Query         gi|255764508|ref|YP_003065363.2| hypothetical protein CLIBASIA_04245 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 242
No_of_seqs    121 out of 1521
Neff          8.2 
Searched_HMMs 39220
Date          Mon May 30 02:18:37 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 255764508.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 PRK10494 hypothetical protein; 100.0       0       0  363.2  26.0  207   23-241    40-252 (259)
  2 pfam02698 DUF218 DUF218 domain 100.0 9.5E-32 2.4E-36  226.3  15.4  147   65-232     1-147 (148)
  3 cd06259 YdcF-like YdcF-like. Y 100.0 6.1E-31 1.6E-35  221.1  15.2  148   67-233     1-150 (150)
  4 COG1434 Uncharacterized conser 100.0 5.5E-28 1.4E-32  201.8  19.4  187   30-241    32-223 (223)
  5 PRK10834 hypothetical protein;  99.9 1.7E-23 4.3E-28  172.6  20.4  155   58-238    37-191 (239)
  6 COG2949 SanA Uncharacterized m  99.8 4.1E-19 1.1E-23  144.1  18.8  154   59-236    50-203 (235)
  7 cd02509 GDP-M1P_Guanylyltransf  97.0  0.0081 2.1E-07   38.1   9.0   85  114-206    51-146 (274)
  8 KOG4533 consensus               95.8  0.0089 2.3E-07   37.8   3.1   95   97-195   122-223 (317)
  9 cd05015 SIS_PGI_1 Phosphogluco  89.9     1.6   4E-05   23.2   8.8   79  132-213    61-146 (158)
 10 PRK10802 peptidoglycan-associa  88.4     1.6 4.1E-05   23.1   5.8   66   84-154    75-149 (173)
 11 PRK00973 glucose-6-phosphate i  88.2       2 5.2E-05   22.5   6.8  123   61-205    67-199 (454)
 12 COG0836 {ManC} Mannose-1-phosp  87.8       2 5.2E-05   22.5   6.0   68  114-189    52-121 (333)
 13 cd01545 PBP1_SalR Ligand-bindi  86.5     2.6 6.5E-05   21.8  10.6   95   98-198   107-204 (270)
 14 cd06285 PBP1_LacI_like_7 Ligan  86.0     2.7 6.9E-05   21.7   7.8   95   99-199   105-201 (265)
 15 TIGR00454 TIGR00454 conserved   85.0    0.76 1.9E-05   25.3   2.6   85   97-191    31-116 (204)
 16 TIGR02802 Pal_lipo peptidoglyc  84.9     2.9 7.4E-05   21.5   5.6   64   89-157    11-87  (104)
 17 PRK00179 pgi glucose-6-phospha  84.8     3.1 7.8E-05   21.3   8.1   97   63-185   127-233 (525)
 18 pfam04820 Trp_halogenase Trypt  84.4     3.2 8.1E-05   21.2   6.9   53   98-152    13-67  (457)
 19 cd06273 PBP1_GntR_like_1 This   83.4     3.5   9E-05   20.9   8.4   95  100-199   108-204 (268)
 20 PRK13609 diacylglycerol glucos  83.0     3.6 9.3E-05   20.8   5.8   21  131-151   155-175 (388)
 21 cd06270 PBP1_GalS_like Ligand   82.3     3.9 9.8E-05   20.6   7.9   94  100-199   108-203 (268)
 22 cd07185 OmpA_C-like Peptidogly  80.6     4.4 0.00011   20.3   5.5   63   88-155    12-83  (106)
 23 PTZ00254 40S ribosomal protein  80.2     4.5 0.00012   20.2   9.4  132   93-241    54-188 (242)
 24 COG2885 OmpA Outer membrane pr  80.1     4.5 0.00012   20.2   5.1   64   86-154    91-163 (190)
 25 cd06271 PBP1_AglR_RafR_like Li  79.9     4.7 0.00012   20.1   8.4   94   99-199   111-207 (268)
 26 COG2240 PdxK Pyridoxal/pyridox  79.7     4.7 0.00012   20.1   6.2  139   94-233    85-250 (281)
 27 cd06290 PBP1_LacI_like_9 Ligan  79.3     4.9 0.00012   20.0   7.8   95  100-199   107-202 (265)
 28 cd06288 PBP1_sucrose_transcrip  79.3     4.9 0.00012   20.0   9.7   97   98-199   106-203 (269)
 29 PRK13608 diacylglycerol glucos  78.9       5 0.00013   19.9   5.7   58  131-188   155-217 (391)
 30 TIGR02128 G6PI_arch bifunction  78.3     2.5 6.4E-05   21.9   3.3  116   61-215    22-141 (338)
 31 cd06267 PBP1_LacI_sugar_bindin  77.8     5.4 0.00014   19.7   8.3   65  133-198   137-202 (264)
 32 cd06284 PBP1_LacI_like_6 Ligan  76.5     5.8 0.00015   19.5   7.9   92  101-198   108-201 (267)
 33 TIGR02177 PorB_KorB 2-oxoacid:  76.1     4.7 0.00012   20.1   4.1   80   65-154    27-110 (302)
 34 cd06296 PBP1_CatR_like Ligand-  76.0       6 0.00015   19.4  10.9   96   98-199   107-204 (270)
 35 cd01575 PBP1_GntR Ligand-bindi  75.2     6.3 0.00016   19.3   7.6   93   99-198   107-202 (268)
 36 PRK10401 DNA-binding transcrip  74.8     6.5 0.00016   19.2   8.1   94  100-199   168-263 (346)
 37 pfam01650 Peptidase_C13 Peptid  74.7     3.5 8.8E-05   21.0   3.2   14  170-183   147-160 (258)
 38 cd06295 PBP1_CelR Ligand bindi  74.1     6.7 0.00017   19.1   7.9   92  102-199   119-212 (275)
 39 cd06287 PBP1_LacI_like_8 Ligan  73.3       7 0.00018   19.0   7.4   91  102-199   112-204 (269)
 40 cd06274 PBP1_FruR Ligand bindi  72.9     7.2 0.00018   18.9   7.9   96   98-199   106-204 (264)
 41 PRK09330 cell division protein  72.9     2.7 6.8E-05   21.7   2.2   67  115-182    99-168 (387)
 42 cd01574 PBP1_LacI Ligand-bindi  72.4     7.4 0.00019   18.8   7.2   93   98-198   106-199 (264)
 43 cd06294 PBP1_ycjW_transcriptio  72.2     7.4 0.00019   18.8  10.8   95  100-199   114-209 (270)
 44 TIGR02201 heptsyl_trn_III lipo  72.0     4.2 0.00011   20.4   3.1   72  127-200   164-243 (347)
 45 TIGR01373 soxB sarcosine oxida  71.7     2.1 5.3E-05   22.4   1.5   25   52-76     17-41  (407)
 46 PRK03868 glucose-6-phosphate i  71.5     7.7  0.0002   18.7   7.5   73  131-205    98-175 (409)
 47 PRK10808 outer membrane protei  70.2     8.2 0.00021   18.5   5.5   85   86-172   232-330 (347)
 48 cd06283 PBP1_RegR_EndR_KdgR_li  69.8     8.4 0.00021   18.5  10.3   67  132-199   137-204 (267)
 49 PRK13018 cell division protein  69.7     4.2 0.00011   20.4   2.7   66  116-182   115-183 (387)
 50 TIGR00065 ftsZ cell division p  68.9     1.8 4.7E-05   22.8   0.7   84  116-229   110-203 (365)
 51 TIGR01479 GMP_PMI mannose-1-ph  68.6     5.7 0.00014   19.6   3.1   78  111-195    49-128 (478)
 52 COG2102 Predicted ATPases of P  68.4       9 0.00023   18.3   9.7   74  124-200    41-116 (223)
 53 cd06280 PBP1_LacI_like_4 Ligan  68.3       9 0.00023   18.3   7.7   64  132-199   134-198 (263)
 54 COG0052 RpsB Ribosomal protein  68.2       9 0.00023   18.2  13.1  120   93-219    46-204 (252)
 55 PRK10703 DNA-binding transcrip  67.3     9.4 0.00024   18.1  10.9   93  101-199   171-265 (335)
 56 cd06289 PBP1_MalI_like Ligand-  67.1     9.5 0.00024   18.1   7.9   96   99-199   108-204 (268)
 57 cd06272 PBP1_hexuronate_repres  66.0      10 0.00026   18.0   8.2   95   99-198   102-197 (261)
 58 PRK11070 ssDNA exonuclease Rec  65.6      10 0.00026   17.9   6.8   68  128-200   309-383 (574)
 59 PRK08674 bifunctional phosphog  65.6      10 0.00026   17.9   7.8   53  149-206    83-135 (328)
 60 PRK07232 malic enzyme; Reviewe  64.7     4.6 0.00012   20.2   2.1   68  130-197   390-465 (753)
 61 COG2266 GTP:adenosylcobinamide  63.7      11 0.00028   17.7   4.4   43  132-182    53-95  (177)
 62 PRK12862 malic enzyme; Reviewe  63.6     4.6 0.00012   20.2   1.9   68  130-197   396-471 (761)
 63 PRK09526 lacI lac repressor; R  63.3      11 0.00029   17.6   8.1   93  100-199   173-266 (342)
 64 cd06279 PBP1_LacI_like_3 Ligan  62.6      12 0.00029   17.6   5.9   66  133-198   154-220 (283)
 65 COG1058 CinA Predicted nucleot  62.6      12 0.00029   17.6   4.4   43   92-139    45-87  (255)
 66 PRK10076 pyruvate formate lyas  62.0      12  0.0003   17.5   8.1   39   73-121    39-77  (213)
 67 PRK08384 thiamine biosynthesis  61.8      12  0.0003   17.5   6.1   67  132-200   192-259 (310)
 68 TIGR02079 THD1 threonine dehyd  61.0     5.2 0.00013   19.8   1.8   75   61-160   296-372 (415)
 69 cd06282 PBP1_GntR_like_2 Ligan  59.9      13 0.00033   17.3   8.0   93   99-199   107-202 (266)
 70 cd06275 PBP1_PurR Ligand-bindi  59.8      13 0.00033   17.2   9.9   93   99-198   108-203 (269)
 71 PRK10727 DNA-binding transcrip  59.7      13 0.00033   17.2   9.8   95   99-199   167-263 (342)
 72 pfam10686 DUF2493 Protein of u  59.2      13 0.00034   17.2   6.0   45   93-145    16-60  (71)
 73 COG1167 ARO8 Transcriptional r  58.7      13 0.00034   17.1   5.6   69  132-206   139-210 (459)
 74 cd06281 PBP1_LacI_like_5 Ligan  58.2      14 0.00035   17.1   7.4   94  100-199   108-202 (269)
 75 COG1099 Predicted metal-depend  57.8      14 0.00035   17.0   7.2   95   96-198   115-235 (254)
 76 cd06292 PBP1_LacI_like_10 Liga  56.9      14 0.00037   16.9   7.5   93   99-199   113-207 (273)
 77 cd06293 PBP1_LacI_like_11 Liga  56.9      14 0.00037   16.9   7.9   94  100-199   108-203 (269)
 78 cd02201 FtsZ_type1 FtsZ is a G  56.8      11 0.00027   17.8   2.8   67  116-183    88-157 (304)
 79 TIGR00644 recJ single-stranded  56.6      15 0.00037   16.9   6.4  103   92-207    43-147 (705)
 80 PRK11145 pflA pyruvate formate  56.6      15 0.00037   16.9   8.9   22   99-120    87-108 (246)
 81 TIGR02407 ectoine_ectB diamino  56.3     9.3 0.00024   18.2   2.4   11  174-184   126-136 (413)
 82 PRK12653 fructose-6-phosphate   56.1      15 0.00038   16.8   5.1   55  149-207   134-191 (220)
 83 COG0329 DapA Dihydrodipicolina  55.7      15 0.00038   16.8   5.6   18  127-144    84-101 (299)
 84 cd02191 FtsZ FtsZ is a GTPase   55.6     9.7 0.00025   18.1   2.4   69  116-185    88-159 (303)
 85 PRK11041 DNA-binding transcrip  54.7      16  0.0004   16.7   9.6   93  100-199   176-271 (341)
 86 pfam08869 XisI XisI protein. T  54.7     7.7  0.0002   18.7   1.8   23  133-155    77-99  (110)
 87 pfam02602 HEM4 Uroporphyrinoge  54.4      16  0.0004   16.7  10.0   19  175-193   168-186 (229)
 88 KOG0622 consensus               54.3      11 0.00027   17.8   2.4   69  136-204   114-214 (448)
 89 cd06298 PBP1_CcpA_like Ligand-  54.3      16  0.0004   16.7   9.2   94   99-199   107-203 (268)
 90 pfam07788 DUF1626 Protein of u  54.0      16 0.00041   16.6   4.2   25  173-198    46-70  (70)
 91 PRK03767 TrpR binding protein   54.0      16 0.00041   16.6   5.0   75   58-143    62-138 (200)
 92 TIGR01361 DAHP_synth_Bsub phos  52.6      10 0.00025   18.0   2.1  133   69-216    53-214 (262)
 93 TIGR02197 heptose_epim ADP-L-g  52.2     5.9 0.00015   19.5   0.9   59  128-200    65-127 (353)
 94 TIGR00735 hisF imidazoleglycer  52.1      16  0.0004   16.7   3.0   20  112-131   256-275 (312)
 95 COG0281 SfcA Malic enzyme [Ene  52.1     5.8 0.00015   19.5   0.8   76   45-153   158-233 (432)
 96 TIGR03234 OH-pyruv-isom hydrox  51.7      17 0.00044   16.4   5.8   91   95-196    84-196 (254)
 97 pfam00154 RecA recA bacterial   51.5      18 0.00045   16.4   3.8   51  129-181    88-138 (322)
 98 cd06299 PBP1_LacI_like_13 Liga  51.0      18 0.00046   16.3   9.9   94   99-199   107-201 (265)
 99 cd00983 recA RecA is a  bacter  50.5      18 0.00046   16.3   3.9   51  129-181    91-141 (325)
100 PRK09967 putative outer membra  49.7      19 0.00048   16.2   4.6   68   81-153    55-132 (160)
101 PRK12861 malic enzyme; Reviewe  49.4       9 0.00023   18.3   1.4   69  130-198   391-472 (762)
102 COG2117 Predicted subunit of t  47.6      19 0.00048   16.2   2.8   13   98-110    15-27  (198)
103 TIGR02351 thiH thiazole biosyn  47.5      20 0.00052   16.0   3.0   21  185-205   146-166 (378)
104 TIGR01481 ccpA catabolite cont  47.5      20 0.00052   16.0   7.6  124   70-206   142-269 (332)
105 cd06277 PBP1_LacI_like_1 Ligan  47.5      20 0.00052   16.0  10.7   94   99-199   109-203 (268)
106 PRK10510 putative outer membra  47.0      21 0.00052   15.9  10.3   79   67-154   105-192 (219)
107 CHL00181 cbbX CbbX; Provisiona  46.1      21 0.00054   15.8   4.4   24  159-183   145-169 (287)
108 cd01544 PBP1_GalR Ligand-bindi  45.9      21 0.00054   15.8   9.0   93  100-199   104-205 (270)
109 KOG4038 consensus               45.1     8.6 0.00022   18.4   0.8   31  132-168    85-115 (150)
110 COG2022 ThiG Uncharacterized e  44.8      22 0.00057   15.7   5.4   73  131-206    58-140 (262)
111 cd01994 Alpha_ANH_like_IV This  44.8      22 0.00057   15.7  10.5   70  130-200    46-118 (194)
112 PRK11303 DNA-binding transcrip  44.8      22 0.00057   15.7   7.9   92   99-199   170-264 (330)
113 COG1609 PurR Transcriptional r  44.7      22 0.00057   15.7   7.9   91  100-198   167-262 (333)
114 KOG2388 consensus               44.7      22 0.00057   15.7   3.2   96   96-199    85-183 (477)
115 PRK13685 hypothetical protein;  44.2      23 0.00058   15.6  15.5  123   63-204    86-236 (326)
116 TIGR01830 3oxo_ACP_reduc 3-oxo  44.0      23 0.00058   15.6   5.2   53  100-162    15-67  (238)
117 PRK04020 rps2P 30S ribosomal p  43.7      23 0.00059   15.6   9.8  132   92-241    50-184 (204)
118 pfam01936 DUF88 Protein of unk  43.1      24  0.0006   15.5   6.8   74  132-205    47-122 (140)
119 COG1509 KamA Lysine 2,3-aminom  42.7      24 0.00061   15.5   4.2   97   93-199   142-252 (369)
120 PRK09354 recA recombinase A; P  42.6      24 0.00061   15.5   3.6   59  129-189    96-155 (350)
121 PRK00969 hypothetical protein;  42.1     3.5   9E-05   20.9  -1.6  110   89-202   286-407 (508)
122 TIGR02247 HAD-1A3-hyp Epoxide   41.9      12 0.00031   17.4   1.1   58  143-201    88-149 (228)
123 TIGR01941 nqrF NADH:ubiquinone  41.9      25 0.00063   15.4   2.9   14  153-166   116-129 (425)
124 pfam03599 CdhD CO dehydrogenas  41.6      25 0.00063   15.4   7.2   85   94-189   128-223 (384)
125 TIGR03268 methan_mark_3 putati  41.6     3.5 8.9E-05   20.9  -1.7  110   89-202   283-404 (503)
126 TIGR02416 CO_dehy_Mo_lg carbon  41.0      12  0.0003   17.5   0.9   32  121-155   499-530 (775)
127 PRK13529 malate dehydrogenase;  40.5      13 0.00032   17.3   1.1   30  114-145   296-325 (563)
128 cd06291 PBP1_Qymf_like Ligand   40.3      26 0.00066   15.3   8.1   94  100-199   104-199 (265)
129 PRK10423 transcriptional repre  40.1      26 0.00067   15.2   7.8   90  102-199   168-261 (327)
130 PTZ00339 UDP-N-acetylglucosami  40.0      26 0.00067   15.2   4.9   90   97-198    98-196 (499)
131 COG0722 AroG 3-deoxy-D-arabino  39.7      27 0.00068   15.2   3.5   71  111-182   226-305 (351)
132 TIGR02782 TrbB_P P-type conjug  39.7      27 0.00068   15.2   3.9   78   92-191   127-208 (315)
