD~~g~~~p~~~l~Kt~v~  438 (562)
                      ..+    ...     ++--|-.|. +--.+|...|+..+-||.--     ..+-. +..-.+-..-=+-|+-.+.|.++-
T Consensus       254 ~~~----~y~-----~v~~rR~M~riA~~iae~~g~~aIvtGEsLGQVASQTl~nL~~i~~~t~~pIlRPLI~~DK~eIi  324 (383)
T COG0301         254 VPE----SYR-----CVLLKRMMYRIAEKLAEEFGAKAIVTGESLGQVASQTLENLRVIDSVTNTPVLRPLIGLDKEEII  324 (383)
T ss_pred             CCC----CCE-----EHHHHHHHHHHHHHHHHHHCCEEEEECCCCHHHHHHHHHHHHHHHHCCCCCEECCCCCCCHHHHH
T ss_conf             675----302-----04789999999999999839839983686104667678889999815587423144579989999


Q ss_pred             HHHHHHHHCCCCCCCCCCCCCCCHHHCCCCCCCCCCCC
Q ss_conf             99999631033222344446688788288988453899
Q gi|254780999|r  439 QLASWRNSHGITSGLGPLTEVIPPSILEKSPSAELRPH  476 (562)
Q Consensus       439 ~la~~~n~~~~~~~~~~~~~~ip~~i~~~~psaeL~~~  476 (562)
                      ++||-++..-.  +..+.   =.--.+-.||.+.-+|.
T Consensus       325 ~~Ar~IgT~ei--Si~p~---e~cc~~f~p~~p~t~~~  357 (383)
T COG0301         325 EIARRIGTYEI--SIEPP---EDCCVIFAPPTPKTKPK  357 (383)
T ss_pred             HHHHHHCCHHH--HCCCC---CCCCCCCCCCCCCCCCC
T ss_conf             99998297443--13578---88857637998745752


No 104
>PRK10660 tilS tRNA(Ile)-lysidine synthetase; Provisional
Probab=96.98  E-value=0.0023  Score=41.25  Aligned_cols=62  Identities=15%  Similarity=0.200  Sum_probs=32.7

Q ss_pred             CEEEEECCCCCHHHHHHHHHH---HCCCHHHEEEEECCCCCCCCCCHHHH---HHHHHHHCCCCCCCCH
Q ss_conf             405752158723689999998---41495446797324666652213569---9999972135426775
Q gi|254780999|r  293 HKVIIGLSGGIDSALCAAIAV---DALGKENVQTIMLPYKYTSPQSLEDA---AACAKALGCKYDVLPI  355 (562)
Q Consensus       293 ~~~viglSGGiDSal~a~la~---~alg~~~v~~~~mp~~~~s~~s~~~a---~~la~~lg~~~~~i~I  355 (562)
                      ++++||+|||.||.+.+.+..   +.+..-+++++-.=+.-. +++.+++   +.+|+.+|+.+....+
T Consensus        14 ~~ilvavSGG~DS~~LL~~L~~l~~~~~~~~l~~~HvnHgl~-~~ad~~~~fv~~~c~~~~ip~~~~~~   81 (433)
T PRK10660         14 RQILVAFSGGLDSTVLLHQLVQWRTQNPGVTLRAIHIHHGLS-PNADSWVKHCEQVCQQWQVPLVVERV   81 (433)
T ss_pred             CEEEEEECCCHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCC-CCHHHHHHHHHHHHHHCCCCEEEEEE
T ss_conf             989999728099999999999999866898289999718979-26699999999999975997899998


No 105
>cd01986 Alpha_ANH_like Adenine nucleotide alpha hydrolases superfamily  including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which  binds to Adenosine group..
Probab=96.81  E-value=0.0073  Score=37.91  Aligned_cols=47  Identities=32%  Similarity=0.383  Sum_probs=33.8

Q ss_pred             EEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHH
Q ss_conf             575215872368999999841495446797324666652213569999997
Q gi|254780999|r  295 VIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKA  345 (562)
Q Consensus       295 ~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~  345 (562)
                      ++|.+|||+||++++.++.++..  ++.+++.......  ..++++..|+.
T Consensus         1 ~~v~~sgG~ds~~~~~~l~~~~~--~~~~~~~~~~~~~--~~~~~~~~a~~   47 (103)
T cd01986           1 VLVAFSGGKDSSVAAALLKKLGY--QVIAVTVDHGISP--RLEDAKEIAKE   47 (103)
T ss_pred             CEEEECCCCHHHHHHHHHHHCCC--CEEEEEEECCCCC--HHHHHHHHHHH
T ss_conf             98974288221999999998698--6289998537662--78899999999


No 106
>PRK05370 argininosuccinate synthase; Validated
Probab=96.76  E-value=0.018  Score=35.31  Aligned_cols=19  Identities=11%  Similarity=0.212  Sum_probs=8.4

Q ss_pred             CEEEEECCCC-CHHHHHHHH
Q ss_conf             4057521587-236899999
Q gi|254780999|r  293 HKVIIGLSGG-IDSALCAAI  311 (562)
Q Consensus       293 ~~~viglSGG-iDSal~a~l  311 (562)
                      +|.-|.|-|- +.|.+-+..
T Consensus       243 ~G~PValnG~~~~spveli~  262 (447)
T PRK05370        243 QGQPVALNGKTFSDPVELML  262 (447)
T ss_pred             CEEEEEECCEECCCHHHHHH
T ss_conf             30778989986789999999


No 107
>TIGR02432 lysidine_TilS_N tRNA(Ile)-lysidine synthetase; InterPro: IPR012795   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 .    The only examples in which the wobble position of a tRNA must discriminate between G and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop) vs. UGG (Trp). In all bacteria, the wobble position of the tRNA(Ile) recognizing AUA is lysidine, a lysine derivative of cytidine. This domain is found, apparently, in all bacteria in a single copy. Eukaryotic sequences appear to be organellar. The domain architecture of this protein is variable; some, including characterised proteins of Escherichia coli and Bacillus subtilis known to be tRNA(Ile)-lysidine synthetase, include a conserved 50-residue domain that many other members lack. This protein belongs to the ATP-binding PP-loop family. It appears in the literature and protein databases as TilS, YacA, and putative cell cycle protein MesJ (a misnomer).; GO: 0000166 nucleotide binding, 0005524 ATP binding, 0016879 ligase activity forming carbon-nitrogen bonds, 0008033 tRNA processing, 0005737 cytoplasm.
Probab=96.51  E-value=0.0074  Score=37.89  Aligned_cols=138  Identities=15%  Similarity=0.182  Sum_probs=78.0

Q ss_pred             EEEEECCCCCHHHHHHHHHHHC---CCHH------HEEEEECCC--CCCCCC-CHHHHHHHHHHHCCCCCCCC-HHHHHH
Q ss_conf             0575215872368999999841---4954------467973246--666522-13569999997213542677-589999
Q gi|254780999|r  294 KVIIGLSGGIDSALCAAIAVDA---LGKE------NVQTIMLPY--KYTSPQ-SLEDAAACAKALGCKYDVLP-IHDLVN  360 (562)
Q Consensus       294 ~~viglSGGiDSal~a~la~~a---lg~~------~v~~~~mp~--~~~s~~-s~~~a~~la~~lg~~~~~i~-I~~~~~  360 (562)
                      +++|++|||.||.+.+.+..+-   ++.+      ++.++..=.  +.+|.. ..+..+..|+.+++.+.+.. ++-.-.
T Consensus         1 ~~lvAvSGG~DS~aLL~~L~~~~~~~~~~~~~~~~~~~a~h~nH~lR~~s~~~~~~~v~~~c~~~~~~~~~~~~~~~~~~   80 (204)
T TIGR02432         1 KILVAVSGGVDSMALLHLLLKLQPKLKISWQIKDFKLIAAHVNHGLRPESAQEEAEFVQQFCEKLNIPLEIKKLVDVKAL   80 (204)
T ss_pred             CEEEEEECCHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEEEEECCCCHHHHHHHHHHHHHHHHHCCCCEEEEEEECCCCC
T ss_conf             97888628642799999999976632787788750689999617788415899999999999961895699842124110


Q ss_pred             HHHHHHCCCCCCCCCCHHHHCCCC---HHHHHHHHHHHHHCC-CEECCCCC----HHHHH----------HH-----HCC
Q ss_conf             988631323468743101101233---046677988875169-54436432----44775----------41-----102
Q gi|254780999|r  361 HFFSLMSQFLQEEPSGIVAENIQS---RIRGNILMALSNHSK-AMLLTTSN----KSEIS----------VG-----YGT  417 (562)
Q Consensus       361 ~~~~~~~~~~~~~~~~~~~eN~qa---R~R~~~L~~~an~~~-~lvl~t~n----ksE~~----------~G-----y~T  417 (562)
                      +         ...  .   .|+++   +.|=..+..++.++| .=+|.|+.    ..|-.          .|     +..
T Consensus        81 ~---------~~~--~---~~~E~~AR~~RY~~f~~~~~~~~~~~~i~tAHh~dDq~ET~L~rL~RG~~~~Gl~g~~~~~  146 (204)
T TIGR02432        81 A---------KGK--K---KNLEEAAREARYAFFEEIAKKHGKADYILTAHHADDQAETILMRLLRGSGLRGLSGMPEIR  146 (204)
T ss_pred             C---------CCC--C---CCHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHHCCCCCHHHHHCCCC
T ss_conf             1---------224--7---6778999999999999999972994089972483227999999875168700011101336


Q ss_pred             CCCC-----CCCCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             3666-----555401017763365899999963
Q gi|254780999|r  418 LYGD-----MSGGFNPLKDLYKTQVFQLASWRN  445 (562)
Q Consensus       418 ~~GD-----~~g~~~p~~~l~Kt~v~~la~~~n  445 (562)
                      ..|.     ..==+=|+=.++|.++...|+-.+
T Consensus       147 ~~~~~g~~~~~~~~RPLL~~~k~ei~~y~~~~~  179 (204)
T TIGR02432       147 PLGSLGWYKGGQIIRPLLNISKSEIEEYLKENG  179 (204)
T ss_pred             CCCCCCCCCCEEEEECCCCCCHHHHHHHHHHCC
T ss_conf             633244225632770775677899999999668


No 108
>COG1365 Predicted ATPase (PP-loop superfamily) [General function prediction only]
Probab=96.49  E-value=0.013  Score=36.19  Aligned_cols=135  Identities=20%  Similarity=0.251  Sum_probs=81.8

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCC-CCCCHHHHHHHHHHHCCCCCCCC--HHHHHHHHHHHHCCC
Q ss_conf             405752158723689999998414954467973246666-52213569999997213542677--589999988631323
Q gi|254780999|r  293 HKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYT-SPQSLEDAAACAKALGCKYDVLP--IHDLVNHFFSLMSQF  369 (562)
Q Consensus       293 ~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~-s~~s~~~a~~la~~lg~~~~~i~--I~~~~~~~~~~~~~~  369 (562)
                      .+++|..|||.|||-++.++..+-      ...-|+.+- .++-..+++.+++-||+...-+.  .+.+.+..+.   . 
T Consensus        61 ~kiaVA~SGG~DSsas~iilR~~g------~~v~p~t~~Lp~~ir~n~~~l~~~lg~~p~yveedl~~i~kGaln---G-  130 (255)
T COG1365          61 PKIAVAYSGGVDSSASAIILRWAG------FTVDPGTAILPDHIRRNKEELETLLGEVPEYVEEDLEDIEKGALN---G-  130 (255)
T ss_pred             CEEEEEECCCCCHHHHHHHHHHHC------EEECCCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCC---C-
T ss_conf             438998427864278899988621------041463213877886789999899725777899899999863205---8-


Q ss_pred             CCCCCCCHHHHCCCCHHHHHHHHHHHHHCCCEECCCCCHHHHHHHHCCCCC-CCCCCCC--CCCCCCHHHHHHHHHHHH
Q ss_conf             468743101101233046677988875169544364324477541102366-6555401--017763365899999963
Q gi|254780999|r  370 LQEEPSGIVAENIQSRIRGNILMALSNHSKAMLLTTSNKSEISVGYGTLYG-DMSGGFN--PLKDLYKTQVFQLASWRN  445 (562)
Q Consensus       370 ~~~~~~~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~nksE~~~Gy~T~~G-D~~g~~~--p~~~l~Kt~v~~la~~~n  445 (562)
                       ...+.+....     .=+...|+.+...+.=++.+|+.-  ++||...|- |..=-++  ..=.++|-+++.++.|-.
T Consensus       131 -RfhpCGRCh~-----~I~~~V~~k~re~di~~vafGDlL--s~G~~svy~eD~i~rlnlPAflAltK~Elr~il~~~~  201 (255)
T COG1365         131 -RFHPCGRCHS-----MIENAVMDKARELDIDVVAFGDLL--STGYGSVYREDGIFRLNLPAFLALTKDELRSILKWNG  201 (255)
T ss_pred             -CCCCCCHHHH-----HHHHHHHHHHHHCCCEEEEECCCC--CCCCCCEECCCCEEEECCHHHHHHCCHHHHHHHHHCC
T ss_conf             -7787523789-----999999999985387089974632--3466321205887997258888517199999987138


No 109
>TIGR00342 TIGR00342 thiamine biosynthesis/tRNA modification protein ThiI; InterPro: IPR003720 Thiamine pyrophosphate (TPP) is synthesized de novo in many bacteria and is a required cofactor for many enzymes in the cell. ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway . Almost all the proteins in this group have an N-terminal THUMP domain (see IPR004114 from INTERPRO).; GO: 0009228 thiamin biosynthetic process.
Probab=96.11  E-value=0.044  Score=32.80  Aligned_cols=140  Identities=21%  Similarity=0.241  Sum_probs=84.8

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECC-CCCCCCCCHHHHHHHHHHH-------CCCCCCCCHHHHHHHHHH
Q ss_conf             40575215872368999999841495446797324-6666522135699999972-------135426775899999886
Q gi|254780999|r  293 HKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLP-YKYTSPQSLEDAAACAKAL-------GCKYDVLPIHDLVNHFFS  364 (562)
Q Consensus       293 ~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp-~~~~s~~s~~~a~~la~~l-------g~~~~~i~I~~~~~~~~~  364 (562)
                      .+|+.=|||||||-|+|.++-+. | =+|.+|.|- ..++++.+.+--..||+.+       .+++..+|.++.++...+
T Consensus       187 Gkvl~LlSGGiDSPVAaf~~m~R-G-c~V~~vhf~~~~~~~~~~~~kv~~la~~~~~~~~~~~~~l~~~~F~~~~~~~~~  264 (391)
T TIGR00342       187 GKVLALLSGGIDSPVAAFLAMKR-G-CRVVAVHFFNEPAASEKAREKVERLANLLSLNETGGSVKLYVVDFTDVQEEIIE  264 (391)
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHC-C-CEEEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCEEEEEEEEECHHHHHHHHHH
T ss_conf             36320411883516799999663-8-779999732885524689999999999885400037999998543899999984


Q ss_pred             HHCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHCCCEECCCCCHHHHHHH----------HCCCCCCCCCCCC-CCCCCC
Q ss_conf             31323468743101101233046677988875169544364324477541----------1023666555401-017763
Q gi|254780999|r  365 LMSQFLQEEPSGIVAENIQSRIRGNILMALSNHSKAMLLTTSNKSEISVG----------YGTLYGDMSGGFN-PLKDLY  433 (562)
Q Consensus       365 ~~~~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~nksE~~~G----------y~T~~GD~~g~~~-p~~~l~  433 (562)
                      ...+-    ..-+..    =|.=+.+--.+|...|+..|=||+    +||          +.+-.+=...=+. |+=++.
T Consensus       265 ~~~e~----~~~v~~----rR~M~~~A~~~ae~~g~~A~VTGe----~LGQVASQTL~Nl~vI~~~~~~~iL~RPLIg~D  332 (391)
T TIGR00342       265 IIPEK----YTMVLC----RRLMLKIASKVAEKEGCLAIVTGE----SLGQVASQTLENLRVIQAVVNTPILRRPLIGMD  332 (391)
T ss_pred             CCCCC----CEEEEH----HHHHHHHHHHHHHHCCCCEEEECC----CCCCHHHHHHHHHHHHHHCCCCCEEECCCCCCC
T ss_conf             18998----788740----667999999888860994899766----342037778889999972378742407755479


Q ss_pred             HHHHHHHHHHHHH
Q ss_conf             3658999999631
Q gi|254780999|r  434 KTQVFQLASWRNS  446 (562)
Q Consensus       434 Kt~v~~la~~~n~  446 (562)
                      |+++-+|||.+++
T Consensus       333 K~~Ii~~Ak~IgT  345 (391)
T TIGR00342       333 KEEIIELAKEIGT  345 (391)
T ss_pred             HHHHHHHHHHCCC
T ss_conf             7899999741396


No 110
>TIGR00032 argG argininosuccinate synthase; InterPro: IPR001518   Argininosuccinate synthase (6.3.4.5 from EC) (AS) is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate , .   In humans, a defect in the AS gene causes citrullinemia, a genetic disease characterised by severe vomiting spells and mental retardation.   AS is a homotetrameric enzyme of chains of about 400 amino-acid residues. An arginine seems to be important for the enzyme's catalytic mechanism. The sequences of AS from various prokaryotes, archaebacteria and eukaryotes show significant similarity.; GO: 0004055 argininosuccinate synthase activity, 0005524 ATP binding, 0006526 arginine biosynthetic process.
Probab=95.94  E-value=0.07  Score=31.51  Aligned_cols=111  Identities=19%  Similarity=0.298  Sum_probs=76.7

Q ss_pred             EEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCC-CCCHHHHHHHHHHHCC-CCCCCCHHH-HHHH-HHHHHC-C
Q ss_conf             057521587236899999984149544679732466665-2213569999997213-542677589-9999-886313-2
Q gi|254780999|r  294 KVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTS-PQSLEDAAACAKALGC-KYDVLPIHD-LVNH-FFSLMS-Q  368 (562)
Q Consensus       294 ~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s-~~s~~~a~~la~~lg~-~~~~i~I~~-~~~~-~~~~~~-~  368 (562)
                      +|||.-|||+|.|+++.+.-+--|-++|++++.= -... ++..+.+++-|..+|. ++.+||=.+ .++. .+..|+ +
T Consensus         1 KVvLAySGGLDTSv~l~wL~~kyG~~~Via~~~d-vGQPDE~d~~~~~~kA~~~GA~~~~~iDak~eFv~dy~f~aiqan   79 (420)
T TIGR00032         1 KVVLAYSGGLDTSVCLKWLEEKYGYEEVIAVTAD-VGQPDEEDIDAIEEKALKYGAEKHYTIDAKEEFVKDYLFAAIQAN   79 (420)
T ss_pred             CEEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEE-CCCCCHHHHHHHHHHHHHHCCCEEEEEECHHHHHHHHHHHHHHCC
T ss_conf             9688860702599999998865289860799975-679998888889999887367102577236889999988876506


Q ss_pred             CCCCCCCCHHHHCCCCHHHHH---HHHHHHHHCCCEECCC
Q ss_conf             346874310110123304667---7988875169544364
Q gi|254780999|r  369 FLQEEPSGIVAENIQSRIRGN---ILMALSNHSKAMLLTT  405 (562)
Q Consensus       369 ~~~~~~~~~~~eN~qaR~R~~---~L~~~an~~~~lvl~t  405 (562)
                      .+-...-+++|-|--|=-|-+   .|-.+|-+.|.-.++-
T Consensus        80 A~Ye~~GG~~Y~L~TaLaRPlIA~~lVe~Ak~~Ga~AvaH  119 (420)
T TIGR00032        80 AVYEGTGGLVYPLSTALARPLIAKKLVEVAKKEGAEAVAH  119 (420)
T ss_pred             CEECCCCCEECCCCCCCHHHHHHHHHHHHHHHCCCEEEEC
T ss_conf             6031787410347661145799999999984669549870


No 111
>cd01999 Argininosuccinate_Synthase Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate .  In humans, a defect in the AS gene causes citrullinemia, a genetic disease characterized by severe vomiting spells and mental retardation. AS is a homotetrameric enzyme of chains of about 400 amino-acid residues. An arginine seems to be important for the enzyme's catalytic mechanism. The sequences of AS from various prokaryotes, archaebacteria and eukaryotes show significant similarity
Probab=95.78  E-value=0.16  Score=29.16  Aligned_cols=132  Identities=17%  Similarity=0.202  Sum_probs=67.1

Q ss_pred             EEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCCCHHHHHHH--HHHHHCCCCC
Q ss_conf             575215872368999999841495446797324666652213569999997213-5426775899999--8863132346
Q gi|254780999|r  295 VIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGC-KYDVLPIHDLVNH--FFSLMSQFLQ  371 (562)
Q Consensus       295 ~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~-~~~~i~I~~~~~~--~~~~~~~~~~  371 (562)
                      ||+.-|||+|+++++-...+--+. .|++++.-. ...++..+.+++-|..+|. ++.++|....+-.  ....+..   
T Consensus         1 VvLAySGGLDTSv~l~wL~e~~~~-eVia~~~d~-Gq~~e~~~~i~~kA~~~GA~~~~v~D~r~ef~~~~i~pai~a---   75 (385)
T cd01999           1 VVLAYSGGLDTSVILKWLKEKGGY-EVIAVTADV-GQPEEEIEAIEEKALKLGAKKHVVVDLREEFVEDYIFPAIQA---   75 (385)
T ss_pred             CEEEECCCCHHHHHHHHHHHHCCC-EEEEEEEEC-CCCHHHHHHHHHHHHHHCCCEEEEECHHHHHHHHHHHHHHHH---
T ss_conf             979977881799999999974598-499999989-996677789999999819978999612999999999999960---


Q ss_pred             CCCCCHHHHCCC--CHHH-HHHHHHHHHHCCCEECCC-----CC-HHHHHHHHCCCCCCCCCCCCCCCCC
Q ss_conf             874310110123--3046-677988875169544364-----32-4477541102366655540101776
Q gi|254780999|r  372 EEPSGIVAENIQ--SRIR-GNILMALSNHSKAMLLTT-----SN-KSEISVGYGTLYGDMSGGFNPLKDL  432 (562)
Q Consensus       372 ~~~~~~~~eN~q--aR~R-~~~L~~~an~~~~lvl~t-----~n-ksE~~~Gy~T~~GD~~g~~~p~~~l  432 (562)
                      +-...-.|-..-  ||-- ...+..+|.+.|+-.++-     || .--+-+++.+++.|. .-++|+-+.
T Consensus        76 na~Yeg~Y~L~tslaRplIak~~ve~A~~~ga~aiaHG~TGkGNDQvRFe~~~~aL~P~l-~iiAP~Rd~  144 (385)
T cd01999          76 NALYEGTYPLGTALARPLIAKALVEVAKEEGADAVAHGCTGKGNDQVRFELAFYALNPDL-KIIAPWRDW  144 (385)
T ss_pred             CCCCCCCEECCCCHHHHHHHHHHHHHHHHHCCEEEEECCCCCCCCHHHHHHHHHHHCCCC-EEEEEEECC
T ss_conf             864337532135015789999999999980984997456668884068999999859997-585147314


No 112
>pfam00764 Arginosuc_synth Arginosuccinate synthase. This family contains a PP-loop motif.
Probab=95.47  E-value=0.2  Score=28.45  Aligned_cols=57  Identities=23%  Similarity=0.349  Sum_probs=20.9

Q ss_pred             EECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCC-CCCCCCHH
Q ss_conf             5215872368999999841495446797324666652213569999997213-54267758
Q gi|254780999|r  297 IGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGC-KYDVLPIH  356 (562)
Q Consensus       297 iglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~-~~~~i~I~  356 (562)
                      |.-|||+|+++++.-..+- |. .|++++.-. ....+..+.+++-|..+|. ++.++|..
T Consensus         2 LAySGGLDTSv~l~wL~e~-~~-eVia~~~d~-Gq~~ed~~~i~~kA~~~GA~~~~v~D~r   59 (389)
T pfam00764         2 LAYSGGLDTSVCIPWLKEK-YY-EVIAVAVDV-GQGEEDLDEAREKALKLGAVKHYVIDAK   59 (389)
T ss_pred             EEECCCCHHHHHHHHHHHC-CC-EEEEEEEEC-CCCHHHHHHHHHHHHHHCCCEEEEECCH
T ss_conf             6036762899999999970-99-289999979-9977878999999998299789997379


No 113
>cd01994 Alpha_ANH_like_IV This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily  includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which  binds to Adenosine group.  This subfamily   of proteins is predicted to  bind ATP. This domainhas  a strongly conserved motif SGGKD at the N terminus.
Probab=95.05  E-value=0.17  Score=28.90  Aligned_cols=62  Identities=29%  Similarity=0.268  Sum_probs=42.3

Q ss_pred             EEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECC-CCCCCC--C--CHHHHHHHHHHHCCCCCCCCHH
Q ss_conf             0575215872368999999841495446797324-666652--2--1356999999721354267758
Q gi|254780999|r  294 KVIIGLSGGIDSALCAAIAVDALGKENVQTIMLP-YKYTSP--Q--SLEDAAACAKALGCKYDVLPIH  356 (562)
Q Consensus       294 ~~viglSGGiDSal~a~la~~alg~~~v~~~~mp-~~~~s~--~--s~~~a~~la~~lg~~~~~i~I~  356 (562)
                      ++++-.|||=||++++..|.+. |-+-+..++|. ....+-  +  ..+-.+..|+.+|+.+..++|.
T Consensus         1 Kv~~l~SGGKDS~lAl~~a~~~-g~~v~~L~~~~~~~~~~~~~H~~~~~l~~~qAealgiPl~~~~~~   67 (194)
T cd01994           1 KVVALISGGKDSCYALYRALEE-GHEVVALLNLTPEEGSSMMYHTVNHELLELQAEAMGIPLIRIEIS   67 (194)
T ss_pred             CEEEEECCCHHHHHHHHHHHHC-CCEEEEEEEEECCCCCEEECCCCCHHHHHHHHHHCCCCEEEEECC
T ss_conf             9899977859999999999986-992599999963998805250557899999999859966999668


No 114
>COG0175 CysH 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=94.80  E-value=0.053  Score=32.26  Aligned_cols=145  Identities=23%  Similarity=0.188  Sum_probs=81.2

Q ss_pred             EEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCCCCC
Q ss_conf             05752158723689999998414954467973246666522135699999972135426775899999886313234687
Q gi|254780999|r  294 KVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHDLVNHFFSLMSQFLQEE  373 (562)
Q Consensus       294 ~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~~~~~~~~~~~~~  373 (562)
                      .+++.-|||.||+|++.|+.+++..  +..+..=+.+-=+++++-...+++.+|+...+..-+..+..- ......+..+
T Consensus        41 ~~~~~~S~Gkds~V~l~L~~k~~~~--~~vif~DTg~~f~Et~~~~d~~~~~~~~~l~~~~~~~~~~~~-~~~~~~~~~~  117 (261)
T COG0175          41 PVVVSFSGGKDSTVLLHLAAKAFPD--FPVIFLDTGYHFPETYEFRDRLAEEYGLDLKVYRPDDEVAEG-EKYGGKLWEP  117 (261)
T ss_pred             CEEEEECCCHHHHHHHHHHHHHCCC--CCEEEEECCCCCHHHHHHHHHHHHHCCCEEEEECCCHHHHHH-HHCCCCCCCC
T ss_conf             7599812746799999999860258--718997077757889999999998729717981673234434-4213667999


Q ss_pred             CCCHHHHCCCCHHHHH--HHHHHHHHCCCEECCCCCHHHHHHH--HCCCCCCCC----CCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             4310110123304667--7988875169544364324477541--102366655----5401017763365899999963
Q gi|254780999|r  374 PSGIVAENIQSRIRGN--ILMALSNHSKAMLLTTSNKSEISVG--YGTLYGDMS----GGFNPLKDLYKTQVFQLASWRN  445 (562)
Q Consensus       374 ~~~~~~eN~qaR~R~~--~L~~~an~~~~lvl~t~nksE~~~G--y~T~~GD~~----g~~~p~~~l~Kt~v~~la~~~n  445 (562)
                      ..+.    -=-.+|-+  +--++........++=--++|...-  .--...|..    --++||.|-+-.+|+......|
T Consensus       118 ~~~r----~c~~i~K~~pl~~al~~~~~~a~~~G~Rrdes~~Rak~~~~~~~~~~~~~~rv~Pl~~Wt~~dVw~Yi~~~~  193 (261)
T COG0175         118 SVER----WCCDIRKVEPLKRALDEYGFDAWFTGLRRDESPTRAKLPVVSFDSEFGESIRVNPLADWTELDVWLYILANN  193 (261)
T ss_pred             CCCH----HHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCCCEECCCCCCCCCEEECCHHCCCHHHHHHHHHHHC
T ss_conf             7402----332568551399999635862499861204563202486453467876836871532099999999999958


No 115
>COG0137 ArgG Argininosuccinate synthase [Amino acid transport and metabolism]
Probab=94.59  E-value=0.11  Score=30.14  Aligned_cols=40  Identities=13%  Similarity=0.177  Sum_probs=17.8

Q ss_pred             HHHHHHCCCEEEECCCCC-CCCCCCCCCCCEEECCCCEEEE
Q ss_conf             998543370464213568-8766210486435558985999
Q gi|254780999|r  192 TGQISHVHLPIIYVNQVG-GQDELIFDGASFCFDGQQQLAF  231 (562)
Q Consensus       192 ~~~a~e~~~~vvy~N~vG-g~d~lvf~G~S~I~d~~G~ii~  231 (562)
                      ...|.+.++..+.--+.| |+|..-|+-.-...+|+=++++
T Consensus       105 Ve~A~k~Ga~avaHGcTGKGNDQvRFE~~~~al~pdlkiiA  145 (403)
T COG0137         105 VEAAKKEGADAVAHGCTGKGNDQVRFELAILALNPDLKIIA  145 (403)
T ss_pred             HHHHHHCCCCEEEECCCCCCCCEEEEEEEHHHHCCCCEEEE
T ss_conf             99999719969974678888753543200454189967985


No 116
>pfam01902 ATP_bind_4 ATP-binding region. This family of proteins probably binds ATP. This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N terminus.In some members of this family, this domain is associated with pfam01042.
Probab=93.43  E-value=0.31  Score=27.23  Aligned_cols=61  Identities=28%  Similarity=0.121  Sum_probs=38.4

Q ss_pred             EEEEECCCCCHHHHHHHHHHHCCCHHHE-EEEECCCCCCCC--C--CHHHHHHHHHHHCCCCCCCCHH
Q ss_conf             0575215872368999999841495446-797324666652--2--1356999999721354267758
Q gi|254780999|r  294 KVIIGLSGGIDSALCAAIAVDALGKENV-QTIMLPYKYTSP--Q--SLEDAAACAKALGCKYDVLPIH  356 (562)
Q Consensus       294 ~~viglSGGiDSal~a~la~~alg~~~v-~~~~mp~~~~s~--~--s~~~a~~la~~lg~~~~~i~I~  356 (562)
                      ++++-.|||=||++++..|.+.  -+-+ +..+.|...-|-  +  ..+-.+..|+.+|+++..+.+.
T Consensus         2 K~~~l~SGGKDS~~Al~~a~~~--~~v~~L~t~~~~~~ds~~~H~~~~~l~~~qA~algiPl~~~~~~   67 (219)
T pfam01902         2 KVAALYSGGKDSNYALYWALKE--IEVPYLVSMKSENKESYMFHEPNLHLTKLLAEALGIPIIKLYTK   67 (219)
T ss_pred             CEEEEECCCHHHHHHHHHHHHC--CCCEEEEEEEECCCCCCCCCCCCHHHHHHHHHHCCCCEEEEECC
T ss_conf             3999972869999999999871--98379999963799810261578899999999759968999679


No 117
>PRK08384 thiamine biosynthesis protein ThiI; Provisional
Probab=93.26  E-value=0.46  Score=26.12  Aligned_cols=122  Identities=16%  Similarity=0.077  Sum_probs=66.0

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCCCC
Q ss_conf             40575215872368999999841495446797324666652213569999997213542677589999988631323468
Q gi|254780999|r  293 HKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHDLVNHFFSLMSQFLQE  372 (562)
Q Consensus       293 ~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~~~~~~~~~~~~  372 (562)
                      .++++=+|||| |.|++-+..+. |- .|+.+.   +++++.+.+-++.+++.|.- +.                  .+.
T Consensus       180 Gk~l~LlSGGi-SPVAa~~mmKR-G~-~v~~vh---f~~~~~~~~kv~~l~~~L~~-y~------------------~~~  234 (310)
T PRK08384        180 GKMVGLLSDEL-SAVAIFLMMKR-GV-EVIPVH---IGMGEKNLEKVRKLWNQLKK-YS------------------YGS  234 (310)
T ss_pred             CCEEEEECCCC-CHHHHHHHHHC-CC-EEEEEE---ECCCHHHHHHHHHHHHHHHH-HC------------------CCC
T ss_conf             84899953886-39999999856-98-799998---56887899999999999998-67------------------998