133 cd05017 SIS_PGI_PMI_1 The memb  39.6      27 0.00068   15.2   4.4   57  147-208    46-102 (119)
134 TIGR01846 type_I_sec_HlyB type  39.5      27 0.00068   15.2   5.4   54    2-56    267-320 (703)
135 cd06196 FNR_like_1 Ferredoxin   39.5      22 0.00057   15.7   2.2   47  115-167   102-148 (218)
136 cd02877 GH18_hevamine_XipI_cla  38.7      28  0.0007   15.1   8.8   84   96-184    60-163 (280)
137 TIGR02918 TIGR02918 conserved   38.6     6.3 0.00016   19.3  -0.8   57  128-185   198-254 (511)
138 PRK07535 methyltetrahydrofolat  38.5      22 0.00056   15.7   2.0  105   94-205   102-231 (268)
139 pfam06925 MGDG_synth Monogalac  38.4      28 0.00071   15.1   5.0   62  161-223    78-144 (169)
140 cd01537 PBP1_Repressors_Sugar_  37.6      29 0.00073   15.0   8.8   91  101-198   111-203 (264)
141 PRK09954 hypothetical protein;  37.3      29 0.00074   15.0   3.3   81   67-158    58-150 (362)
142 cd04255 AAK_UMPK-MosAB AAK_UMP  37.3      29 0.00074   15.0   5.4   88   97-202    54-141 (262)
143 PRK07748 sporulation inhibitor  37.2      20 0.00051   16.0   1.7   26  173-198    92-118 (205)
144 pfam11019 DUF2608 Protein of u  37.1      29 0.00074   14.9   2.6   30  173-202   177-207 (251)
145 pfam00691 OmpA OmpA family. Th  36.6      30 0.00076   14.9   5.2   58   90-151    10-76  (97)
146 PRK09318 bifunctional 3,4-dihy  36.3      27 0.00069   15.1   2.2  103   90-205   251-360 (387)
147 cd06189 flavin_oxioreductase N  36.3      27 0.00069   15.2   2.2   42  116-163   102-143 (224)
148 cd06209 BenDO_FAD_NAD Benzoate  36.2      30 0.00077   14.9   3.8   43  115-163   105-147 (228)
149 cd06211 phenol_2-monooxygenase  36.2      27 0.00068   15.2   2.2   44  116-165   113-156 (238)
150 cd06213 oxygenase_e_transfer_s  36.1      27 0.00068   15.2   2.2   37  115-156   103-139 (227)
151 PRK06096 molybdenum transport   36.0      30 0.00077   14.8   4.4  125   68-210   142-271 (284)
152 PRK12815 carB carbamoyl phosph  35.7      31 0.00078   14.8   5.6   66  133-204   644-712 (1068)
153 PRK13406 bchD magnesium chelat  35.6      31 0.00078   14.8   3.5   48  157-204   522-569 (584)
154 TIGR01816 sdhA_forward succina  35.2      31 0.00079   14.8   2.4   11  183-193   316-326 (615)
155 PRK05756 pyridoxamine kinase;   35.1      31  0.0008   14.7   6.3   83   97-184    90-186 (287)
156 cd01543 PBP1_XylR Ligand-bindi  35.1      31  0.0008   14.7   8.0   94   99-199   100-197 (265)
157 cd05295 MDH_like Malate dehydr  35.0      31  0.0008   14.7   4.5   80   59-148   193-298 (452)
158 pfam04122 CW_binding_2 Putativ  34.8      32 0.00081   14.7   6.5   72   94-179     6-77  (90)
159 cd01424 MGS_CPS_II Methylglyox  34.8      32 0.00081   14.7   5.1   62  113-192    26-94  (110)
160 TIGR01768 GGGP-family geranylg  34.7      32 0.00081   14.7   4.0   17  146-162   195-211 (242)
161 pfam01261 AP_endonuc_2 Xylose   34.4      32 0.00082   14.7   6.5   89   92-188    61-161 (201)
162 TIGR01514 NAPRTase nicotinate   34.4      32 0.00081   14.7   2.3   25  174-204   213-237 (430)
163 pfam09873 DUF2100 Uncharacteri  34.3      32 0.00082   14.7   6.4   76  109-195   125-207 (215)
164 cd06210 MMO_FAD_NAD_binding Me  34.2      30 0.00077   14.8   2.2   46  115-166   111-156 (236)
165 TIGR01125 TIGR01125 MiaB-like   34.2      32 0.00083   14.6   3.5   52   59-124    30-81  (475)
166 COG2604 Uncharacterized protei  33.8      33 0.00083   14.6   7.0   75   97-193   236-310 (594)
167 PRK13289 nitric oxide dioxygen  33.7      31 0.00079   14.8   2.2   39  116-159   265-303 (399)
168 COG3962 Acetolactate synthase   33.7      33 0.00084   14.6   4.0   47   95-153   217-264 (617)
169 cd04743 NPD_PKS 2-Nitropropane  33.3      33 0.00085   14.5   3.8  113   64-188   122-244 (320)
170 COG5493 Uncharacterized conser  33.2      33 0.00085   14.5   3.0   54  148-201   165-227 (231)
171 PRK12655 fructose-6-phosphate   32.3      35 0.00088   14.4   5.2   53  150-206   135-190 (220)
172 cd06185 PDR_like Phthalate dio  31.8      35  0.0009   14.4   2.2   46  115-168   101-146 (211)
173 cd06212 monooxygenase_like The  31.6      36 0.00091   14.4   2.2   45  116-166   107-151 (232)
174 cd06187 O2ase_reductase_like T  31.5      36 0.00091   14.4   3.7   45  116-166   102-146 (224)
175 pfam01902 ATP_bind_4 ATP-bindi  31.4      36 0.00092   14.3  11.4   69  129-200    45-115 (219)
176 PRK12775 putative trifunctiona  31.3      36 0.00092   14.3   6.1  121   55-201    88-209 (993)
177 TIGR03402 FeS_nifS cysteine de  31.2      36 0.00092   14.3   7.6   18  216-233   355-372 (379)
178 TIGR01007 eps_fam capsular exo  30.8      37 0.00094   14.3   4.9   84  113-203    98-189 (207)
179 KOG3814 consensus               30.8      37 0.00094   14.3   5.3   20    2-21    162-181 (531)
180 KOG0430 consensus               30.8      12 0.00032   17.4  -0.3   64  133-201   886-962 (1257)
181 PRK11840 bifunctional sulfur c  30.5      37 0.00095   14.3   5.9   58  149-206   141-208 (327)
182 cd01173 pyridoxal_pyridoxamine  30.5      37 0.00095   14.2   7.5   85   97-183    87-182 (254)
183 cd06194 FNR_N-term_Iron_sulfur  30.1      38 0.00096   14.2   3.8   42  116-163   101-142 (222)
184 cd06167 LabA_like LabA_like pr  30.0      38 0.00096   14.2   6.0   40  166-205    93-132 (149)
185 TIGR02478 6PF1K_euk 6-phosphof  29.8      30 0.00076   14.9   1.5   14  161-174   488-501 (777)
186 pfam05690 ThiG Thiazole biosyn  29.8      38 0.00097   14.2   5.9   71  133-206    52-132 (246)
187 cd06188 NADH_quinone_reductase  29.4      39 0.00099   14.1   2.2   46  115-165   153-198 (283)
188 cd04728 ThiG Thiazole synthase  29.2      39 0.00099   14.1   5.7   72  132-206    52-133 (248)
189 pfam00580 UvrD-helicase UvrD/R  28.8      40   0.001   14.1   3.1   50  153-202   322-379 (494)
190 PRK03612 spermidine synthase;   28.7      40   0.001   14.1  12.6   27  180-206   412-442 (516)
191 PRK01688 histidinol-phosphate   28.6      40   0.001   14.0   8.1   67  133-204    62-128 (355)
192 PRK04165 acetyl-CoA decarbonyl  28.4      40   0.001   14.0   6.4   48   96-155   189-236 (454)
193 TIGR03127 RuMP_HxlB 6-phospho   28.3      40   0.001   14.0   9.5   89  146-240    74-165 (179)
194 COG0313 Predicted methyltransf  28.0      41   0.001   14.0   6.2   82  132-220    40-144 (275)
195 cd05844 GT1_like_7 Glycosyltra  28.0      33 0.00083   14.6   1.5   93   94-204   203-302 (367)
196 PRK12309 transaldolase/EF-hand  28.0      41   0.001   14.0   4.0   61  129-194   114-174 (391)
197 cd01542 PBP1_TreR_like Ligand-  27.4      42  0.0011   13.9   8.2   91   99-198   105-198 (259)
198 pfam07085 DRTGG DRTGG domain.   27.3      42  0.0011   13.9   6.1   39  115-164    64-102 (105)
199 TIGR01466 cobJ_cbiH precorrin-  27.1      42  0.0011   13.9   3.3   88   94-193    57-148 (254)
200 TIGR02109 PQQ_syn_pqqE coenzym  27.1      25 0.00065   15.3   0.8  100   93-203   130-255 (363)
201 COG0084 TatD Mg-dependent DNas  27.0      41   0.001   14.0   1.9   51  128-183   157-207 (256)
202 cd06278 PBP1_LacI_like_2 Ligan  27.0      43  0.0011   13.9   7.4   91  100-198   107-200 (266)
203 PRK13462 acid phosphatase; Pro  26.5      43  0.0011   13.8   4.3   25  165-190   131-155 (203)
204 cd06184 flavohem_like_fad_nad_  26.3      44  0.0011   13.8   2.1   45  116-166   117-161 (247)
205 TIGR00364 TIGR00364 exsB prote  26.3      44  0.0011   13.8   4.5   56   68-146     1-58  (227)
206 PRK13223 phosphoglycolate phos  26.1      44  0.0011   13.8   3.7   84   94-193   131-214 (272)
207 pfam02230 Abhydrolase_2 Phosph  26.1      44  0.0011   13.8   5.2   20  181-200   167-186 (213)
208 pfam00532 Peripla_BP_1 family.  26.0      44  0.0011   13.7  10.0   95   99-198   111-208 (281)
209 TIGR02995 ectoine_ehuB ectoine  25.8      45  0.0011   13.7   2.4   45  108-162   140-184 (285)
210 pfam10742 DUF2555 Protein of u  25.8      45  0.0011   13.7   2.8   40  154-193     7-46  (57)
211 PRK01581 speE spermidine synth  25.8      44  0.0011   13.8   1.8   76  135-210   206-292 (363)
212 PRK11872 antC anthranilate dio  25.7      45  0.0011   13.7   2.2   45  115-165   212-256 (340)
213 pfam00919 UPF0004 Uncharacteri  25.4      45  0.0012   13.7   4.7   48   61-123    32-79  (98)
214 PRK10411 DNA-binding transcrip  25.2      27 0.00068   15.2   0.6   10  176-185   117-126 (240)
215 COG2943 MdoH Membrane glycosyl  25.1      46  0.0012   13.6  10.9  122   66-205   145-282 (736)
216 cd03115 SRP The signal recogni  25.1      46  0.0012   13.6   6.2   60  146-205    84-150 (173)
217 PRK03501 ppnK inorganic polyph  25.0      46  0.0012   13.6   1.9   14   61-74     35-48  (264)
218 TIGR02915 PEP_resp_reg putativ  24.9      46  0.0012   13.6   2.3  113   68-195    43-161 (451)
219 COG2086 FixA Electron transfer  24.6      47  0.0012   13.6   6.9  106   88-205    34-147 (260)
220 PRK03262 consensus              24.5      47  0.0012   13.6   8.1   19  137-155    66-84  (355)
221 PRK12756 phospho-2-dehydro-3-d  24.4      47  0.0012   13.6   3.7   59  111-170   226-288 (349)
222 cd01571 NAPRTase_B Nicotinate   24.4      48  0.0012   13.6   6.8   70  137-207   204-277 (302)
223 cd02029 PRK_like Phosphoribulo  24.3      48  0.0012   13.5   6.2   13   94-106    70-82  (277)
224 PRK03220 consensus              24.3      48  0.0012   13.5   2.3   67  132-206    65-132 (257)
225 PRK04452 acetyl-CoA decarbonyl  24.3      48  0.0012   13.5   5.3   63  127-190   185-260 (322)
226 cd06217 FNR_iron_sulfur_bindin  24.2      48  0.0012   13.5   3.9   45  116-166   111-155 (235)
227 PRK01215 competence damage-ind  24.1      48  0.0012   13.5   4.6   30   92-126    47-76  (264)
228 PRK02083 imidazole glycerol ph  24.0      48  0.0012   13.5   4.3   13  139-153    93-105 (253)
229 TIGR02817 adh_fam_1 zinc-bindi  23.9      49  0.0012   13.5   7.7  116   39-183   127-252 (338)
230 cd04245 AAK_AKiii-YclM-BS AAK_  23.8      49  0.0012   13.5   2.6   16  132-147   125-140 (288)
231 TIGR02009 PGMB-YQAB-SF beta-ph  23.7      49  0.0012   13.5   2.5   35  147-182    98-133 (211)
232 PRK00208 thiG thiazole synthas  23.6      49  0.0013   13.5   5.7   71  133-206    54-134 (256)
233 cd01391 Periplasmic_Binding_Pr  23.5      49  0.0013   13.4  10.3   82  115-198   126-207 (269)
234 TIGR02151 IPP_isom_2 isopenten  23.4      26 0.00066   15.3   0.3   54  112-165    55-115 (349)
235 cd06215 FNR_iron_sulfur_bindin  23.1      50  0.0013   13.4   3.9   45  116-166   107-151 (231)
236 cd00885 cinA Competence-damage  23.1      50  0.0013   13.4   5.0   58   92-160    43-100 (170)
237 TIGR01404 FlhB_rel_III type II  23.0      50  0.0013   13.4   2.8   15  130-144   293-307 (346)
238 cd06198 FNR_like_3 NAD(P) bind  22.9      51  0.0013   13.4   2.1   31  116-151    99-129 (216)
239 COG1117 PstB ABC-type phosphat  22.6      24 0.00061   15.5  -0.0   85   94-194   126-217 (253)
240 TIGR02317 prpB methylisocitrat  22.5      52  0.0013   13.3   2.9   78   65-153    33-111 (287)
241 PRK03670 competence damage-ind  22.3      52  0.0013   13.3   4.5   30   93-126    45-74  (252)
242 TIGR02522 pilus_cpaD pilus (Ca  22.2      52  0.0013   13.3   4.4   68   91-160    58-127 (211)
243 PRK03673 competence damage-ind  22.2      52  0.0013   13.3   4.7   27   94-125    47-73  (396)
244 COG1830 FbaB DhnA-type fructos  22.2      52  0.0013   13.3   3.0   16   65-80     77-92  (265)
245 pfam06258 DUF1022 Protein of u  22.1      53  0.0013   13.3   7.7  108   89-204   120-254 (308)
246 pfam08986 DUF1889 Domain of un  22.0      53  0.0013   13.3   2.7   65   95-168    23-87  (119)
247 cd04592 CBS_pair_EriC_assoc_eu  21.8      53  0.0014   13.2   2.7  108   96-208    11-120 (133)
248 COG3142 CutC Uncharacterized p  21.8      43  0.0011   13.8   1.1   43  135-179   134-176 (241)
249 COG1603 RPP1 RNase P/RNase MRP  21.6      54  0.0014   13.2   6.5   65  115-181   100-169 (229)
250 pfam09419 DUF2010 Protein of u  21.6      54  0.0014   13.2   5.2   10  135-144    97-106 (166)
251 PRK12342 putative electron tra  21.5      54  0.0014   13.2   7.4  106   89-205    33-145 (254)
252 COG0621 MiaB 2-methylthioadeni  21.5      54  0.0014   13.2   5.9   49   60-124    35-83  (437)
253 pfam11996 DUF3491 Protein of u  21.3      55  0.0014   13.2   2.4   25   91-123    40-64  (934)
254 cd06214 PA_degradation_oxidore  21.2      55  0.0014   13.2   3.8   46  116-167   112-157 (241)
255 PRK04635 histidinol-phosphate   21.2      55  0.0014   13.2   8.5   11  196-206   283-293 (346)
256 TIGR00114 lumazine-synth 6,7-d  21.1      46  0.0012   13.7   1.2   82   63-164    63-144 (148)
257 TIGR01668 YqeG_hyp_ppase HAD s  20.9      55  0.0014   13.1   3.3   98   94-199    54-156 (196)
258 PRK05442 malate dehydrogenase;  20.9      56  0.0014   13.1   6.0   12   63-74     78-89  (325)
259 TIGR03350 type_VI_ompA type VI  20.9      56  0.0014   13.1   6.8   78   67-154    23-113 (137)
260 PRK09423 gldA glycerol dehydro  20.9      56  0.0014   13.1   8.1   14   64-77     83-96  (366)
261 pfam06057 VirJ Bacterial virul  20.8      56  0.0014   13.1   2.5   11  134-144    21-31  (192)
262 PRK05211 consensus              20.7      56  0.0014   13.1   5.2   53  113-177    65-117 (248)
263 PRK10684 HCP oxidoreductase, N  20.6      56  0.0014   13.1   2.1   22  132-153   217-238 (335)
264 pfam02887 PK_C Pyruvate kinase  20.4      57  0.0015   13.0   7.6   63  112-184    38-103 (117)
265 PRK07609 CDP-6-deoxy-delta-3,4  20.4      57  0.0015   13.0   2.2   59  116-181   208-270 (337)
266 PRK10760 murein hydrolase B; P  20.3      42  0.0011   13.9   0.8   92   96-199   191-298 (357)
267 COG1611 Predicted Rossmann fol  20.3      57  0.0015   13.0   4.1   27  175-201    92-118 (205)

No 1  
>PRK10494 hypothetical protein; Provisional
Probab=100.00  E-value=0  Score=363.22  Aligned_cols=207  Identities=24%  Similarity=0.316  Sum_probs=179.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHH
Q ss_conf             99999999999999989999999999962124544464545687589996252137777655543468205899999999
Q gi|255764508|r   23 IFFMSCFMLLFSFIGWGIIPTILLKHLQFSYQRPLLSPQWKKDGNIIVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMR  102 (242)
Q Consensus        23 ~~~~~~~~l~~~~~~~~~~~~~l~~~le~~~~~~~~~~~~~~~~d~IVVLGgG~~~~~~~~~~~~~~~~~~~~Rl~~a~~  102 (242)
                      ..++.+.+++++++|+.+++++++.+||+.|+.+    +..+++|+|||||||.+.+++.+. ..++.+++.+|+.+|++
T Consensus        40 ~~~~~~~~l~l~~~s~~pv~~~Ll~~LE~~y~~~----~~~~~~d~IVVLGGg~~~~~~~~~-~~~~~~~a~~Rl~~g~~  114 (259)
T PRK10494         40 KIFISIGWLALLLLSLQPVADRLLRPIESTYPTW----NGSQKVDYIVVLGGGYTWNPQWAP-SSNLINNSLPRLNEGIR  114 (259)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC----CCCCCCCEEEEECCCCCCCCCCCC-CCCCCCCHHHHHHHHHH
T ss_conf             9999999999999998999999999998645687----777777879992685115887676-44444648999999999