Q ss_pred             CCCCHHHHCCCCHHHHHHHHHHHHHCCCEECCCCCH-----HHHHHH-HCCCCCCCCCCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             743101101233046677988875169544364324-----477541-1023666555401017763365899999963
Q gi|254780999|r  373 EPSGIVAENIQSRIRGNILMALSNHSKAMLLTTSNK-----SEISVG-YGTLYGDMSGGFNPLKDLYKTQVFQLASWRN  445 (562)
Q Consensus       373 ~~~~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~nk-----sE~~~G-y~T~~GD~~g~~~p~~~l~Kt~v~~la~~~n  445 (562)
                      ...-+..++.      .....+|.+.|+.-|-||.-     |.-.-. +++-.+-..-=+-|+-...|.++-++||-++
T Consensus       235 ~~~~~~~~~~------~~a~~ia~~~~~~alvTGEsLGQVASQTl~nl~~i~~~~~~PVlRPLIg~DK~EII~~Ar~IG  307 (310)
T PRK08384        235 KGRLVVVKNF------ERVNKIIRDFGAKGVVKGLRPEQLASETLENIYEDSRMFDVPVYYPLIALPDEYIEKVKEKIG  307 (310)
T ss_pred             CEEEEEECHH------HHHHHHHHHHCCCEEEECCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHCC
T ss_conf             4699996659------999999998599899977412554545798899997304887303856899899999998638


No 118
>KOG0573 consensus
Probab=90.80  E-value=0.31  Score=27.27  Aligned_cols=29  Identities=28%  Similarity=0.389  Sum_probs=24.5

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHCCCHHH
Q ss_conf             54057521587236899999984149544
Q gi|254780999|r  292 FHKVIIGLSGGIDSALCAAIAVDALGKEN  320 (562)
Q Consensus       292 ~~~~viglSGGiDSal~a~la~~alg~~~  320 (562)
                      -..|.|=.|||+||+++|+++.+-++..-
T Consensus       250 ~s~VcVlfSGGvDs~vvA~l~h~~vp~ne  278 (520)
T KOG0573         250 ESNVCVLFSGGVDSTVVAVLAHYVVPENE  278 (520)
T ss_pred             CCCEEEEECCCCHHHHHHHHHHHHCCCCC
T ss_conf             57679996488408999999986069888


No 119
>cd01984 AANH_like Adenine nucleotide alpha hydrolases superfamily  including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which  binds to Adenosine nucleotide.
Probab=90.44  E-value=0.18  Score=28.74  Aligned_cols=33  Identities=27%  Similarity=0.513  Sum_probs=23.2

Q ss_pred             EEEECCCCCHHHHHHHHHHHCC-CHHHEEEEECC
Q ss_conf             5752158723689999998414-95446797324
Q gi|254780999|r  295 VIIGLSGGIDSALCAAIAVDAL-GKENVQTIMLP  327 (562)
Q Consensus       295 ~viglSGGiDSal~a~la~~al-g~~~v~~~~mp  327 (562)
                      +++++|||+||++++.++.+.- +...++.+.+.
T Consensus         1 ilv~~Sgg~dS~~~~~la~~~~~~~~~~~~~~~~   34 (86)
T cd01984           1 ILVALSGGLDSSVLLHLAKRLKSGGPEVVALVVV   34 (86)
T ss_pred             CEEEECCCCCHHHHHHHHHHHHCCCCEEEEEEHH
T ss_conf             9788617853899999999852599808976389


No 120
>PRK06850 hypothetical protein; Provisional
Probab=90.04  E-value=0.22  Score=28.26  Aligned_cols=29  Identities=14%  Similarity=0.231  Sum_probs=14.5

Q ss_pred             HCCHHHHHHHHHHHHHHHHHHHHCCCEEE
Q ss_conf             14889999999999999999887697899
Q gi|254780999|r   57 VFKKSFIQACSSAIDTLKSDTHDGGAGIV   85 (562)
Q Consensus        57 ~~~~~f~~~~~~~l~~La~~~~~~~i~ii   85 (562)
                      +..|-....+...++.|...+++.++.|.
T Consensus        66 VEnPiV~~~v~~sL~~i~~~A~~~~LPI~   94 (488)
T PRK06850         66 VENPVVVAWVNKSLERIKEAAKKQGLPIT   94 (488)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHCCCCCE
T ss_conf             56779999999999999999986599822


No 121
>TIGR03183 DNA_S_dndC putative sulfurtransferase DndC. Members of this protein family are the DndC protein from the dnd (degradation during electrophoresis) operon. The dnd phenotype reflects a sulfur-containing modification to DNA. This operon is sparsely and sporadically distributed among bactera; among the first eight examples are members from the Actinobacteria, Firmicutes, Gammaproteobacteria, Cyanobacteria. DndC is suggested to be a sulfurtransferase.
Probab=89.58  E-value=0.25  Score=27.90  Aligned_cols=31  Identities=13%  Similarity=0.145  Sum_probs=20.9

Q ss_pred             HHCCHHHHHHHHHHHHHHHHHHHHCCCEEEE
Q ss_conf             4148899999999999999998876978999
Q gi|254780999|r   56 LVFKKSFIQACSSAIDTLKSDTHDGGAGIVV   86 (562)
Q Consensus        56 l~~~~~f~~~~~~~l~~La~~~~~~~i~iiv   86 (562)
                      ++..|-....+...++.|...+++.++.|.+
T Consensus        57 lVEnP~V~~~v~~~L~~i~~~a~~~~LPi~~   87 (447)
T TIGR03183        57 LVENPIVAAWVNVSLERMQEAAQKQGLPIEP   87 (447)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHCCCCCEE
T ss_conf             7557799999999999999999974998236


No 122
>pfam04273 DUF442 Putative phosphatase (DUF442). Although this domain is uncharacterized it seems likely that it performs a phosphatase function.
Probab=88.91  E-value=1.7  Score=22.42  Aligned_cols=94  Identities=23%  Similarity=0.175  Sum_probs=57.0

Q ss_pred             EECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHH------HHHHHHHHHHCCCC
Q ss_conf             521587236899999984149544679732466665221356999999721354267758------99999886313234
Q gi|254780999|r  297 IGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIH------DLVNHFFSLMSQFL  370 (562)
Q Consensus       297 iglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~------~~~~~~~~~~~~~~  370 (562)
                      +.+||=|.-.=...|+  +.|=+-|++..-......+-+..+-+..|+.+|++|..+|+.      +.++.|...+... 
T Consensus         9 ~~vs~Qi~~~di~~la--~~GfktIInnRPd~E~~~qp~~~~~~~~a~~~Gl~y~~iPv~~~~~t~~~v~~f~~~l~~~-   85 (110)
T pfam04273         9 LSVSPQIQPDDIAAAA--RAGFRSVINNRPDGEEPGQPSNAAEQAAARAAGLAYRFIPVISGQITEADVEAFQRALAAA-   85 (110)
T ss_pred             EEECCCCCHHHHHHHH--HCCCCEEEECCCCCCCCCCCCHHHHHHHHHHCCCEEEEEECCCCCCCHHHHHHHHHHHHHC-
T ss_conf             7575998999999999--8598388533888777899888999999998399799964477898999999999999858-


Q ss_pred             CCCCCCHHHHCCCCHHHHHHHHHHHHH
Q ss_conf             687431011012330466779888751
Q gi|254780999|r  371 QEEPSGIVAENIQSRIRGNILMALSNH  397 (562)
Q Consensus       371 ~~~~~~~~~eN~qaR~R~~~L~~~an~  397 (562)
                      ..+...    -=++..|...||++|..
T Consensus        86 ~~Pvl~----~CrSG~Rs~~lwala~a  108 (110)
T pfam04273        86 EGPVLA----HCRSGTRALNLYALSQA  108 (110)
T ss_pred             CCCEEE----ECCCCHHHHHHHHHHHC
T ss_conf             998999----88998779999999855


No 123
>COG3969 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]
Probab=88.50  E-value=0.79  Score=24.62  Aligned_cols=11  Identities=0%  Similarity=-0.106  Sum_probs=4.0

Q ss_pred             CCHHHHHHHHH
Q ss_conf             99999999999
Q gi|254780999|r  510 YNDETVRYVEH  520 (562)
Q Consensus       510 ~~~~~v~~~~~  520 (562)
                      ..++..++...
T Consensus       387 ~tk~~~qr~~~  397 (407)
T COG3969         387 PTKPEYQRYKE  397 (407)
T ss_pred             CCCHHHHHHHH
T ss_conf             78178999999


No 124
>TIGR01390 CycNucDiestase 2',3'-cyclic-nucleotide 2'-phosphodiesterase; InterPro: IPR006294   These sequences represent 2',3'-cyclic-nucleotide 2'-phosphodiesterase; it is a bifunctional enzyme localized to the periplasm of Gram-negative bacteria. 2',3'-cyclic-nucleotide 2'-phosphodiesters are intermediates formed during the hydrolysis of RNA by the ribonuclease I, which is also found in the periplasm, and other enzymes of the RNAse T2 family. Bacteria are unable to transport 2',3'-cyclic-nucleotides into the cytoplasm. 2',3'-cyclic-nucleotide 2'-phosphodiesterase contains 2 active sites which catalyze the reactions that convert the 2',3'-cyclic-nucleotide into a 3'-nucleotide, which is then converted into nucleic acid and phosphate. Both final products can be transported into the cytoplasm. Thus, it has been suggested that 2',3'-cyclic-nucleotide 2'-phosphodiesterase has a scavenging function. Experimental evidence indicates that 2',3'-cyclic-nucleotide 2'-phosphodiesterase enables Yersinia enterocolitica O:8 to grow on 23-cAMP as a sole source of carbon and energy . ; GO: 0008663 2'3'-cyclic-nucleotide 2'-phosphodiesterase activity, 0009117 nucleotide metabolic process.
Probab=87.39  E-value=2.1  Score=21.80  Aligned_cols=220  Identities=15%  Similarity=0.239  Sum_probs=102.0

Q ss_pred             HHHHHHHHHHHHHCCCCEEEEC-CCCCCCCCHHHHHCC-HHH----HHHHHH-------------------HHHHHHHHH
Q ss_conf             9999999999998599899916-644479984454148-899----999999-------------------999999998
Q gi|254780999|r   23 IAKARRAREEANRQGMDLILFT-ELFISGYPPEDLVFK-KSF----IQACSS-------------------AIDTLKSDT   77 (562)
Q Consensus        23 ~~~i~~~i~~A~~~gadLvvfP-El~LtGY~~~Dl~~~-~~f----~~~~~~-------------------~l~~La~~~   77 (562)
                      +.+.-.++++|.++.-.=|+.= ==-+.|-|.+|..-+ ..+    +....+                   -|+.|.+..
T Consensus        31 l~~~A~L~~~AR~E~~NsvL~DNGDLIQG~Pl~DY~ara~g~k~G~~~P~~~al~~l~Y~vg~lGNHEFNYGL~fL~~~~  110 (634)
T TIGR01390        31 LTRAATLIKQARAEVKNSVLVDNGDLIQGSPLADYMARAKGLKAGEVHPVYKALNLLKYDVGNLGNHEFNYGLEFLKEAI  110 (634)
T ss_pred             HHHHHHHHHHHHHHHHCEEEEECCCCCCCCCHHHHHHHCCCCCCCCCCHHHHHHHHCCCCEEECCCCHHHHHHHHHHHHH
T ss_conf             57888999997532104277636752148844656764154346874569998864186323016731331068999999


Q ss_pred             HHCCCEEEEEE-EEEEC-CEE---EEEEEEEECCEEEEEEEEEEECCCCCCCCCCCCCCCCCCCEEEECCEEE-EECCCC
Q ss_conf             87697899999-99888-987---8999999699799988777623554333210037788876147647456-201111
Q gi|254780999|r   78 HDGGAGIVVGF-PRQDQ-EGV---LNSVVILDAGNIIAVRDKINLPNYSEFHEKRTFISGYSNDPIVFRDIRL-GILICE  151 (562)
Q Consensus        78 ~~~~i~iivG~-p~~~~-~~~---yNsa~vi~~G~il~~y~K~~LP~y~~FdE~r~F~~G~~~~~~~~~g~ki-Gv~ICe  151 (562)
                      +.-...+|-.. ....+ ++.   +=+-++|++-++...--|.|.-.=|.-    -|.   .+.+..++--.+ |=....
T Consensus       111 ~~A~~P~v~aN~~~d~~~~~pg~~~FTPY~I~~~~v~D~~G~~~~l~vG~I----G~v---pPQI~~WDK~NL~GKv~~~  183 (634)
T TIGR01390       111 AAAKFPIVNANTVVDAGTGQPGANLFTPYLIKEKSVVDTDGKKHTLKVGYI----GLV---PPQIMVWDKANLDGKVTTA  183 (634)
T ss_pred             HHCCCCEEECCCEEECCCCCCCCCCCCCEEEECCEEEECCCCEEEEEEEEE----EEE---CCCEEEECCCCCCCCEEEH
T ss_conf             727897763252464467887654337645631247506886468888789----732---8701300111267526863


Q ss_pred             CCCHH-HHHHHHHHHCCCCEEEECC-----CCCCCCCCHHHHHHHHHHHHHHCCCEEE----ECCCC-CCCCCCCCCCCC
Q ss_conf             11101-6899999714777599315-----5533358078887889998543370464----21356-887662104864
Q gi|254780999|r  152 DIWKN-SNICKHLKKQGAEFLFSLN-----ASPYYHNKLKKRHEIVTGQISHVHLPII----YVNQV-GGQDELIFDGAS  220 (562)
Q Consensus       152 Dlw~~-~~~~~~la~~Gadlii~ps-----ASp~~~~k~~~R~~~~~~~a~e~~~~vv----y~N~v-Gg~d~lvf~G~S  220 (562)
                      |+-.. ....-+|+.+|||+|+.+.     +-||..+             .||.++++    .++.+ -|++-.+|.|..
T Consensus       184 DI~~Ta~K~vPEMk~~GAD~~Va~aHsG~s~d~Y~~g-------------~ENs~~~L~~vpgidav~fGHsH~~FPgk~  250 (634)
T TIGR01390       184 DIVETARKYVPEMKAKGADIVVALAHSGISADPYQEG-------------AENSVYYLTKVPGIDAVLFGHSHAVFPGKD  250 (634)
T ss_pred             HHHHHHHHCCHHHHHCCCCEEEEECCCCCCCCCCCCC-------------CCCEEEHHHCCCCEEEEEECCCCCCCCCCC
T ss_conf             2688887315477736895999800688886644355-------------530001000378310898566133478800


Q ss_pred             EEECCC---------CEEEEECCCCCCCEEEEEEEECCC--CCCCCCCCCCCC
Q ss_conf             355589---------859996167776379999983352--123655575555
Q gi|254780999|r  221 FCFDGQ---------QQLAFQMKHFSEQNFMTEWHYDQQ--LSQWNYMSDDSA  262 (562)
Q Consensus       221 ~I~d~~---------G~ii~~~~~f~e~~~i~d~d~d~~--~~~~~~~~~~~~  262 (562)
                      |.--|+         |.-..-+-.+..++-++|+.+...  ..+|......+.
T Consensus       251 f~~~pgADI~~GT~~G~p~vM~G~Wg~~~gVvDL~L~~~r~~g~W~v~~~k~~  303 (634)
T TIGR01390       251 FAKIPGADITKGTINGVPAVMAGYWGNHLGVVDLQLEEDRKSGKWTVTSAKAE  303 (634)
T ss_pred             CCCCCCCCCCCCEECCCCCCCCCCCCCCEEEEECCCCCCCCCCCEEEECCCCC
T ss_conf             11588774435512451011277545740378312011011475378617421


No 125
>TIGR01214 rmlD dTDP-4-dehydrorhamnose reductase; InterPro: IPR005913    dTDP-4-dehydrorhamnose reductase (1.1.1.133 from EC) catalyzes the last of 4 steps in making dTDP-rhamnose, a precursor of LPS molecules such as core antigen and O-antigen.  dTDP-6-deoxy-L-mannose + NADP+ = dTDP-4-dehydro-6-deoxy-L-mannose + NADPH  ; GO: 0008831 dTDP-4-dehydrorhamnose reductase activity, 0045226 extracellular polysaccharide biosynthetic process.
Probab=87.31  E-value=1.2  Score=23.47  Aligned_cols=68  Identities=13%  Similarity=0.223  Sum_probs=47.8

Q ss_pred             EEEEECCC--CCCCHHHHHHHHHHHCCCCEEEECCCCCCC-CCCHH------HHHH-----HHHHHHHHCCCEEEECCCC
Q ss_conf             45620111--111101689999971477759931555333-58078------8878-----8999854337046421356
Q gi|254780999|r  143 IRLGILIC--EDIWKNSNICKHLKKQGAEFLFSLNASPYY-HNKLK------KRHE-----IVTGQISHVHLPIIYVNQV  208 (562)
Q Consensus       143 ~kiGv~IC--eDlw~~~~~~~~la~~Gadlii~psASp~~-~~k~~------~R~~-----~~~~~a~e~~~~vvy~N~v  208 (562)
                      ++.| .=|  .|+-.|+...+.+.....|+|||-.|  |+ ..+.+      .+.+     .+...|.+.+.++||++  
T Consensus        35 ~~~~-~~~~~~Dl~dP~~l~~~~r~~~Pd~vvntAA--YT~VD~AE~~~~~AyavNa~A~~~lA~~A~~~Ga~~vh~S--  109 (317)
T TIGR01214        35 LKLA-ARWSQLDLTDPEALEELLRAIRPDAVVNTAA--YTDVDGAESDPEKAYAVNALAPQNLARAAARVGARLVHIS--  109 (317)
T ss_pred             CCHH-HHHHHHCCCCHHHHHHHHHHHCCCEEEECCH--HCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEEEE--
T ss_conf             6113-3654406224688999998528753762301--1010000377778765740789999999986691599986--


Q ss_pred             CCCCCCCCCC
Q ss_conf             8876621048
Q gi|254780999|r  209 GGQDELIFDG  218 (562)
Q Consensus       209 Gg~d~lvf~G  218 (562)
                         .|+||||
T Consensus       110 ---TDYVFDG  116 (317)
T TIGR01214       110 ---TDYVFDG  116 (317)
T ss_pred             ---ECEEECC
T ss_conf             ---3423447


No 126
>COG2117 Predicted subunit of tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]
Probab=87.11  E-value=1.5  Score=22.87  Aligned_cols=60  Identities=33%  Similarity=0.391  Sum_probs=40.1

Q ss_pred             EEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHH
Q ss_conf             5752158723689999998414954467973246666522135699999972135426775899
Q gi|254780999|r  295 VIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHDL  358 (562)
Q Consensus       295 ~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~  358 (562)
                      +-+=-|||-||+|+|.|.. -||-+ |..|+.-  |---.+-.-|++.|+.||.+|+++.+..-
T Consensus         3 v~vLfSGGKDSSLaA~iL~-klgye-v~LVTvn--FGv~d~~k~A~~tA~~lgF~h~vl~Ldr~   62 (198)
T COG2117           3 VYVLFSGGKDSSLAALILD-KLGYE-VELVTVN--FGVLDSWKYARETAAILGFPHEVLQLDRE   62 (198)
T ss_pred             EEEEECCCCCHHHHHHHHH-HHCCC-CEEEEEE--ECCCCCHHHHHHHHHHHCCCCCEECCCHH
T ss_conf             6898448971058999998-71787-1799987--33466406689999982997000016889


No 127
>PRK12563 sulfate adenylyltransferase subunit 2; Provisional
Probab=84.51  E-value=2  Score=22.02  Aligned_cols=146  Identities=15%  Similarity=0.122  Sum_probs=78.8

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHCCCHHHE--EEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHC
Q ss_conf             24540575215872368999999841495446--7973246666522135699999972135426775899999886313
Q gi|254780999|r  290 NNFHKVIIGLSGGIDSALCAAIAVDALGKENV--QTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHDLVNHFFSLMS  367 (562)
Q Consensus       290 ~g~~~~viglSGGiDSal~a~la~~alg~~~v--~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~~~~~~~  367 (562)
                      ..|++.|+=-|||=||+|.+-||.+|+-|.++  -.+-.-+-+.=++.+.--..+++..|+++.+..-++.++   ..+.
T Consensus        35 a~f~~pvmL~S~GKDS~VmlhLA~KAF~p~~iPfPllHIDTg~kF~Emi~fRD~~a~~~~l~LiV~~n~~~i~---~g~~  111 (312)
T PRK12563         35 AECSKPVMLYSIGKDSSVMLHLAMKAFRPTRPPFPLLHVDTTWKFREMIDFRDRRAKELGLDLVVHHNPDGIA---RGIV  111 (312)
T ss_pred             HHHCCCEEEEECCCHHHHHHHHHHHHHCCCCCCCCEEEEECCCCHHHHHHHHHHHHHHHCCEEEEECCHHHHH---CCCC
T ss_conf             9736967986167429999999999737789997358863688759999999999998198689832878886---6999


Q ss_pred             CCCCCCCCCH-HHHCCCCHHHHHHHHHHHHHCCC-EECCCCCHHH-HHHH-----------------------HCCCCCC
Q ss_conf             2346874310-11012330466779888751695-4436432447-7541-----------------------1023666
Q gi|254780999|r  368 QFLQEEPSGI-VAENIQSRIRGNILMALSNHSKA-MLLTTSNKSE-ISVG-----------------------YGTLYGD  421 (562)
Q Consensus       368 ~~~~~~~~~~-~~eN~qaR~R~~~L~~~an~~~~-lvl~t~nksE-~~~G-----------------------y~T~~GD  421 (562)
                      +    ..++. +.   ...+.+.-|...=.+++. .++|-+-+.| -+-.                       |..++|.
T Consensus       112 p----~~~~~~~~---~~~lKT~~L~~ale~~~fDa~~gGaRRDEEksRAKERiFS~Rd~~~~WDPknQrPElWnlyN~~  184 (312)
T PRK12563        112 P----FRHGSALH---TDVAKTQGLKQALDHHGFDAAIGGARRDEEKSRAKERIFSFRSAFHRWDPKAQRPELWSLYNAR  184 (312)
T ss_pred             C----CCCCCHHH---HHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCCCCCEEECCCCCCCCCCCCCCCHHHHHHHCCC
T ss_conf             6----76783777---6689889999999973988785045321342344340306667788988555883587761556


Q ss_pred             CCC----CCCCCCCCCHHHHHHHHHHHH
Q ss_conf             555----401017763365899999963
Q gi|254780999|r  422 MSG----GFNPLKDLYKTQVFQLASWRN  445 (562)
Q Consensus       422 ~~g----~~~p~~~l~Kt~v~~la~~~n  445 (562)
                      ..-    -+-||.+-+-.+||+..+--|
T Consensus       185 ~~~Geh~RVfPlsNWTElDIW~YI~~E~  212 (312)
T PRK12563        185 LRRGESLRVFPLSNWTELDVWQYIAREK  212 (312)
T ss_pred             CCCCCEEEECCCCCCCHHHHHHHHHHHC
T ss_conf             7999714422355661789999999828


No 128
>PRK05253 sulfate adenylyltransferase subunit 2; Provisional
Probab=80.25  E-value=3.5  Score=20.41  Aligned_cols=147  Identities=15%  Similarity=0.143  Sum_probs=79.4

Q ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHCCCHHHE--EEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHC
Q ss_conf             24540575215872368999999841495446--7973246666522135699999972135426775899999886313
Q gi|254780999|r  290 NNFHKVIIGLSGGIDSALCAAIAVDALGKENV--QTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHDLVNHFFSLMS  367 (562)
Q Consensus       290 ~g~~~~viglSGGiDSal~a~la~~alg~~~v--~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~~~~~~~  367 (562)
                      ..|+..|+=-|||=||+|.+.||.+|+=|-++  -.+-.-+.+.=++.++--..+++..|+++.+-.-...++.   .+.
T Consensus        24 a~f~~pvmL~S~GKDS~VmLhLarKAF~p~~iPfPllHIDTg~kF~Emi~fRD~~a~e~gl~LiV~~n~e~i~~---g~~  100 (300)
T PRK05253         24 AEFENPVMLYSIGKDSSVMLHLARKAFYPGKLPFPLLHVDTGWKFPEMIEFRDRRAKELGLELIVHSNPEGIAR---GIN  100 (300)
T ss_pred             HHHCCCEEEEECCCHHHHHHHHHHHHHCCCCCCCCEEEEECCCCHHHHHHHHHHHHHHHCCCEEEEECHHHHHC---CCC
T ss_conf             97369679871672599999999998578899963488307998189999999999984997899757677756---999


Q ss_pred             CCCCCCCCCHHHHCCCCHHHHHHHHHHHHHCCC-EECCCCCHHHH-HHH-----------------------HCCCCCCC
Q ss_conf             234687431011012330466779888751695-44364324477-541-----------------------10236665
Q gi|254780999|r  368 QFLQEEPSGIVAENIQSRIRGNILMALSNHSKA-MLLTTSNKSEI-SVG-----------------------YGTLYGDM  422 (562)
Q Consensus       368 ~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~~-lvl~t~nksE~-~~G-----------------------y~T~~GD~  422 (562)
                      + ++...  .+   -...+.+.-|...-.+++. .++|-.-+.|- +-.                       |..++|..
T Consensus       101 p-~~~g~--~~---~~~~lKT~~L~~al~~~~fda~~gGaRRDEe~sRAKERiFS~R~~~~~Wdpk~QrPElW~lyn~~~  174 (300)
T PRK05253        101 P-FTHGS--AK---HTNIMKTEGLKQALEKYGFDAAFGGARRDEEKSRAKERIFSFRDEFGQWDPKNQRPELWNLYNGRI  174 (300)
T ss_pred             C-CCCCC--HH---HHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCC
T ss_conf             5-66882--22---315787899999999648765651012344321212542477564688885669802667635567


Q ss_pred             CC----CCCCCCCCCHHHHHHHHHHHH
Q ss_conf             55----401017763365899999963
Q gi|254780999|r  423 SG----GFNPLKDLYKTQVFQLASWRN  445 (562)
Q Consensus       423 ~g----~~~p~~~l~Kt~v~~la~~~n  445 (562)
                      .-    -+.||.+-+-.+|++..+--|
T Consensus       175 ~~geh~RVfPlsnWTElDIW~YI~~E~  201 (300)
T PRK05253        175 NKGEHIRVFPLSNWTELDIWQYIYREN  201 (300)
T ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHC
T ss_conf             999647751120225778999999848


No 129
>COG2102 Predicted ATPases of PP-loop superfamily [General function prediction only]
Probab=79.73  E-value=4.4  Score=19.74  Aligned_cols=63  Identities=30%  Similarity=0.271  Sum_probs=40.5

Q ss_pred             EEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCC-C--C--CCHHHHHHHHHHHCCCCCCCCHHH
Q ss_conf             05752158723689999998414954467973246666-5--2--213569999997213542677589
Q gi|254780999|r  294 KVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYT-S--P--QSLEDAAACAKALGCKYDVLPIHD  357 (562)
Q Consensus       294 ~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~-s--~--~s~~~a~~la~~lg~~~~~i~I~~  357 (562)
                      +++.=.|||=||..++..|.+. |-+=+..++|..... |  -  -..+-+..+|+.+|+++.......
T Consensus         2 k~~aL~SGGKDS~~Al~~a~~~-G~eV~~Ll~~~p~~~dS~m~H~~n~~~~~~~Ae~~gi~l~~~~~~g   69 (223)
T COG2102           2 KVIALYSGGKDSFYALYLALEE-GHEVVYLLTVKPENGDSYMFHTPNLELAELQAEAMGIPLVTFDTSG   69 (223)
T ss_pred             CEEEEEECCCHHHHHHHHHHHC-CCEEEEEEEEECCCCCEEEEECCCHHHHHHHHHHCCCCEEEEECCC
T ss_conf             6899981671889999999975-9836899998159987044222256799999874488359983476


No 130
>KOG2840 consensus
Probab=79.19  E-value=2.7  Score=21.08  Aligned_cols=67  Identities=28%  Similarity=0.347  Sum_probs=45.0

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEEC-------CCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHHH
Q ss_conf             4057521587236899999984149544679732-------4666652213569999997213542677589999
Q gi|254780999|r  293 HKVIIGLSGGIDSALCAAIAVDALGKENVQTIML-------PYKYTSPQSLEDAAACAKALGCKYDVLPIHDLVN  360 (562)
Q Consensus       293 ~~~viglSGGiDSal~a~la~~alg~~~v~~~~m-------p~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~~  360 (562)
                      +.|-+|-|||-||+|.|-. .++|-.....++.+       ...+--+.+....+......|+...++.-+.++.
T Consensus        52 e~v~igasGgkdstvlA~v-~~~Ln~r~~~g~~l~Lls~degi~gyrd~sl~avkrn~~~~~lPL~ivs~~dl~~  125 (347)
T KOG2840          52 ERVAIGASGGKDSTVLAYV-LDALNERHDYGLRLFLLSIDEGIRGYRDDSLEAVKRNGVQYGLPLCIVSYKDLYG  125 (347)
T ss_pred             CCCCCCCCCCHHHHHHHHH-HHHHHHHCCCCCEEEEEECCCCCCCEECCHHHHHHHHHHHCCCCEEEECHHHHHC
T ss_conf             8313255566027799999-9984030178841342101003642004299999986142078638841999725


No 131
>COG1091 RfbD dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]
Probab=78.45  E-value=4.8  Score=19.49  Aligned_cols=64  Identities=14%  Similarity=0.233  Sum_probs=42.7

Q ss_pred             CCCCHHHHHHHHHHHCCCCEEEECCCCCCCCCCHH------HHH-----HHHHHHHHHCCCEEEECCCCCCCCCCCCCCC
Q ss_conf             11110168999997147775993155533358078------887-----8899985433704642135688766210486
Q gi|254780999|r  151 EDIWKNSNICKHLKKQGAEFLFSLNASPYYHNKLK------KRH-----EIVTGQISHVHLPIIYVNQVGGQDELIFDGA  219 (562)
Q Consensus       151 eDlw~~~~~~~~la~~Gadlii~psASp~~~~k~~------~R~-----~~~~~~a~e~~~~vvy~N~vGg~d~lvf~G~  219 (562)
                      .|++.+..+.+.......|+|+|-.|-+ ...+.+      ...     ..+...+.+.+.++|+.+     .++||||.
T Consensus        34 ~Ditd~~~v~~~i~~~~PDvVIn~AAyt-~vD~aE~~~e~A~~vNa~~~~~lA~aa~~~ga~lVhiS-----TDyVFDG~  107 (281)
T COG1091          34 LDITDPDAVLEVIRETRPDVVINAAAYT-AVDKAESEPELAFAVNATGAENLARAAAEVGARLVHIS-----TDYVFDGE  107 (281)
T ss_pred             CCCCCHHHHHHHHHHHCCCEEEECCCCC-CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCEEEEEE-----CCEEECCC
T ss_conf             5556858999999861999899873203-65413389899777677999999999997197699963-----44574389


Q ss_pred             C
Q ss_conf             4
Q gi|254780999|r  220 S  220 (562)
Q Consensus       220 S  220 (562)
                      -
T Consensus       108 ~  108 (281)
T COG1091         108 K  108 (281)
T ss_pred             C
T ss_conf             8


No 132
>TIGR02858 spore_III_AA stage III sporulation protein AA; InterPro: IPR014217   Proteins in this entry include the stage III sporulation protein AA that is encoded by one of several genes in the spoIIIA locus. This protein is only found in species that are capable of endospore formation..
Probab=70.19  E-value=3.9  Score=20.05  Aligned_cols=55  Identities=13%  Similarity=0.212  Sum_probs=25.2

Q ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHCCCCHHHHHHCCCHHHHHH---HHHHHHHHHHHH
Q ss_conf             89997700068878899999999827999779871899999999---999998745668
Q gi|254780999|r  474 RPHQTDQESLPPYPILDDIIKRIVENEESFINNDQEYNDETVRY---VEHLLYGSEYKR  529 (562)
Q Consensus       474 ~~~Q~ded~l~~Y~~lD~il~~~i~~~~~~~~~~~~~~~~~v~~---~~~~~~~~~~KR  529 (562)
                      .|+=-=-|++|.+|=.+.+++++ .-+-++...+++.+-+++++   +.+++...-|-|
T Consensus       206 SP~Viv~DEIGr~ED~~Al~eA~-naGV~~I~TaHg~~~~Dl~kRP~fk~l~e~~~Fer  263 (282)
T TIGR02858       206 SPDVIVVDEIGREEDVEALLEAL-NAGVSVIATAHGRDLEDLKKRPVFKELLEQKAFER  263 (282)
T ss_pred             CCCEEEEECCCCHHHHHHHHHHH-CCCCEEEEEECCCCHHHHHCCHHHHHHHHHCCCEE
T ss_conf             98579981488953389999986-16756887640488126650766799997243148