Q ss_pred             HHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCH
Q ss_conf             99825200575338970688887788827999999997499987811110146657779999999762368640885345
Q gi|255764508|r  103 LYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSA  182 (242)
Q Consensus       103 L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa  182 (242)
                      ||++++    .++||+|||.+..++.+||+.|++.+.++|||+++|++|++|+||+|||.++++++++   ++++|||||
T Consensus       115 L~r~~~----~~~li~SGG~~~~~~~sea~~~~~~~~~lGv~~~~I~~e~~srnT~EnA~~~~~ll~~---~~~lLVTSA  187 (259)
T PRK10494        115 LWRANP----GAKLIFTGGVAKTNTVSTAEVGARVAQSLGVPREDIITLDLPKDTEEEAAAVKQAIGD---APFLLVTSA  187 (259)
T ss_pred             HHHHCC----CCEEEEECCCCCCCCCCHHHHHHHHHHHCCCCHHHEEECCCCCCHHHHHHHHHHHHCC---CCEEEECCH
T ss_conf             998389----9839996887888999899999999998399989915256777889999999998488---978998373


Q ss_pred             HHHHHHHHHHHHCCCEEEEEECCCCC------CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             88999999999769818998426644------311137545788989999999999999998648
Q gi|255764508|r  183 YHLKRSQLYFQHFGINTKASCSDYLN------AYYSIIPLSANFYLTELALKEYIGILIAYYRGN  241 (242)
Q Consensus       183 ~Hm~RA~~~f~~~gi~~~p~~~d~~~------~~~~~~p~~~~l~~~~~~~~E~ig~l~~~~~g~  241 (242)
                      +|||||+++|+++|++++|+||||..      .+.+|+|++++|..++.++|||+|++||++||-
T Consensus       188 ~HMpRA~~~F~~~G~~viP~P~d~~~~~~~~~~~~~~lP~~~aL~~s~~aihE~lG~lwy~lrG~  252 (259)
T PRK10494        188 SHLPRAMIFFQQEGLNPLPAPANQLAIDSPLNPWERAIPSPVWLMHSDRAGYETLGRIWQWLKGS  252 (259)
T ss_pred             HHHHHHHHHHHHCCCEEEEECCCCCCCCCCCCCHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             35389999999879922430465522578887087629987999998999999999999987277


No 2  
>pfam02698 DUF218 DUF218 domain. This large family of proteins contains several highly conserved charged amino acids, suggesting this may be an enzymatic domain (Bateman A pers. obs). The family includes SanA, which is involved in Vancomycin resistance. This protein may be involved in murein synthesis.
Probab=100.00  E-value=9.5e-32  Score=226.31  Aligned_cols=147  Identities=32%  Similarity=0.498  Sum_probs=128.5

Q ss_pred             CCCEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCC
Q ss_conf             87589996252137777655543468205899999999998252005753389706888877888279999999974999
Q gi|255764508|r   65 DGNIIVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVE  144 (242)
Q Consensus        65 ~~d~IVVLGgG~~~~~~~~~~~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~  144 (242)
                      ++|+|||||||              +....+|+.+|++||++|+++    +|++|||.+..+..+||+.|+++++++|||
T Consensus         1 ~~d~IVVlG~~--------------~~~~~~R~~~a~~l~~~g~~~----~ii~sGg~~~~~~~~ea~~~~~~l~~~gvp   62 (148)
T pfam02698         1 PADAIVVLGGG--------------SPALAARLDAAAELYRAGPAP----RIIVSGGAGGGEPVSEAEVMRRYLVELGVP   62 (148)
T ss_pred             CCCEEEECCCC--------------CHHHHHHHHHHHHHHHHCCCC----EEEEECCCCCCCCCCHHHHHHHHHHHCCCC
T ss_conf             99889989999--------------877999999999999809998----899848988888878999999999986989


Q ss_pred             HHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCHHHHHHHH
Q ss_conf             87811110146657779999999762368640885345889999999997698189984266443111375457889899
Q gi|255764508|r  145 RDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQHFGINTKASCSDYLNAYYSIIPLSANFYLTE  224 (242)
Q Consensus       145 ~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa~Hm~RA~~~f~~~gi~~~p~~~d~~~~~~~~~p~~~~l~~~~  224 (242)
                      +++|++|++|+||+||+.+++++++++++++++||||+|||+||.++|++.|+++.++++++......   .........
T Consensus        63 ~~~I~~e~~s~nT~ena~~~~~~~~~~~~~~v~lVTs~~H~~Ra~~~f~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~  139 (148)
T pfam02698        63 AEAILLEPQSRNTYENARFSAELLRERGLRRVLLVTSAFHMRRALLLFRRAGPEVVPVPADYPTPLPP---RALWLRLAR  139 (148)
T ss_pred             HHHEECCCCCCCHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCEEEEEECCCCCCCCC---CHHHHHHHH
T ss_conf             99977455677835519999999997699759998988899999999998099059986798888887---256888889


Q ss_pred             HHHHHHHH
Q ss_conf             99999999
Q gi|255764508|r  225 LALKEYIG  232 (242)
Q Consensus       225 ~~~~E~ig  232 (242)
                      .++|||+|
T Consensus       140 ~~~~E~~~  147 (148)
T pfam02698       140 AALREYLG  147 (148)
T ss_pred             HHHHHHHC
T ss_conf             99999957


No 3  
>cd06259 YdcF-like YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been idenitified. The family also includes Escherichia coli sanA and Salmonella typhimurium sfiX,  which are involved in vancomycin resistance; sfiX may also be involved in murein synthesis.
Probab=99.97  E-value=6.1e-31  Score=221.05  Aligned_cols=148  Identities=30%  Similarity=0.505  Sum_probs=130.7

Q ss_pred             CEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHH
Q ss_conf             58999625213777765554346820589999999999825200575338970688887788827999999997499987
Q gi|255764508|r   67 NIIVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERD  146 (242)
Q Consensus        67 d~IVVLGgG~~~~~~~~~~~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~  146 (242)
                      |+|||||||.......        ....+|+.+|++||++++++    +|++|||.+.+.+.+|++.|++++++.|||++
T Consensus         1 daIvVLG~~~~~~~~~--------~~~~~R~~~a~~L~~~~~~~----~ii~sGg~~~~~~~~Ea~~~~~~l~~~gv~~~   68 (150)
T cd06259           1 DAIVVLGGGVNGDGPS--------PILAERLDAAAELYRAGPAP----KLIVSGGQGPGEGYSEAEAMARYLIELGVPAE   68 (150)
T ss_pred             CEEEECCCCCCCCCCC--------HHHHHHHHHHHHHHHHCCCC----EEEEECCCCCCCCCCHHHHHHHHHHHCCCCHH
T ss_conf             9899899987999989--------79999999999999819998----89995887999988999999999998599989


Q ss_pred             HHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHHHCCC--EEEEEECCCCCCCCCCCCCHHHHHHHH
Q ss_conf             811110146657779999999762368640885345889999999997698--189984266443111375457889899
Q gi|255764508|r  147 DIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQHFGI--NTKASCSDYLNAYYSIIPLSANFYLTE  224 (242)
Q Consensus       147 ~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa~Hm~RA~~~f~~~gi--~~~p~~~d~~~~~~~~~p~~~~l~~~~  224 (242)
                      +|++|++|+||+|||.+++++++++++++++||||+|||+||.++|++++.  .++|+|++......       ++....
T Consensus        69 ~i~~e~~s~~T~ena~~~~~~~~~~~~~~i~lVTs~~H~~Ra~~~~~~~~~~~~~~~~p~~~~~~~~-------~~~~~~  141 (150)
T cd06259          69 AILLEDRSTNTYENARFSAELLRERGIRSVLLVTSAYHMPRALLIFRKAGLDVEVVPAPTDFYSLSS-------ALRLLR  141 (150)
T ss_pred             HEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCC-------HHHHHH
T ss_conf             9683134777024599999999976998799999888999999999980998459868877613600-------466678


Q ss_pred             HHHHHHHHH
Q ss_conf             999999999
Q gi|255764508|r  225 LALKEYIGI  233 (242)
Q Consensus       225 ~~~~E~ig~  233 (242)
                      .++|||+|+
T Consensus       142 ~~~~E~~~~  150 (150)
T cd06259         142 LALREYLGL  150 (150)
T ss_pred             HHHHHHHCC
T ss_conf             999998569


No 4  
>COG1434 Uncharacterized conserved protein [Function unknown]
Probab=99.96  E-value=5.5e-28  Score=201.81  Aligned_cols=187  Identities=28%  Similarity=0.427  Sum_probs=154.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCC
Q ss_conf             99999999899999999999621245444645456875899962521377776555434682058999999999982520
Q gi|255764508|r   30 MLLFSFIGWGIIPTILLKHLQFSYQRPLLSPQWKKDGNIIVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQ  109 (242)
Q Consensus        30 ~l~~~~~~~~~~~~~l~~~le~~~~~~~~~~~~~~~~d~IVVLGgG~~~~~~~~~~~~~~~~~~~~Rl~~a~~L~~~~~~  109 (242)
                      +....+.+..+++..+..+++..+......+.   ..|+||++||+..            ...++.|+.++.++++.++.
T Consensus        32 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~iv~~Gg~~~------------~~~~~~rl~~~~~~~~~~~~   96 (223)
T COG1434          32 LIILLLAALLILGGFLLRPLEARSAAALLLPG---LADAIVVLGGGSR------------LTDHLIRLLEAARLAKILPI   96 (223)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC---CCCEEEECCCCCC------------CHHHHHHHHHHHHHHHHHCC
T ss_conf             99999999999834552112101220334545---6888998488754------------35899999999999997243


Q ss_pred             CCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHH
Q ss_conf             05753389706888877888279999999974999878111101466577799999997623686408853458899999
Q gi|255764508|r  110 HSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQ  189 (242)
Q Consensus       110 ~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa~Hm~RA~  189 (242)
                      .+    +..|||      ..+....++++...|+|.++|+.|++|+||+|||.++++++++++++++++|||+|||+||.
T Consensus        97 ~~----v~~s~~------~~~~~~~~~~~~~~gv~~~~i~~e~~s~~T~eNa~~s~~~l~~~~~~~~ilVTs~~Hm~Ra~  166 (223)
T COG1434          97 SG----VLESGG------VIEIQATRRYLENLGVPAERIILEDRSRNTVENARFSRRLLRTQGPESVILVTSPYHMPRAL  166 (223)
T ss_pred             CC----CCCCCC------CCHHHHHHHHHHHCCCCHHHEEEECCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCHHHHH
T ss_conf             67----066765------21477888999985998778242077776899999999999973983799988986289999


Q ss_pred             HHHHHCCCEEEEEECCCCC-----CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             9999769818998426644-----311137545788989999999999999998648
Q gi|255764508|r  190 LYFQHFGINTKASCSDYLN-----AYYSIIPLSANFYLTELALKEYIGILIAYYRGN  241 (242)
Q Consensus       190 ~~f~~~gi~~~p~~~d~~~-----~~~~~~p~~~~l~~~~~~~~E~ig~l~~~~~g~  241 (242)
                      .+|+++|++++|+|+++..     ....+++....+.......+||++.+.|++.+.
T Consensus       167 ~~~~~~g~~~~p~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  223 (223)
T COG1434         167 LLFRKLGISVIPYPVGFLDRNILRLPLSLLALAEALLKSLRALREALGLLGYGLKGR  223 (223)
T ss_pred             HHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf             999982898854542345532102055551567999999999999998861045679


No 5  
>PRK10834 hypothetical protein; Provisional
Probab=99.93  E-value=1.7e-23  Score=172.65  Aligned_cols=155  Identities=18%  Similarity=0.240  Sum_probs=126.7

Q ss_pred             CCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHH
Q ss_conf             46454568758999625213777765554346820589999999999825200575338970688887788827999999
Q gi|255764508|r   58 LSPQWKKDGNIIVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNK  137 (242)
Q Consensus        58 ~~~~~~~~~d~IVVLGgG~~~~~~~~~~~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~  137 (242)
                      ...++.+..++.+|||.+....      .+.|+..-.+|+++|++||++|+.+    .|++|| +....++.|...|+++
T Consensus        37 ~~i~~vP~~~valVLGtak~~~------~G~pn~~~~~RldaA~~LY~~GKv~----~iLvSG-Dn~~~~YnEp~~Mk~~  105 (239)
T PRK10834         37 DELQDLPYRQVGVVLGTAKYYR------TGVINQYYRYRIQGAINAYNSGKVN----YLLLSG-DNALQSYNEPMTMRKD  105 (239)
T ss_pred             CCHHHCCCCCEEEEECCCCCCC------CCCCCHHHHHHHHHHHHHHHCCCCC----EEEECC-CCCCCCCCCHHHHHHH
T ss_conf             6874779875699945764678------9981989999999999999869974----898668-9998889828999999


Q ss_pred             HHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCH
Q ss_conf             99749998781111014665777999999976236864088534588999999999769818998426644311137545
Q gi|255764508|r  138 LLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQHFGINTKASCSDYLNAYYSIIPLS  217 (242)
Q Consensus       138 l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa~Hm~RA~~~f~~~gi~~~p~~~d~~~~~~~~~p~~  217 (242)
                      |++.|||+++|.+|..+.+|+++....+++.+   .+++++||+.||++||..++++.|++++++.+......       
T Consensus       106 Li~~GVP~e~I~~D~AGfrT~DS~vRAk~VF~---~~~~iIVTQ~FH~~RAlfiAr~~GidA~g~~a~~~~~~-------  175 (239)
T PRK10834        106 LIAAGVDPADIVLDYAGFRTLDSIVRTRKVFD---TNDFIIITQRFHCERALFIALHMGIQAQCYAVPSPKNM-------  175 (239)
T ss_pred             HHHCCCCHHHEECCCCCCCHHHHHHHHHHHHC---CCCEEEEECCHHHHHHHHHHHHCCCCEEEEECCCCCCC-------
T ss_conf             99859989995056676548999999999809---98289994601389999999974983699716886544-------


Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q ss_conf             788989999999999999998
Q gi|255764508|r  218 ANFYLTELALKEYIGILIAYY  238 (242)
Q Consensus       218 ~~l~~~~~~~~E~ig~l~~~~  238 (242)
                           ...-+||+++.+...+
T Consensus       176 -----~k~r~RE~~AR~ka~~  191 (239)
T PRK10834        176 -----LSVRVREFAARFGALA  191 (239)
T ss_pred             -----CHHHHHHHHHHHHHHH
T ss_conf             -----1105999999998885


No 6  
>COG2949 SanA Uncharacterized membrane protein [Function unknown]
Probab=99.85  E-value=4.1e-19  Score=144.08  Aligned_cols=154  Identities=18%  Similarity=0.283  Sum_probs=123.0

Q ss_pred             CCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHH
Q ss_conf             64545687589996252137777655543468205899999999998252005753389706888877888279999999
Q gi|255764508|r   59 SPQWKKDGNIIVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKL  138 (242)
Q Consensus        59 ~~~~~~~~d~IVVLGgG~~~~~~~~~~~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l  138 (242)
                      .++..+.-.+-||||.+.....+      .++..-..|+++|+.+|++||.+.    +++|| +.....+.|...|++.|
T Consensus        50 ~~~~lP~r~vgvVLGtsky~~~g------~~N~yy~~Ri~aA~~ly~~gKV~~----LLlSG-DN~~~sYnEp~tM~kdL  118 (235)
T COG2949          50 DIQDLPARQVGVVLGTSKYLAKG------PPNRYYTYRIDAAIALYKAGKVNY----LLLSG-DNATVSYNEPRTMRKDL  118 (235)
T ss_pred             CHHHCCCCCEEEEEECCCCCCCC------CCCHHHHHHHHHHHHHHHCCCEEE----EEEEC-CCCCCCCCCHHHHHHHH
T ss_conf             85458862048997223002479------955768999999999986477049----99816-87753465458999999


Q ss_pred             HHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCHH
Q ss_conf             97499987811110146657779999999762368640885345889999999997698189984266443111375457
Q gi|255764508|r  139 LESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQHFGINTKASCSDYLNAYYSIIPLSA  218 (242)
Q Consensus       139 ~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa~Hm~RA~~~f~~~gi~~~p~~~d~~~~~~~~~p~~~  218 (242)
                      .++|||++.|.+|..+..|.|+...++++.+.+   ++.+||+.||..||..+++..|++++++.++.......+     
T Consensus       119 ~~~GVp~~~i~lDyAGFrTLDSvvRA~kVF~~~---~ftIItQ~FHceRAlfiA~~~gIdAic~~ap~p~~~~~~-----  190 (235)
T COG2949         119 IAAGVPAKNIFLDYAGFRTLDSVVRARKVFGTN---DFTIITQRFHCERALFIARQMGIDAICFAAPDPEGRSGL-----  190 (235)
T ss_pred             HHCCCCHHHEEECCCCCCHHHHHHHHHHHCCCC---CEEEEECCCCCHHHHHHHHHHCCCEEEECCCCCCCCCCC-----
T ss_conf             983998889032003741789899899870767---279982012348899999982975478658994446770-----


Q ss_pred             HHHHHHHHHHHHHHHHHH
Q ss_conf             889899999999999999
Q gi|255764508|r  219 NFYLTELALKEYIGILIA  236 (242)
Q Consensus       219 ~l~~~~~~~~E~ig~l~~  236 (242)
                           ..-+||.++.+..
T Consensus       191 -----~vrlRE~~ARv~A  203 (235)
T COG2949         191 -----SVRLREFLARVKA  203 (235)
T ss_pred             -----EEHHHHHHHHHHH
T ss_conf             -----2079999988878


No 7  
>cd02509 GDP-M1P_Guanylyltransferase GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose. GDP-mannose-1-phosphate guanylyltransferase, also called GDP-mannose pyrophosphorylase (GDP-MP), catalyzes the formation of GDP-Mannose from mannose-1-phosphate and GTP. Mannose is a key monosaccharide for glycosylation of proteins and lipids. GDP-Mannose is the activated donor for mannosylation of various biomolecules. This enzyme is known to be bifunctional, as both mannose-6-phosphate isomerase and mannose-1-phosphate guanylyltransferase. This CD covers the N-terminal GDP-mannose-1-phosphate guanylyltransferase domain, whereas the isomerase function is located at the C-terminal half. GDP-MP is a member of the nucleotidyltransferase family of enzymes.
Probab=97.00  E-value=0.0081  Score=38.07  Aligned_cols=85  Identities=14%  Similarity=0.184  Sum_probs=61.5

Q ss_pred             CEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHHH---------
Q ss_conf             33897068888778882799999999749998781111014665777999999976236864088534588---------
Q gi|255764508|r  114 CTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYH---------  184 (242)
Q Consensus       114 ~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa~H---------  184 (242)
                      -.+|+|+.+       -...+++.+.+ ++++.+|++|+.++||.--...++..+.+++.+.+++|+.+-|         
T Consensus        51 ~i~IvTn~~-------~~~~v~~ql~~-~~~~~~ii~EP~~rnTApAI~laa~~~~~~~~d~~l~v~PsDH~I~d~~~F~  122 (274)
T cd02509          51 RILVVTNEE-------YRFLVREQLPE-GLPEENIILEPEGRNTAPAIALAALYLAKRDPDAVLLVLPSDHLIEDVEAFL  122 (274)
T ss_pred             CCEEEECCH-------HHHHHHHHHHH-CCCCCCEEECCCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCHHHHH
T ss_conf             809995721-------79999999884-3986648967688897999999999999759997799984740200889999