No 133
>PRK09453 phosphodiesterase; Provisional
Probab=66.39  E-value=6.4  Score=18.68  Aligned_cols=43  Identities=23%  Similarity=0.353  Sum_probs=28.1

Q ss_pred             EEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHH
Q ss_conf             28999963883688999999999999999985998999166444799844
Q gi|254780999|r    5 LKIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPE   54 (562)
Q Consensus         5 mkIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~   54 (562)
                      |||++..      |..+|+....+.++...+.++|+++.-== +.+|.|.
T Consensus         1 MkI~vIS------DtHgn~~ale~vl~~~~~~~vD~iih~GD-iv~~Gp~   43 (183)
T PRK09453          1 MKLGFAS------DIHGSLPATEKALELFKQSGADWLVHLGD-VLYHGPR   43 (183)
T ss_pred             CEEEEEE------ECCCCHHHHHHHHHHHHHCCCCEEEECCC-CCCCCCC
T ss_conf             9899998------67899699999999987559989999986-2555777


No 134
>TIGR02124 hypE hydrogenase expression/formation protein HypE; InterPro: IPR011854    This family contains HypE (or HupE), a protein required for expression of catalytically active hydrogenase in many systems. It appears to be an accessory protein involved in maturation rather than a regulatory protein involved in expression. HypE shows considerable homology to the thiamine-monophosphate kinase ThiL (IPR006283 from INTERPRO) and other enzymes..
Probab=64.93  E-value=9.3  Score=17.60  Aligned_cols=93  Identities=14%  Similarity=0.180  Sum_probs=55.4

Q ss_pred             HHEEEEECCCCCCCCCCHH-HHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHH
Q ss_conf             4467973246666522135-699999972135426775899999886313234687431011012330466779888751
Q gi|254780999|r  319 ENVQTIMLPYKYTSPQSLE-DAAACAKALGCKYDVLPIHDLVNHFFSLMSQFLQEEPSGIVAENIQSRIRGNILMALSNH  397 (562)
Q Consensus       319 ~~v~~~~mp~~~~s~~s~~-~a~~la~~lg~~~~~i~I~~~~~~~~~~~~~~~~~~~~~~~~eN~qaR~R~~~L~~~an~  397 (562)
                      ..|++..=|+|.==...++ -|++.-..+-++...||+.+.|+.....|+-    ++                 +++||.
T Consensus       220 ~~v~~~RD~TRGGLA~vLNE~A~~sg~~i~l~E~~iPV~eeV~gaCE~LGl----dP-----------------l~lANE  278 (345)
T TIGR02124       220 PAVHAMRDATRGGLAAVLNEIAESSGVGIELEEEKIPVKEEVKGACELLGL----DP-----------------LYLANE  278 (345)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHHHCC----CH-----------------HHHHCC
T ss_conf             142376167855047899999996199279985247883789999986170----32-----------------542047


Q ss_pred             CCCEECCCCCHHHHHHHHCCC--CCCCCCCCC-CCCCCCHH
Q ss_conf             695443643244775411023--666555401-01776336
Q gi|254780999|r  398 SKAMLLTTSNKSEISVGYGTL--YGDMSGGFN-PLKDLYKT  435 (562)
Q Consensus       398 ~~~lvl~t~nksE~~~Gy~T~--~GD~~g~~~-p~~~l~Kt  435 (562)
                      =..++.=..+..|-+|.-.=.  ||-   +=+ .||.+..+
T Consensus       279 G~~v~~V~~E~A~~vLe~lk~hp~G~---~A~YiIG~V~e~  316 (345)
T TIGR02124       279 GKLVLAVPPEAAEKVLEILKSHPLGK---DAAYIIGEVVEK  316 (345)
T ss_pred             CEEEEEECHHHHHHHHHHHHHCCCCC---CCCEEEEEEEEC
T ss_conf             62899828377999999986077643---321563014737


No 135
>TIGR01188 drrA daunorubicin resistance ABC transporter, ATP-binding protein; InterPro: IPR005894   ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs.   ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain .    The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyze ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarize the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site , , .   The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis , , , , , .   Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1).     This family contains the daunorubicin resistance ABC transporter, ATP binding subunit in bacteria and archaea. This model is restricted in its scope to preferentially recognize the ATP binding subunit associated with effux of the drug, daunorubicin. In other words it functions as an ATP dependent antiporter. .
Probab=64.34  E-value=9.9  Score=17.41  Aligned_cols=35  Identities=20%  Similarity=0.344  Sum_probs=23.9

Q ss_pred             HHHHHHHHCCCC-EEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCC
Q ss_conf             588876422454-0575215872368999999841495446797324666652213569999997213
Q gi|254780999|r  282 SLRDYVQKNNFH-KVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGC  348 (562)
Q Consensus       282 gl~d~~~~~g~~-~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~  348 (562)
                      .+|||+++..-. ++.                           |.+-+     +-.++|.+||..++|
T Consensus       166 ~iWd~i~~lk~~~g~T---------------------------ilLTT-----hYmeEAd~L~Driai  201 (343)
T TIGR01188       166 AIWDYIEALKKEEGVT---------------------------ILLTT-----HYMEEADKLCDRIAI  201 (343)
T ss_pred             HHHHHHHHHHHCCCCE---------------------------EEEEC-----CCHHHHHHHCCEEEE
T ss_conf             9999999987407969---------------------------99743-----786999823688788


No 136
>PRK02090 phosphoadenosine phosphosulfate reductase; Provisional
Probab=63.15  E-value=10  Score=17.27  Aligned_cols=143  Identities=16%  Similarity=0.117  Sum_probs=81.4

Q ss_pred             CEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCH-HHHHHHHHHHHCCCCC
Q ss_conf             405752158723689999998414954467973246666522135699999972135426775-8999998863132346
Q gi|254780999|r  293 HKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPI-HDLVNHFFSLMSQFLQ  371 (562)
Q Consensus       293 ~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I-~~~~~~~~~~~~~~~~  371 (562)
                      .++++.-|-|.+|+|.+-|+.+.-.  .+.-+.+=+-+.-++|++-+..+.+.+|++.+++.= ...+..... .+....
T Consensus        42 ~~~~~tsSFG~es~Vllhli~~~~~--~ipV~flDTG~~f~ETy~~~d~l~~~~~l~i~~~~P~~~~~~~~~~-~g~l~~  118 (243)
T PRK02090         42 GGLALASSFGAESAVLLHLVAQVDP--DIPVIFLDTGYLFPETYRFIDQLTERLLLNLKVYRPDASAAEQEAR-YGGLWE  118 (243)
T ss_pred             CCEEEEECCCHHHHHHHHHHHHHCC--CCCEEEEECCCCCHHHHHHHHHHHHHHCCCEEEECCCCHHHHHHHH-HCCCCC
T ss_conf             9769994586789999999994199--9967986579888899999999999979977997788149999998-299766


Q ss_pred             CCCCCHHHHCCCCHHHH--HHHHHHHHHCCCEECCCCCHHH-H----HHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHH
Q ss_conf             87431011012330466--7798887516954436432447-7----541102366655540101776336589999996
Q gi|254780999|r  372 EEPSGIVAENIQSRIRG--NILMALSNHSKAMLLTTSNKSE-I----SVGYGTLYGDMSGGFNPLKDLYKTQVFQLASWR  444 (562)
Q Consensus       372 ~~~~~~~~eN~qaR~R~--~~L~~~an~~~~lvl~t~nksE-~----~~Gy~T~~GD~~g~~~p~~~l~Kt~v~~la~~~  444 (562)
                      ....|.   .-=-++|-  ++--+++.. ...+  ||-|.+ .    .+...-..+ ..--++|+.+-++.+|+...+-.
T Consensus       119 ~~~~d~---~~CC~irKvePL~raL~~~-daWi--tG~Rr~Qs~~Ra~l~~ve~d~-g~~KvnPL~~Ws~~dv~~Yi~~~  191 (243)
T PRK02090        119 QSVEDP---DECCRIRKVEPLNRALAGL-DAWI--TGLRREQSGTRAELPVLEIDR-GRFKINPLADWTNEDVWAYLKEH  191 (243)
T ss_pred             CCCCCH---HHHHHHHCCHHHHHHHHHC-CEEE--ECCCHHHCHHHCCCCCEEECC-CEEEECCCHHCCHHHHHHHHHHC
T ss_conf             763248---9876776502799986017-7587--447144263342587345239-98886700119999999999985


Q ss_pred             H
Q ss_conf             3
Q gi|254780999|r  445 N  445 (562)
Q Consensus       445 n  445 (562)
                      |
T Consensus       192 ~  192 (243)
T PRK02090        192 D  192 (243)
T ss_pred             C
T ss_conf             9


No 137
>TIGR01405 polC_Gram_pos DNA polymerase III, alpha subunit, Gram-positive type; InterPro: IPR006308   These are the polypeptide chains of DNA polymerase III. Full-length homologs of this protein are restricted to the Gram-positive lineages, including the Mycoplasmas. This protein is designated alpha chain and given the gene symbol polC, but is not a full-length homolog of other polC genes. The N-terminal region of about 200 amino acids is rich in low-complexity sequence and poorly alignable. ; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication, 0005737 cytoplasm.
Probab=59.10  E-value=5.7  Score=19.01  Aligned_cols=175  Identities=17%  Similarity=0.233  Sum_probs=99.1

Q ss_pred             HHHHHH-HHHCCCCEEEEECCCCCHHHHHHHHH----HHCCCHHHEEEEECCCCCCCCCCHHHHH----HHHHHHC--CC
Q ss_conf             358887-64224540575215872368999999----8414954467973246666522135699----9999721--35
Q gi|254780999|r  281 LSLRDY-VQKNNFHKVIIGLSGGIDSALCAAIA----VDALGKENVQTIMLPYKYTSPQSLEDAA----ACAKALG--CK  349 (562)
Q Consensus       281 lgl~d~-~~~~g~~~~viglSGGiDSal~a~la----~~alg~~~v~~~~mp~~~~s~~s~~~a~----~la~~lg--~~  349 (562)
                      ..+.+. |+||--.|++||--|-|-||+||.|.    |--|.|.=+..=+--+.+..+.+..+.-    +-|..+|  ..
T Consensus       674 YlIS~~LV~KS~~DGYlVGSRGSVGSSlVAtl~gITEVNPL~PHY~Cp~Cky~Ef~~D~~~~~GfDLp~K~CP~Cgak~p  753 (1264)
T TIGR01405       674 YLISQLLVKKSLQDGYLVGSRGSVGSSLVATLTGITEVNPLPPHYLCPNCKYSEFVTDGSVGSGFDLPDKDCPKCGAKAP  753 (1264)
T ss_pred             HHHHHHHHHHHHCCCCEECCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             89999988874158846637743114578542166115757687508787355300378778877685788888887776


Q ss_pred             C----CCCCHHHHHHHHHHHHCCCCCCCCCCHHH---HCCCCHHHHH--HHHHHHHHCCCEECCC-CCHHHHHHHHCCCC
Q ss_conf             4----26775899999886313234687431011---0123304667--7988875169544364-32447754110236
Q gi|254780999|r  350 Y----DVLPIHDLVNHFFSLMSQFLQEEPSGIVA---ENIQSRIRGN--ILMALSNHSKAMLLTT-SNKSEISVGYGTLY  419 (562)
Q Consensus       350 ~----~~i~I~~~~~~~~~~~~~~~~~~~~~~~~---eN~qaR~R~~--~L~~~an~~~~lvl~t-~nksE~~~Gy~T~~  419 (562)
                      +    +.||    ++.|   ||- -+...+|+.+   +--|||.---  -|+--.-.+.+--+|| .-||  |.||-=.|
T Consensus       754 l~kDG~~IP----FETF---LGF-~GDKVPDIDLNFSGEYQ~~AH~~vk~lFGe~~~fRAGTIgTvAeKT--AyGYVK~Y  823 (1264)
T TIGR01405       754 LKKDGQDIP----FETF---LGF-KGDKVPDIDLNFSGEYQAKAHNYVKELFGEDHTFRAGTIGTVAEKT--AYGYVKKY  823 (1264)
T ss_pred             CCCCCCCCC----CCCC---CCC-CCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEECCCHHHHHHHH--HHHHHHHH
T ss_conf             345736998----5001---677-8884686446787224778889999860897223146515355342--21025666


Q ss_pred             CC---CCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCC-CCH--HHCCCCCC
Q ss_conf             66---55540101776336589999996310332223444466-887--88288988
Q gi|254780999|r  420 GD---MSGGFNPLKDLYKTQVFQLASWRNSHGITSGLGPLTEV-IPP--SILEKSPS  470 (562)
Q Consensus       420 GD---~~g~~~p~~~l~Kt~v~~la~~~n~~~~~~~~~~~~~~-ip~--~i~~~~ps  470 (562)
                      -.   ..+     ..+.+.+|-.|++=+-..-.+.+-=|.+-+ ||.  +|.+-.|-
T Consensus       824 ~en~~~~~-----~~~r~aei~rl~~~~tGvKRTTGQHPGGIiivPk~~dvyDFtP~  875 (1264)
T TIGR01405       824 FENIIDQG-----KHYRDAEIERLVQKCTGVKRTTGQHPGGIIIVPKEMDVYDFTPV  875 (1264)
T ss_pred             HHHHHHCC-----CCCCCHHHHHHHCCCCCCCCCCCCCCCCEEEECCCEEEEECCCC
T ss_conf             77754227-----65550467876505632221578688765887687016521777


No 138
>pfam02273 Acyl_transf_2 Acyl transferase. This bacterial family of Acyl transferases (or myristoyl-acp-specific thioesterases) catalyse the first step in the bioluminescent fatty acid reductase system.
Probab=58.79  E-value=12  Score=16.78  Aligned_cols=69  Identities=28%  Similarity=0.423  Sum_probs=43.1

Q ss_pred             HHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHHH
Q ss_conf             5888764224540575215872368999999841495446797324666652213569999997213542677589999
Q gi|254780999|r  282 SLRDYVQKNNFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHDLVN  360 (562)
Q Consensus       282 gl~d~~~~~g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~~  360 (562)
                      -+-|.++..|...+     |=|-|+|.|-||.+....-|+ .+    -.|.-.-.+.-..|-++||..|...||+.+-+
T Consensus        90 ~VidWLk~rgi~~l-----GlIAaSLSARIAY~v~~ei~l-sf----LiTAVGVvnLR~TLEkal~~Dyl~lpi~~lPe  158 (294)
T pfam02273        90 TVIDWLKTRGINNI-----GLIASSLSARIAYEVISEINL-SF----LITAVGVVNLRDTLEKALGFDYLSLPIDELPE  158 (294)
T ss_pred             HHHHHHHHCCCCHH-----HHHHHHHHHHHHHHHHHHCCH-HE----EEEEEEEEEHHHHHHHHHCCCHHCCCHHHCCC
T ss_conf             99999986597333-----445776778999998742132-11----66654555379999998487521189446965


No 139
>TIGR01361 DAHP_synth_Bsub phospho-2-dehydro-3-deoxyheptonate aldolase; InterPro: IPR006268   These sequences are one of at least three types of phospho-2-dehydro-3-deoxyheptonate aldolase (DAHP synthase). This enzyme catalyzes the first of 7 steps in the biosynthesis of chorismate, that last common precursor of all three aromatic amino acids and of PABA, ubiquinone and menaquinone. Some members of this family, including an experimentally characterised member from Bacillus subtilis, are bifunctional, with a chorismate mutase domain N-terminal to this region. The member of this family from Synechocystis PCC 6803, CcmA, was shown to be essential for carboxysome formation. However, no other candidate for this enzyme is present in that species, chorismate biosynthesis does occur, other species having this protein lack carboxysomes but appear to make chorismate, and a requirement of CcmA for carboxysome formation does not prohibit a role in chorismate biosynthesis.; GO: 0016832 aldehyde-lyase activity, 0009073 aromatic amino acid family biosynthetic process.
Probab=57.86  E-value=13  Score=16.68  Aligned_cols=69  Identities=17%  Similarity=0.312  Sum_probs=40.4

Q ss_pred             CCEEEECCEEEEE-------CCC--CCCCHHHHHHHHHHHCCCCEEE----ECCCCCCCCC-CHHHHHHHHHHHHHHCCC
Q ss_conf             7614764745620-------111--1111016899999714777599----3155533358-078887889998543370
Q gi|254780999|r  135 NDPIVFRDIRLGI-------LIC--EDIWKNSNICKHLKKQGAEFLF----SLNASPYYHN-KLKKRHEIVTGQISHVHL  200 (562)
Q Consensus       135 ~~~~~~~g~kiGv-------~IC--eDlw~~~~~~~~la~~Gadlii----~psASp~~~~-k~~~R~~~~~~~a~e~~~  200 (562)
                      ..+.++++++||=       -=|  |+.-.-...++..+..||++|=    =|--|||.+. ....-...++..+.+.+.
T Consensus        11 ~tv~~v~~v~IG~G~~~~iAGPCsvEs~eq~~~~A~~vk~~Ga~~LRGGAfKPRTSPYsFQGlg~~gl~~l~~A~~~~GL   90 (262)
T TIGR01361        11 KTVVDVKGVKIGEGSPIVIAGPCSVESEEQIVETARFVKEAGAKILRGGAFKPRTSPYSFQGLGEEGLKLLRRAADETGL   90 (262)
T ss_pred             CCEEECCCEEECCCEEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEECCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCC
T ss_conf             61577185775384789986487748879999999999866740430663488888841247418999999999986099


Q ss_pred             EEE
Q ss_conf             464
Q gi|254780999|r  201 PII  203 (562)
Q Consensus       201 ~vv  203 (562)
                      ++|
T Consensus        91 ~~v   93 (262)
T TIGR01361        91 PVV   93 (262)
T ss_pred             EEE
T ss_conf             489


No 140
>PRK13210 putative L-xylulose 5-phosphate 3-epimerase; Reviewed
Probab=57.72  E-value=13  Score=16.67  Aligned_cols=12  Identities=17%  Similarity=0.182  Sum_probs=5.2

Q ss_pred             HHHHHHHCCCEE
Q ss_conf             999854337046
Q gi|254780999|r  191 VTGQISHVHLPI  202 (562)
Q Consensus       191 ~~~~a~e~~~~v  202 (562)
                      ++..+.++++++
T Consensus        57 i~~~~~~~gl~I   68 (284)
T PRK13210         57 LVKAIYETGVRI   68 (284)
T ss_pred             HHHHHHHCCCEE
T ss_conf             999999829835


No 141
>KOG1706 consensus
Probab=56.60  E-value=13  Score=16.55  Aligned_cols=19  Identities=16%  Similarity=0.183  Sum_probs=11.6

Q ss_pred             HHHHHHHHHHHHCCCCEEEECC
Q ss_conf             9999999999985998999166
Q gi|254780999|r   24 AKARRAREEANRQGMDLILFTE   45 (562)
Q Consensus        24 ~~i~~~i~~A~~~gadLvvfPE   45 (562)
                      .-|+.++   +++|.|+|+|-.
T Consensus        19 scil~WL---keqGyeViay~A   37 (412)
T KOG1706          19 SCILAWL---KEQGYEVIAYLA   37 (412)
T ss_pred             HHHHHHH---HHCCCEEEEEEC
T ss_conf             3435888---862965898400


No 142
>pfam09987 DUF2226 Uncharacterized protein conserved in archaea (DUF2226). This domain, found in various hypothetical archaeal proteins, has no known function.
Probab=56.34  E-value=14  Score=16.52  Aligned_cols=28  Identities=14%  Similarity=0.335  Sum_probs=24.5

Q ss_pred             EEEECCEEEEEEEEEECCEEEEEEEEEE
Q ss_conf             9988898789999996997999887776
Q gi|254780999|r   89 PRQDQEGVLNSVVILDAGNIIAVRDKIN  116 (562)
Q Consensus        89 p~~~~~~~yNsa~vi~~G~il~~y~K~~  116 (562)
                      ..+.++++|.+.+++.+|+|++.|-+..
T Consensus        36 ~~k~g~~L~e~~i~VenGKIVg~y~~~~   63 (252)
T pfam09987        36 TTRDGEDLYDAFIIVENGKVVGAYLGRV   63 (252)
T ss_pred             EECCCCCCCEEEEEEECCEEEEEEEEEC
T ss_conf             9636872012589998896999998522


No 143
>KOG0259 consensus
Probab=56.34  E-value=14  Score=16.52  Aligned_cols=70  Identities=13%  Similarity=0.161  Sum_probs=33.8

Q ss_pred             HHHHHHCC--CCEEEECC---CCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCCCCEEECCCCEEEEECC
Q ss_conf             99997147--77599315---55333580788878899985433704642135688766210486435558985999616
Q gi|254780999|r  160 CKHLKKQG--AEFLFSLN---ASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQDELIFDGASFCFDGQQQLAFQMK  234 (562)
Q Consensus       160 ~~~la~~G--adlii~ps---ASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d~lvf~G~S~I~d~~G~ii~~~~  234 (562)
                      .+.++..+  |=+++||+   ++-|+.    ...+-+.+.|.+.+..++.=-   -++..+|.+.-|+  |-|+      
T Consensus       192 veal~DENT~AivviNP~NPcGnVys~----~HL~kiae~A~klgi~vIaDE---VY~~~vfg~~pfv--pmg~------  256 (447)
T KOG0259         192 VEALADENTVAIVVINPNNPCGNVYSE----DHLKKIAETAKKLGIMVIADE---VYGHTVFGDKPFV--PMGK------  256 (447)
T ss_pred             HHHHHCCCEEEEEEECCCCCCCCCCCH----HHHHHHHHHHHHHCCEEEEHH---HCCEEECCCCCCC--CHHH------
T ss_conf             997644670699996799998651519----999999999998497697611---1231331799730--0133------


Q ss_pred             CCCCCEEEEEE
Q ss_conf             77763799999
Q gi|254780999|r  235 HFSEQNFMTEW  245 (562)
Q Consensus       235 ~f~e~~~i~d~  245 (562)
                       |+..+-+.++
T Consensus       257 -fssiVPVitl  266 (447)
T KOG0259         257 -FSSIVPVITL  266 (447)
T ss_pred             -CCCCCCEEEE
T ss_conf             -0565736861


No 144
>COG3453 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=55.64  E-value=14  Score=16.45  Aligned_cols=108  Identities=24%  Similarity=0.253  Sum_probs=62.3

Q ss_pred             EEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHH------HHHHHHHHHHCCC
Q ss_conf             7521587236899999984149544679732466665221356999999721354267758------9999988631323
Q gi|254780999|r  296 IIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIH------DLVNHFFSLMSQF  369 (562)
Q Consensus       296 viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~------~~~~~~~~~~~~~  369 (562)
                      .+.+||-|.-+=...|+  ++|=+-|++-.--....++-+-..-++-++..|+.+..||..      .-|+.|...+.. 
T Consensus         9 ~lsVsgQi~~~D~~~ia--a~GFksiI~nRPDgEe~~QP~~~~i~~aa~~aGl~y~~iPV~~~~iT~~dV~~f~~Al~e-   85 (130)
T COG3453           9 RLSVSGQISPADIASIA--ALGFKSIICNRPDGEEPGQPGFAAIAAAAEAAGLTYTHIPVTGGGITEADVEAFQRALDE-   85 (130)
T ss_pred             CEEECCCCCHHHHHHHH--HHCCCEECCCCCCCCCCCCCCHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHHHH-
T ss_conf             34236989888999999--704221001699877889997499999999669825876347998799999999999997-


Q ss_pred             CCCCCCCHHHHCCCCHHHHHHHHHHHHHCCCEECCCCCHHH-HHHHH
Q ss_conf             46874310110123304667798887516954436432447-75411
Q gi|254780999|r  370 LQEEPSGIVAENIQSRIRGNILMALSNHSKAMLLTTSNKSE-ISVGY  415 (562)
Q Consensus       370 ~~~~~~~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~nksE-~~~Gy  415 (562)
                      +++++-.    --++..|.+.||.+....++|-     ++| .++|+
T Consensus        86 aegPVla----yCrsGtRs~~ly~~~~~~~gm~-----~de~~a~g~  123 (130)
T COG3453          86 AEGPVLA----YCRSGTRSLNLYGLGELDGGMS-----RDEIEALGQ  123 (130)
T ss_pred             CCCCEEE----EECCCCHHHHHHHHHHHHCCCC-----HHHHHHHHH
T ss_conf             0898786----5457706889999999866998-----899999888


No 145
>PRK13946 shikimate kinase; Provisional
Probab=52.46  E-value=12  Score=16.93  Aligned_cols=82  Identities=17%  Similarity=0.099  Sum_probs=44.1

Q ss_pred             HHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHH-HHHCCCCCCCCCCHHHHCCCCHHHHHHH
Q ss_conf             841495446797324666652213569999997213542677589999988-6313234687431011012330466779
Q gi|254780999|r  313 VDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHDLVNHFF-SLMSQFLQEEPSGIVAENIQSRIRGNIL  391 (562)
Q Consensus       313 ~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~~~-~~~~~~~~~~~~~~~~eN~qaR~R~~~L  391 (562)
                      .-+|+.+||.-+-||+-.-|    .-++.||+.||..+...|  ..++... ..+...|.....    +..+...+-. |
T Consensus        15 ~~~l~kknIvLIG~mGsGKS----tvGk~LA~~L~~~fiD~D--~~IE~~~g~sI~eIF~~~GE----~~FR~~E~~~-l   83 (195)
T PRK13946         15 RAALGKRTVVLVGLMGAGKS----TVGRRLATMLGLPFLDAD--TEIERAARMTIPEIFATYGE----PEFRDLERRV-I   83 (195)
T ss_pred             HHHHCCCCEEEECCCCCCHH----HHHHHHHHHHCCCEEECH--HHHHHHHCCCHHHHHHHHCH----HHHHHHHHHH-H
T ss_conf             99858995899899999889----999999999797989885--99999809989999998697----9999989999-9


Q ss_pred             HHHHHHCCCEECCCC
Q ss_conf             888751695443643
Q gi|254780999|r  392 MALSNHSKAMLLTTS  406 (562)
Q Consensus       392 ~~~an~~~~lvl~t~  406 (562)
                      ..+.+. +..|++||
T Consensus        84 ~~l~~~-~~~VIstG   97 (195)
T PRK13946         84 ARLLKG-GPLVLATG   97 (195)
T ss_pred             HHHHCC-CCEEEECC
T ss_conf             998648-98799758


No 146
>TIGR02039 CysD sulfate adenylyltransferase, small subunit; InterPro: IPR011784   Metabolic assimilation of sulphur from inorganic sulphate, requires sulphate activation by coupling to a nucleoside, for the production of high-energy nucleoside phosphosulphates. This pathway appears to be similar in all prokaryotic organisms. Activation is first achieved through reaction of sulphate with ATP by sulphate adenylyltransferase (ATP sulphurylase) to produce 5'-phosphosulphate (APS), coupled by GTP hydrolysis. Subsequently, APS is phosphorylated by an APS kinase to produce 3'-phosphoadenosine-5'-phosphosulphate (PAPS). In Escherichia coli, ATP sulphurylase is a heterodimer composed of two subunits encoded by cysD and cysN, with APS kinase encoded by cysC. These genes are located in a unidirectionally transcribed gene cluster, and have been shown to be required for the synthesis of sulphur-containing amino acids. Homologous to this E. coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulphurase and APS kinase activity, yet are involved in Nod factor sulphation, and sulphation of other macromolecules.; GO: 0004781 sulfate adenylyltransferase (ATP) activity, 0019421 sulfate reduction APS pathway.
Probab=52.04  E-value=11  Score=17.16  Aligned_cols=64  Identities=14%  Similarity=0.101  Sum_probs=38.7

Q ss_pred             HCCCCEEEEECCCCCHHHHHHHHHHHCCCHHHE----EEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCC
Q ss_conf             224540575215872368999999841495446----797324666652213569999997213542677
Q gi|254780999|r  289 KNNFHKVIIGLSGGIDSALCAAIAVDALGKENV----QTIMLPYKYTSPQSLEDAAACAKALGCKYDVLP  354 (562)
Q Consensus       289 ~~g~~~~viglSGGiDSal~a~la~~alg~~~v----~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~  354 (562)
                      ...|++=|+=-|+|=||+|.+.||.+|+=|-++    +-|=  +.+.=.+-..---.+++..++.+.+..
T Consensus        16 aa~F~~PV~LyS~GKDS~VlLHLA~KaF~Pg~~PFplLHvD--Tgw~f~E~~~fRD~~~~~~~~~L~v~~   83 (295)
T TIGR02039        16 AAEFERPVLLYSIGKDSSVLLHLARKAFYPGRLPFPLLHVD--TGWKFREMIAFRDELVAKYGLELIVHS   83 (295)
T ss_pred             HHCCCCCEEEEECCCHHHHHHHHHHHCCCCCCCCCCEEEEE--CCCCHHHHHHHHHHHHHHHCCEEEEEE
T ss_conf             63037976898657347999998764058888797357740--663278999999999987097688850


No 147
>PRK09987 dTDP-4-dehydrorhamnose reductase; Provisional
Probab=51.64  E-value=16  Score=16.03  Aligned_cols=65  Identities=14%  Similarity=0.271  Sum_probs=41.6

Q ss_pred             CCCCCHHHHHHHHHHHCCCCEEEECCCCCCCCCCH------HHH-----HHHHHHHHHHCCCEEEECCCCCCCCCCCCCC
Q ss_conf             11111016899999714777599315553335807------888-----7889998543370464213568876621048
Q gi|254780999|r  150 CEDIWKNSNICKHLKKQGAEFLFSLNASPYYHNKL------KKR-----HEIVTGQISHVHLPIIYVNQVGGQDELIFDG  218 (562)
Q Consensus       150 CeDlw~~~~~~~~la~~Gadlii~psASp~~~~k~------~~R-----~~~~~~~a~e~~~~vvy~N~vGg~d~lvf~G  218 (562)
                      |-|+-.+..+...+.....|+|+|..|-.- ..+-      ..+     -..+...+.+.++++|+..     .+.||||
T Consensus        37 ~~Dit~~~~v~~~~~~~~Pd~IIN~aA~T~-VD~~E~~~~~a~~vN~~~~~~La~~~~~~~~~lIhiS-----TD~VFdG  110 (299)
T PRK09987         37 CGDFSNPEGVAETVRKIRPDVIVNAAAHTA-VDKAESEPEFAQLLNATSVEAIAKAANEVGAWVVHYS-----TDYVFPG  110 (299)
T ss_pred             CCCCCCHHHHHHHHHHCCCCEEEECHHHCC-HHHHHCCHHHHHHHHHHHHHHHHHHHHHCCCEEEEEC-----CCEEECC
T ss_conf             367899999999999659999998831016-3665248999999888999999999997398599963-----2116068


Q ss_pred             CC
Q ss_conf             64
Q gi|254780999|r  219 AS  220 (562)
Q Consensus       219 ~S  220 (562)
                      ..
T Consensus       111 ~~  112 (299)
T PRK09987        111 TG  112 (299)
T ss_pred             CC
T ss_conf             99


No 148
>COG4646 DNA methylase [Transcription / DNA replication, recombination, and repair]
Probab=51.13  E-value=15  Score=16.33  Aligned_cols=15  Identities=27%  Similarity=0.419  Sum_probs=10.8

Q ss_pred             HHHHHHHCCCCCEEC
Q ss_conf             456687389702472
Q gi|254780999|r  525 SEYKRRQAPVGTKIT  539 (562)
Q Consensus       525 ~~~KR~~~pp~~~is  539 (562)
                      ..|||-|+.|+|++.
T Consensus       588 ~a~~ryqy~~~~~ik  602 (637)
T COG4646         588 RAFKRYQYVLSPRIK  602 (637)
T ss_pred             HHHHCCCCCCCCHHH
T ss_conf             455403557761556


No 149
>TIGR01980 sufB FeS assembly protein SufB; InterPro: IPR010231   Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron. These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] . FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems.   The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins , . It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly .   The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA . SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA , acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets.   In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins . Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen .   This entry represents SufB, which is part of the SUF system and forms a complex with SufBCD.; GO: 0005515 protein binding, 0016226 iron-sulfur cluster assembly.
Probab=50.91  E-value=14  Score=16.52  Aligned_cols=33  Identities=12%  Similarity=0.222  Sum_probs=24.0