Q ss_pred             --HHHHHHHHHHCCCEEEEEECCC
Q ss_conf             --9999999997698189984266
Q gi|255764508|r  185 --LKRSQLYFQHFGINTKASCSDY  206 (242)
Q Consensus       185 --m~RA~~~f~~~gi~~~p~~~d~  206 (242)
                        +.+|...+++-.+-+.++..++
T Consensus       123 ~~i~~a~~~a~~~~ivt~GI~P~~  146 (274)
T cd02509         123 KAVKKAVEAAEEGYLVTFGIKPTR  146 (274)
T ss_pred             HHHHHHHHHHHCCCEEEEEEEECC
T ss_conf             999999999733988997421377


No 8  
>KOG4533 consensus
Probab=95.75  E-value=0.0089  Score=37.82  Aligned_cols=95  Identities=18%  Similarity=0.222  Sum_probs=67.1

Q ss_pred             HHHHHHHHHHCCCCCCCCEEEECCCCCCC--CCCCHHHHHHHHHHHCCCC--HHHHHCCHHHHHHHHHHHHHHHHHHH--
Q ss_conf             99999999825200575338970688887--7888279999999974999--87811110146657779999999762--
Q gi|255764508|r   97 IFETMRLYKSCKQHSMHCTIIISGGDPQK--HGLAESIVYNNKLLESGVE--RDDIKLETQSLDTFQNAQFSSSMIKN--  170 (242)
Q Consensus        97 l~~a~~L~~~~~~~~~~~~ii~SGg~~~~--~~~~Ea~~m~~~l~~~Gv~--~~~I~~e~~s~nT~ena~~~~~il~~--  170 (242)
                      +..++++.    ..+....+++|||+...  ...+||+....-.++.|-+  ..+-..|+-+++.+||..++.-...+  
T Consensus       122 ~~~gid~~----~~DdeslLlfsgg~tr~~agp~seaqsyy~~s~~~~knev~sr~~TEEfarDSfeNllfSv~RF~Evt  197 (317)
T KOG4533         122 SNDGIDVP----NFDDESLLLFSGGKTRLSAGPVSEAQSYYGGSITFGKNEVRSRALTEEFARDSFENLLFSVYRFEEVT  197 (317)
T ss_pred             CCCCCCCC----CCCCCEEEEEECCCCCCCCCCCCHHHHHEEEEEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             11466666----77862135530763125778851644311124552521565544168786766876666434177575


Q ss_pred             -CCCCCEEEECCHHHHHHHHHHHHHC
Q ss_conf             -3686408853458899999999976
Q gi|255764508|r  171 -MQGKNIILVSSAYHLKRSQLYFQHF  195 (242)
Q Consensus       171 -~~~~~vilVTsa~Hm~RA~~~f~~~  195 (242)
                       +-+++|-+|+=+|.|+|=..+-++.
T Consensus       198 ~~yPQkITvvsfdFK~~RF~~lHrkA  223 (317)
T KOG4533         198 KKYPQKITVVSFDFKMPRFISLHRKA  223 (317)
T ss_pred             CCCCCCEEEEEEECCCHHHHHHHHHH
T ss_conf             13786138998511654777767865


No 9  
>cd05015 SIS_PGI_1 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of glucose 6-phosphate to fructose 6-phosphate. As an extracellular protein, PGI also has functions equivalent to neuroleukin (NLK), autocrine motility factor (AMF), and maturation factor (MF). Evidence suggests that PGI, NLK, AMF, and MF are closely related or identical. NLK is a neurotrophic growth factor that promotes regeneration and survival of neurons. The dimeric form of NLK has isomerase function, whereas its monomeric form carries out neurotrophic activity. AMF is a cytokine that stimulates cell migration and metastasis. MF mediates the differentiation of human myeloid leukemic HL-60 cells to terminal monocytic cells.
Probab=89.87  E-value=1.6  Score=23.20  Aligned_cols=79  Identities=11%  Similarity=-0.016  Sum_probs=53.1

Q ss_pred             HHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHH---HHHHHHCC----CCCEEEECCHHHHHHHHHHHHHCCCEEEEEEC
Q ss_conf             999999997499987811110146657779999---99976236----86408853458899999999976981899842
Q gi|255764508|r  132 IVYNNKLLESGVERDDIKLETQSLDTFQNAQFS---SSMIKNMQ----GKNIILVSSAYHLKRSQLYFQHFGINTKASCS  204 (242)
Q Consensus       132 ~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~---~~il~~~~----~~~vilVTsa~Hm~RA~~~f~~~gi~~~p~~~  204 (242)
                      ..+.+.+.+....+.-++.-.||-+|.|...+.   +++++++.    .++.+.||++---  +...|++.+.++.+.|.
T Consensus        61 ~~~~~~l~~l~~~~TlfiviSKSg~T~ETl~~~~~~~~~l~~~~~~~~~~~~vaIT~~~s~--l~~~a~~~~~~i~~~~~  138 (158)
T cd05015          61 DDLAELLKKLDPETTLFIVISKSGTTLETLANARLAREWLEEAGGDDLAKHFVAITDNGSG--LLKKAGIEGLNTFEIPD  138 (158)
T ss_pred             HHHHHHHHHCCCHHEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCHHHHHHEEEEECCCHH--HHHHHCCCCCCEEECCC
T ss_conf             9999999727930149999759998689999999999999983203556607898059669--99985758858888999


Q ss_pred             CCCCCCCCC
Q ss_conf             664431113
Q gi|255764508|r  205 DYLNAYYSI  213 (242)
Q Consensus       205 d~~~~~~~~  213 (242)
                      + ..+.++.
T Consensus       139 ~-IGGRfSv  146 (158)
T cd05015         139 W-VGGRFSV  146 (158)
T ss_pred             C-CCCCCHH
T ss_conf             9-9981176


No 10 
>PRK10802 peptidoglycan-associated outer membrane lipoprotein; Provisional
Probab=88.45  E-value=1.6  Score=23.12  Aligned_cols=66  Identities=14%  Similarity=0.158  Sum_probs=45.5

Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCH---------HHHHHHHHHHCCCCHHHHHCCHHH
Q ss_conf             55434682058999999999982520057533897068888778882---------799999999749998781111014
Q gi|255764508|r   84 AIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAE---------SIVYNNKLLESGVERDDIKLETQS  154 (242)
Q Consensus        84 ~~~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E---------a~~m~~~l~~~Gv~~~~I~~e~~s  154 (242)
                      .....+..++..-+.+-+++.+++|    ..++.+.| .....|..|         |+..++||+..||+.++|....-+
T Consensus        75 fd~~~l~~~~~~~L~~~a~~L~~~p----~~~v~i~G-htD~~Gt~eYN~~Ls~rRA~aV~~yL~~~GV~~~ri~~vsyG  149 (173)
T PRK10802         75 LDKYDIRSDFAQMLDAHANFLRSNP----SYKVTVEG-HADERGTPEYNISLGERRANAVKMYLQGKGVSADQISIVSYG  149 (173)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHCC----CEEEEEEE-ECCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHEEEEEEC
T ss_conf             8852169989999999999999889----91799987-469988499999999999999999999849998996898766


No 11 
>PRK00973 glucose-6-phosphate isomerase; Provisional
Probab=88.25  E-value=2  Score=22.47  Aligned_cols=123  Identities=11%  Similarity=0.094  Sum_probs=69.2

Q ss_pred             CCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCHHHH-HHHHHHHHHHC---CCCCCCCEEEECCCCCCCCCCCHHHHHHH
Q ss_conf             545687589996252137777655543468205899-99999999825---20057533897068888778882799999
Q gi|255764508|r   61 QWKKDGNIIVLLGNGTTIIPTIPAIRIEPSFQSYSR-IFETMRLYKSC---KQHSMHCTIIISGGDPQKHGLAESIVYNN  136 (242)
Q Consensus        61 ~~~~~~d~IVVLGgG~~~~~~~~~~~~~~~~~~~~R-l~~a~~L~~~~---~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~  136 (242)
                      +..++.+.|||+|=|-.              +...| +.+|+.-+...   +..+...++.+-..      + .+..+.+
T Consensus        67 ~~~k~~~~vV~IGIGGS--------------~LG~~a~~~aL~~~~~n~~~~~~~~~~~i~f~~N------v-Dp~~l~~  125 (454)
T PRK00973         67 EWIKNFENVVVLGIGGS--------------ALGNLALHTALLPLNYNELSKEERNGYRIFVLDN------V-DPEKTAS  125 (454)
T ss_pred             HHHCCCCEEEEECCCHH--------------HHHHHHHHHHHHHHCCCCCCHHCCCCCEEEEEEC------C-CHHHHHH
T ss_conf             97478987999543536--------------7899999999500112310011168975999808------9-9899999


Q ss_pred             HHHHCCCCHHHHHCCHHHHHHHHHHHH---HHHHHHHCCC---CCEEEECCHHHHHHHHHHHHHCCCEEEEEECC
Q ss_conf             999749998781111014665777999---9999762368---64088534588999999999769818998426
Q gi|255764508|r  137 KLLESGVERDDIKLETQSLDTFQNAQF---SSSMIKNMQG---KNIILVSSAYHLKRSQLYFQHFGINTKASCSD  205 (242)
Q Consensus       137 ~l~~~Gv~~~~I~~e~~s~nT~ena~~---~~~il~~~~~---~~vilVTsa~Hm~RA~~~f~~~gi~~~p~~~d  205 (242)
                      .+...--.+.-+++-+||-+|.|.+.+   .++++++.+.   ++++.||++--- -....+++.|+.+.++|-+
T Consensus       126 ~l~~ld~~~TlfiViSKSgtT~ETl~n~~~~r~~l~~~g~~~~~h~vaiT~~~~~-~l~~~a~~~g~~~f~ipd~  199 (454)
T PRK00973        126 ILDVIDPKKTLFNVISKSGNTAETLANYLIVRGLLEKYGLDPKKHLVFTTDPEKG-ELKKIAEEEGYKTLEIPEN  199 (454)
T ss_pred             HHHHCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHHHCCCCHHHCEEEECCCCCC-HHHHHHHHCCEEEECCCCC
T ss_conf             9974793307999984897968999999999999996495676565775267511-5677788749107248999


No 12 
>COG0836 {ManC} Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]
Probab=87.79  E-value=2  Score=22.45  Aligned_cols=68  Identities=15%  Similarity=0.208  Sum_probs=49.5

Q ss_pred             CEEEECCCCCCCCCCCHHHHHHHHHHH--CCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHH
Q ss_conf             338970688887788827999999997--4999878111101466577799999997623686408853458899999
Q gi|255764508|r  114 CTIIISGGDPQKHGLAESIVYNNKLLE--SGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQ  189 (242)
Q Consensus       114 ~~ii~SGg~~~~~~~~Ea~~m~~~l~~--~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa~Hm~RA~  189 (242)
                      .++++|+-+       .....++.+.+  .+.+.+ |++|+.+|||.--...++..+.++..+.+++|..+-|+-+-.
T Consensus        52 ~~~vVtne~-------~~f~v~eql~e~~~~~~~~-illEP~gRnTApAIA~aa~~~~~~~~d~~~lVlpsDH~I~d~  121 (333)
T COG0836          52 EPLVVTNEK-------YRFIVKEQLPEIDIENAAG-IILEPEGRNTAPAIALAALSATAEGGDALVLVLPSDHVIADE  121 (333)
T ss_pred             CEEEEECHH-------HHHHHHHHHHHHHHCCCCC-EEECCCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCEECCH
T ss_conf             609995779-------9999999866410125660-685457877499999999999875898389994475565568


No 13 
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand bind
Probab=86.48  E-value=2.6  Score=21.82  Aligned_cols=95  Identities=19%  Similarity=0.165  Sum_probs=56.8

Q ss_pred             HHHHH-HHHHCCCCCCCCEEEECCCCCCCCCCCH-HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHH-HHHHHHCCCC
Q ss_conf             99999-9982520057533897068888778882-7999999997499987811110146657779999-9997623686
Q gi|255764508|r   98 FETMR-LYKSCKQHSMHCTIIISGGDPQKHGLAE-SIVYNNKLLESGVERDDIKLETQSLDTFQNAQFS-SSMIKNMQGK  174 (242)
Q Consensus        98 ~~a~~-L~~~~~~~~~~~~ii~SGg~~~~~~~~E-a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~-~~il~~~~~~  174 (242)
                      ..+++ |.+.|..     +|.+-+|........| -+..++.+.+.|++.+..+..+. ..|+|.+... +++++.....
T Consensus       107 ~~a~~~L~~~G~~-----~I~~i~g~~~~~~~~~R~~Gf~~a~~~~gi~~~~~~i~~~-~~s~~~~~~~~~~ll~~~~~~  180 (270)
T cd01545         107 REMTRHLIDLGHR-----RIAFIAGPPDHRASAERLEGYRDALAEAGLPLDPELVAQG-DFTFESGLEAAEALLALPDRP  180 (270)
T ss_pred             HHHHHHHHHCCCC-----EEEEECCCCCCCHHHHHHHHHHHHHHHCCCCCCCCEEECC-CCCCHHHHHHHHHHHHCCCCC
T ss_conf             9999999974996-----5999369977736999999999999983999772122026-531026999999998559998


Q ss_pred             CEEEECCHHHHHHHHHHHHHCCCE
Q ss_conf             408853458899999999976981
Q gi|255764508|r  175 NIILVSSAYHLKRSQLYFQHFGIN  198 (242)
Q Consensus       175 ~vilVTsa~Hm~RA~~~f~~~gi~  198 (242)
                      +.++.+++.....++..+++.|++
T Consensus       181 tai~~~nD~~A~g~~~~l~~~g~~  204 (270)
T cd01545         181 TAIFASNDDMAAGVLAVAHRRGLR  204 (270)
T ss_pred             CEEEECCHHHHHHHHHHHHHHCCC
T ss_conf             589978889999999999981899


No 14 
>cd06285 PBP1_LacI_like_7 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold.  As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=85.99  E-value=2.7  Score=21.66  Aligned_cols=95  Identities=13%  Similarity=0.133  Sum_probs=57.4

Q ss_pred             HHHHHHHHCCCCCCCCEEEECCCCCCCCCCCH--HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCE
Q ss_conf             99999982520057533897068888778882--7999999997499987811110146657779999999762368640
Q gi|255764508|r   99 ETMRLYKSCKQHSMHCTIIISGGDPQKHGLAE--SIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNI  176 (242)
Q Consensus        99 ~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E--a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~v  176 (242)
                      .+-.|+++|..+     +.+-+|.... ..+.  -+..++.+.+.|++....++.....+..+.....++++......+.
T Consensus       105 ~~~~Li~~G~~~-----i~~l~~~~~~-~~~~~R~~Gf~~a~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~~~~~~a  178 (265)
T cd06285         105 ATRHLLDLGHRR-----IAVLAGPDYA-STARDRLAGFRAALAEAGIEVPPERIVYSGFDIEGGEAAAEKLLRSDSPPTA  178 (265)
T ss_pred             HHHHHHHHCCCC-----EEECCCCCCC-CHHHHHHHHHHHHHHHCCCCCCHHHEECCCCCHHHHHHHHHHHHHCCCCCCC
T ss_conf             999999838865-----8754788777-0599999999999998699987566013662155699999999856999881


Q ss_pred             EEECCHHHHHHHHHHHHHCCCEE
Q ss_conf             88534588999999999769818
Q gi|255764508|r  177 ILVSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       177 ilVTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      ++.+++.-...++..+++.|+++
T Consensus       179 i~~~nD~~A~g~~~~l~~~g~~i  201 (265)
T cd06285         179 IFAVNDFAAIGVMGAARDRGLRV  201 (265)
T ss_pred             EECCCHHHHHHHHHHHHHCCCCC
T ss_conf             00378899999999999859999


No 15 
>TIGR00454 TIGR00454 conserved hypothetical protein TIGR00454; InterPro: IPR005245    This entry describes a family of conserved hypothetical proteins with no known function. .
Probab=85.00  E-value=0.76  Score=25.25  Aligned_cols=85  Identities=15%  Similarity=0.197  Sum_probs=44.0

Q ss_pred             HHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHH-HHCCHHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             999999998252005753389706888877888279999999974999878-1111014665777999999976236864
Q gi|255764508|r   97 IFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDD-IKLETQSLDTFQNAQFSSSMIKNMQGKN  175 (242)
Q Consensus        97 l~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~-I~~e~~s~nT~ena~~~~~il~~~~~~~  175 (242)
                      +++.+.-|+...  +.+--+++|-  |..      ...++|+.+.+..-.+ ++++..+.-=.|-..+.-.-++..--..
T Consensus        31 IDhvl~~l~~~~--GV~~ii~~TS--PhT------P~Te~y~~~~~~~~~~ivvidasGkGYiEDl~E~~~hlE~~~~EP  100 (204)
T TIGR00454        31 IDHVLEALKKAK--GVDNIIVVTS--PHT------PKTEEYVAEKYKEYKRIVVIDASGKGYIEDLREVLSHLELAFSEP  100 (204)
T ss_pred             HHHHHHHHHHCC--CCCEEEEEEC--CCC------CCCHHHHHHCCCEEEEEEEEECCCCCCHHHHHHHHHHHHHHHCCC
T ss_conf             577778664047--8753799837--779------763788730585045788997699960252789999877663398


Q ss_pred             EEEECCHHHHHHHHHH
Q ss_conf             0885345889999999
Q gi|255764508|r  176 IILVSSAYHLKRSQLY  191 (242)
Q Consensus       176 vilVTsa~Hm~RA~~~  191 (242)
                      +++|+|+.=.-|...+
T Consensus       101 ~lV~ssDl~~~r~~~i  116 (204)
T TIGR00454       101 LLVVSSDLVLVRDKII  116 (204)
T ss_pred             EEEEECCHHHHHHHHH
T ss_conf             5787436024336778


No 16 
>TIGR02802 Pal_lipo peptidoglycan-associated lipoprotein; InterPro: IPR014169   Members in this entry represent the peptidoglycan-associated lipoprotein (Pal or OprL) protein of the Tol-Pal system. The system appears to be involved both in the maintenance of outer membrane integrity and in the import of certain organic molecules as nutrients. Members of this family contain a hydrodrophobic lipoprotein signal sequence, a conserved N-terminal cleavage and modification site, a poorly conserved low-complexity region, together comprising about 65 amino acids, and a well-conserved C-terminal domain. The entry represents only the conserved C-terminal domain..
Probab=84.92  E-value=2.9  Score=21.46  Aligned_cols=64  Identities=14%  Similarity=0.190  Sum_probs=39.7

Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCH---------HHHHHHHHHHCCCCHHHHHC----CHHHH
Q ss_conf             682058999999999982520057533897068888778882---------79999999974999878111----10146
Q gi|255764508|r   89 PSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAE---------SIVYNNKLLESGVERDDIKL----ETQSL  155 (242)
Q Consensus        89 ~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E---------a~~m~~~l~~~Gv~~~~I~~----e~~s~  155 (242)
                      +..++.+=+.+=++..+    ++++.+|++-| ....-|.+|         |.+.+++|+.+||++++|-+    |+++.
T Consensus        11 l~~e~~~~l~~hA~~L~----~~p~~~V~iEG-H~DERGTrEYNlALGeRRA~AV~~yL~~~GV~~~q~~~vSYGkErP~   85 (104)
T TIGR02802        11 LKSEAQAILDAHAQYLK----KNPSVRVTIEG-HTDERGTREYNLALGERRANAVKDYLQAKGVSASQIETVSYGKERPA   85 (104)
T ss_pred             CCHHHHHHHHHHHHHHH----HCCCCEEEEEE-ECCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCC
T ss_conf             17799999999899998----67993788863-07888887777778899999999999973896110046302665687


Q ss_pred             HH
Q ss_conf             65
Q gi|255764508|r  156 DT  157 (242)
Q Consensus       156 nT  157 (242)
                      .+
T Consensus        86 ~~   87 (104)
T TIGR02802        86 AL   87 (104)
T ss_pred             CC
T ss_conf             78


No 17 
>PRK00179 pgi glucose-6-phosphate isomerase; Reviewed
Probab=84.78  E-value=3.1  Score=21.29  Aligned_cols=97  Identities=19%  Similarity=0.181  Sum_probs=55.3

Q ss_pred             CCCCCEEEEEC-CCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHC
Q ss_conf             56875899962-52137777655543468205899999999998252005753389706888877888279999999974
Q gi|255764508|r   63 KKDGNIIVLLG-NGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLES  141 (242)
Q Consensus        63 ~~~~d~IVVLG-gG~~~~~~~~~~~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~  141 (242)
                      .++.+.||..| ||....              ..=+.+|++=|.....   . --++|..++        ..+.+.+.+.
T Consensus       127 gk~i~~VV~IGIGGS~LG--------------p~~~~~AL~~~~~~~~---~-i~FvsNvD~--------~~l~~~l~~l  180 (525)
T PRK00179        127 GKDITDVVNIGIGGSDLG--------------PRAVIEALRPYFDNLL---R-VHFVSNVDP--------TYIAEVLKKL  180 (525)
T ss_pred             CCCCCEEEEECCCCCCHH--------------HHHHHHHHHHHCCCCC---E-EEEECCCCH--------HHHHHHHHHC
T ss_conf             983343899665660176--------------9999999986466984---1-799678886--------8999999728


Q ss_pred             CCCHHHHHCCHHHHHHHH---HHHHHHHHHHHCCC------CCEEEECCHHHH
Q ss_conf             999878111101466577---79999999762368------640885345889
Q gi|255764508|r  142 GVERDDIKLETQSLDTFQ---NAQFSSSMIKNMQG------KNIILVSSAYHL  185 (242)
Q Consensus       142 Gv~~~~I~~e~~s~nT~e---na~~~~~il~~~~~------~~vilVTsa~Hm  185 (242)
                      --.+.-+++-+||.+|.|   |+...++++.+++.      ++++.||++---
T Consensus       181 dpe~TLfiv~SKSftT~ETl~N~~~a~~wl~~~~g~~~~~~~h~vavT~~~~~  233 (525)
T PRK00179        181 DPKTTLFIVISKSGTTTETATNFRIARDWLLKKGGKELEAAKHFVAVTDNAKG  233 (525)
T ss_pred             CHHHEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHEEEECCCHHH
T ss_conf             92233899966987828899999999999998379834365525564288578


No 18 
>pfam04820 Trp_halogenase Tryptophan halogenase. Tryptophan halogenase catalyses the chlorination of tryptophan to form 7-chlorotryptophan. This is the first step in the biosynthesis of pyrrolnitrin, an antibiotic with broad-spectrum anti-fungal activity. Tryptophan halogenase is NADH-dependent.
Probab=84.42  E-value=3.2  Score=21.19  Aligned_cols=53  Identities=15%  Similarity=0.176  Sum_probs=26.2