Q ss_pred             CCCCCCCCEEECCCCEEEE------------ECCCCCCCEEEEEE
Q ss_conf             6210486435558985999------------61677763799999
Q gi|254780999|r  213 ELIFDGASFCFDGQQQLAF------------QMKHFSEQNFMTEW  245 (562)
Q Consensus       213 ~lvf~G~S~I~d~~G~ii~------------~~~~f~e~~~i~d~  245 (562)
                      ..||.|||||+=|.|.-+-            ...+||-.++|+|=
T Consensus       183 ~AVWSGGsFvYVPkGV~v~~PLqtYFRIN~~~~GQFErTLiIade  227 (469)
T TIGR01980       183 GAVWSGGSFVYVPKGVRVDMPLQTYFRINSENTGQFERTLIIADE  227 (469)
T ss_pred             HHEEECCEEEEECCCCEECCCCCCCEECCCCCCCCCEEEEEEEEE
T ss_conf             211027857984789866663000000284778863258899951


No 150
>cd03819 GT1_WavL_like This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core.
Probab=49.59  E-value=17  Score=15.83  Aligned_cols=15  Identities=0%  Similarity=0.341  Sum_probs=7.8

Q ss_pred             HHHHHHHCCCCEEEE
Q ss_conf             999997147775993
Q gi|254780999|r  159 ICKHLKKQGAEFLFS  173 (562)
Q Consensus       159 ~~~~la~~Gadlii~  173 (562)
                      ..+.+.....|++..
T Consensus        70 l~~~l~~~~~Divh~   84 (355)
T cd03819          70 LRRLIREEKVDIVHA   84 (355)
T ss_pred             HHHHHHHHCCCEEEE
T ss_conf             999999969989997


No 151
>TIGR02346 chap_CCT_theta T-complex protein 1, theta subunit; InterPro: IPR012721    Members of this eukaryotic family are part of the group II chaperonin complex called CCT (chaperonin containing TCP-1) or TRiC. The archaeal equivalent group II chaperonin is often called the thermosome. Both are somewhat related to the group I chaperonin of bacterial, GroEL/GroES. This family consists exclusively of the CCT theta chain (part of a paralogous family) from animals, plants, fungi, and other eukaryotes.; GO: 0005524 ATP binding, 0051082 unfolded protein binding, 0006457 protein folding.
Probab=49.30  E-value=18  Score=15.80  Aligned_cols=39  Identities=21%  Similarity=0.400  Sum_probs=16.0

Q ss_pred             CCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCC
Q ss_conf             58723689999998414954467973246666522135699999972135
Q gi|254780999|r  300 SGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCK  349 (562)
Q Consensus       300 SGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~  349 (562)
                      +||-=|=+++..+    -+-++.-+-.||+|       +=++||+.+|..
T Consensus       295 ~gG~v~d~AlHy~----~~Y~im~~k~~SKF-------ELrRlCk~~gA~  333 (554)
T TIGR02346       295 TGGSVGDMALHYV----EKYNIMVLKIPSKF-------ELRRLCKTVGAT  333 (554)
T ss_pred             ECCCHHHHHHHHH----HHCCEEEEEECCCH-------HHHHHHHHHCCC
T ss_conf             4684889999878----15582699977826-------588999880777


No 152
>PRK13604 luxD acyl transferase; Provisional
Probab=47.80  E-value=18  Score=15.65  Aligned_cols=69  Identities=23%  Similarity=0.378  Sum_probs=43.0

Q ss_pred             HHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHHH
Q ss_conf             5888764224540575215872368999999841495446797324666652213569999997213542677589999
Q gi|254780999|r  282 SLRDYVQKNNFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHDLVN  360 (562)
Q Consensus       282 gl~d~~~~~g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~~  360 (562)
                      .+-|.++..|....     |=|-++|.|-||.+....-++ .+    -.|.-.-.+.-..|-++||..|...||+.+-+
T Consensus        95 ~VidWLk~rgi~~i-----GlIAaSLSARIAY~v~~eidl-sf----LiTAVGVvnLR~TLEkal~yDyl~lpi~~lPe  163 (305)
T PRK13604         95 TVVDWLKTRGIQNI-----GLIAASLSARIAYEVINEIDL-SF----LITAVGVVNLRDTLEKALKYDYLQLPINELPE  163 (305)
T ss_pred             HHHHHHHHCCCCHH-----HHHHHHHHHHHHHHHHHHCCH-HE----EEEEEEEEEHHHHHHHHHCCCHHCCCHHHCCC
T ss_conf             99999986597423-----446776788999998742123-20----45543555379999998487531089446965


No 153
>TIGR02715 amido_AtzE amidohydrolase, AtzE family; InterPro: IPR014087   Members of this protein family are aminohydrolases related to, but distinct from, glutamyl-tRNA(Gln) amidotransferase subunit A. The best-characterised member is from Pseudomonas sp., which hydrolyses ammonia from the three-nitrogen compound biuret to yield allophanate. Allophanate is also an intermediate in urea degradation by the urea carboxylase/allophanate hydrolase pathway, an alternative to urease..
Probab=47.44  E-value=5.3  Score=19.18  Aligned_cols=23  Identities=35%  Similarity=0.577  Sum_probs=9.3

Q ss_pred             CHHHHHHHHH--HHCCCHHHEEEEECC
Q ss_conf             2368999999--841495446797324
Q gi|254780999|r  303 IDSALCAAIA--VDALGKENVQTIMLP  327 (562)
Q Consensus       303 iDSal~a~la--~~alg~~~v~~~~mp  327 (562)
                      .|+.+.|++-  ++|||..++  |+||
T Consensus       268 ~~pea~AAv~~vA~AL~a~~~--V~lP  292 (454)
T TIGR02715       268 ADPEALAAVGRVAKALGATEI--VELP  292 (454)
T ss_pred             CCHHHHHHHHHHHHHHCCCCE--EECC
T ss_conf             668899999999996188626--6461


No 154
>PRK13209 L-xylulose 5-phosphate 3-epimerase; Reviewed
Probab=47.42  E-value=19  Score=15.61  Aligned_cols=17  Identities=18%  Similarity=0.149  Sum_probs=7.7

Q ss_pred             HHHHHHHHHHHCCCCCC
Q ss_conf             35699999972135426
Q gi|254780999|r  336 LEDAAACAKALGCKYDV  352 (562)
Q Consensus       336 ~~~a~~la~~lg~~~~~  352 (562)
                      .+.+..+++.++.....
T Consensus       167 ~~~~~~~i~~v~sP~l~  183 (283)
T PRK13209        167 ISKALGYAHYLNSPWFQ  183 (283)
T ss_pred             HHHHHHHHHHCCCCCEE
T ss_conf             99999999966997289


No 155
>TIGR01455 glmM phosphoglucosamine mutase; InterPro: IPR006352   This family describes GlmM, phosphoglucosamine mutase, also designated MrsA and YhbF in Escherichia coli , UreC in Helicobacter pylori , and femR315 or FemD in Staphlococcus aureus . It converts glucosamine-6-phosphate to glucosamine-1-phosphate as part of the pathway toward UDP-N-acetylglucosamine for peptidoglycan and lipopolysaccharides..
Probab=45.75  E-value=20  Score=15.45  Aligned_cols=91  Identities=13%  Similarity=0.191  Sum_probs=53.1

Q ss_pred             CCC--CCCCCCCCEEEECCEEEEECCCCCC-CHHHHHHHHHHHCCCCEEEE---CCCCC--CCCCCHHHHHHHHHHHHHH
Q ss_conf             100--3778887614764745620111111-10168999997147775993---15553--3358078887889998543
Q gi|254780999|r  126 KRT--FISGYSNDPIVFRDIRLGILICEDI-WKNSNICKHLKKQGAEFLFS---LNASP--YYHNKLKKRHEIVTGQISH  197 (562)
Q Consensus       126 ~r~--F~~G~~~~~~~~~g~kiGv~ICeDl-w~~~~~~~~la~~Gadlii~---psASp--~~~~k~~~R~~~~~~~a~e  197 (562)
                      .||  |....-+..+.+.|.|+-+= |--- -+.-.| ..+.+-||++|..   |+++.  -..|..+  .+.++...+|
T Consensus       159 ~rY~~F~~~t~P~~~~L~GLk~VlD-CAnGAay~~AP-~~F~~LGAeViAi~~~PdG~NIN~~cGSTH--~~~Lq~~V~E  234 (450)
T TIGR01455       159 GRYIEFLKSTLPRGLSLSGLKVVLD-CANGAAYKVAP-KVFRELGAEVIAIGVEPDGLNINDGCGSTH--LEALQKAVRE  234 (450)
T ss_pred             HHHHHHHHHHCCCCCCCCCCEEEEE-CCCCHHHHHHH-HHHHHCCCEEEEECCCCCCCCCCCCCCCCC--HHHHHHHHHH
T ss_conf             9999999984689988787568764-10423689999-999971986999806888632244568677--7889988402


Q ss_pred             CCCEEEECCCCCCCCCCCCCCCC---EEECCCCEEE
Q ss_conf             37046421356887662104864---3555898599
Q gi|254780999|r  198 VHLPIIYVNQVGGQDELIFDGAS---FCFDGQQQLA  230 (562)
Q Consensus       198 ~~~~vvy~N~vGg~d~lvf~G~S---~I~d~~G~ii  230 (562)
                      .+.-+          .+-|||.+   +++|.+|+++
T Consensus       235 ~~AdL----------GiAfDGDaDR~~~VD~~G~~V  260 (450)
T TIGR01455       235 SGADL----------GIAFDGDADRVLAVDENGDIV  260 (450)
T ss_pred             CCCCC----------CEEECCCCCEEEEECCCCCCC
T ss_conf             03440----------100128845289880665954


No 156
>PRK09982 universal stress protein UspD; Provisional
Probab=44.93  E-value=9.7  Score=17.49  Aligned_cols=31  Identities=10%  Similarity=0.005  Sum_probs=15.5

Q ss_pred             HHHHHHHHCCC----EECCCCCHHHHHHHHCCCCC
Q ss_conf             79888751695----44364324477541102366
Q gi|254780999|r  390 ILMALSNHSKA----MLLTTSNKSEISVGYGTLYG  420 (562)
Q Consensus       390 ~L~~~an~~~~----lvl~t~nksE~~~Gy~T~~G  420 (562)
                      .|..++.+.++    ..+++|+.++-....++.++
T Consensus        69 ~L~~L~~~~~YPI~~~~v~~Gdl~~~L~~~v~~~~  103 (142)
T PRK09982         69 KLYKLTKNIQWPKTKLRIERGEMPETLLEIMQKEQ  103 (142)
T ss_pred             HHHHHHHHCCCCCEEEEEEECCHHHHHHHHHHHHC
T ss_conf             99999984799824789984488999999999849


No 157
>PRK07106 5-aminoimidazole-4-carboxamide ribonucleotide transformylase; Provisional
Probab=44.71  E-value=21  Score=15.34  Aligned_cols=23  Identities=9%  Similarity=0.247  Sum_probs=15.5

Q ss_pred             HHHHHHHHHHCCCCEEEECCCCC
Q ss_conf             16899999714777599315553
Q gi|254780999|r  156 NSNICKHLKKQGAEFLFSLNASP  178 (562)
Q Consensus       156 ~~~~~~~la~~Gadlii~psASp  178 (562)
                      +...++.+...=.|+|+.|+=++
T Consensus       125 d~~~A~~I~~~F~EvIIAP~f~~  147 (391)
T PRK07106        125 DEATARILNREVSDGIIAPGYTP  147 (391)
T ss_pred             CHHHHHHHHHHHHHHHCCCCCCH
T ss_conf             89999999986576410578898


No 158
>PRK03367 consensus
Probab=44.01  E-value=21  Score=15.33  Aligned_cols=36  Identities=19%  Similarity=0.294  Sum_probs=20.4

Q ss_pred             CCCCEEEEEEECCCCCCCHHHHH-HHHHHHHHHHHHCCCCEEEE
Q ss_conf             98862899996388368899999-99999999999859989991
Q gi|254780999|r    1 MLKKLKIAIAQLNPVVGDIAGNI-AKARRAREEANRQGMDLILF   43 (562)
Q Consensus         1 M~~~mkIal~Q~n~~~gd~~~N~-~~i~~~i~~A~~~gadLvvf   43 (562)
                      ||++-||++.     .||+.+-= +-+.++..+  ...++++++
T Consensus         1 mm~~~~IaIT-----~GDPaGIGPEIi~kl~~~--~~~~~~iv~   37 (329)
T PRK03367          1 MVKNQRVVIT-----PGEPAGIGPDLVVQLAQR--EWPVELVVC   37 (329)
T ss_pred             CCCCCCEEEE-----CCCCCHHHHHHHHHHHHC--CCCCCEEEE
T ss_conf             9989978998-----788753189999999700--689888999


No 159
>cd03812 GT1_CapH_like This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1).
Probab=44.01  E-value=21  Score=15.27  Aligned_cols=12  Identities=25%  Similarity=0.332  Sum_probs=5.7

Q ss_pred             HHHHHHHHHCCC
Q ss_conf             699999972135
Q gi|254780999|r  338 DAAACAKALGCK  349 (562)
Q Consensus       338 ~a~~la~~lg~~  349 (562)
                      .-+++++.+|++
T Consensus       237 ~l~~~i~~~~l~  248 (358)
T cd03812         237 EIKKKVKELGLE  248 (358)
T ss_pred             HHHHHHHHCCCC
T ss_conf             899999982987


No 160
>cd03823 GT1_ExpE7_like This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II).
Probab=43.27  E-value=22  Score=15.20  Aligned_cols=12  Identities=8%  Similarity=0.063  Sum_probs=5.1

Q ss_pred             HHHHCCCCEEEE
Q ss_conf             997147775993
Q gi|254780999|r  162 HLKKQGAEFLFS  173 (562)
Q Consensus       162 ~la~~Gadlii~  173 (562)
                      .+.....|++..
T Consensus        91 ~~~~~~pDivh~  102 (359)
T cd03823          91 LLEDFRPDVVHF  102 (359)
T ss_pred             HHHHCCCCEEEE
T ss_conf             998749999998


No 161
>TIGR01182 eda 2-dehydro-3-deoxyphosphogluconate aldolase/4-hydroxy-2-oxoglutarate aldolase; InterPro: IPR000887 4-Hydroxy-2-oxoglutarate aldolase (4.1.3.16 from EC) (KHG-aldolase) catalyzes the interconversion of 4-hydroxy-2-oxoglutarate into pyruvate and glyoxylate. Phospho-2-dehydro-3-deoxygluconate aldolase (4.1.2.14 from EC) (KDPG-aldolase) catalyzes the interconversion of 6-phospho-2-dehydro-3-deoxy-D-gluconate into pyruvate and glyceraldehyde 3-phosphate. These two enzymes are structurally and functionally related . They are both homotrimeric proteins of approximately 220 amino-acid residues. They are class I aldolases whose catalytic mechanism involves the formation of a Schiff-base intermediate between the substrate and the epsilon-amino group of a lysine residue. In both enzymes, an arginine is required for catalytic activity.; GO: 0003824 catalytic activity, 0008152 metabolic process.
Probab=42.98  E-value=22  Score=15.17  Aligned_cols=16  Identities=19%  Similarity=0.218  Sum_probs=6.4

Q ss_pred             HHHHHHCCCCEEEECC
Q ss_conf             9999985998999166
Q gi|254780999|r   30 REEANRQGMDLILFTE   45 (562)
Q Consensus        30 i~~A~~~gadLvvfPE   45 (562)
                      +++|.+.|||.+|-|=
T Consensus        74 ~~~A~~AGA~F~vSPG   89 (205)
T TIGR01182        74 LRQAVAAGAQFIVSPG   89 (205)
T ss_pred             HHHHHHCCCCEEECCC
T ss_conf             9999970895787697


No 162
>TIGR02778 ligD_pol DNA polymerase LigD, polymerase domain; InterPro: IPR014145   DNA repair of double-stranded breaks by non-homologous end joining (NHEJ) is accomplished by a two-protein system that is present in a minority of prokaryotes. One component is the Ku protein (see IPR009187 from INTERPRO), which binds DNA ends. The other is a DNA ligase, a protein that is a multidomain polypeptide in most of those bacteria that have NheJ, a permuted polypeptide in Mycobacterium tuberculosis and a few other species, and the product of tandem genes in some other bacteria. This region represents the C-terminal polymerase domain..
Probab=42.73  E-value=8.6  Score=17.81  Aligned_cols=60  Identities=18%  Similarity=0.187  Sum_probs=33.8

Q ss_pred             HHHHCCHHHHHHHHHHHCCCCE--EEEECCC--CCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHH
Q ss_conf             8642202035888764224540--5752158--723689999998414954467973246666522135
Q gi|254780999|r  273 EADYNACVLSLRDYVQKNNFHK--VIIGLSG--GIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLE  337 (562)
Q Consensus       273 e~~~~Alvlgl~d~~~~~g~~~--~viglSG--GiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~  337 (562)
                      ..+++  -+||.-|++-||-||  |+|.|.=  ..+.-=+-..|. ++ ++ -++-.||.+||++.++.
T Consensus       144 r~~L~--~lgL~sFvKTSGGKGLHv~vPl~~a~~~~w~~~~~Fa~-~~-A~-~l~~~~P~~ft~~m~K~  207 (251)
T TIGR02778       144 RELLD--ELGLESFVKTSGGKGLHVYVPLRPANTLSWEEVKDFAK-AL-AK-ALAQQAPDRFTAEMSKK  207 (251)
T ss_pred             HHHHH--HHCCCCCCEECCCCEEEEEEEECCCCCCCHHHHHHHHH-HH-HH-HHHHHCCCHHHHHHHHH
T ss_conf             99998--71235644115897038987221588988789999999-99-99-99986882456676576


No 163
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=42.62  E-value=19  Score=15.57  Aligned_cols=32  Identities=28%  Similarity=0.416  Sum_probs=20.9

Q ss_pred             HHHCCCCEEEEECCCCCHHHHHHHHH----HHCCCH
Q ss_conf             64224540575215872368999999----841495
Q gi|254780999|r  287 VQKNNFHKVIIGLSGGIDSALCAAIA----VDALGK  318 (562)
Q Consensus       287 ~~~~g~~~~viglSGGiDSal~a~la----~~alg~  318 (562)
                      |+||.-.|++||--|-+-||+||.+.    |..|.|
T Consensus       878 VkkS~~dGYlVGSRGSVGSSlVAtm~gITEVNPL~P  913 (1444)
T COG2176         878 VKKSLDDGYLVGSRGSVGSSLVATMIGITEVNPLPP  913 (1444)
T ss_pred             HHHHCCCCEEECCCCCCHHHHHHHHHCCCCCCCCCC
T ss_conf             986114770765787504889987634412478996


No 164
>TIGR03642 cas_csx13 CRISPR-associated protein, Csx13 family. This model describes a protein N-terminal protein sequence domain strictly associated with CRISPR and CRISPR-associated protein systems. This model and TIGR02584 identify two separate clades from a larger homology domain family, both CRISPR-associated, while other homologs are found that may not be. Members are found in bacteria that include Pelotomaculum thermopropionicum SI, Thermoanaerobacter tengcongensis MB4, and Roseiflexus sp. RS-1, and in archaea that include Thermoplasma volcanium, Picrophilus torridus, and Methanospirillum hungatei. The molecular function is unknown.
Probab=40.85  E-value=24  Score=14.96  Aligned_cols=53  Identities=13%  Similarity=0.191  Sum_probs=40.2

Q ss_pred             HHHHHHCCHHHHHHHHHHHCCCCEEEEECCCCCHH-HHHHHHHHHCCCHHHEEE
Q ss_conf             88864220203588876422454057521587236-899999984149544679
Q gi|254780999|r  271 EEEADYNACVLSLRDYVQKNNFHKVIIGLSGGIDS-ALCAAIAVDALGKENVQT  323 (562)
Q Consensus       271 ~~e~~~~Alvlgl~d~~~~~g~~~~viglSGGiDS-al~a~la~~alg~~~v~~  323 (562)
                      +.+..++.++..++++.++.+.+++.+-+|||--. ++.+++++.-+|.++|.-
T Consensus        69 d~~~~~~~i~~~i~~~r~~~~~~ri~l~IsGGRK~Ms~~l~l~aql~~~DrvyH  122 (124)
T TIGR03642        69 DILTFMSIAAKEVKKERENYGCERIIVNISGGRKIMTIILALYAQLLFEDEVYH  122 (124)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCHHHHHHHHHHHHHHHCCCCEEE
T ss_conf             999999999999999996588733899952873999999999999858761166


No 165
>COG5482 Uncharacterized conserved protein [Function unknown]
Probab=40.14  E-value=14  Score=16.52  Aligned_cols=85  Identities=13%  Similarity=0.068  Sum_probs=47.0

Q ss_pred             EEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHCCC
Q ss_conf             67973246666522135699999972135426775899999886313234687431011012330466779888751695
Q gi|254780999|r  321 VQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHDLVNHFFSLMSQFLQEEPSGIVAENIQSRIRGNILMALSNHSKA  400 (562)
Q Consensus       321 v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~~~~~~~~~~~~~~~~~~~eN~qaR~R~~~L~~~an~~~~  400 (562)
                      -++..||.+.--.+|..+-..||+.||+-..-++-..-+.-....+      .+.+.+  |  ++-|.-+.-.+-+.+|-
T Consensus        69 wiAar~sakgkgresd~r~r~LcRRLg~G~lgvs~~g~v~ilv~~v------~PepR~--N--~krRskl~~EhqrRrgd  138 (229)
T COG5482          69 WIAARVSAKGKGRESDKRYRDLCRRLGLGMLGVSDVGDVSILVGSV------TPEPRT--N--PKRRSKLMREHQRRRGD  138 (229)
T ss_pred             HHHHCCCCCCCCCHHHHHHHHHHHHHCCCEEEEEECCCEEEEEEEC------CCCCCC--C--HHHHHHHHHHHHHHCCC
T ss_conf             6421024344652557899999998567647775259635898626------878866--8--56788999999872289


Q ss_pred             EECCCCCHHHHHHHH
Q ss_conf             443643244775411
Q gi|254780999|r  401 MLLTTSNKSEISVGY  415 (562)
Q Consensus       401 lvl~t~nksE~~~Gy  415 (562)
                      .++|-+-+.-+++.|
T Consensus       139 p~vGGs~r~pimTAY  153 (229)
T COG5482         139 PAVGGSTRAPIMTAY  153 (229)
T ss_pred             CCCCCCCCCHHHHHH
T ss_conf             876773443799999


No 166
>pfam01553 Acyltransferase Acyltransferase. This family contains acyltransferases involved in phospholipid biosynthesis and other proteins of unknown function. This family also includes tafazzin, the Barth syndrome gene.
Probab=39.01  E-value=25  Score=14.78  Aligned_cols=10  Identities=10%  Similarity=0.066  Sum_probs=3.6

Q ss_pred             CCCCEEEECC
Q ss_conf             4777599315
Q gi|254780999|r  166 QGAEFLFSLN  175 (562)
Q Consensus       166 ~Gadlii~ps  175 (562)
                      +|-.+++-|-
T Consensus        90 ~g~~i~iFPE   99 (132)
T pfam01553        90 AGKLVVIFPE   99 (132)
T ss_pred             CCCEEEEECC
T ss_conf             9988999388


No 167
>pfam04356 DUF489 Protein of unknown function (DUF489). Protein of unknown function, cotranscribed with purB in Escherichia coli, but with function unrelated to purine biosynthesis.
Probab=38.93  E-value=25  Score=14.77  Aligned_cols=57  Identities=11%  Similarity=0.173  Sum_probs=29.8

Q ss_pred             HHHHHHHHCCCCCCC--CHHHHHHHHHHHHCCCC--CCCCCCHHHHCCCCHHHHHHHHHHH
Q ss_conf             999999721354267--75899999886313234--6874310110123304667798887
Q gi|254780999|r  339 AAACAKALGCKYDVL--PIHDLVNHFFSLMSQFL--QEEPSGIVAENIQSRIRGNILMALS  395 (562)
Q Consensus       339 a~~la~~lg~~~~~i--~I~~~~~~~~~~~~~~~--~~~~~~~~~eN~qaR~R~~~L~~~a  395 (562)
                      +..-++.++..+..+  .+..+.....+.+++-+  .+++.-+..++.|+|+|+.+|..+=
T Consensus       108 ~~~q~~~f~~~~~~via~lA~iY~dtiS~l~pRI~V~G~~~~Lq~~~~~~kIRALLLAGIR  168 (190)
T pfam04356       108 IERQLEHFDLTHENVIANLASIYSDTISTLGPRIQVTGSPEHLQQPQNQAKIRALLLAGIR  168 (190)
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHCCCCHHHHHHHHHHHHHH
T ss_conf             9999985443519999999999999754479816984878880795269999999999999


No 168
>TIGR02317 prpB methylisocitrate lyase; InterPro: IPR012695   Propionate is the second most abundant low molecular mass carbon source found in soil, being generated by the degradation of several amino acids, fementation of crabohydrates and the oxidation of odd-chain fatty acids. Many different organisms are capable of metabolising propionate and several distinct pathways for utilising this compound exist, all of which begin with its activation to propionyl-CoA . Many bacteria metabolise propionate to pyruvate by the 2-methylcitric acid cycle. In the first step, catalysed by methycitrate synthase, oxaloacetate and propionyl-CoA are condensed to form 2-methylcitrate and CoA. The 2-methylcitrate is subsequently converted to 2-methylisocitrate by the combined actions of a dehydratase and an aconitase. In the final step, 2-methylisocitrate lyase cleaves a C-C bond within this compound to form succinate and pyruvate. The succinate is further oxidised to oxaloacetate which re-enters the cycle, while the pyruvate can be used further for either energy generation or biomass synthesis.   Proteins in this entry are mostly 2-methylisocitrate lyases. Some of them have been annotated (incorrectly it seems) as the related protein carboxyphosphoenolpyruvate phosphomutase, which is involved in synthesizing the antibiotic bialaphos in Streptomyces hygroscopicus. Structural studies indicate that these enzymes belong to the isocitrate lyase family, binding a Mg(2+) cofactor and forming a TIM barrel fold , . As with other enzymes in this family, substrate-binding induces a conformational change that prevents solvent access to the active site and which is important for catalysis.  .
Probab=38.80  E-value=25  Score=14.76  Aligned_cols=39  Identities=23%  Similarity=0.361  Sum_probs=21.1

Q ss_pred             HHHHHHCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCC-CEEEECCCC
Q ss_conf             9999714777599315553335807888788999854337-046421356
Q gi|254780999|r  160 CKHLKKQGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVH-LPIIYVNQV  208 (562)
Q Consensus       160 ~~~la~~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~-~~vvy~N~v  208 (562)
                      +..+.+.|||+||     |..+...    +.++..+..-. +|++ +|..
T Consensus       168 A~aYvEAGAD~IF-----pEAL~~~----~eFr~Fa~~vk~vPLL-ANMT  207 (287)
T TIGR02317       168 AKAYVEAGADMIF-----PEALESE----EEFREFAKAVKDVPLL-ANMT  207 (287)
T ss_pred             HHHHHHHCCCCCH-----HHHHHHH----HHHHHHHHHCCCCCEE-CCCC
T ss_conf             9867872615313-----8785328----8889999866898423-0112


No 169
>TIGR01196 edd phosphogluconate dehydratase; InterPro: IPR004786   Two dehydratases, dihydroxy-acid dehydratase (gene ilvD or ILV3) and 6-phosphogluconate dehydratase (gene edd) have been shown to be evolutionary related . Dihydroxy-acid dehydratase catalyzes the fourth step in the biosynthesis of isoleucine and valine, the dehydratation of 2,3-dihydroxy-isovaleic acid into alpha-ketoisovaleric acid. 6-Phosphogluconate dehydratase catalyzes the first step in the Entner-Doudoroff pathway, the dehydratation of 6-phospho-D-gluconate into 6-phospho-2-dehydro-3-deoxy-D-gluconate. Another protein containing this signature is the Escherichia coli hypothetical protein yjhG. The N-terminal part of the proteins contains a cysteine that could be involved in the binding of a 2Fe-2S iron-sulphur cluster .    This family defines the 6-phosphogluconate dehydratases.; GO: 0004456 phosphogluconate dehydratase activity, 0009255 Entner-Doudoroff pathway.
Probab=38.80  E-value=25  Score=14.76  Aligned_cols=77  Identities=14%  Similarity=0.170  Sum_probs=41.1

Q ss_pred             HHHCCCCEEEEECCCCCH--HHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHH
Q ss_conf             642245405752158723--689999998414954467973246666522135699999972135426775899999886
Q gi|254780999|r  287 VQKNNFHKVIIGLSGGID--SALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHDLVNHFFS  364 (562)
Q Consensus       287 ~~~~g~~~~viglSGGiD--Sal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~~~~  364 (562)
                      .+-++-.+-++++--=||  |=|-+.++-.|            +-.|+.+|.-. -++|++-||-+.==|+++ +.....
T Consensus       269 ~r~t~~ng~~~P~gemiDEKsivN~~vgL~A------------TGGSTNHTmHL-vAmARAAGi~LnWdDfse-lS~~vP  334 (614)
T TIGR01196       269 ARLTAKNGEVLPLGEMIDEKSIVNAVVGLLA------------TGGSTNHTMHL-VAMARAAGIILNWDDFSE-LSDVVP  334 (614)
T ss_pred             HHHCCCCCCEEEHHHHHHHHHHHHHHHHHHH------------CCCCHHHHHHH-HHHHHHCCCEECCCCHHH-HHHHHH
T ss_conf             8521688824112000015778889999862------------48863578999-999975691305123655-510533


Q ss_pred             HHCCCCCCCCCCH
Q ss_conf             3132346874310
Q gi|254780999|r  365 LMSQFLQEEPSGI  377 (562)
Q Consensus       365 ~~~~~~~~~~~~~  377 (562)
                      .|......-..||
T Consensus       335 LLARvYPNG~ADv  347 (614)
T TIGR01196       335 LLARVYPNGKADV  347 (614)
T ss_pred             HHHEECCCCCCCH
T ss_conf             4503267984222


No 170
>cd03795 GT1_like_4 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP-linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homolog
Probab=38.71  E-value=25  Score=14.75  Aligned_cols=14  Identities=21%  Similarity=0.242  Sum_probs=5.2

Q ss_pred             HHHHHHHHHHHCCC
Q ss_conf             99999999887697
Q gi|254780999|r   69 AIDTLKSDTHDGGA   82 (562)
Q Consensus        69 ~l~~La~~~~~~~i   82 (562)
                      .+.+|++...+.|.
T Consensus        19 ~~~~L~~~L~~~Gh   32 (357)
T cd03795          19 VIRDLAEGLAARGI   32 (357)
T ss_pred             HHHHHHHHHHHCCC
T ss_conf             99999999997799


No 171
>cd03802 GT1_AviGT4_like This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant that accumulated a novel avilamycin derivative lacking the terminal eurekanate residue.
Probab=38.24  E-value=26  Score=14.70  Aligned_cols=36  Identities=19%  Similarity=0.288  Sum_probs=21.1

Q ss_pred             EEEEEEECCC------CCCCHHHHHHHHHHHHHHHHHCCCCEEEE
Q ss_conf             2899996388------36889999999999999999859989991
Q gi|254780999|r    5 LKIAIAQLNP------VVGDIAGNIAKARRAREEANRQGMDLILF   43 (562)
Q Consensus         5 mkIal~Q~n~------~~gd~~~N~~~i~~~i~~A~~~gadLvvf   43 (562)
                      |||+++....      ..|-.+.   .+.++++...+.|-++.|+
T Consensus         1 MkI~~v~~~~~p~pP~~~GG~e~---~~~~La~~L~~~Gh~V~v~   42 (335)
T cd03802           1 MRIALVAPPREPVPPPAYGGTER---VVAALTEGLVARGHEVTLF   42 (335)
T ss_pred             CEEEEECCCCCCCCCCCCCCHHH---HHHHHHHHHHHCCCEEEEE
T ss_conf             98699888400369999897999---9999999999769989999


No 172
>PRK00232 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed
Probab=38.05  E-value=24  Score=14.88  Aligned_cols=40  Identities=28%  Similarity=0.332  Sum_probs=23.5

Q ss_pred             CCCCEEEEEEECCCCCCCHHHH-HHHHHHHHHHH-HHCCCCEEEECC
Q ss_conf             9886289999638836889999-99999999999-985998999166
Q gi|254780999|r    1 MLKKLKIAIAQLNPVVGDIAGN-IAKARRAREEA-NRQGMDLILFTE   45 (562)
Q Consensus         1 M~~~mkIal~Q~n~~~gd~~~N-~~~i~~~i~~A-~~~gadLvvfPE   45 (562)
                      ||.|-+|++.     .||+.+- -+-+.+.+.+. ..+.+.++++-.
T Consensus         1 mm~Kp~IaIT-----~GDPaGIGpEIilKal~~~~~~~~~~~viigd   42 (334)
T PRK00232          1 MMMKPRIAIT-----PGDPAGIGPELIAKLLAQPDVRWPAHLVVIAD   42 (334)
T ss_pred             CCCCCCEEEE-----CCCCCHHHHHHHHHHHHCCCCCCCCCEEEEEC
T ss_conf             9999828996-----88863538999999984813048988899988


No 173
>pfam01261 AP_endonuc_2 Xylose isomerase-like TIM barrel. This TIM alpha/beta barrel structure is found in xylose isomerase and in endonuclease IV (EC:3.1.21.2). This domain is also found in the N termini of bacterial myo-inositol catabolism proteins. These are involved in the myo-inositol catabolism pathway, and is required for growth on myo-inositol in Rhizobium leguminosarum bv. viciae.
Probab=37.84  E-value=26  Score=14.66  Aligned_cols=23  Identities=22%  Similarity=0.319  Sum_probs=9.5

Q ss_pred             HHHHHHHHHHHHHHCCCCEEEEC
Q ss_conf             99999999999998599899916
Q gi|254780999|r   22 NIAKARRAREEANRQGMDLILFT   44 (562)
Q Consensus        22 N~~~i~~~i~~A~~~gadLvvfP   44 (562)
                      .++.+.+.++.|+.-|+..++++
T Consensus        62 ~~~~~~~~l~~a~~lG~~~i~~~   84 (201)
T pfam01261        62 ALEALKRAIELAAALGAKVVVVH   84 (201)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEEC
T ss_conf             99999999999997399589982


No 174
>TIGR02776 NHEJ_ligase_prk DNA ligase D; InterPro: IPR014143   Members of this entry are DNA ligases involved in the repair of DNA double-stranded breaks by non-homologous end joining (NheJ). The system of the bacterial Ku protein (IPR009187 from INTERPRO) plus this DNA ligase is seen in about 200f bacterial genomes to date and at least one archaeon (Archeoglobus fulgidus). This entry describes a central and C-terminal domain. These two domains may be permuted, as in genus Mycobacterium, or divided into tandem ORFs. An additional N-terminal 3 -phosphoesterase (PE) domain (IPR014144 from INTERPRO) is present in some members of this ligase. Most examples of genes for this ligase are adjacent to the gene for Ku..
Probab=37.64  E-value=26  Score=14.64  Aligned_cols=12  Identities=17%  Similarity=0.232  Sum_probs=4.9

Q ss_pred             CCCEECCCCCHH
Q ss_conf             695443643244
Q gi|254780999|r  398 SKAMLLTTSNKS  409 (562)
Q Consensus       398 ~~~lvl~t~nks  409 (562)
                      ...+.++.-+|-
T Consensus       359 ~~~v~ithPDk~  370 (645)
T TIGR02776       359 VAGVRITHPDKV  370 (645)
T ss_pred             CCCEEEECCCEE
T ss_conf             672175177502


No 175
>PRK08639 threonine dehydratase; Validated
Probab=37.40  E-value=27  Score=14.61  Aligned_cols=48  Identities=23%  Similarity=0.331  Sum_probs=26.9

Q ss_pred             HHHHHHHHCCCCEEEEECCCC-CHHHHHHHHHHHCC---CHHHEEEEECCCC
Q ss_conf             588876422454057521587-23689999998414---9544679732466
Q gi|254780999|r  282 SLRDYVQKNNFHKVIIGLSGG-IDSALCAAIAVDAL---GKENVQTIMLPYK  329 (562)
Q Consensus       282 gl~d~~~~~g~~~~viglSGG-iDSal~a~la~~al---g~~~v~~~~mp~~  329 (562)
                      ||..+..+..-++||+=+||| +|.....-+.-.+|   |++..+.+.+|.+
T Consensus       293 al~~~~~~~~gk~Vv~ilsGgNiD~~~l~~i~er~l~~~gr~~~~~v~~pd~  344 (418)
T PRK08639        293 ALDEYKDEIKGKTVVCVISGGNNDIERMPEIKERSLRYEGLKHYFIVNFPQR  344 (418)
T ss_pred             HHHHCHHHHCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEECCCC
T ss_conf             9984615526980999981588898899999999878629869999978999


No 176
>TIGR03436 acidobact_VWFA VWFA-related Acidobacterial domain. Members of this family are bacterial domains that include a region related to the von Willebrand factor type A (VWFA) domain (pfam00092). These domains are restricted to, and have undergone a large paralogous family expansion in, the Acidobacteria, including Solibacter usitatus and Acidobacterium capsulatum ATCC 51196.
Probab=36.80  E-value=27  Score=14.55  Aligned_cols=34  Identities=26%  Similarity=0.271  Sum_probs=24.0

Q ss_pred             HHHHCCHHHHHHHHHHHCC----CCEEEEECCCCCHHH
Q ss_conf             8642202035888764224----540575215872368
Q gi|254780999|r  273 EADYNACVLSLRDYVQKNN----FHKVIIGLSGGIDSA  306 (562)
Q Consensus       273 e~~~~Alvlgl~d~~~~~g----~~~~viglSGGiDSa  306 (562)
                      -.+|+|+.++..+.+.+..    -++++|=+|.|.|.+
T Consensus       141 tal~dAi~laa~~~~~~~~~~~~gRK~li~iSdG~d~~  178 (296)
T TIGR03436       141 TALYDAITLAALQQLANALAGIPGRKALIVISDGEDNS  178 (296)
T ss_pred             CCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCCCC
T ss_conf             10278899999999875404798867999992698863


No 177
>pfam01488 Shikimate_DH Shikimate / quinate 5-dehydrogenase. This family contains both shikimate and quinate dehydrogenases. Shikimate 5-dehydrogenase catalyses the conversion of shikimate to 5-dehydroshikimate. This reaction is part of the shikimate pathway which is involved in the biosynthesis of aromatic amino acids. Quinate 5-dehydrogenase catalyses the conversion of quinate to 5-dehydroquinate. This reaction is part of the quinate pathway where quinic acid is exploited as a source of carbon in prokaryotes and microbial eukaryotes. Both the shikimate and quinate pathways share two common pathway metabolites 3-dehydroquinate and dehydroshikimate.
Probab=35.60  E-value=19  Score=15.51  Aligned_cols=56  Identities=20%  Similarity=0.400  Sum_probs=31.8

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCC-CCCCCHHH
Q ss_conf             45405752158723689999998414954467973246666522135699999972135-42677589
Q gi|254780999|r  291 NFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCK-YDVLPIHD  357 (562)
Q Consensus       291 g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~-~~~i~I~~  357 (562)
                      +.+-+|||- |++-+.++..|...  |..+|.-+        ..|.+.|+.+|+.+|-. ...++.+.
T Consensus        12 ~~~vlVIGa-G~~~~~~~~~L~~~--g~~~i~v~--------nRt~~ka~~la~~~~~~~~~~~~~~~   68 (134)
T pfam01488        12 GKKVLLIGA-GEMARLAAKHLLSK--GAKKITIA--------NRTLEKAKELAEEFGGEEVEALPLDE   68 (134)
T ss_pred             CCEEEEECC-CHHHHHHHHHHHHC--CCCEEEEE--------CCCHHHHHHHHHHCCCCCEEEEECHH
T ss_conf             898999996-09999999999975--99889995--------47578999999984997258985135


No 178
>PRK11907 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase precursor protein; Reviewed
Probab=35.44  E-value=29  Score=14.41  Aligned_cols=36  Identities=25%  Similarity=0.284  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHHHHHCCCCEEEECC-CCCCCCCHHHHH
Q ss_conf             999999999999985998999166-444799844541
Q gi|254780999|r   22 NIAKARRAREEANRQGMDLILFTE-LFISGYPPEDLV   57 (562)
Q Consensus        22 N~~~i~~~i~~A~~~gadLvvfPE-l~LtGY~~~Dl~   57 (562)
                      -+.|.-.+|++|+++...-+++=- -.|.|-|.+|+.
T Consensus       143 GLaRtAtLI~~aR~E~~NslLvDNGD~iQGsPLgDY~  179 (810)
T PRK11907        143 GLAKTAVLIEEAKKENPNTVLVDNGDTIQGTPLGTYK  179 (810)
T ss_pred             CHHHHHHHHHHHHHHCCCEEEEECCCCCCCCCCHHHH
T ss_conf             4789999999998636874998478401677205467


No 179
>TIGR01181 dTDP_gluc_dehyt dTDP-glucose 4,6-dehydratase; InterPro: IPR005888    The conversion of dTDP-glucose into dTDP-4-keto-6-deoxyglucose by Escherichia coli dTDP-glucose 4,6-dehydratase) takes place in the active site in three steps: dehydrogenation to dTDP-4-ketoglucose, dehydration to dTDP-4-ketoglucose-5,6-ene, and rereduction of C6 to the methyl group. The 4,6-dehydratase makes use of tightly bound NAD^+ as the coenzyme for transiently oxidizing the substrate, activating it for the dehydration step . This and other 4,6-dehydratases catalyze the first committed step in all 6-deoxysugar biosynthetic pathways described to date. Numerous 6-deoxysugars are used in bacterial lipopolysaccharide production as well as in the biosynthesis of a diverse array of secondary metabolites.; GO: 0008460 dTDP-glucose 46-dehydratase activity, 0009225 nucleotide-sugar metabolic process.
Probab=35.24  E-value=29  Score=14.39  Aligned_cols=41  Identities=17%  Similarity=0.148  Sum_probs=20.0

Q ss_pred             HHHHHHHCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCC
Q ss_conf             99999714777599315553335807888788999854337046421356887
Q gi|254780999|r  159 ICKHLKKQGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQ  211 (562)
Q Consensus       159 ~~~~la~~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~  211 (562)
                      +.+.+.+.-+|.++|..|--+            ..||+..=.+++-+|-+|-+
T Consensus        65 v~~~~~e~~~D~VvhFAAESH------------VDRSI~~P~~F~~TNv~GT~  105 (340)
T TIGR01181        65 VDRLLKEHDPDAVVHFAAESH------------VDRSISGPEAFIETNVVGTY  105 (340)
T ss_pred             HHHHHHHCCCCEEEECCCCCH------------HHHCCCCCHHHHHCCHHHHH
T ss_conf             988840017677886222052------------33301454114440337889


No 180
>PRK06707 amidase; Provisional
Probab=35.17  E-value=21  Score=15.32  Aligned_cols=15  Identities=47%  Similarity=0.512  Sum_probs=9.5

Q ss_pred             HHHHHHHHCCCCEEE
Q ss_conf             899999714777599
Q gi|254780999|r  158 NICKHLKKQGAEFLF  172 (562)
Q Consensus       158 ~~~~~la~~Gadlii  172 (562)
                      .+.+.|...||=+|=
T Consensus       173 ~vV~rLr~AGAIilG  187 (536)
T PRK06707        173 TIVKQLKEEGAFVLG  187 (536)
T ss_pred             HHHHHHHHCCCEEEE
T ss_conf             999999978987987


No 181
>PRK01909 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase; Validated
Probab=35.04  E-value=29  Score=14.37  Aligned_cols=40  Identities=25%  Similarity=0.326  Sum_probs=21.6

Q ss_pred             CC-CCEEEEEEECCCCCCCHHHH-HHHHHHHHHHHHH--CCCCEEEECC
Q ss_conf             98-86289999638836889999-9999999999998--5998999166
Q gi|254780999|r    1 ML-KKLKIAIAQLNPVVGDIAGN-IAKARRAREEANR--QGMDLILFTE   45 (562)
Q Consensus         1 M~-~~mkIal~Q~n~~~gd~~~N-~~~i~~~i~~A~~--~gadLvvfPE   45 (562)
                      |+ +++||++..     ||+.+- -+-+.+.+.+...  ..+.++|+-.
T Consensus         1 m~~~~lrIaIT~-----GDPaGIGPEIilKal~~~~~~~~~~~~vviGd   44 (329)
T PRK01909          1 MRPQPLQIAITT-----GEPAGVGPELTVQALADAATRWPDARFTVLGD   44 (329)
T ss_pred             CCCCCCEEEEEC-----CCCCCCHHHHHHHHHHHHHHHCCCCCEEEEEC
T ss_conf             999997699975-----88850179999999986575468988899979


No 182
>COG1134 TagH ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=34.41  E-value=30  Score=14.31  Aligned_cols=17  Identities=18%  Similarity=0.018  Sum_probs=7.7

Q ss_pred             HHHHHHHHHHHCCCCCC
Q ss_conf             35699999972135426
Q gi|254780999|r  336 LEDAAACAKALGCKYDV  352 (562)
Q Consensus       336 ~~~a~~la~~lg~~~~~  352 (562)
                      .++.+..+.-+|....+
T Consensus       107 reNi~l~~~~lG~~~~e  123 (249)
T COG1134         107 RENIYLRGLILGLTRKE  123 (249)
T ss_pred             HHHHHHHHHHHCCCHHH
T ss_conf             87899999984666999


No 183
>PTZ00249 variable surface protein Vir28; Provisional
Probab=34.22  E-value=15  Score=16.32  Aligned_cols=23  Identities=13%  Similarity=0.047  Sum_probs=13.1

Q ss_pred             ECCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             638836889999999999999999
Q gi|254780999|r   11 QLNPVVGDIAGNIAKARRAREEAN   34 (562)
Q Consensus        11 Q~n~~~gd~~~N~~~i~~~i~~A~   34 (562)
                      ++++++.| +.|++++...+..+.
T Consensus        19 ~F~~~~~~-~~n~~~~~~~l~~~~   41 (516)
T PTZ00249         19 SFDYTPTD-EFNISFVNALIKDIR   41 (516)
T ss_pred             HCCCCCCC-CHHHHHHHHHHHHHH
T ss_conf             63788773-100899999997640


No 184
>cd02649 nuc_hydro_CeIAG nuc_hydro_CeIAG: Nucleoside hydrolases similar to the inosine-adenosine-guanosine-preferring nucleoside hydrolase from Caenorhabditis elegans.  Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal proteins similar to the purine-preferring nucleoside hydrolase (IAG-NH) from C. elegans and the salivary purine nucleosidase from Aedes aegypti.  C. elegans IAG-NH exhibits a high affinity for the substrate analogue p-nitrophenylriboside (p-NPR).
Probab=33.23  E-value=31  Score=14.19  Aligned_cols=46  Identities=13%  Similarity=0.206  Sum_probs=17.2

Q ss_pred             HHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHC-CCHHHEE-EEECCCCC
Q ss_conf             5888764224540575215872368999999841-4954467-97324666
Q gi|254780999|r  282 SLRDYVQKNNFHKVIIGLSGGIDSALCAAIAVDA-LGKENVQ-TIMLPYKY  330 (562)
Q Consensus       282 gl~d~~~~~g~~~~viglSGGiDSal~a~la~~a-lg~~~v~-~~~mp~~~  330 (562)
                      .+.|-++++. ..+.| +.=|==+-+.+++..+- + +++|. -+.|.+-+
T Consensus       107 ~i~~~~~~~p-~eiti-va~GPlTNlAlal~~~P~~-~~~i~~iviMGGa~  154 (306)
T cd02649         107 AIIRLVREYP-GEITL-VALGPLTNLALAYRLDPSL-PQKIKRLYIMGGNR  154 (306)
T ss_pred             HHHHHHHHCC-CCEEE-EECCCHHHHHHHHHHCHHH-HHHCCEEEEEECCC
T ss_conf             9999998589-97799-9767648999999979677-85378289981556


No 185
>PRK08662 nicotinate phosphoribosyltransferase; Reviewed
Probab=33.17  E-value=28  Score=14.45  Aligned_cols=38  Identities=21%  Similarity=0.313  Sum_probs=29.7

Q ss_pred             HHCCHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHH
Q ss_conf             42202035888764224540575215872368999999
Q gi|254780999|r  275 DYNACVLSLRDYVQKNNFHKVIIGLSGGIDSALCAAIA  312 (562)
Q Consensus       275 ~~~Alvlgl~d~~~~~g~~~~viglSGGiDSal~a~la  312 (562)
                      ....++--+|..+...|++.+-|=+|||+|---...+.
T Consensus       242 d~~~l~~~vR~~LD~~G~~~vkIv~Sgglde~~I~~l~  279 (343)
T PRK08662        242 NFRKIVEEVRWTLDLHGYSHVKIFVSGGLDEEDIRELR  279 (343)
T ss_pred             CHHHHHHHHHHHHHHCCCCCCEEEEECCCCHHHHHHHH
T ss_conf             77999999999854557998289994899999999998


No 186
>TIGR02356 adenyl_thiF thiazole biosynthesis adenylyltransferase ThiF; InterPro: IPR012731    Members of the HesA/MoeB/ThiF family of proteins (IPR000594 from INTERPRO) include a number of members encoded in the midst of thiamine biosynthetic operons. This mix of known and putative ThiF proteins shows a deep split in phylogenetic trees. The Escherichia coli ThiF and MoeB proteins are seemingly more closely related than the E. coli ThiF and Campylobacter (for example) ThiF. This entry represents the more widely distributed clade of ThiF proteins as found in E. coli..
Probab=32.72  E-value=31  Score=14.13  Aligned_cols=57  Identities=19%  Similarity=0.438  Sum_probs=38.3

Q ss_pred             HHHHHHHHHHHCCCC--EEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCCCCEEECCC
Q ss_conf             016899999714777--599315553335807888788999854337046421356887662104864355589
Q gi|254780999|r  155 KNSNICKHLKKQGAE--FLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVGGQDELIFDGASFCFDGQ  226 (562)
Q Consensus       155 ~~~~~~~~la~~Gad--lii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vGg~d~lvf~G~S~I~d~~  226 (562)
                      .+++..  ..-+.+|  |++=  +|.    -...| .++...+...+.|+||+..+|      |.|..+++++.
T Consensus       103 t~~~~~--~~i~~~DPdlVlD--c~D----Nf~tr-yliNdaC~~~~~PlI~aavvG------~~G~~~~f~~~  161 (210)
T TIGR02356       103 TAENLE--LLIENVDPDLVLD--CTD----NFATR-YLINDACQALGIPLISAAVVG------FEGQVMVFDPG  161 (210)
T ss_pred             CHHHHH--HHHHCCCCCEEEE--CCC----CHHHH-HHHHHHHHHHCCCEEEEEEEE------ECCEEEEEECC
T ss_conf             779999--9962389968961--566----87788-999999998479869998876------35778998468


No 187
>cd01714 ETF_beta The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an alpha and a beta subunit which binds one molecule of FAD per dimer . A similar system also exists in some bacteria.  The homologous pair of proteins (FixA/FixB) are essential for nitrogen fixation. The beta subunit protein is distantly related to and forms a heterodimer with the alpha subunit.
Probab=32.59  E-value=32  Score=14.12  Aligned_cols=52  Identities=21%  Similarity=0.062  Sum_probs=22.6

Q ss_pred             EEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHC
Q ss_conf             57521587236899999984149544679732466665221356999999721
Q gi|254780999|r  295 VIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALG  347 (562)
Q Consensus       295 ~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg  347 (562)
                      -|..+|=|=+++-...--+-|+|.++.+-+.-+... ..++..-|+.|++.+.
T Consensus        54 ~VtvlsvGp~~a~~~Lr~alAmGaD~ai~i~d~~~~-~~D~~~tA~~La~~i~  105 (202)
T cd01714          54 EVTVVSMGPPQAEEALREALAMGADRAILVSDRAFA-GADTLATAKALAAAIK  105 (202)
T ss_pred             EEEEEEECCHHHHHHHHHHHHHCCCEEEEECCCCCC-CCCHHHHHHHHHHHHH
T ss_conf             899999374788999999997089835998065556-6698999999999998


No 188
>PRK00218 hypothetical protein; Reviewed
Probab=31.48  E-value=33  Score=14.00  Aligned_cols=58  Identities=10%  Similarity=0.184  Sum_probs=30.8

Q ss_pred             HHHHHHHHHCCCCCCC--CHHHHHHHHHHHHCCCC--CCCCCCHHHHCCCCHHHHHHHHHHH
Q ss_conf             6999999721354267--75899999886313234--6874310110123304667798887
Q gi|254780999|r  338 DAAACAKALGCKYDVL--PIHDLVNHFFSLMSQFL--QEEPSGIVAENIQSRIRGNILMALS  395 (562)
Q Consensus       338 ~a~~la~~lg~~~~~i--~I~~~~~~~~~~~~~~~--~~~~~~~~~eN~qaR~R~~~L~~~a  395 (562)
                      .+..-++.++..+..+  .+..+.....+.+++-+  .+++.-+..++.|+|+|+.+|..+=
T Consensus       113 ~~~~q~~~f~~~~~~via~la~iY~dtIS~l~pRI~V~G~~~~L~~~~~a~kIRALLLAGIR  174 (207)
T PRK00218        113 QIQRQLEHFDLLHENVIANLASIYSDTISPLGPRIQVTGNPAYLQQPQVQAKIRALLLAGIR  174 (207)
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHCCCCHHHHHHHHHHHHHH
T ss_conf             99999985453629999999999999754469826884878880795269999999999999


No 189
>PRK11340 phosphodiesterase YaeI; Provisional
Probab=31.44  E-value=33  Score=14.00  Aligned_cols=76  Identities=16%  Similarity=-0.011  Sum_probs=39.7

Q ss_pred             CCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             86289999638836889999999999999999859989991664447998445414889999999999999999887697
Q gi|254780999|r    3 KKLKIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQACSSAIDTLKSDTHDGGA   82 (562)
Q Consensus         3 ~~mkIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~~~~l~~La~~~~~~~i   82 (562)
                      +.+||+... +...|.+ .+.+++.+.++...+.++|+|++.==.+..       ..+...+..   .+.+....+..++
T Consensus        47 ~~lrI~~lS-DlH~g~~-~~~~~l~~~v~~~n~~~PDlVv~tGD~vd~-------~~~~~~~~~---~~~l~~L~~~~gv  114 (270)
T PRK11340         47 APFKILFLA-DLHYSRF-VPLSLISDAIALGIEQKPDLILLGGDYVLF-------DMPLNFSAF---SDVLSPLAECAPT  114 (270)
T ss_pred             CCCEEEEEE-CCCCCCC-CCHHHHHHHHHHHHHCCCCEEEECCCEECC-------CCCHHHHHH---HHHHHHCCCCCCE
T ss_conf             995899992-5668898-898999999999871299999986763447-------772107999---9998740133885


Q ss_pred             EEEEEEEE
Q ss_conf             89999999
Q gi|254780999|r   83 GIVVGFPR   90 (562)
Q Consensus        83 ~iivG~p~   90 (562)
                      +.+.|.-+
T Consensus       115 yaVlGNHD  122 (270)
T PRK11340        115 FACFGNHD  122 (270)
T ss_pred             EEECCCCC
T ss_conf             99737864


No 190
>COG5322 Predicted dehydrogenase [General function prediction only]
Probab=31.43  E-value=33  Score=13.99  Aligned_cols=22  Identities=32%  Similarity=0.415  Sum_probs=16.9

Q ss_pred             CCEEEEECCCCCHHHHHHHHHH
Q ss_conf             5405752158723689999998
Q gi|254780999|r  292 FHKVIIGLSGGIDSALCAAIAV  313 (562)
Q Consensus       292 ~~~~viglSGGiDSal~a~la~  313 (562)
                      ..-.|+|-.|.|-|+++-.|+.
T Consensus       168 atvaivGa~G~Ia~~Iar~la~  189 (351)
T COG5322         168 ATVAIVGATGDIASAIARWLAP  189 (351)
T ss_pred             CEEEEECCCCHHHHHHHHHHCC
T ss_conf             8578724785489999987634


No 191
>COG2129 Predicted phosphoesterases, related to the Icc protein [General function prediction only]
Probab=31.40  E-value=33  Score=13.99  Aligned_cols=38  Identities=24%  Similarity=0.375  Sum_probs=30.4

Q ss_pred             CCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECC
Q ss_conf             88628999963883688999999999999999985998999166
Q gi|254780999|r    2 LKKLKIAIAQLNPVVGDIAGNIAKARRAREEANRQGMDLILFTE   45 (562)
Q Consensus         2 ~~~mkIal~Q~n~~~gd~~~N~~~i~~~i~~A~~~gadLvvfPE   45 (562)
                      +.+|||....      |+.++..+..+.+..|+...+|++|.-=
T Consensus         1 ~~~mkil~vt------DlHg~~~~~~k~~~~~~~~~~D~lviaG   38 (226)
T COG2129           1 IKKMKILAVT------DLHGSEDSLKKLLNAAADIRADLLVIAG   38 (226)
T ss_pred             CCCCEEEEEE------CCCCCHHHHHHHHHHHHHCCCCEEEEEC
T ss_conf             9740599984------0333357899999987603688899953


No 192
>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt   The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export.  Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters.  A typical system is made of a conserved integral membrane and an ABC.  In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.
Probab=31.36  E-value=33  Score=13.99  Aligned_cols=14  Identities=36%  Similarity=0.482  Sum_probs=6.6

Q ss_pred             ECCCCCHHHHHHHH
Q ss_conf             21587236899999
Q gi|254780999|r  298 GLSGGIDSALCAAI  311 (562)
Q Consensus       298 glSGGiDSal~a~l  311 (562)
                      -+|||.---|..|.
T Consensus       142 ~LSgG~kqRl~iA~  155 (224)
T cd03220         142 TYSSGMKARLAFAI  155 (224)
T ss_pred             CCCHHHHHHHHHHH
T ss_conf             46999999999999


No 193
>TIGR03569 NeuB_NnaB N-acetylneuraminate synthase. This family is a subset of the pfam03102 and is believed to include only authentic NeuB N-acetylneuraminate (sialic acid) synthase enzymes. The majority of the genes identified by this model are observed adjacent to both the NeuA and NeuC genes which together effect the biosynthesis of CMP-N-acetylneuraminate from UDP-N-acetylglucosamine.
Probab=31.19  E-value=33  Score=13.97  Aligned_cols=28  Identities=21%  Similarity=0.416  Sum_probs=24.3

Q ss_pred             CHHHHHHHHHHHHHHHHHCCCCEEEECC
Q ss_conf             8999999999999999985998999166
Q gi|254780999|r   18 DIAGNIAKARRAREEANRQGMDLILFTE   45 (562)
Q Consensus        18 d~~~N~~~i~~~i~~A~~~gadLvvfPE   45 (562)
                      +-.+|++.+.++|+.|++.|||.|=|.=
T Consensus        10 NH~Gdl~~Ak~LI~~A~~sGadaVKFQ~   37 (329)
T TIGR03569        10 NHNGSLELAKKLVDAAAEAGADAVKFQT   37 (329)
T ss_pred             CCCCCHHHHHHHHHHHHHHCCCEEEEEC
T ss_conf             7678099999999999994969999307


No 194
>TIGR00143 hypF [NiFe] hydrogenase maturation protein HypF; InterPro: IPR004421   The large subunit of [NiFe]-hydrogenase, as well as other nickel metalloenzymes, is synthesized as a precursor devoid of the metalloenzyme active site. This precursor then undergoes a complex post-translational maturation process that requires a number of accessory proteins , , . Members of the HypF family are accessory proteins involved in hydrogenase maturation. They contain the following domains: acylphosphatase, zinc fingers (2 repeats), a YrdC-like domain, and a C-terminal domain with a putative O-carbamoyltransferase motif.   The presence of CO and CN- ligands of the active site iron atoms is essential for [NiFe]-hydrogenase enzyme activity . Both ligands have been suggested to originate from carbamoylphosphate , which is required for maturation of [NiFe]-hydrogenases . Escherichia coli HypF interacts with carbamoylphosphate as a substrate and releases inorganic phosphate . In addition, HypF also cleaves ATP into AMP and pyrophosphate in the presence of carbamoylphosphate. This, and the fact that HypF catalyzes a carbamoylphosphate-dependent pyrophosphate ATP exchange reaction, suggest that the protein catalyzes the activation of carbamoylphosphate .   The mechanism of action of HypF, as well as of its individual domains, is not yet clear. Mutations in any of the three major signature motifs, the acylphosphatase, the zinc fingers, and the O-carbamoyltransferase motif, can block carbamoylphosphate phosphatase activity. This indicates an integrated cooperativity between these domains in the cleavage reaction .   The N-terminal acylphosphatase (ACP) domain is thought to support the conversion of carbamoylphosphate into CO and CN- , . Biochemical results demonstrating its ACP activity are not available , . ACPs are small enzymes that specifically catalyze the hydrolysis of carboxylphosphate bonds in acylphosphates, including carbamoylphosphate . Zinc fingers have been implicated in bivalent cation binding or as part of a chaperone domain interacting with the large subunit precursor, but experimental studies on such a function are lacking thus far. The YrdC-like domain is present in protein families with regulatory functions (IPR012200 from INTERPRO, IPR010923 from INTERPRO) and has been implicated in RNA binding . It is not clear what function it may have in members of the HypF family. A C-terminal domain is distantly related to peptidase M22, but contains a conserved O-carbamoyltransferase motif required for the carbamoylphosphate phosphatase activity . The function of this domain is not clear.   Nomenclature note: the following names are used as synonyms of HypF: HupY in Azotobacter chroococcum, HupN in Rhizobium leguminosarum, HydA in Escherichia coli. In other organisms, these names are used to designate various "hydrogenase cluster" proteins unrelated to the members of this family. ; GO: 0030528 transcription regulator activity.
Probab=30.80  E-value=34  Score=13.93  Aligned_cols=160  Identities=11%  Similarity=0.103  Sum_probs=69.4

Q ss_pred             HCCCEEEE--CCCCCCC---CCC-CCCCCCEEEC----CCCEEEEECCCCCCCEEEEEEEECCCCCCCCCCCCCCCCCCC
Q ss_conf             33704642--1356887---662-1048643555----898599961677763799999833521236555755555447
Q gi|254780999|r  197 HVHLPIIY--VNQVGGQ---DEL-IFDGASFCFD----GQQQLAFQMKHFSEQNFMTEWHYDQQLSQWNYMSDDSASTMY  266 (562)
Q Consensus       197 e~~~~vvy--~N~vGg~---d~l-vf~G~S~I~d----~~G~ii~~~~~f~e~~~i~d~d~d~~~~~~~~~~~~~~~~~~  266 (562)
                      +...|+|.  +|.-|-.   |+. +.+.-++|+|    .+-+|+.+.    +|..|-.++-....-++.+  .-.++...
T Consensus       319 ~~~~p~VmTSaNl~G~P~~idn~~~l~~L~gIaDgFL~HnR~Iv~R~----DDSVV~~V~g~~~~lRRsR--GyaP~p~~  392 (799)
T TIGR00143       319 LLAKPLVMTSANLPGEPMAIDNEEILEKLQGIADGFLVHNRRIVNRV----DDSVVKEVAGELLFLRRSR--GYAPEPLK  392 (799)
T ss_pred             HCCCCEEEECCCCCCCCCCCCHHHHHHHHCCCCCCEECCCCCCCCCC----CCCEEEEECCCCCHHHHHC--CCCCCCCC
T ss_conf             22777166026788988865779998861224150000361005858----7642764478210234304--76886000


Q ss_pred             CCCCHHHHHHCCHHHHHHHHH----HHCCCCEEEEECC-CCCHHHHHH-HHHHHCC---------CHHH-EEEEECCCCC
Q ss_conf             899988864220203588876----4224540575215-872368999-9998414---------9544-6797324666
Q gi|254780999|r  267 IPLQEEEADYNACVLSLRDYV----QKNNFHKVIIGLS-GGIDSALCA-AIAVDAL---------GKEN-VQTIMLPYKY  330 (562)
Q Consensus       267 ~p~~~~e~~~~Alvlgl~d~~----~~~g~~~~viglS-GGiDSal~a-~la~~al---------g~~~-v~~~~mp~~~  330 (562)
                      +|........++|++|=.-+.    -|.|.+=++|.-- |.+-+.=+. .--.+|+         -+-. |.+=+=|...
T Consensus       393 lP~~s~~~~~~~LalGa~l~~t~~llk~~~si~~lSQh~Gdls~~~t~n~~fkeA~~~~~~~~d~~~~~~iv~D~HP~y~  472 (799)
T TIGR00143       393 LPKRSVKNQKKILALGAELKNTFALLKGGQSIAYLSQHIGDLSKYETYNKFFKEAVNFLLRLYDFEPIDVIVCDLHPQYN  472 (799)
T ss_pred             CCCCCCCCCCCEEEECCCCCCEEEEEECCCEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCC
T ss_conf             78654578865798777542238998668348997355256556303568899999999974189850488864888831


Q ss_pred             CCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCC
Q ss_conf             65221356999999721354267758999998863132
Q gi|254780999|r  331 TSPQSLEDAAACAKALGCKYDVLPIHDLVNHFFSLMSQ  368 (562)
Q Consensus       331 ~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~~~~~~~~  368 (562)
                      |+    +-|+++++.+++++..|  .+-+.+.++.+.+
T Consensus       473 st----~~Ae~l~~~fs~~~~~V--QHHhAHalA~~ae  504 (799)
T TIGR00143       473 ST----QYAEELAKKFSLPVLRV--QHHHAHALAVMAE  504 (799)
T ss_pred             CH----HHHHHHHHHHCCCCCCH--HHHHHHHHHHHHH
T ss_conf             07----89999998718750100--1478999999986


No 195
>COG2272 PnbA Carboxylesterase type B [Lipid metabolism]
Probab=30.15  E-value=35  Score=13.86  Aligned_cols=87  Identities=25%  Similarity=0.264  Sum_probs=46.8

Q ss_pred             HHHHHHHHCCCC--E-EEEECCCCCHHHHHHHHHHHCCCH-HHEEEEECC--CCCCCCCCHHHHHHHHHHHCCC------
Q ss_conf             588876422454--0-575215872368999999841495-446797324--6666522135699999972135------
Q gi|254780999|r  282 SLRDYVQKNNFH--K-VIIGLSGGIDSALCAAIAVDALGK-ENVQTIMLP--YKYTSPQSLEDAAACAKALGCK------  349 (562)
Q Consensus       282 gl~d~~~~~g~~--~-~viglSGGiDSal~a~la~~alg~-~~v~~~~mp--~~~~s~~s~~~a~~la~~lg~~------  349 (562)
                      .++|....-|-.  . -|.|-|.|-=|++++...=.|=|- .+.+...=+  ...+.+.+.+-|..+++.||+.      
T Consensus       167 WV~~NIe~FGGDp~NVTl~GeSAGa~si~~Lla~P~AkGLF~rAi~~Sg~~~~~~s~~~A~~~a~~f~~~lG~~~~~~~~  246 (491)
T COG2272         167 WVRDNIEAFGGDPQNVTLFGESAGAASILTLLAVPSAKGLFHRAIALSGAASRVTSREEAREKAAAFARALGIPEATLDK  246 (491)
T ss_pred             HHHHHHHHHCCCCCCEEEEECCCHHHHHHHHHCCCCCHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHH
T ss_conf             99998998489963147862051079998866276501789999985788776676799999999999984897778987


Q ss_pred             CCCCCHHHHHHHHHHHHCC
Q ss_conf             4267758999998863132
Q gi|254780999|r  350 YDVLPIHDLVNHFFSLMSQ  368 (562)
Q Consensus       350 ~~~i~I~~~~~~~~~~~~~  368 (562)
                      +..++-+.+++.....+..
T Consensus       247 L~~~~~~~L~~~~~~~~~~  265 (491)
T COG2272         247 LRALSAEDLVKARLPLIGR  265 (491)
T ss_pred             HHCCCHHHHHHHHHHHCCC
T ss_conf             7367998987543121225


No 196
>KOG4201 consensus
Probab=30.02  E-value=3.9  Score=20.03  Aligned_cols=54  Identities=13%  Similarity=0.174  Sum_probs=27.8

Q ss_pred             CCCCCCCCCCCCCCE-EE-ECCEEEE--ECCCCCCCHHHHHHHHHHHCCCCEEEECCC
Q ss_conf             332100377888761-47-6474562--011111110168999997147775993155
Q gi|254780999|r  123 FHEKRTFISGYSNDP-IV-FRDIRLG--ILICEDIWKNSNICKHLKKQGAEFLFSLNA  176 (562)
Q Consensus       123 FdE~r~F~~G~~~~~-~~-~~g~kiG--v~ICeDlw~~~~~~~~la~~Gadlii~psA  176 (562)
                      ..|..||..+...-. +. .-|+++-  .+.|-|.-++....-....+|||-++-+.+
T Consensus       111 LTe~k~FkGsledL~~irk~~~~k~p~~~lL~KeFivd~~QI~~aR~~GADaVLLIva  168 (289)
T KOG4201         111 LTEPKWFKGSLEDLVAIRKIAGVKCPPKCLLRKEFIVDPYQIYEARLKGADAVLLIVA  168 (289)
T ss_pred             ECCCHHHCCCHHHHHHHHHHHCCCCCHHHHHHHHHCCCHHHHHHHHHCCCCEEEHHHH
T ss_conf             2370453053878999999716768817676788735799999998638851311898


No 197
>COG3845 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]
Probab=29.99  E-value=35  Score=13.84  Aligned_cols=19  Identities=21%  Similarity=0.541  Sum_probs=10.2

Q ss_pred             EEEEEEEEEECCEEEEEEE
Q ss_conf             8789999996997999887
Q gi|254780999|r   95 GVLNSVVILDAGNIIAVRD  113 (562)
Q Consensus        95 ~~yNsa~vi~~G~il~~y~  113 (562)
                      .+-+.+.|+..|++++.+.
T Consensus       205 ~iaDrvTVLR~Gkvvgt~~  223 (501)
T COG3845         205 AIADRVTVLRRGKVVGTVD  223 (501)
T ss_pred             HHHCEEEEEECCEEEEEEC
T ss_conf             7637369985774886635


No 198
>KOG1195 consensus
Probab=29.79  E-value=35  Score=13.82  Aligned_cols=30  Identities=17%  Similarity=0.330  Sum_probs=17.9

Q ss_pred             HHHHHHHHHCCCCEEEEECCCCCHHHHHHH
Q ss_conf             358887642245405752158723689999
Q gi|254780999|r  281 LSLRDYVQKNNFHKVIIGLSGGIDSALCAA  310 (562)
Q Consensus       281 lgl~d~~~~~g~~~~viglSGGiDSal~a~  310 (562)
                      -++-|++.+-.|.+.+--+|-|-|-...+.
T Consensus       313 aaal~Rl~~y~fdr~iYVvd~~Q~~hf~~l  342 (567)
T KOG1195         313 AAALDRLEKYSFDRLIYVVDSQQKDHFCQL  342 (567)
T ss_pred             HHHHHHHHHCCCCEEEEEECHHHHHHHHHH
T ss_conf             999999874484428998356878899999


No 199
>TIGR01139 cysK cysteine synthase A; InterPro: IPR005859    This model discriminates cysteine synthase A (CysK) and cysteine synthase B (CysM) from cystathionine beta-synthase, a protein found primarily in eukaryotes and carrying a C-terminal CBS domain lacking from this protein. Bacterial proteins lacking the CBS domain but otherwise showing resemblance to cystathionine beta-synthases and considerable phylogenetic distance from known cysteine synthases were excluded.    Cysteine synthase (O-acetylserine (thiol)-lyase, 2.5.1.47 from EC) is the enzyme responsible for the formation of cysteine from O-acetyl-serine and hydrogen sulphide with the concomitant release of acetic acid. In bacteria such two forms of the enzyme are known (genes cysK and cysM). CysK differs from CysM in that it can also use sulphide instead of thiosulphate, to produce cysteine instead of cysteine thiosulphonate. ; GO: 0004124 cysteine synthase activity, 0006535 cysteine biosynthetic process from serine.
Probab=29.65  E-value=35  Score=13.80  Aligned_cols=37  Identities=22%  Similarity=0.412  Sum_probs=26.3

Q ss_pred             CCEEEEECCCCCHHHHHHHHHHHCCC-HHHEEEEECCCC
Q ss_conf             54057521587236899999984149-544679732466
Q gi|254780999|r  292 FHKVIIGLSGGIDSALCAAIAVDALG-KENVQTIMLPYK  329 (562)
Q Consensus       292 ~~~~viglSGGiDSal~a~la~~alg-~~~v~~~~mp~~  329 (562)
                      -+|+++|+|.|.-=+-++-||.+ ++ ++++.-+++|+.
T Consensus       265 eEGiL~GISSGA~vaAAl~~Ak~-~~n~dK~iV~i~Ps~  302 (312)
T TIGR01139       265 EEGILVGISSGAAVAAALKLAKR-LENPDKLIVVILPST  302 (312)
T ss_pred             HCCEEECCCHHHHHHHHHHHHHH-HCCCCCEEEEEECCC
T ss_conf             67801015578999999999873-248898899982789


No 200
>cd01018 ZntC Metal binding protein ZntC.  These proteins are predicted to function as initial receptors in ABC transport of metal ions.  They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism.  They are comprised of two globular subdomains connected by a long alpha helix and bind their specific ligands in the cleft between these domains.  In addition, many of these proteins possess a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=29.58  E-value=35  Score=13.79  Aligned_cols=63  Identities=16%  Similarity=0.249  Sum_probs=31.8

Q ss_pred             HHCCCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCC
Q ss_conf             4224540575215872368999999841495446797324666652213569999997213542677
Q gi|254780999|r  288 QKNNFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLP  354 (562)
Q Consensus       288 ~~~g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~  354 (562)
                      +.-|++-+.+..+|.=-|+--.+-..+.+-..+|.+|..-..+++    ..++.+|+.+|++..+++
T Consensus       185 ~~ygl~~~~i~~~~~eps~~~l~~l~~~ik~~~v~~If~E~~~~~----k~~~~ia~etg~kv~~ld  247 (266)
T cd01018         185 RDYGLTQIPIEEEGKEPSPADLKRLIDLAKEKGVRVVFVQPQFST----KSAEAIAREIGAKVVTID  247 (266)
T ss_pred             HHCCCEEEECCCCCCCCCHHHHHHHHHHHHHCCCCEEEEECCCCC----HHHHHHHHHHCCCEEEEC
T ss_conf             867987986058888989999999999999839989997089990----999999997099379967


No 201
>pfam04392 ABC_sub_bind ABC transporter substrate binding protein. This family contains many hypothetical proteins and some ABC transporter substrate binding proteins.
Probab=28.65  E-value=37  Score=13.69  Aligned_cols=106  Identities=18%  Similarity=0.156  Sum_probs=53.9

Q ss_pred             EEECCCCCHHHHHHHHHHHCCCH-HHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHHH--HHHHHHCCCCC-
Q ss_conf             75215872368999999841495-446797324666652213569999997213542677589999--98863132346-
Q gi|254780999|r  296 IIGLSGGIDSALCAAIAVDALGK-ENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHDLVN--HFFSLMSQFLQ-  371 (562)
Q Consensus       296 viglSGGiDSal~a~la~~alg~-~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~~--~~~~~~~~~~~-  371 (562)
                      +-|+|--.+..-...+..+.++. ++|--+.-|+.-++....+..+..|+.+|++....++...-+  .....+....+ 
T Consensus       107 vTGvs~~~~~~~~l~ll~~l~P~~k~igviyn~~e~~s~~~~~~~~~~a~~~gi~l~~~~v~~~~ei~~a~~~l~~~~Da  186 (292)
T pfam04392       107 VTGVSDLVDVEQTIELIKKLLPNVKSIGVYYSPSEANSVSLVEEIKKYAKKSGIKVVEASVPSSNDVPSAMSSMAGKVDA  186 (292)
T ss_pred             EEEEECCCCHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCHHHHHHHHHHHHCCCCE
T ss_conf             67852774799999999986889858999957998657999999999999769989999668866799999974328988


Q ss_pred             -CCCCCHHHHCCCCHHHHHHHHHHHHHCCCEECCCC
Q ss_conf             -87431011012330466779888751695443643
Q gi|254780999|r  372 -EEPSGIVAENIQSRIRGNILMALSNHSKAMLLTTS  406 (562)
Q Consensus       372 -~~~~~~~~eN~qaR~R~~~L~~~an~~~~lvl~t~  406 (562)
                       .-..|-   .+.+  .+..+...+++.+--+.+..
T Consensus       187 l~i~~d~---~v~s--~~~~i~~~a~~~kiPv~~~~  217 (292)
T pfam04392       187 IFIPTDN---LIAS--AFTAVLQEANKAKIPVITSD  217 (292)
T ss_pred             EEEECCC---CHHH--HHHHHHHHHHHCCCCEEECC
T ss_conf             9993781---0788--99999999997499989577


No 202
>TIGR00389 glyS_dimeric glycyl-tRNA synthetase; InterPro: IPR002315   The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases .   In eubacteria, glycyl-tRNA synthetase (6.1.1.14 from EC) is an alpha2/beta2 tetramer composed of 2 different subunits , , . In some eubacteria, in archaea and eukaryota, glycyl-tRNA synthetase is an alpha2 dimer, this family. It belongs to class IIc and is one of the most complex synthetases. What is most interesting is the lack of similarity between the two types: divergence at the sequence level is so great that it is impossible to infer descent from common genes. The alpha (see IPR002310 from INTERPRO) and beta subunits (see IPR002311 from INTERPRO) also lack significant sequence similarity. However, they are translated from a single mRNA , and a single chain glycyl-tRNA synthetase from Chlamydia trachomatis has been found to have significant similarity with both domains, suggesting divergence from a single polypeptide chain .   The sequence and crystal structure of the homodimeric glycyl-tRNA synthetase from Thermus thermophilus, shows that each monomer consists of an active site strongly resembling that of the aspartyl and seryl enzymes, a C-terminal anticodon recognition domain of 100 residues and a third domain unusually inserted between motifs 1 and 2 almost certainly interacting with the acceptor arm of tRNA(Gly). The C-terminal domain has a novel five-stranded parallel-antiparallel beta-sheet structure with three surrounding helices. The active site residues most probably responsible for substrate recognition, in particular in the Gly binding pocket, can be identified by inference from aspartyl-tRNA synthetase due to the conserved nature of the class II active site , .; GO: 0000166 nucleotide binding, 0004820 glycine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006426 glycyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=28.31  E-value=26  Score=14.63  Aligned_cols=12  Identities=33%  Similarity=0.625  Sum_probs=7.1

Q ss_pred             HHHHHHHHHHCC
Q ss_conf             999999998279
Q gi|254780999|r  489 LDDIIKRIVENE  500 (562)
Q Consensus       489 lD~il~~~i~~~  500 (562)
                      ||.|.|+++...
T Consensus       478 i~Ri~Y~~l~hs  489 (606)
T TIGR00389       478 IDRIIYSLLEHS  489 (606)
T ss_pred             HHHHHHHHHHHH
T ss_conf             378999999874


No 203
>PRK05077 frsA fermentation/respiration switch protein; Reviewed
Probab=27.81  E-value=38  Score=13.60  Aligned_cols=37  Identities=27%  Similarity=0.283  Sum_probs=23.5

Q ss_pred             EEECCCCCHHHHH--HHHHHHCCCHHHE--EEEECCCCCCC
Q ss_conf             7521587236899--9999841495446--79732466665
Q gi|254780999|r  296 IIGLSGGIDSALC--AAIAVDALGKENV--QTIMLPYKYTS  332 (562)
Q Consensus       296 viglSGGiDSal~--a~la~~alg~~~v--~~~~mp~~~~s  332 (562)
                      +|=+|||+||-=+  --|.-+-|.|.++  +.+-|||..-|
T Consensus       196 tViv~GgLDsLQ~D~~rLF~dylaP~giAMLTlDMPSvG~S  236 (414)
T PRK05077        196 TVLMCGGLDSLQTDYYRLFRDYLAPRGIAMLTIDMPSVGFS  236 (414)
T ss_pred             EEEEECCHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCC
T ss_conf             59995672477888999999852646733797037877653


No 204
>TIGR00421 ubiX_pad polyprenyl P-hydroxybenzoate and phenylacrylic acid decarboxylases; InterPro: IPR004507   This family contains flavoproteins, which are aromatic acid decarboxylases. An example is the Saccharomyces cerevisiae gene, PAD1 that encodes phenylacrylic acid decarboxylase. Mutations of this gene are viable and confer resistance to cinnamic acid. ; GO: 0016831 carboxy-lyase activity.
Probab=27.58  E-value=38  Score=13.57  Aligned_cols=26  Identities=35%  Similarity=0.580  Sum_probs=19.5

Q ss_pred             CCCCCCCCCCHHHH-----HHHHHHHCCCCC
Q ss_conf             24666652213569-----999997213542
Q gi|254780999|r  326 LPYKYTSPQSLEDA-----AACAKALGCKYD  351 (562)
Q Consensus       326 mp~~~~s~~s~~~a-----~~la~~lg~~~~  351 (562)
                      ||++||-+.|++|=     -...+.|||+..
T Consensus       146 ~PaFY~rPkS~~Dl~~~~VgR~LD~lGI~~d  176 (181)
T TIGR00421       146 VPAFYNRPKSVEDLIDFIVGRVLDQLGIEND  176 (181)
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCC
T ss_conf             5544478988788986779877776244378


No 205
>KOG0452 consensus
Probab=27.51  E-value=38  Score=13.56  Aligned_cols=158  Identities=22%  Similarity=0.296  Sum_probs=76.2

Q ss_pred             HHHHHHHHHHCCCCE------EEEECCCCCHHHHHHHHHHHCC-------CHHHEEEEECCC-C--CCCCCCHHHHHHHH
Q ss_conf             035888764224540------5752158723689999998414-------954467973246-6--66522135699999
Q gi|254780999|r  280 VLSLRDYVQKNNFHK------VIIGLSGGIDSALCAAIAVDAL-------GKENVQTIMLPY-K--YTSPQSLEDAAACA  343 (562)
Q Consensus       280 vlgl~d~~~~~g~~~------~viglSGGiDSal~a~la~~al-------g~~~v~~~~mp~-~--~~s~~s~~~a~~la  343 (562)
                      ..|+..|+.|.||.=      -.||=||-+|-+++.+|--.-|       |..|.-|-.-|. +  |-..--+--|.++|
T Consensus       487 ~SGv~pyL~klGF~IvGYGC~TCiGNsgpl~e~V~~ai~~ndlV~~gvLSGNrNFEGRvhp~tRANYLASPpLvvaYaia  566 (892)
T KOG0452         487 ESGVLPYLEKLGFDIVGYGCMTCIGNSGPLDEAVVNAIEQNDLVAAGVLSGNRNFEGRVHPNTRANYLASPPLVVAYAIA  566 (892)
T ss_pred             HCCCHHHHHHCCCEEECCCCCEECCCCCCCCHHHHHHHHCCCEEEEEEEECCCCCCCCCCCCCHHHHCCCCHHHHHHHHC
T ss_conf             43536679861942653322121168887887898753338848998840687766511664100001486477664442


Q ss_pred             HHHCCCCCCCCHH-----------------HHHHHHHHH--HCCCCCCCCCCHHHHCCCCH--------HHHHHHHHHHH
Q ss_conf             9721354267758-----------------999998863--13234687431011012330--------46677988875
Q gi|254780999|r  344 KALGCKYDVLPIH-----------------DLVNHFFSL--MSQFLQEEPSGIVAENIQSR--------IRGNILMALSN  396 (562)
Q Consensus       344 ~~lg~~~~~i~I~-----------------~~~~~~~~~--~~~~~~~~~~~~~~eN~qaR--------~R~~~L~~~an  396 (562)
                      -...|.+..-||.                 +-+..++..  +...|.     -++++|+-.        .-...||.+..
T Consensus       567 GtV~IDfe~eplg~~~~Gk~vfl~DIWPtr~Ev~~ve~~~Vip~mFk-----~~y~~I~~gn~~Wn~L~~p~~~Ly~Wd~  641 (892)
T KOG0452         567 GTVNIDFETEPLGVDPDGKNVFLRDIWPTREEVAEVEEEHVIPSMFK-----EVYEKIELGNPDWNQLEVPSSKLYPWDP  641 (892)
T ss_pred             CEEECCEECCCCCCCCCCCEEEEEECCCCHHHHHHHHHHCCCHHHHH-----HHHHHHHHCCHHHHHCCCCCCCEECCCC
T ss_conf             51350100255431899876887514787799999988600289999-----9999886167114420277663021588


Q ss_pred             H---------CCCEECCCCCHHHHHHHHCCCC-CCCC--CCCCCCCCCCHHHHHHHHHHH
Q ss_conf             1---------6954436432447754110236-6655--540101776336589999996
Q gi|254780999|r  397 H---------SKAMLLTTSNKSEISVGYGTLY-GDMS--GGFNPLKDLYKTQVFQLASWR  444 (562)
Q Consensus       397 ~---------~~~lvl~t~nksE~~~Gy~T~~-GD~~--g~~~p~~~l~Kt~v~~la~~~  444 (562)
                      .         +.+|....--..+.--.||-++ ||+.  -.++|-|++.|+--  -|||+
T Consensus       642 ~STYI~~ppfF~~mT~~~p~~~~i~~A~~LLnlGDSvTTDHISPAGsI~r~Sp--AAr~L  699 (892)
T KOG0452         642 KSTYIKEPPFFEGMTRDLPGPQSIEDAYCLLNLGDSVTTDHISPAGSIARTSP--AARYL  699 (892)
T ss_pred             CCCEECCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCH--HHHHH
T ss_conf             87511078301131237998310101168886067433256487753133788--88888


No 206
>TIGR02440 FadJ fatty oxidation complex, alpha subunit FadJ; InterPro: IPR012802   Members of this family represent the alpha subunit of the multifunctional enzyme complex of the fatty acid degradation cycle, which plays a minor role in aerobic beta-oxidation of fatty acids. The FadJI complex is necessary for anaerobic growth on short-chain acids with nitrate as an electron acceptor. Activities include: enoyl-CoA hydratase (4.2.1.17 from EC), 3-hydroxyacyl-CoA dehydrogenase (1.1.1.35 from EC), and 3-hydroxybutyryl-CoA epimerase (5.1.2.3 from EC). A representative is the Escherichia coli FadJ protein (also named YfcX) (P77399 from SWISSPROT). This entry excludes FadB of IPR012799 from INTERPRO.; GO: 0003857 3-hydroxyacyl-CoA dehydrogenase activity, 0004300 enoyl-CoA hydratase activity, 0008692 3-hydroxybutyryl-CoA epimerase activity, 0051287 NAD binding, 0006635 fatty acid beta-oxidation, 0016507 fatty acid beta-oxidation multienzyme complex.
Probab=27.38  E-value=39  Score=13.55  Aligned_cols=46  Identities=30%  Similarity=0.294  Sum_probs=34.2

Q ss_pred             HHHHHHCCCHHHEEEE-------------ECCCCCC------CCCCHHHHHHHHHHHCCCCCCCC
Q ss_conf             9999841495446797-------------3246666------52213569999997213542677
Q gi|254780999|r  309 AAIAVDALGKENVQTI-------------MLPYKYT------SPQSLEDAAACAKALGCKYDVLP  354 (562)
Q Consensus       309 a~la~~alg~~~v~~~-------------~mp~~~~------s~~s~~~a~~la~~lg~~~~~i~  354 (562)
                      --||+.|-.||||+|+             ..|+..|      |++|.--.-+||+-.|=+-.++.
T Consensus       429 ~qIAa~A~RPE~ViGLHYFSPVeKMPLVEvIpH~~TenGsatS~~TIATtValA~KQGKTpIVV~  493 (732)
T TIGR02440       429 GQIAAAAERPENVIGLHYFSPVEKMPLVEVIPHAKTENGSATSEETIATTVALAKKQGKTPIVVA  493 (732)
T ss_pred             HHHHHHCCCCCCEECCEECCCCCCCCCEEEECCCCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEE
T ss_conf             89998404975212030007767588557607887676666764579999999850699527873


No 207
>KOG1917 consensus
Probab=27.07  E-value=23  Score=15.08  Aligned_cols=13  Identities=23%  Similarity=0.209  Sum_probs=5.9

Q ss_pred             CHHHHHHHHHHHH
Q ss_conf             8999999999999
Q gi|254780999|r   18 DIAGNIAKARRAR   30 (562)
Q Consensus        18 d~~~N~~~i~~~i   30 (562)
                      ..++|.+-|.+.+
T Consensus        51 ~~eg~ik~iv~~f   63 (1125)
T KOG1917          51 HLEGAIKFIVRKF   63 (1125)
T ss_pred             CHHHHHHHHHHHH
T ss_conf             2002799999961


No 208
>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity.  In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs.  Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family.  ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules.  The nucleotide binding domain shows the highest similarity between all members of the family.  ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=26.77  E-value=40  Score=13.48  Aligned_cols=21  Identities=19%  Similarity=0.308  Sum_probs=8.6

Q ss_pred             HHHHHHCCCEECCCCCHHHHH
Q ss_conf             888751695443643244775
Q gi|254780999|r  392 MALSNHSKAMLLTTSNKSEIS  412 (562)
Q Consensus       392 ~~~an~~~~lvl~t~nksE~~  412 (562)
                      -.++.+-..++++|-+..|..
T Consensus       172 ~~~~~~g~til~ssH~l~e~~  192 (210)
T cd03269         172 RELARAGKTVILSTHQMELVE  192 (210)
T ss_pred             HHHHHCCCEEEEECCCHHHHH
T ss_conf             999968989999888489999


No 209
>PRK02848 consensus
Probab=26.57  E-value=40  Score=13.45  Aligned_cols=40  Identities=23%  Similarity=0.348  Sum_probs=19.7

Q ss_pred             CCCCE---EEEEEECCCCCCCHHHH-HHHHHHHHHH-HHHCCCCEEEECC
Q ss_conf             98862---89999638836889999-9999999999-9985998999166
Q gi|254780999|r    1 MLKKL---KIAIAQLNPVVGDIAGN-IAKARRAREE-ANRQGMDLILFTE   45 (562)
Q Consensus         1 M~~~m---kIal~Q~n~~~gd~~~N-~~~i~~~i~~-A~~~gadLvvfPE   45 (562)
                      ||.+.   +||+     +.||+.+- .+-+.+.+.+ .....+.++++--
T Consensus         1 mm~~~~KP~IaI-----T~GDPaGIGpEIilKal~~~~~~~~~~~viigd   45 (341)
T PRK02848          1 MMTAAAKPVIAL-----TLGDPAGIGPELIAKLLADPDVREKANIVLVGD   45 (341)
T ss_pred             CCCCCCCCEEEE-----ECCCCCHHHHHHHHHHHHCHHHCCCCCEEEEEC
T ss_conf             998899998999-----347874338999999984743406998899989


No 210
>TIGR02805 exbB2 tonB-system energizer ExbB; InterPro: IPR014172   Members of this protein family appear to be the ExbB protein of an ExbBD proton-transporting membrane complex that, by means of TonB, energizes transport by TonB-dependent receptors. Note that this family represents one of at least two distinct groups TolQ homologues designated ExbB - see also IPR014164 from INTERPRO. Each group associates with a distinct group of ExbD proteins, and a single species may have two ExbB/ExbD/TonB systems..
Probab=26.49  E-value=28  Score=14.51  Aligned_cols=23  Identities=43%  Similarity=0.647  Sum_probs=15.2

Q ss_pred             EEEECCCC-CHHHHH-----HHHHHHCCC
Q ss_conf             57521587-236899-----999984149
Q gi|254780999|r  295 VIIGLSGG-IDSALC-----AAIAVDALG  317 (562)
Q Consensus       295 ~viglSGG-iDSal~-----a~la~~alg  317 (562)
                      +=+|..|| ||...+     +||-+-|||
T Consensus        82 Y~~G~gggdID~~~i~~gLSLALKATALG  110 (139)
T TIGR02805        82 YEMGLGGGDIDVKAILVGLSLALKATALG  110 (139)
T ss_pred             HHHCCCCCCCCHHHHHHHHHHHHHHHHHH
T ss_conf             86325667645115455612899999977


No 211
>COG1535 EntB Isochorismate hydrolase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=26.23  E-value=41  Score=13.41  Aligned_cols=80  Identities=20%  Similarity=0.348  Sum_probs=47.5

Q ss_pred             HHHHHHHHHCCCEEEECCCCCCCCC----CC--CCCCCEEECCCCE-EEEE-CCCCCCCEEEEEEEECCCCCCCCCCCCC
Q ss_conf             8899985433704642135688766----21--0486435558985-9996-1677763799999833521236555755
Q gi|254780999|r  189 EIVTGQISHVHLPIIYVNQVGGQDE----LI--FDGASFCFDGQQQ-LAFQ-MKHFSEQNFMTEWHYDQQLSQWNYMSDD  260 (562)
Q Consensus       189 ~~~~~~a~e~~~~vvy~N~vGg~d~----lv--f~G~S~I~d~~G~-ii~~-~~~f~e~~~i~d~d~d~~~~~~~~~~~~  260 (562)
                      ..++..+.++++||+|.-+.|.++.    +.  |+|--+-..|..+ ++.+ +|. ..+.+++.|..+.           
T Consensus        61 ~~Lr~~~~~~giPVvyTaqp~~qs~~draLL~d~WGpgl~~~p~~~~vv~~l~P~-~~D~vL~kwrYsA-----------  128 (218)
T COG1535          61 AKLRIWCKQAGIPVVYTAQPGEQSPEDRALLKDFWGPGLTASPEQQKVVDELAPG-ADDTVLTKWRYSA-----------  128 (218)
T ss_pred             HHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCC-CCCEEEEEEEHHH-----------
T ss_conf             9999999982996799806776997898999973289888886666667750899-8853775411366-----------


Q ss_pred             CCCCCCCCCCHHHHHHCCHHHHHHHHHHHCCCCEEEE
Q ss_conf             5554478999888642202035888764224540575
Q gi|254780999|r  261 SASTMYIPLQEEEADYNACVLSLRDYVQKNNFHKVII  297 (562)
Q Consensus       261 ~~~~~~~p~~~~e~~~~Alvlgl~d~~~~~g~~~~vi  297 (562)
                                    .+   ..-|-+.+++.|-...+|
T Consensus       129 --------------F~---~s~Llq~lr~~grdQLII  148 (218)
T COG1535         129 --------------FH---RSPLLQMLREKGRDQLII  148 (218)
T ss_pred             --------------HH---CCHHHHHHHHCCCCCEEE
T ss_conf             --------------60---582999998728772897


No 212
>COG2876 AroA 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]
Probab=26.08  E-value=41  Score=13.40  Aligned_cols=48  Identities=21%  Similarity=0.358  Sum_probs=34.9

Q ss_pred             HHHHHHHHHCCCCEEE----ECCCCCCCCCCH-HHHHHHHHHHHHHCCCEEEE
Q ss_conf             6899999714777599----315553335807-88878899985433704642
Q gi|254780999|r  157 SNICKHLKKQGAEFLF----SLNASPYYHNKL-KKRHEIVTGQISHVHLPIIY  204 (562)
Q Consensus       157 ~~~~~~la~~Gadlii----~psASp~~~~k~-~~R~~~~~~~a~e~~~~vvy  204 (562)
                      ...+...+..||+++-    -|..|||.+.-. ..+...++..+.+++.+++-
T Consensus        62 ~~~A~~vk~~Ga~~lRGgafKPRTSPYsFQGlge~gL~~l~~a~~~~Gl~vvt  114 (286)
T COG2876          62 RETAESVKAAGAKALRGGAFKPRTSPYSFQGLGEEGLKLLKRAADETGLPVVT  114 (286)
T ss_pred             HHHHHHHHHCCHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCEEEE
T ss_conf             99999998736223137767888995333665778899999988872990588


No 213
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=25.98  E-value=41  Score=13.38  Aligned_cols=131  Identities=17%  Similarity=0.188  Sum_probs=60.7

Q ss_pred             ECCCCCCCHHHHHHHHHHHHH-HHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHH-HHHHHHHHHHHHHCCCEEEEEE
Q ss_conf             638836889999999999999-99985998999166444799844541488999999-9999999999887697899999
Q gi|254780999|r   11 QLNPVVGDIAGNIAKARRARE-EANRQGMDLILFTELFISGYPPEDLVFKKSFIQAC-SSAIDTLKSDTHDGGAGIVVGF   88 (562)
Q Consensus        11 Q~n~~~gd~~~N~~~i~~~i~-~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~-~~~l~~La~~~~~~~i~iivG~   88 (562)
                      +++..+.|+..-++.+...+. .|.++|.++.+.-+-.++-+-.+|    +.-++++ ..-+..-.+++.+..+.+-+-.
T Consensus       360 ~le~~~f~l~~~~~~v~~~~~~~a~~k~l~l~~~~~~~~p~~v~gD----~~Rl~QIl~NLl~NAiKfT~~G~I~v~v~~  435 (920)
T PRK11107        360 ILENIPFSLRETLDEVVTLLAHSAHEKGLELTLNIDPDVPDNVIGD----PLRLQQIITNLVGNAIKFTESGNIDILVEL  435 (920)
T ss_pred             EEEECCCCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCEEEC----HHHHHHHHHHHHHHHHHCCCCCCEEEEEEE
T ss_conf             6740167899999999999999999739879999789997306538----999999999999999971889937999999


Q ss_pred             EEEECCEEEEEEEEEECCEEEEEEEEEEECCCCCCCCCCCCCCCCCCCEEEECCEEEEECCCCCC
Q ss_conf             99888987899999969979998877762355433321003778887614764745620111111
Q gi|254780999|r   89 PRQDQEGVLNSVVILDAGNIIAVRDKINLPNYSEFHEKRTFISGYSNDPIVFRDIRLGILICEDI  153 (562)
Q Consensus        89 p~~~~~~~yNsa~vi~~G~il~~y~K~~LP~y~~FdE~r~F~~G~~~~~~~~~g~kiGv~ICeDl  153 (562)
                      ....++...-...|-+.|-  |+-. ..++  ..|+   -|...+....=.++|.-+|+.||..+
T Consensus       436 ~~~~~~~~~l~~~V~DTGi--GI~~-~~~~--~iF~---~F~q~d~s~~r~~gGtGLGLaI~k~L  492 (920)
T PRK11107        436 RALSDEKVQLEVQIRDTGI--GISE-RQQS--QLFQ---AFRQADASISRRHGGTGLGLVITQKL  492 (920)
T ss_pred             EECCCCEEEEEEEEEEECC--CCCH-HHHH--HHHC---CCCCCCCCCCCCCCCCCCHHHHHHHH
T ss_conf             9647984899999999705--8699-9999--7854---20156765445679877429999999


No 214
>pfam02677 DUF208 Uncharacterized BCR, COG1636.
Probab=25.96  E-value=41  Score=13.38  Aligned_cols=62  Identities=19%  Similarity=0.260  Sum_probs=38.5

Q ss_pred             CEEEEECCCCCCCHHHHHHHHHHHCCCCEEE-ECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCC
Q ss_conf             7456201111111016899999714777599-315553335807888788999854337046421356
Q gi|254780999|r  142 DIRLGILICEDIWKNSNICKHLKKQGAEFLF-SLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQV  208 (562)
Q Consensus       142 g~kiGv~ICeDlw~~~~~~~~la~~Gadlii-~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~v  208 (562)
                      |.|.  ..|+|++... .++..+..|-|.+- .++-||+.  +.+.-.+.....+.+.++.++|.+--
T Consensus        82 g~RC--~~Cy~~RL~~-tA~~A~e~gfd~ftTTL~~Sp~k--~~~~I~~iG~~~~~~~gi~f~~~DfR  144 (176)
T pfam02677        82 GKRC--TYCYDMRLEE-TAQYAKEHGFDAFTTTLLISPYK--NHEQINEIGERAAKEYGVEFLYSDFR  144 (176)
T ss_pred             CCHH--HHHHHHHHHH-HHHHHHHCCCCEEECCCCCCCCC--CHHHHHHHHHHHHHHHCCCEEECCCC
T ss_conf             8715--9999999999-99999985999997646177764--79999999999999979978500047


No 215
>PRK13546 teichoic acids export protein ATP-binding subunit; Provisional
Probab=25.66  E-value=42  Score=13.35  Aligned_cols=14  Identities=29%  Similarity=0.377  Sum_probs=6.6

Q ss_pred             ECCCCCHHHHHHHH
Q ss_conf             21587236899999
Q gi|254780999|r  298 GLSGGIDSALCAAI  311 (562)
Q Consensus       298 glSGGiDSal~a~l  311 (562)
                      -+|||.---|..|.
T Consensus       143 ~LSgGqkqrl~lA~  156 (264)
T PRK13546        143 KYSSGMRAKLGFSI  156 (264)
T ss_pred             CCCHHHHHHHHHHH
T ss_conf             47999999999999


No 216
>PRK06102 hypothetical protein; Provisional
Probab=25.50  E-value=37  Score=13.64  Aligned_cols=15  Identities=20%  Similarity=0.149  Sum_probs=8.9

Q ss_pred             HHHHHHHHCCCCEEE
Q ss_conf             899999714777599
Q gi|254780999|r  158 NICKHLKKQGAEFLF  172 (562)
Q Consensus       158 ~~~~~la~~Gadlii  172 (562)
                      .+.+.|...||-++-
T Consensus       106 ~vV~rLr~aGaiilG  120 (452)
T PRK06102        106 AVVALLARAGMVSLG  120 (452)
T ss_pred             HHHHHHHHCCCEEEE
T ss_conf             999999978997997


No 217
>COG1029 FwdB Formylmethanofuran dehydrogenase subunit B [Energy production and conversion]
Probab=25.29  E-value=42  Score=13.30  Aligned_cols=17  Identities=24%  Similarity=0.229  Sum_probs=10.3

Q ss_pred             CCCCCCCCCHHHHHHHH
Q ss_conf             40101776336589999
Q gi|254780999|r  425 GFNPLKDLYKTQVFQLA  441 (562)
Q Consensus       425 ~~~p~~~l~Kt~v~~la  441 (562)
                      +..|.+++|+.-+..|+
T Consensus       342 ~sDp~ah~P~~~~~~l~  358 (429)
T COG1029         342 ASDPGAHFPRDAVEHLA  358 (429)
T ss_pred             ECCCCCCCHHHHHHHHH
T ss_conf             53841127199998762


No 218
>cd04863 MtLigD_Pol_like MtLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Mycobacterium tuberculosis (Mt)LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. MtLigD is monomeric and contains an N-terminal Pol domain, a central phosphoesterase module, and a C-terminal ligase domain. It has been suggested that LigD Pol contributes to NHEJ-mediated DNA DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase domain, resulting in short stretches of RNA incorporated into the genomic DNA. The MtLigD Pol domain is stimulated by manganese, is error-prone, and prefers adding rNTPs to dNTPs in vitro. The MtLigD Pol domain has been shown to prefer DNA gapped substrates
Probab=25.23  E-value=30  Score=14.25  Aligned_cols=26  Identities=19%  Similarity=0.370  Sum_probs=13.6

Q ss_pred             HHHHHHHHHCCCCEE--EEECCCCCHHH
Q ss_conf             358887642245405--75215872368
Q gi|254780999|r  281 LSLRDYVQKNNFHKV--IIGLSGGIDSA  306 (562)
Q Consensus       281 lgl~d~~~~~g~~~~--viglSGGiDSa  306 (562)
                      +||..|++-||.+|+  ++.|.++.|..
T Consensus       134 lgL~sf~KTSG~kGlHV~vPl~~~~~~~  161 (231)
T cd04863         134 LGLASFPKTSGSKGLHLYVPLDGPVSSD  161 (231)
T ss_pred             CCCCEEEEECCCCEEEEEEECCCCCCHH
T ss_conf             6995446706998679999789999989


No 219
>pfam04310 MukB MukB N-terminal. This family represents the N-terminal region of MukB, one of a group of bacterial proteins essential for the movement of nucleoids from mid-cell towards the cell quarters (i.e. chromosome partitioning). The structure of the N-terminal domain consists of an antiparallel six-stranded beta sheet surrounded by one helix on one side and by five helices on the other side. It contains an exposed Walker A loop in an unexpected helix-loop-helix motif (in other proteins, Walker A motifs generally adopt a P loop conformation as part of a strand-loop-helix motif embedded in a conserved topology of alternating helices and (parallel) beta strands).
Probab=25.14  E-value=36  Score=13.73  Aligned_cols=17  Identities=35%  Similarity=0.513  Sum_probs=9.0

Q ss_pred             EECCCCCHHHHHHHHHH
Q ss_conf             52158723689999998
Q gi|254780999|r  297 IGLSGGIDSALCAAIAV  313 (562)
Q Consensus       297 iglSGGiDSal~a~la~  313 (562)
                      -.++||||||++--|..
T Consensus       203 aslyGgissaItrsLrd  219 (227)
T pfam04310       203 ASLYGGISSAITRSLRD  219 (227)
T ss_pred             HHHHCCHHHHHHHHHHH
T ss_conf             98716726888888998


No 220
>pfam10042 DUF2278 Uncharacterized conserved protein (DUF2278). Members of this family of hypothetical bacterial proteins have no known function.
Probab=25.11  E-value=42  Score=13.28  Aligned_cols=21  Identities=29%  Similarity=0.267  Sum_probs=7.8

Q ss_pred             CCCCEEECCCCEEEEECCCCC
Q ss_conf             486435558985999616777
Q gi|254780999|r  217 DGASFCFDGQQQLAFQMKHFS  237 (562)
Q Consensus       217 ~G~S~I~d~~G~ii~~~~~f~  237 (562)
                      ||+=+|--++|+..+-.-.|+
T Consensus       175 DGall~~~~d~~w~a~FlaFq  195 (206)
T pfam10042       175 DGALLVHFSDGQWAAVFLAFA  195 (206)
T ss_pred             CCEEEEECCCCCEEEEEEHHH
T ss_conf             664999927992887662033


No 221
>PRK13482 DNA integrity scanning protein DisA; Provisional
Probab=25.08  E-value=16  Score=16.10  Aligned_cols=54  Identities=22%  Similarity=0.228  Sum_probs=34.4

Q ss_pred             EECCCCCCCHHHHHHHHHHHCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCC
Q ss_conf             2011111110168999997147775993155533358078887889998543370464213568
Q gi|254780999|r  146 GILICEDIWKNSNICKHLKKQGAEFLFSLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVG  209 (562)
Q Consensus       146 Gv~ICeDlw~~~~~~~~la~~Gadlii~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vG  209 (562)
                      ++.+.+|.+      +.+.   |++-++|+.|-. ....-.||......|+.++.+||.+++--
T Consensus        70 AIVls~d~~------kIl~---ANvqL~PD~sIp-T~ETGtRHRTAeRvAkQTg~~VIaVSqrr  123 (352)
T PRK13482         70 AIVLSSDGS------KILR---ANVQLVPDPSIP-TSETGTRHRTAERVAKQTGYPVIAVSQRR  123 (352)
T ss_pred             CEEECCCHH------HHHH---HHHEECCCCCCC-CCCCCCCHHHHHHHHHHHCCEEEEEECCC
T ss_conf             189677540------6877---321006999998-88776205679999998699289996234


No 222
>pfam09587 PGA_cap Bacterial capsule synthesis protein PGA_cap. This protein is a putative poly-gamma-glutamate capsule biosynthesis protein found in bacteria. Poly-gamma-glutamate is a natural polymer that may be involved in virulence and may help bacteria survive in high salt concentrations. It is a surface-associated protein.
Probab=25.04  E-value=43  Score=13.27  Aligned_cols=14  Identities=21%  Similarity=0.347  Sum_probs=6.5

Q ss_pred             HHHHHHHHCCCCEE
Q ss_conf             89999971477759
Q gi|254780999|r  158 NICKHLKKQGAEFL  171 (562)
Q Consensus       158 ~~~~~la~~Gadli  171 (562)
                      .....|+..|.|++
T Consensus        66 ~~~~~L~~~G~d~v   79 (237)
T pfam09587        66 ENAEALKAAGFDVV   79 (237)
T ss_pred             HHHHHHHHCCCCEE
T ss_conf             99999998499999


No 223
>PRK09856 fructoselysine 3-epimerase; Provisional
Probab=25.00  E-value=43  Score=13.27  Aligned_cols=13  Identities=0%  Similarity=-0.003  Sum_probs=6.5

Q ss_pred             HHHHHHCCCCEEE
Q ss_conf             8876422454057
Q gi|254780999|r  284 RDYVQKNNFHKVI  296 (562)
Q Consensus       284 ~d~~~~~g~~~~v  296 (562)
                      ...++..|++|+|
T Consensus       232 l~~L~~~gY~G~v  244 (276)
T PRK09856        232 MRDIIDRGYEGYC  244 (276)
T ss_pred             HHHHHHCCCCCEE
T ss_conf             9999985998159


No 224
>COG5001 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]
Probab=24.67  E-value=43  Score=13.23  Aligned_cols=126  Identities=18%  Similarity=0.221  Sum_probs=55.8

Q ss_pred             CCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHCCCCHHHHHHHHHH
Q ss_conf             14954467973246666522135699999972135426775899999886313234687431011012330466779888
Q gi|254780999|r  315 ALGKENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHDLVNHFFSLMSQFLQEEPSGIVAENIQSRIRGNILMAL  394 (562)
Q Consensus       315 alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~~~~~~~~~~~~~~~~~~~eN~qaR~R~~~L~~~  394 (562)
                      .||-+. .++..|...-...-.-.|..+|+.|+..|..-..+--   .-.+++-. ..+...-+.||+-+|---.+--+-
T Consensus       305 RLGGDE-Fa~i~p~~~dDA~rva~a~al~e~L~ApY~l~~~~v~---vgASiGia-~fP~~a~t~EqLf~RADyALYhAK  379 (663)
T COG5001         305 RLGGDE-FALIIPALEDDALRVAGARALCESLQAPYDLRGVRVQ---VGASIGIA-PFPSGADTSEQLFERADYALYHAK  379 (663)
T ss_pred             HHCCCE-EEEECCCCCCHHHHHCCHHHHHHHHCCCCCCCCCEEE---EEEEEEEE-ECCCCCCCHHHHHHHHHHHHHHHH
T ss_conf             706871-4897357896788750469999985797346886278---51124453-268766529999976668999887


Q ss_pred             HHHCCCEECCCCC---------HHHHHHHHCCCCCCCCCCCCCCCCCCHH---HHHHHHHHHH
Q ss_conf             7516954436432---------4477541102366655540101776336---5899999963
Q gi|254780999|r  395 SNHSKAMLLTTSN---------KSEISVGYGTLYGDMSGGFNPLKDLYKT---QVFQLASWRN  445 (562)
Q Consensus       395 an~~~~lvl~t~n---------ksE~~~Gy~T~~GD~~g~~~p~~~l~Kt---~v~~la~~~n  445 (562)
                      .|..|.-||=...         .-|-++--.-+--.+...|.||-|+-..   -...|+||..
T Consensus       380 ~~gkG~AvlFda~hE~~I~~~A~vE~~Lr~adl~~elsV~fQPiVDi~~gkt~a~EALaRWhs  442 (663)
T COG5001         380 QNGKGAAVLFDARHEAAIRDMAVVEQALRSADLEQELSVHFQPIVDIVSGKTIALEALARWHS  442 (663)
T ss_pred             HCCCCCEEEECHHHHHHHHHHHHHHHHHHHHHHHHHHEEECEEEEEECCCCHHHHHHHHHHCC
T ss_conf             528985687433578888899999999875545542402110113410562289999886438


No 225
>cd03796 GT1_PIG-A_like This family is most closely related to the GT1 family of glycosyltransferases. Phosphatidylinositol glycan-class A (PIG-A), an X-linked gene in humans, is necessary for the synthesis of N-acetylglucosaminyl-phosphatidylinositol, a very early intermediate in glycosyl phosphatidylinositol (GPI)-anchor biosynthesis. The GPI-anchor is an important cellular structure that facilitates the attachment of many proteins to cell surfaces. Somatic mutations in PIG-A have been associated with Paroxysmal Nocturnal Hemoglobinuria (PNH), an acquired hematological disorder.
Probab=24.05  E-value=44  Score=13.15  Aligned_cols=15  Identities=20%  Similarity=0.109  Sum_probs=5.7

Q ss_pred             HHHHHHHHHHHHCCC
Q ss_conf             999999999887697
Q gi|254780999|r   68 SAIDTLKSDTHDGGA   82 (562)
Q Consensus        68 ~~l~~La~~~~~~~i   82 (562)
                      ..+..|++...+.|.
T Consensus        18 ~~v~~La~~L~~~Gh   32 (398)
T cd03796          18 THIYQLSQCLIKRGH   32 (398)
T ss_pred             HHHHHHHHHHHHCCC
T ss_conf             999999999997699


No 226
>TIGR02176 pyruv_ox_red pyruvate:ferredoxin (flavodoxin) oxidoreductase; InterPro: IPR011895   The oxidative decarboxylation of pyruvate to acetyl-CoA, a central step in energy metabolism, can occur by two different mechanisms . In mitochondria and aerobic bacteria this reaction is catalysed by the multienzyme complex pyruvate dehydrogenase using NAD as electron acceptor. In anaerobic organisms, however, this reaction is reversibly catalysed by a single enzyme using either ferrodoxin or flavodoxin as the electron acceptor.   Pyruvate:ferrodoxin/flavodoxin reductases (PFORs) in this entry occur in both obligately and facultatively anaerobic bacteria and also some eukaryotic microorganisms. These proteins are single-chain enzymes containing a thiamin pyrophosphate cofactor for the cleavage of carbon-carbon bonds next to a carbonyl group, and iron-sulphur clusters for electron transfer. The Desulfovibrio africanus enzyme is currently the only PFOR whose three dimensional structure is known , . It is a homodimer where each subunit contains one thiamin pyrophosphate cofactor and two ferrodoxin-like 4Fe-S clusters and an atypical 4Fe-S cluster. Each monomer is composed of seven domains - domains I, II and VI make intersubunit contacts, while domains III, IV and V are located at the suface of the dimer, and domain VII forms a long arm extending over the other subunit. The cofactor is bound at the interface of domains I and VI and is proximal to the atypical 4Fe-S bound by domain VI, while the ferrodoxin-like 4Fe-S clusters are bound by domain V. Comparison of this enzyme with the multi-chain PFORs shows a correspondance between the domains in this enzyme and the subunits of the multi-chain enzymes.; GO: 0005506 iron ion binding, 0016903 oxidoreductase activity acting on the aldehyde or oxo group of donors, 0006118 electron transport.
Probab=23.70  E-value=45  Score=13.11  Aligned_cols=52  Identities=21%  Similarity=0.272  Sum_probs=42.7

Q ss_pred             HHHHHHHHHCC--------------CCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHCCCCHHHHH
Q ss_conf             69999997213--------------54267758999998863132346874310110123304667
Q gi|254780999|r  338 DAAACAKALGC--------------KYDVLPIHDLVNHFFSLMSQFLQEEPSGIVAENIQSRIRGN  389 (562)
Q Consensus       338 ~a~~la~~lg~--------------~~~~i~I~~~~~~~~~~~~~~~~~~~~~~~~eN~qaR~R~~  389 (562)
                      ||-++|+..|.              -..+||.+.+|+.+-+.|.+..+.+...|...|++|=-+++
T Consensus       551 dA~kiA~~~GLG~RIN~iMQtAFFKla~vlP~e~Av~~lK~~I~ksYGKKG~~vV~~N~~AvD~~v  616 (1194)
T TIGR02176       551 DAVKIAQEVGLGNRINTIMQTAFFKLAGVLPFEKAVDLLKKSIEKSYGKKGEEVVQKNIKAVDKAV  616 (1194)
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHH
T ss_conf             688898770788448999998899871579878999998899885048977788987799997773


No 227
>PRK04507 consensus
Probab=23.50  E-value=46  Score=13.08  Aligned_cols=36  Identities=28%  Similarity=0.412  Sum_probs=16.8

Q ss_pred             CCCCEEEEEEECCCCCCCHHHH-HHHHHHHHHHHHHCCCCEEEE
Q ss_conf             9886289999638836889999-999999999999859989991
Q gi|254780999|r    1 MLKKLKIAIAQLNPVVGDIAGN-IAKARRAREEANRQGMDLILF   43 (562)
Q Consensus         1 M~~~mkIal~Q~n~~~gd~~~N-~~~i~~~i~~A~~~gadLvvf   43 (562)
                      ||++ +||+     +.||+.+- -+-+.++..+. ...+.++++
T Consensus         1 M~~P-~IaI-----T~GDPaGIGPEIilK~~~~~-~~~~~~vvi   37 (323)
T PRK04507          1 MMVP-SLAL-----VPGEPAGIGPELCVRLAQQP-RSDAHLIAY   37 (323)
T ss_pred             CCCC-EEEE-----ECCCCCHHHHHHHHHHHHCC-CCCCCEEEE
T ss_conf             9998-3899-----15886266999999998666-458998999


No 228
>TIGR01515 branching_enzym 1,4-alpha-glucan branching enzyme; InterPro: IPR006407   This entry represents the core region of the glycogen branching enzymes, which are responsible for the transfer of chains of approximately seven alpha(1,4)-linked glucosyl residues to other similar chains (in new alpha-(1,6) linkages) in the biosynthesis of glycogen . The branching enzyme is responsible for the degree of alpha(1,6) branch linkages found in polysaccharides .; GO: 0003844 14-alpha-glucan branching enzyme activity, 0005978 glycogen biosynthetic process.
Probab=23.31  E-value=38  Score=13.61  Aligned_cols=126  Identities=10%  Similarity=0.195  Sum_probs=72.7

Q ss_pred             HHHHCCCEEEECCCCCCCCCCCCCCCCEEECCCCEEEEECCCCC--------CCEEEEEEEECCCCCCCCCCCCCCCCCC
Q ss_conf             85433704642135688766210486435558985999616777--------6379999983352123655575555544
Q gi|254780999|r  194 QISHVHLPIIYVNQVGGQDELIFDGASFCFDGQQQLAFQMKHFS--------EQNFMTEWHYDQQLSQWNYMSDDSASTM  265 (562)
Q Consensus       194 ~a~e~~~~vvy~N~vGg~d~lvf~G~S~I~d~~G~ii~~~~~f~--------e~~~i~d~d~d~~~~~~~~~~~~~~~~~  265 (562)
                      +-.++++|-++.=-+|.-..+=|    =|++++|.+..++.-+.        ...++++++-|..-...+.....-..+.
T Consensus        60 ~~~~~GvWeLFiPg~~~g~~YKY----Ei~~~~G~~~lkaDPyA~y~evRP~tASlv~~l~~d~~W~~~r~~~~~~~~Pv  135 (608)
T TIGR01515        60 KRNDNGVWELFIPGVGEGELYKY----EIVDANGEIRLKADPYAFYAEVRPETASLVADLEQDEEWLEKRKAKDPYEKPV  135 (608)
T ss_pred             CCCCCCEEEECCCCCCCCCCCEE----EEECCCCCEEECCCCCCCCCCCCCCCEEEEECCHHHHHHHHHHHHCCCCCCCE
T ss_conf             02787225511776546862204----66768987564367530124689874025525853589999852102200882


Q ss_pred             CC----CCCHHHHHHCCHHHHHHHHHHHCCCCEEE-EECCCCCHHHHHHHHHHHCCCH---HHEEEEECCC-CCCCCCC
Q ss_conf             78----99988864220203588876422454057-5215872368999999841495---4467973246-6665221
Q gi|254780999|r  266 YI----PLQEEEADYNACVLSLRDYVQKNNFHKVI-IGLSGGIDSALCAAIAVDALGK---ENVQTIMLPY-KYTSPQS  335 (562)
Q Consensus       266 ~~----p~~~~e~~~~Alvlgl~d~~~~~g~~~~v-iglSGGiDSal~a~la~~alg~---~~v~~~~mp~-~~~s~~s  335 (562)
                      .+    -.|...-.|+-|+--|--|+++.||..+= ++|.            =.=.+.   =.|.|+.-|+ |+-+++.
T Consensus       136 svYElHLGSW~~lSY~eL~~~L~pYvK~~GFTHiELLPv~------------EHPFDGSWGYQ~TGyYAPTsRfG~P~D  202 (608)
T TIGR01515       136 SVYELHLGSWRKLSYRELADQLIPYVKELGFTHIELLPVA------------EHPFDGSWGYQVTGYYAPTSRFGTPDD  202 (608)
T ss_pred             EEEEEECCCCCCCHHHHHHHHHHHHHHHCCCEEEEECCCC------------CCCCCCCCCCCCCCCCCCCCCCCCHHH
T ss_conf             8998400005421278886310157875087125414664------------278878655357755278888877456


No 229
>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]
Probab=23.13  E-value=46  Score=13.04  Aligned_cols=76  Identities=17%  Similarity=0.072  Sum_probs=38.6

Q ss_pred             HHEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHH-HHHCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHH
Q ss_conf             446797324666652213569999997213542677589999988-6313234687431011012330466779888751
Q gi|254780999|r  319 ENVQTIMLPYKYTSPQSLEDAAACAKALGCKYDVLPIHDLVNHFF-SLMSQFLQEEPSGIVAENIQSRIRGNILMALSNH  397 (562)
Q Consensus       319 ~~v~~~~mp~~~~s~~s~~~a~~la~~lg~~~~~i~I~~~~~~~~-~~~~~~~~~~~~~~~~eN~qaR~R~~~L~~~an~  397 (562)
                      .|+.-|-||+-.-|    .-++.||+.|+..+...|  ...+... .+++..|...    -++..+.+.+..+.-.. +.
T Consensus         3 ~~IvLiG~mGaGKS----TIGr~LAk~L~~~F~D~D--~~Ie~~~g~sI~eIF~~~----GE~~FR~~E~~vl~~l~-~~   71 (172)
T COG0703           3 MNIVLIGFMGAGKS----TIGRALAKALNLPFIDTD--QEIEKRTGMSIAEIFEEE----GEEGFRRLETEVLKELL-EE   71 (172)
T ss_pred             CCEEEECCCCCCHH----HHHHHHHHHCCCCCCCCH--HHHHHHHCCCHHHHHHHH----HHHHHHHHHHHHHHHHH-HC
T ss_conf             61899717999776----899999998199802246--999999796999999998----28999999999999986-26


Q ss_pred             CCCEECCCC
Q ss_conf             695443643
Q gi|254780999|r  398 SKAMLLTTS  406 (562)
Q Consensus       398 ~~~lvl~t~  406 (562)
                      . ..|++||
T Consensus        72 ~-~~ViaTG   79 (172)
T COG0703          72 D-NAVIATG   79 (172)
T ss_pred             C-CEEEECC
T ss_conf             9-9599779


No 230
>PRK13545 tagH teichoic acids export protein ATP-binding subunit; Provisional
Probab=23.05  E-value=46  Score=13.03  Aligned_cols=69  Identities=13%  Similarity=0.290  Sum_probs=37.7

Q ss_pred             HHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEEEEEECCEEEEEEEEEECCEEEEE
Q ss_conf             99985998999166444799844541488999999999999999988769789999999888987899999969979998
Q gi|254780999|r   32 EANRQGMDLILFTELFISGYPPEDLVFKKSFIQACSSAIDTLKSDTHDGGAGIVVGFPRQDQEGVLNSVVILDAGNIIAV  111 (562)
Q Consensus        32 ~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~~~~l~~La~~~~~~~i~iivG~p~~~~~~~yNsa~vi~~G~il~~  111 (562)
                      .|....+|+++.-|-.-.|        ...|.+.|.+.+.++.+   ...+.++|.+-...=..+-+.+.+++.|++...
T Consensus       156 IA~~~dPDILIIDEaLSVG--------D~~F~~Kc~~rm~ef~e---~gkTIvfVSHsl~~Vk~~C~R~iWLe~G~vr~~  224 (549)
T PRK13545        156 ISVHINPDILVIDEALSVG--------DQTFTKKCLDKMNEFKE---QGKTIFFISHSLSQVKSFCTKALWLHYGQVKEY  224 (549)
T ss_pred             HHHHCCCCEEEEECCCCCC--------CHHHHHHHHHHHHHHHH---CCCEEEEEECCHHHHHHHCCEEEEEECCEEEEE
T ss_conf             9982499999994620057--------89999999999999997---898899995888999985731063438667874


No 231
>PRK13270 treF trehalase; Provisional
Probab=22.52  E-value=48  Score=12.96  Aligned_cols=19  Identities=5%  Similarity=0.177  Sum_probs=9.9

Q ss_pred             CCCCCHHHHHHHHHHHHCC
Q ss_conf             4267758999998863132
Q gi|254780999|r  350 YDVLPIHDLVNHFFSLMSQ  368 (562)
Q Consensus       350 ~~~i~I~~~~~~~~~~~~~  368 (562)
                      +.-|+++.++-....+|+.
T Consensus       346 iiPVDLNalLy~~E~~lA~  364 (549)
T PRK13270        346 FIPIDLNAFLFKLESAIAN  364 (549)
T ss_pred             CCEECHHHHHHHHHHHHHH
T ss_conf             0414489999999999999


No 232
>TIGR01136 cysKM cysteine synthases; InterPro: IPR005856    This model discriminates cysteine synthases (both CysK and CysM) from cystathionine beta-synthase, a protein found primarily in eukaryotes and carrying a C-terminal CBS domain lacking from this protein. Bacterial proteins lacking the CBS domain but otherwise showing resemblance to cystathionine beta-synthases and considerable phylogenetic distance from known cysteine synthases were excluded.    Cysteine synthase (O-acetylserine (thiol)-lyase) is the enzyme responsible for the formation of cysteine from O-acetyl-serine and hydrogen sulphide with the concomitant release of acetic acid. In bacteria such two forms of the enzyme are known (genes cysK and cysM). CysM differs from CysK in that it can also use thiosulphate instead of sulphide, to produce cysteine thiosulphonate instead of cysteine. ; GO: 0004124 cysteine synthase activity, 0006535 cysteine biosynthetic process from serine.
Probab=22.49  E-value=48  Score=12.96  Aligned_cols=39  Identities=23%  Similarity=0.336  Sum_probs=27.4

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHHCC--CHHHEEEEECCCC
Q ss_conf             45405752158723689999998414--9544679732466
Q gi|254780999|r  291 NFHKVIIGLSGGIDSALCAAIAVDAL--GKENVQTIMLPYK  329 (562)
Q Consensus       291 g~~~~viglSGGiDSal~a~la~~al--g~~~v~~~~mp~~  329 (562)
                      .-+|+++|+|.|--=+-++-||.+.-  |++.+..+++|+.
T Consensus       265 ~~EGIl~GiSSGAavaAAl~~A~~~~~~G~~k~iV~i~pd~  305 (315)
T TIGR01136       265 REEGILVGISSGAAVAAALQVAKRLENKGPGKVIVAILPDT  305 (315)
T ss_pred             HHCCEEEECCHHHHHHHHHHHHHHCCCCCCCCEEEEEECCC
T ss_conf             74680662156899999999997322478896699996689


No 233
>cd03811 GT1_WabH_like This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core.
Probab=22.40  E-value=48  Score=12.94  Aligned_cols=11  Identities=27%  Similarity=0.286  Sum_probs=4.6

Q ss_pred             EEEECCCCCCC
Q ss_conf             99916644479
Q gi|254780999|r   40 LILFTELFISG   50 (562)
Q Consensus        40 LvvfPEl~LtG   50 (562)
                      +.+.|-+...|
T Consensus         3 l~v~~~~~~GG   13 (353)
T cd03811           3 LFVIPSLGGGG   13 (353)
T ss_pred             EEEECCCCCCH
T ss_conf             99969999915


No 234
>pfam06500 DUF1100 Alpha/beta hydrolase of unknown function (DUF1100). This family consists of several hypothetical bacterial proteins of unknown function. Members of this family have an alpha/beta hydrolase fold.
Probab=22.35  E-value=48  Score=12.94  Aligned_cols=37  Identities=27%  Similarity=0.301  Sum_probs=23.3

Q ss_pred             EEECCCCCHHHHH--HHHHHHCCCHHHE--EEEECCCCCCC
Q ss_conf             7521587236899--9999841495446--79732466665
Q gi|254780999|r  296 IIGLSGGIDSALC--AAIAVDALGKENV--QTIMLPYKYTS  332 (562)
Q Consensus       296 viglSGGiDSal~--a~la~~alg~~~v--~~~~mp~~~~s  332 (562)
                      +|=+|||+||-=+  --|.-+-|.|.++  +.+-|||..-|
T Consensus       192 tViv~ggLDsLQ~D~~rLF~dyLaP~giAMLTlDMPSvG~S  232 (411)
T pfam06500       192 VVLVSAGLDSLQTDMWRLFRDYLAPRDIAMLTIDMPSVGAS  232 (411)
T ss_pred             EEEEECCHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCC
T ss_conf             69995772577888999999853745733797047877754


No 235
>TIGR01513 NAPRTase_put putative nicotinate phosphoribosyltransferase; InterPro: IPR006405   A deep split separates two related families of proteins, one of which includes experimentally characterised examples of nicotinate phosphoribosyltransferase, the first enzyme of NAD salvage biosynthesis. This entry represents the other family. Members have a different (longer) spacing of several key motifs and have an additional C-terminal domain of up to 100 residues. One argument suggesting that this family represents the same enzyme is that no species has a member of both families. Another is that the gene encoding this protein is located near other NAD salvage biosynthesis genes in Nostoc and in at least four different Gram-positive bacteria. NAD and NADP are ubiquitous in life. Most members of this family are from Gram-positive bacteria. An additional set of mutually closely related archaeal sequences score between the trusted and noise cut-offs. .
Probab=22.35  E-value=48  Score=12.94  Aligned_cols=72  Identities=18%  Similarity=0.203  Sum_probs=47.5

Q ss_pred             HCCHHHHHHHHHHHCC-------CCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHH--HH
Q ss_conf             2202035888764224-------54057521587236899999984149544679732466665221356999999--72
Q gi|254780999|r  276 YNACVLSLRDYVQKNN-------FHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAK--AL  346 (562)
Q Consensus       276 ~~Alvlgl~d~~~~~g-------~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~--~l  346 (562)
                      ...|...+|..+...|       ++.+=|=+|||+|=...+.|...- .|=++.||=-- -.|+..    +    =  .|
T Consensus       291 L~~LSk~~R~~LD~AGaqfqvPWL~~vkI~VSn~LDE~~I~~L~~~g-apID~~GVGT~-LvTa~~----~----PGG~l  360 (523)
T TIGR01513       291 LAYLSKKVRKELDEAGAQFQVPWLEEVKIVVSNDLDENSIAALKAEG-APIDVYGVGTS-LVTASD----A----PGGAL  360 (523)
T ss_pred             HHHHHHHHHHHHHHHCHHCCCCCHHCCEEEEECCCCHHHHHHHHHCC-CCEEEEEECCE-EEECCC----C----CCCCC
T ss_conf             99999999999986111115860037548996740478999999658-94538884678-898478----8----88500


Q ss_pred             CCCCCCCCHHH
Q ss_conf             13542677589
Q gi|254780999|r  347 GCKYDVLPIHD  357 (562)
Q Consensus       347 g~~~~~i~I~~  357 (562)
                      ++-|+.+.++.
T Consensus       361 ~~VYKlva~~g  371 (523)
T TIGR01513       361 SGVYKLVAYEG  371 (523)
T ss_pred             CCEEEEEEECC
T ss_conf             21378888637


No 236
>PRK08305 spoVFB dipicolinate synthase subunit B; Reviewed
Probab=22.28  E-value=48  Score=12.93  Aligned_cols=38  Identities=16%  Similarity=0.159  Sum_probs=25.8

Q ss_pred             ECCEEEEECCCCCCCHH---HHHHHHHHHCCCCEEEECCCC
Q ss_conf             64745620111111101---689999971477759931555
Q gi|254780999|r  140 FRDIRLGILICEDIWKN---SNICKHLKKQGAEFLFSLNAS  177 (562)
Q Consensus       140 ~~g~kiGv~ICeDlw~~---~~~~~~la~~Gadlii~psAS  177 (562)
                      ..|.|||+.||.-+-..   ....+.|.+.||++..+.|.+
T Consensus         3 L~gK~I~lgvTGSiaay~kv~~~ir~L~~~GA~V~~ImS~~   43 (195)
T PRK08305          3 LKGKRIGFGLTGSHCTYEEVMPQIEKLVAEGAEVRPIVSYT   43 (195)
T ss_pred             CCCCEEEEEECCHHHHHHHHHHHHHHHHHCCCEEEEEECHH
T ss_conf             68988999967279989999999999998799699997544


No 237
>pfam02065 Melibiase Melibiase.
Probab=22.18  E-value=48  Score=12.92  Aligned_cols=61  Identities=18%  Similarity=0.256  Sum_probs=29.9

Q ss_pred             HHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCC-----CHHHHHCCHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             999999999999999985998999166444799-----8445414889999999999999999887697
Q gi|254780999|r   19 IAGNIAKARRAREEANRQGMDLILFTELFISGY-----PPEDLVFKKSFIQACSSAIDTLKSDTHDGGA   82 (562)
Q Consensus        19 ~~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY-----~~~Dl~~~~~f~~~~~~~l~~La~~~~~~~i   82 (562)
                      ++-|.+++++++++|++-|+++.|+=--+..+=     ..+|+.-.+.-   -..-|..|+...++.|+
T Consensus        53 Fd~~e~~l~~la~~Aa~lGvE~FVlDDGWFg~R~~D~~gLGDW~v~~~k---fP~GL~~l~d~v~~~GM  118 (395)
T pfam02065        53 FDFNEDKLLDLADEAADLGIELFVLDDGWFGGRNDDNSSLGDWFVNEQK---FPNGLKPLADHVHSLGM  118 (395)
T ss_pred             CCCCHHHHHHHHHHHHHHCCEEEEECCCCCCCCCCCCCCCCCCCCCHHH---CCCCHHHHHHHHHHCCC
T ss_conf             2589999999999999739869998178778999988777381616500---58987999999997398


No 238
>pfam05201 GlutR_N Glutamyl-tRNAGlu reductase, N-terminal domain.
Probab=22.03  E-value=30  Score=14.31  Aligned_cols=18  Identities=39%  Similarity=0.519  Sum_probs=14.3

Q ss_pred             HHCCCEECCCCCHHHHHH
Q ss_conf             516954436432447754
Q gi|254780999|r  396 NHSKAMLLTTSNKSEISV  413 (562)
Q Consensus       396 n~~~~lvl~t~nksE~~~  413 (562)
                      .-.+.++|+|=|++|+.+
T Consensus        35 ~i~e~viLsTCNRtEiY~   52 (150)
T pfam05201        35 GVSEAVILSTCNRVEIYA   52 (150)
T ss_pred             CCCEEEEEEECCCEEEEE
T ss_conf             975168986047279999


No 239
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB; InterPro: IPR013374    This model describes a protein involved in type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly, and is closely related to GspE (IPR013369 from INTERPRO) of type II secretion systems (also referred to as the main terminal branch of the general secretion pathway). Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.; GO: 0005524 ATP binding, 0008565 protein transporter activity, 0009297 pilus biogenesis.
Probab=21.82  E-value=34  Score=13.88  Aligned_cols=51  Identities=14%  Similarity=0.084  Sum_probs=27.3

Q ss_pred             HHHHHCCCEECCCCCHHHHH---HHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             88751695443643244775---4110236665554010177633658999999631
Q gi|254780999|r  393 ALSNHSKAMLLTTSNKSEIS---VGYGTLYGDMSGGFNPLKDLYKTQVFQLASWRNS  446 (562)
Q Consensus       393 ~~an~~~~lvl~t~nksE~~---~Gy~T~~GD~~g~~~p~~~l~Kt~v~~la~~~n~  446 (562)
                      =-|.+.|||||+|-+==.++   .--.-+   +...|+.=++|.---=-.|||-+..
T Consensus       414 iKAAqTGHLVlSTLHTNdAp~Tl~RL~NM---GiapFNIASSV~LI~AQRLARRLCs  467 (577)
T TIGR02538       414 IKAAQTGHLVLSTLHTNDAPETLARLVNM---GIAPFNIASSVNLIMAQRLARRLCS  467 (577)
T ss_pred             HHHHCCCCCEECCCCCCCHHHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             99840487210100016858999999753---8413799999999999975524031


No 240
>PRK09922 UDP-D-galactose:(glucosyl)lipopolysaccharide-1,6-D-galactosyltransferase; Provisional
Probab=21.79  E-value=49  Score=12.87  Aligned_cols=40  Identities=20%  Similarity=0.299  Sum_probs=21.9

Q ss_pred             CCEEEEEEECCCC-CCCHHHHHHHHHHHHHHHHHC--CCCEEEECC
Q ss_conf             8628999963883-688999999999999999985--998999166
Q gi|254780999|r    3 KKLKIAIAQLNPV-VGDIAGNIAKARRAREEANRQ--GMDLILFTE   45 (562)
Q Consensus         3 ~~mkIal~Q~n~~-~gd~~~N~~~i~~~i~~A~~~--gadLvvfPE   45 (562)
                      ++|||+....+.. .|-.|.-+-.+.+..   .+.  +.+++++..
T Consensus         1 ~~MKIlfi~~~l~~~GGaErvl~~La~~L---~~~~~~~~v~~~~~   43 (361)
T PRK09922          1 KKMKIAFIGEAVSGFGGMETVISNVINTF---ENSKINCEMFFFCR   43 (361)
T ss_pred             CCEEEEEECCCCCCCCCHHHHHHHHHHHH---HHHCCCEEEEEEEC
T ss_conf             97099999999999880499999999999---87199879999934


No 241
>cd02648 nuc_hydro_1 NH_1: A subgroup of nucleoside hydrolases. This group contains fungal proteins similar to nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity.
Probab=21.73  E-value=49  Score=12.86  Aligned_cols=20  Identities=25%  Similarity=0.330  Sum_probs=8.1

Q ss_pred             HHHHHHHCCCCEEEEECCCC
Q ss_conf             88876422454057521587
Q gi|254780999|r  283 LRDYVQKNNFHKVIIGLSGG  302 (562)
Q Consensus       283 l~d~~~~~g~~~~viglSGG  302 (562)
                      +.|-++++.-+.+.|=--|-
T Consensus       141 ii~~l~~~p~~~Vtlva~GP  160 (367)
T cd02648         141 ILDILREEPDHTVTIAALGP  160 (367)
T ss_pred             HHHHHHHCCCCEEEEEECCC
T ss_conf             99999967998189995786


No 242
>cd01571 NAPRTase_B Nicotinate phosphoribosyltransferase (NAPRTase), subgroup B. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction in the NAD salvage synthesis. This salvage pathway serves to recycle NAD degradation products.
Probab=21.53  E-value=50  Score=12.83  Aligned_cols=38  Identities=18%  Similarity=0.255  Sum_probs=30.3

Q ss_pred             HHCCHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHH
Q ss_conf             42202035888764224540575215872368999999
Q gi|254780999|r  275 DYNACVLSLRDYVQKNNFHKVIIGLSGGIDSALCAAIA  312 (562)
Q Consensus       275 ~~~Alvlgl~d~~~~~g~~~~viglSGGiDSal~a~la  312 (562)
                      ....++.-+|..+.+.|++.+-|-+|||||=.-...++
T Consensus       226 ~~~~l~~~vR~~LD~~G~~~vkI~aSggl~e~~I~~l~  263 (302)
T cd01571         226 VFRYLIREVRWALDIRGYKHVKIFVSGGLDEEDIKELE  263 (302)
T ss_pred             CHHHHHHHHHHHHHHCCCCCCEEEEECCCCHHHHHHHH
T ss_conf             79999999999997669887489996999999999998


No 243
>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance.  Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis.  The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC.  Bacitracin has potent antibiotic activity against gram-positive bacteria.  The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin.  The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC.  B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.
Probab=21.50  E-value=50  Score=12.83  Aligned_cols=16  Identities=38%  Similarity=0.465  Sum_probs=7.3

Q ss_pred             EECCCCCHHHHHHHHH
Q ss_conf             5215872368999999
Q gi|254780999|r  297 IGLSGGIDSALCAAIA  312 (562)
Q Consensus       297 iglSGGiDSal~a~la  312 (562)
                      =.+|||.---|..|.|
T Consensus       125 ~~LS~G~kqrl~la~a  140 (208)
T cd03268         125 KGFSLGMKQRLGIALA  140 (208)
T ss_pred             HHCCHHHHHHHHHHHH
T ss_conf             5699999999999999


No 244
>TIGR01769 GGGP geranylgeranylglyceryl phosphate synthase; InterPro: IPR010946   This entry represents geranylgeranylglyceryl phosphate synthase which catalyses the first committed step in the synthesis of ether-linked membrane lipids in archaea ..
Probab=21.49  E-value=50  Score=12.83  Aligned_cols=137  Identities=14%  Similarity=0.229  Sum_probs=76.3

Q ss_pred             HHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEEEEE-------E
Q ss_conf             999999999999999859989991664447998445414889999999999999999887697899999998-------8
Q gi|254780999|r   20 AGNIAKARRAREEANRQGMDLILFTELFISGYPPEDLVFKKSFIQACSSAIDTLKSDTHDGGAGIVVGFPRQ-------D   92 (562)
Q Consensus        20 ~~N~~~i~~~i~~A~~~gadLvvfPEl~LtGY~~~Dl~~~~~f~~~~~~~l~~La~~~~~~~i~iivG~p~~-------~   92 (562)
                      +.|++.....+++  .-..-+|+||=-             -+.+.+..+++-.+.-. ...+.+.+||++.+       .
T Consensus        40 e~~ld~~v~~ik~--~~~~p~iLFPG~-------------~~~Ls~~ADAvlFmSlL-NS~d~yfivGaqi~aA~~i~~~  103 (212)
T TIGR01769        40 EDKLDQVVKKIKE--ITNLPVILFPGS-------------VNLLSRKADAVLFMSLL-NSADTYFIVGAQIKAAVLIKKL  103 (212)
T ss_pred             HHHHHHHHHHHHH--CCCCCEEECCCC-------------HHHHHHHHHHHHHHHHH-CCCCCCEEECCHHHHHHHHHHH
T ss_conf             5478899998640--157866882788-------------45788886598888865-3699736741515789999872


Q ss_pred             CCEE--EEEEEE-EECCE--EEEEEEEEEECCCCCCC--------------CCCCCCCCCCCC-EEEE------CC-E-E
Q ss_conf             8987--899999-96997--99988777623554333--------------210037788876-1476------47-4-5
Q gi|254780999|r   93 QEGV--LNSVVI-LDAGN--IIAVRDKINLPNYSEFH--------------EKRTFISGYSND-PIVF------RD-I-R  144 (562)
Q Consensus        93 ~~~~--yNsa~v-i~~G~--il~~y~K~~LP~y~~Fd--------------E~r~F~~G~~~~-~~~~------~g-~-k  144 (562)
                      +.++  --+|++ +.+|+  -+++.-|..+=.|..++              ..-||++|..-. |+.=      +. . +
T Consensus       104 ~PrlE~Ip~AY~iv~~G~ktavG~vG~~~~Ip~~~~~~A~~Y~LAA~Y~G~~~vYLEAGSGAs~Pv~~e~i~~~k~~~~~  183 (212)
T TIGR01769       104 QPRLEVIPTAYLIVGPGGKTAVGYVGKARLIPYDKPEIAAAYALAAKYLGFKLVYLEAGSGASEPVSPETISLVKKKISS  183 (212)
T ss_pred             CCCCCCCCEEEEEECCCCCEEEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCC
T ss_conf             78856365226887588740446520012589986668999999998741351213105786667866799999985489


Q ss_pred             EEECCCCCCCHHHHHHHHHHHCCCCEEEE
Q ss_conf             62011111110168999997147775993
Q gi|254780999|r  145 LGILICEDIWKNSNICKHLKKQGAEFLFS  173 (562)
Q Consensus       145 iGv~ICeDlw~~~~~~~~la~~Gadlii~  173 (562)
                      +-+-+.-=++.+| .+..+++.|||+|+.
T Consensus       184 I~LIVGGGIr~~E-iA~~~v~aGAd~IVT  211 (212)
T TIGR01769       184 IPLIVGGGIRSPE-IALKIVLAGADVIVT  211 (212)
T ss_pred             CCEEECCCCCCHH-HHHHHHHHCCCEEEC
T ss_conf             7277527758889-999999708982634


No 245
>TIGR01919 hisA-trpF bifunctional HisA/TrpF protein; InterPro: IPR010188   This entry represents a bifunctional protein possessing both hisA (1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase) and trpF (N-(5'phosphoribosyl)anthranilate isomerase) activities . Thus, it is involved in both the histidine and tryptophan biosynthetic pathways. Enzymes with this property have been described only in the Actinobacteria (High-GC Gram-positive). The enzyme is closely related to the monofunctional HisA proteins and in Actinobacteria, the classical monofunctional TrpF is generally absent.; GO: 0003949 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino]imidazole-4-carboxamide isomerase activity, 0004640 phosphoribosylanthranilate isomerase activity, 0000105 histidine biosynthetic process, 0000162 tryptophan biosynthetic process, 0005737 cytoplasm.
Probab=21.49  E-value=50  Score=12.83  Aligned_cols=32  Identities=47%  Similarity=0.606  Sum_probs=21.5

Q ss_pred             HHHHHHHCCCCEEEEECCCCC--HHHHHHHHHHHC
Q ss_conf             888764224540575215872--368999999841
Q gi|254780999|r  283 LRDYVQKNNFHKVIIGLSGGI--DSALCAAIAVDA  315 (562)
Q Consensus       283 l~d~~~~~g~~~~viglSGGi--DSal~a~la~~a  315 (562)
                      |++-+.|-+ ..|-|.|||||  |.+|.+||+.=|
T Consensus        67 l~EiVg~Ld-drV~vELsGGiRDD~SL~~AL~tGa  100 (246)
T TIGR01919        67 LAEIVGKLD-DRVDVELSGGIRDDESLEAALATGA  100 (246)
T ss_pred             HHHHHHHHC-CEEEEEEECCCCCHHHHHHHHHHCC
T ss_conf             999986307-8788985068556789999998077


No 246
>cd01534 4RHOD_Repeat_3 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative catalytic Cys residue.
Probab=21.41  E-value=40  Score=13.49  Aligned_cols=21  Identities=24%  Similarity=0.578  Sum_probs=13.7

Q ss_pred             HHHHHCCCCEEEEECCCCCHHHH
Q ss_conf             87642245405752158723689
Q gi|254780999|r  285 DYVQKNNFHKVIIGLSGGIDSAL  307 (562)
Q Consensus       285 d~~~~~g~~~~viglSGGiDSal  307 (562)
                      .++++.|++  |.-|.||+++.|
T Consensus        74 ~~L~~~G~~--v~~L~GG~~A~~   94 (95)
T cd01534          74 SWLAQMGWE--VYVLEGGLAAAL   94 (95)
T ss_pred             HHHHHCCCC--EEEECCCCCCCC
T ss_conf             999986997--699578612353


No 247
>pfam00128 Alpha-amylase Alpha amylase, catalytic domain. Alpha amylase is classified as family 13 of the glycosyl hydrolases. The structure is an 8 stranded alpha/beta barrel containing the active site, interrupted by a ~70 a.a. calcium-binding domain protruding between beta strand 3 and alpha helix 3, and a carboxyl-terminal Greek key beta-barrel domain.
Probab=21.41  E-value=50  Score=12.82  Aligned_cols=67  Identities=24%  Similarity=0.407  Sum_probs=45.8

Q ss_pred             CCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCC-----CCCHHHHHC-CHHHHHHHHHHHHHHHHHHHHCCCEEEEEEE
Q ss_conf             889999999999999999859989991664447-----998445414-8899999999999999998876978999999
Q gi|254780999|r   17 GDIAGNIAKARRAREEANRQGMDLILFTELFIS-----GYPPEDLVF-KKSFIQACSSAIDTLKSDTHDGGAGIVVGFP   89 (562)
Q Consensus        17 gd~~~N~~~i~~~i~~A~~~gadLvvfPEl~Lt-----GY~~~Dl~~-~~~f~~~~~~~l~~La~~~~~~~i~iivG~p   89 (562)
                      ||+.+-++|+- ++   ++-|++.|-++=.+-+     ||.+.|++. .+.|  -..+.+..|.+.+++.+|.|++=.+
T Consensus         1 Gd~~gi~~kLd-yl---~~LGv~~i~l~P~~~~~~~~~GY~~~d~~~vd~~~--Gt~~e~~~Lv~~~H~~Gi~VilD~V   73 (314)
T pfam00128         1 GDLQGIIDKLD-YL---KDLGVTAIWLSPIFDSPQSYHGYDITDYYKIDPHF--GTMDDFKELIDKAHERGIKVILDLV   73 (314)
T ss_pred             CCHHHHHHHHH-HH---HHCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCC--CCHHHHHHHHHHHHHCCCEEEECEE
T ss_conf             98889998248-99---97599989979671799999996835678768232--9999999999998466988860312


No 248
>PRK08091 ribulose-phosphate 3-epimerase; Validated
Probab=21.26  E-value=50  Score=12.80  Aligned_cols=37  Identities=11%  Similarity=0.084  Sum_probs=23.2

Q ss_pred             HHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCCCHHH
Q ss_conf             3588876422454057521587236899999984149544
Q gi|254780999|r  281 LSLRDYVQKNNFHKVIIGLSGGIDSALCAAIAVDALGKEN  320 (562)
Q Consensus       281 lgl~d~~~~~g~~~~viglSGGiDSal~a~la~~alg~~~  320 (562)
                      .-|+++..+.+.. +.|.+.|||.-. ++..+++| |.+.
T Consensus       174 ~~l~~~~~~~~~~-~~I~VDGGI~~~-ti~~~~~a-Gad~  210 (235)
T PRK08091        174 AQLLCLLGDKREG-KLIVIDGSMTQD-QLPSLIAQ-GIDW  210 (235)
T ss_pred             HHHHHHHHHCCCC-CEEEEECCCCHH-HHHHHHHC-CCCE
T ss_conf             9999999964999-159984898988-89999983-9999


No 249
>pfam05820 DUF845 Baculovirus protein of unknown function (DUF845). This family consists of several highly related Baculovirus proteins of unknown function.
Probab=21.02  E-value=51  Score=12.76  Aligned_cols=42  Identities=19%  Similarity=0.316  Sum_probs=28.7

Q ss_pred             CCEEE-EEEEEEEECCCCCCCCCCCCCCCCCCCEEEE---CCEEEEECCC
Q ss_conf             99799-9887776235543332100377888761476---4745620111
Q gi|254780999|r  105 AGNII-AVRDKINLPNYSEFHEKRTFISGYSNDPIVF---RDIRLGILIC  150 (562)
Q Consensus       105 ~G~il-~~y~K~~LP~y~~FdE~r~F~~G~~~~~~~~---~g~kiGv~IC  150 (562)
                      .|.++ +.|.|+.+.|.-.|.    |.||.++.+|..   +|.-+.++|+
T Consensus        41 ~g~~LaHYyA~i~~sngy~FE----fHPGSQPrTFQ~vh~dg~~i~~~vl   86 (119)
T pfam05820        41 GGALLAHYYAQIDLSNGYSFE----FHPGSQPRTFQTVHTDGTLIKVLVL   86 (119)
T ss_pred             CCCHHHHEEEEEEECCCCEEE----ECCCCCCCCCEEECCCCCEEEEEEE
T ss_conf             610563002778832893287----7799998633554369919998875


No 250
>cd03821 GT1_Bme6_like This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide.
Probab=20.88  E-value=51  Score=12.75  Aligned_cols=15  Identities=20%  Similarity=0.359  Sum_probs=8.5

Q ss_pred             HHHHCCCCEEEECCC
Q ss_conf             997147775993155
Q gi|254780999|r  162 HLKKQGAEFLFSLNA  176 (562)
Q Consensus       162 ~la~~Gadlii~psA  176 (562)
                      .....+.-+++.+..
T Consensus       107 ~~~~~~~p~i~~~h~  121 (375)
T cd03821         107 AARKYGIPYVVSPHG  121 (375)
T ss_pred             HHHHCCCCEEEEECC
T ss_conf             999849969999799


No 251
>TIGR02871 spore_ylbJ sporulation integral membrane protein YlbJ; InterPro: IPR014226   Members of this entry include YlbJ, from Bacillus subtilis. They are found exclusively in the Firmicutes (low-GC Gram-positive bacteria) and are known from studies in B. subtilis to be part of the sigma-E regulon . Mutation leads to a sporulation defect, confirming that members of this entry are involved in sporulation. The protein appears to be universal among endospore-forming bacteria, and in Symbiobacterium thermophilum IAM 14863, there are two ORFs encoding YlbJ that are distant from each other..
Probab=20.85  E-value=15  Score=16.31  Aligned_cols=45  Identities=11%  Similarity=0.192  Sum_probs=25.3

Q ss_pred             HHHHHHHHHHHCCCCEEE---ECCCCCCCCCCHHHHHHHHHHHHHHCCCEEEECCCCC
Q ss_conf             016899999714777599---3155533358078887889998543370464213568
Q gi|254780999|r  155 KNSNICKHLKKQGAEFLF---SLNASPYYHNKLKKRHEIVTGQISHVHLPIIYVNQVG  209 (562)
Q Consensus       155 ~~~~~~~~la~~Gadlii---~psASp~~~~k~~~R~~~~~~~a~e~~~~vvy~N~vG  209 (562)
                      +|. .+-+.+.+|+++.+   -||=.||-.         +..--...+..-+|.+.-|
T Consensus        18 ~P~-~~~eAs~~G~~Lff~~VfPsLfPFfI---------~seLli~~g~v~~~g~lLe   65 (384)
T TIGR02871        18 NPK-ASIEASLSGAKLFFYVVFPSLFPFFI---------ISELLINLGGVSFYGKLLE   65 (384)
T ss_pred             CHH-HHHHHHHHHHHHHHHHHHHHHCHHHH---------HHHHHHHCCCEEEEHHHHH
T ss_conf             718-89999875478989888865341899---------9999984793586154424


No 252
>cd04148 RGK RGK subfamily.  The RGK (Rem, Rem2, Rad, Gem/Kir) subfamily of Ras GTPases are expressed in a tissue-specific manner and are dynamically regulated by transcriptional and posttranscriptional mechanisms in response to environmental cues.   RGK proteins bind to the beta subunit of L-type calcium channels, causing functional down-regulation of these voltage-dependent calcium channels, and either termination of calcium-dependent secretion or modulation of electrical conduction and contractile function.  Inhibition of L-type calcium channels by Rem2 may provide a mechanism for modulating calcium-triggered exocytosis in hormone-secreting cells, and has been proposed to influence the secretion of insulin in pancreatic beta cells.  RGK proteins also interact with and inhibit the Rho/Rho kinase pathway to modulate remodeling of the cytoskeleton.  Two characteristics of RGK proteins cited in the literature are N-terminal and C-terminal extensions beyond the GTPase domain typical of Ra
Probab=20.77  E-value=52  Score=12.73  Aligned_cols=35  Identities=20%  Similarity=0.471  Sum_probs=22.9

Q ss_pred             CCCHHHHHHHHHHHCCCCCCCC------HHHHHHHHHHHHC
Q ss_conf             2213569999997213542677------5899999886313
Q gi|254780999|r  333 PQSLEDAAACAKALGCKYDVLP------IHDLVNHFFSLMS  367 (562)
Q Consensus       333 ~~s~~~a~~la~~lg~~~~~i~------I~~~~~~~~~~~~  367 (562)
                      .-|.+.++++|+.+|+.|.+.+      |+++++....++.
T Consensus       123 ~Vs~eEg~~~A~~~~~~F~EtSAk~~~NV~elF~~lvrqIr  163 (221)
T cd04148         123 EVSVQEGRACAVVFDCKFIETSAGLQHNVDELLEGIVRQIR  163 (221)
T ss_pred             CCCHHHHHHHHHHCCCEEEECCCCCCCCHHHHHHHHHHHHH
T ss_conf             99999999999985998999457999498999999999998


No 253
>TIGR01983 UbiG ubiquinone biosynthesis O-methyltransferase; InterPro: IPR010233   This entry represents an O-methyltransferase, which is believed to act at two points in the ubiquinone biosynthetic pathway in bacteria (UbiG) and mitochondria (COQ3) , . A separate methylase (MenG/UbiE) catalyses the single C-methylation step. The most commonly used names for genes in this family do not indicate whether this gene is an O-methyl, or C-methyl transferase.; GO: 0008425 2-polyprenyl-6-methoxy-14-benzoquinone methyltransferase activity, 0006744 ubiquinone biosynthetic process.
Probab=20.63  E-value=52  Score=12.71  Aligned_cols=111  Identities=22%  Similarity=0.314  Sum_probs=64.4

Q ss_pred             HHHHHH-HCCCCEEEEECCCCCHHHHHHHHHHHCCCHHHEEEEECCCCCCCCCCHHHHHHHHHHHCC--------CCCCC
Q ss_conf             888764-224540575215872368999999841495446797324666652213569999997213--------54267
Q gi|254780999|r  283 LRDYVQ-KNNFHKVIIGLSGGIDSALCAAIAVDALGKENVQTIMLPYKYTSPQSLEDAAACAKALGC--------KYDVL  353 (562)
Q Consensus       283 l~d~~~-~~g~~~~viglSGGiDSal~a~la~~alg~~~v~~~~mp~~~~s~~s~~~a~~la~~lg~--------~~~~i  353 (562)
                      .+|-+. .+|.+=+=||==|||   |+-.||  -+|...|.||     ..|+..++-|+..|+.=++        +|..-
T Consensus        76 ~~~~~~~~~G~~vLDVGCGGGl---LsE~lA--R~Ga~~V~GI-----D~~~~~i~~Ak~Ha~~~~~~~~~~K~i~Y~~~  145 (275)
T TIGR01983        76 IRDELLKDSGLRVLDVGCGGGL---LSEPLA--RLGANKVTGI-----DASEENIEVAKLHAKKDPLQEALDKKIEYRCT  145 (275)
T ss_pred             HHHHHHCCCCCEEEEECCCHHH---HHHHHH--HCCCCEEEEE-----ECHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
T ss_conf             7763411789779984278578---889997--5588425775-----21177999999888733402331111454443


Q ss_pred             CHHHHHHHHHHHHCCCCCCCCCCHHH--------HCCCCHHHHHHHHHHHH---HCCCEECCCCCHHHHHHHH
Q ss_conf             75899999886313234687431011--------01233046677988875---1695443643244775411
Q gi|254780999|r  354 PIHDLVNHFFSLMSQFLQEEPSGIVA--------ENIQSRIRGNILMALSN---HSKAMLLTTSNKSEISVGY  415 (562)
Q Consensus       354 ~I~~~~~~~~~~~~~~~~~~~~~~~~--------eN~qaR~R~~~L~~~an---~~~~lvl~t~nksE~~~Gy  415 (562)
                      .|+.+.+..       ......|+..        .|+|+     ++-..|+   -.|-|+++|=||+=.+-.+
T Consensus       146 ~~E~l~~~~-------h~~~~FD~V~~mEvlEHV~dp~~-----f~~~c~~llkPgG~lF~STINRt~kS~~~  206 (275)
T TIGR01983       146 SVEELAEEQ-------HTKKSFDVVTCMEVLEHVPDPQA-----FIKACAQLLKPGGILFFSTINRTPKSYLL  206 (275)
T ss_pred             HHHHHHCCC-------CCCCCCCEEEEEEEEECCCCHHH-----HHHHHHHHCCCCCCEEEECCCHHHHHHHH
T ss_conf             078873055-------78415733764320000278889-----99999985089984897300021899999


No 254
>TIGR02713 allophanate_hyd allophanate hydrolase; InterPro: IPR014085   Allophanate hydrolase catalyses the second reaction in an ATP-dependent two-step degradation of urea to ammonia and C02, following the action of the biotin-containing urea carboxylase. The yeast enzyme, a fusion of allophanate hydrolase to urea carboxylase, is designated urea amidolyase..
Probab=20.17  E-value=43  Score=13.22  Aligned_cols=16  Identities=19%  Similarity=0.092  Sum_probs=7.7

Q ss_pred             CCCEECC-CCCHHHHHH
Q ss_conf             6954436-432447754
Q gi|254780999|r  398 SKAMLLT-TSNKSEISV  413 (562)
Q Consensus       398 ~~~lvl~-t~nksE~~~  413 (562)
                      .|.+-+| ..++++-+.
T Consensus       425 ~Gal~~G~~~~~~~~~~  441 (582)
T TIGR02713       425 LGALPLGTATGESLPAA  441 (582)
T ss_pred             CCCCCCCCCCCCCCCCC
T ss_conf             67655886557420014


No 255
>TIGR02691 arsC_pI258_fam arsenate reductase (thioredoxin); InterPro: IPR014064   This family describes the well-studied thioredoxin-dependent arsenate reductase of Staphylococcus aureus plasmid pI258 and other mechanistically similar arsenate reductases. The mechanism involves an intramolecular disulphide bond cascade, and aligned members of this family have four absolutely conserved Cys residues. This group of arsenate reductases belongs to the low-molecular weight protein-tyrosine phosphatase family (IPR000106 from INTERPRO), as does a group of glutathione/glutaredoxin type arsenate reductases (IPR014062 from INTERPRO). At least two other, non-homologous groups of arsenate reductases involved in arsenical resistance are also known. This enzyme reduces arsenate to arsenite, which may be more toxic but which is more easily exported..
Probab=20.09  E-value=41  Score=13.37  Aligned_cols=19  Identities=37%  Similarity=0.688  Sum_probs=11.1

Q ss_pred             ECCCCC--HHHHHHHHCCCCC
Q ss_conf             436432--4477541102366
Q gi|254780999|r  402 LLTTSN--KSEISVGYGTLYG  420 (562)
Q Consensus       402 vl~t~n--ksE~~~Gy~T~~G  420 (562)
                      +|+|||  ||..|=||.-.|.
T Consensus         3 FlCTGNSCRSQmAEG~gk~~L   23 (129)
T TIGR02691         3 FLCTGNSCRSQMAEGWGKKYL   23 (129)
T ss_pred             EEECCCCCHHHHHHHHHHHHC
T ss_conf             230275305577799998746


Done!