Q ss_pred             HHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHH--HHHHHHHHHCCCCHHHHHCCH
Q ss_conf             9999999825200575338970688887788827--999999997499987811110
Q gi|255764508|r   98 FETMRLYKSCKQHSMHCTIIISGGDPQKHGLAES--IVYNNKLLESGVERDDIKLET  152 (242)
Q Consensus        98 ~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea--~~m~~~l~~~Gv~~~~I~~e~  152 (242)
                      ..|+-|.+..+. .....+|=|. +....|+-|+  ..++.++..+||++++-+.+.
T Consensus        13 mtA~~L~~~~~~-~~~ItlIES~-~i~~iGVGE~T~p~~~~~l~~lGI~e~~fm~~~   67 (457)
T pfam04820        13 MAAAALARALKG-GLDVTLVESE-EIGTVGVGEATIPSIRTFNRMLGIDEAEFMRAT   67 (457)
T ss_pred             HHHHHHHHHCCC-CCEEEEEECC-CCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHC
T ss_conf             999999986599-9879999679-999878457637999999998399989999973


No 19 
>cd06273 PBP1_GntR_like_1 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational
Probab=83.36  E-value=3.5  Score=20.91  Aligned_cols=95  Identities=11%  Similarity=0.083  Sum_probs=56.5

Q ss_pred             HHHHHHHCCCCCCCCEEEECCCCCCCCCCCH--HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEE
Q ss_conf             9999982520057533897068888778882--79999999974999878111101466577799999997623686408
Q gi|255764508|r  100 TMRLYKSCKQHSMHCTIIISGGDPQKHGLAE--SIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNII  177 (242)
Q Consensus       100 a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E--a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vi  177 (242)
                      +-.|.++|..     +|.+-+|........+  -...++.+.+.|++.........+.+..+-....+++++.......+
T Consensus       108 ~~~L~~~G~~-----~i~~i~~~~~~~~~~~~R~~gf~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai  182 (268)
T cd06273         108 ARHLIALGHR-----RIAMIFGPTQGNDRARARRAGVRAALAEAGLELPELWQVEAPYSIADGRAALRQLLEQPPRPTAV  182 (268)
T ss_pred             HHHHHHCCCC-----CEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHEEECCCCHHHHHHHHHHHHHCCCCCCEE
T ss_conf             9999872987-----47999468777778999999999999980999871420315789899999999998479998489


Q ss_pred             EECCHHHHHHHHHHHHHCCCEE
Q ss_conf             8534588999999999769818
Q gi|255764508|r  178 LVSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       178 lVTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      +..++.....++..+++.|+++
T Consensus       183 ~~~nd~~A~g~i~~l~~~g~~i  204 (268)
T cd06273         183 ICGNDVLALGALYEARRLGLSV  204 (268)
T ss_pred             EECCHHHHHHHHHHHHHCCCCC
T ss_conf             9778799999999999639999


No 20 
>PRK13609 diacylglycerol glucosyltransferase; Provisional
Probab=83.02  E-value=3.6  Score=20.82  Aligned_cols=21  Identities=14%  Similarity=0.192  Sum_probs=16.0

Q ss_pred             HHHHHHHHHHCCCCHHHHHCC
Q ss_conf             799999999749998781111
Q gi|255764508|r  131 SIVYNNKLLESGVERDDIKLE  151 (242)
Q Consensus       131 a~~m~~~l~~~Gv~~~~I~~e  151 (242)
                      .+.+++.+.+.|||+++|..-
T Consensus       155 se~~k~~l~~~Gv~~~kI~vt  175 (388)
T PRK13609        155 TDHVKEVMVDIGVPAEQIVET  175 (388)
T ss_pred             CHHHHHHHHHHCCCHHHEEEE
T ss_conf             899999999809988899988


No 21 
>cd06270 PBP1_GalS_like Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalS is a dimeric protein like GalR,and its major role is in regulating expression of the high-affinity galactose transporter encoded by the mgl operon, whereas GalR is the exclusive regulator of galactose permease, the low-affinity galactose transporter. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are homologous to the periplasmic sugar bindi
Probab=82.31  E-value=3.9  Score=20.65  Aligned_cols=94  Identities=14%  Similarity=0.080  Sum_probs=53.5

Q ss_pred             HHHHHHHCCCCCCCCEEEECCCCCCCCCCCH-HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHH-HHHHHHHCCCCCEE
Q ss_conf             9999982520057533897068888778882-799999999749998781111014665777999-99997623686408
Q gi|255764508|r  100 TMRLYKSCKQHSMHCTIIISGGDPQKHGLAE-SIVYNNKLLESGVERDDIKLETQSLDTFQNAQF-SSSMIKNMQGKNII  177 (242)
Q Consensus       100 a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E-a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~-~~~il~~~~~~~vi  177 (242)
                      +-.|+++|..     +|.+-+|........| -+..++.+.+.|++.+..++.. +..+.+.+.. .++++++....+.+
T Consensus       108 ~~~L~~~G~~-----~i~~i~~~~~~~~~~~R~~Gf~~al~~~gl~~~~~~i~~-~~~~~~~g~~~~~~ll~~~~~~~ai  181 (268)
T cd06270         108 TEHLIELGHR-----KIACITGPLTKEDARLRLQGYRDALAEAGIALDESLIIE-GDFTEEGGYAAMQELLARGAPFTAV  181 (268)
T ss_pred             HHHHHHCCCC-----CEEEECCCCCCCHHHHHHHHHHHHHHHCCCCCCCEEEEE-CCCCHHHHHHHHHHHHHCCCCCCEE
T ss_conf             9999983998-----389845988883199999999999998599978004761-6776788999889999569998745


Q ss_pred             EECCHHHHHHHHHHHHHCCCEE
Q ss_conf             8534588999999999769818
Q gi|255764508|r  178 LVSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       178 lVTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      +.+++..-..++..+++.|+++
T Consensus       182 ~~~nD~~A~g~~~~l~~~g~~v  203 (268)
T cd06270         182 FCANDEMAAGAISALREHGISV  203 (268)
T ss_pred             EECCHHHHHHHHHHHHHCCCCC
T ss_conf             5337799999999999829999


No 22 
>cd07185 OmpA_C-like Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA. OmpA-like domains (named after the C-terminal domain of Escherichia coli OmpA protein) have been shown to non-covalently associate with peptidoglycan, a network of glycan chains composed of disaccharides, which are crosslinked via short peptide bridges. Well-studied members of this family include the Escherichia coli outer membrane protein OmpA, the Escherichia coli lipoprotein PAL, Neisseria meningitdis RmpM, which interact with the outer membrane, as well as the Escherichia coli motor protein MotB, and the Vibrio flagellar motor proteins PomB and MotY, which interact with the inner membrane.
Probab=80.58  E-value=4.4  Score=20.26  Aligned_cols=63  Identities=16%  Similarity=0.152  Sum_probs=41.7

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCH---------HHHHHHHHHHCCCCHHHHHCCHHHH
Q ss_conf             4682058999999999982520057533897068888778882---------7999999997499987811110146
Q gi|255764508|r   88 EPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAE---------SIVYNNKLLESGVERDDIKLETQSL  155 (242)
Q Consensus        88 ~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E---------a~~m~~~l~~~Gv~~~~I~~e~~s~  155 (242)
                      .+...+...+.+-++..++.+.    .+|.+.|= ....|..+         |+..+++|++.|++.++|.....+.
T Consensus        12 ~l~~~~~~~L~~ia~~l~~~~~----~~v~v~Gh-tD~~G~~~~N~~LS~~RA~~V~~~L~~~Gi~~~ri~~~g~G~   83 (106)
T cd07185          12 ELTPEAKPLLDKLAEVLKKNPD----AKIRIEGH-TDSRGSDAYNQELSERRAEAVADYLVSKGVDASRITAVGYGE   83 (106)
T ss_pred             EECHHHHHHHHHHHHHHHHCCC----CEEEEEEE-ECCCCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHEEEEEECC
T ss_conf             6198899999999999985899----37999998-489999899899999999999999998499989989999755


No 23 
>PTZ00254 40S ribosomal protein SA; Provisional
Probab=80.24  E-value=4.5  Score=20.19  Aligned_cols=132  Identities=14%  Similarity=0.119  Sum_probs=72.9

Q ss_pred             HHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHH-HHHCCHHHHHHHHHHHHHHHHHHHC
Q ss_conf             589999999999825200575338970688887788827999999997499987-8111101466577799999997623
Q gi|255764508|r   93 SYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERD-DIKLETQSLDTFQNAQFSSSMIKNM  171 (242)
Q Consensus        93 ~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~-~I~~e~~s~nT~ena~~~~~il~~~  171 (242)
                      +.+++..|++...+...+.   .|++-|.+..+     ..+..+++...|.+.= .=++-..    ..|     ++.+..
T Consensus        54 T~e~L~~Aa~~i~~i~~~~---~Il~V~tr~~~-----q~aV~kfA~~tG~~~i~~Rw~pGt----lTN-----~i~~~f  116 (242)
T PTZ00254         54 TWEKIKLAARVIAAVENPA---DVVVVSSRPYG-----QRAILKFSQYTGASFIAGRFTPGT----FTN-----QIQKKF  116 (242)
T ss_pred             HHHHHHHHHHHHHHHCCCC---CEEEEECCHHH-----HHHHHHHHHHHCCCEEECCCCCCC----CCC-----HHHHCC
T ss_conf             9999999999999864799---77999838898-----799999999979942405127866----468-----766524


Q ss_pred             CCCCEEEECCHHHHHHHHHHHHHCCCEEEEEE-CCCCCCCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             68640885345889999999997698189984-26644311-137545788989999999999999998648
Q gi|255764508|r  172 QGKNIILVSSAYHLKRSQLYFQHFGINTKASC-SDYLNAYY-SIIPLSANFYLTELALKEYIGILIAYYRGN  241 (242)
Q Consensus       172 ~~~~vilVTsa~Hm~RA~~~f~~~gi~~~p~~-~d~~~~~~-~~~p~~~~l~~~~~~~~E~ig~l~~~~~g~  241 (242)
                      .-.++++||++-.-.-|...+.+.||.+++.. ||-..... .-+|..+.-..+-..+.-.++.-+.++||.
T Consensus       117 ~eP~lliV~DP~~d~~AV~EA~~~nIPvIal~DTds~p~~VD~~IP~Ndds~~SI~Li~~lLArevl~~rG~  188 (242)
T PTZ00254        117 QEPRLLIVTDPRTDHQAIREASYVNIPVIALCDTDAPLEYVDIAIPCNNRGKKSIAMMYWLLAREVLRLRGT  188 (242)
T ss_pred             CCCCEEEEECCCCCHHHHHHHHHCCCCEEEEECCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHHHHCCC
T ss_conf             688889996675440899999985998898616999953265676568830768999999999999983688


No 24 
>COG2885 OmpA Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]
Probab=80.12  E-value=4.5  Score=20.19  Aligned_cols=64  Identities=17%  Similarity=0.177  Sum_probs=43.4

Q ss_pred             CCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCC-------CCCH--HHHHHHHHHHCCCCHHHHHCCHHH
Q ss_conf             43468205899999999998252005753389706888877-------8882--799999999749998781111014
Q gi|255764508|r   86 RIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKH-------GLAE--SIVYNNKLLESGVERDDIKLETQS  154 (242)
Q Consensus        86 ~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~-------~~~E--a~~m~~~l~~~Gv~~~~I~~e~~s  154 (242)
                      ...+...+.+.+..-++..++++.    .+|++.| .....       ..||  |++.++||+..||++++|.....+
T Consensus        91 s~~l~p~~~~~L~~~a~~L~~~p~----~~i~V~G-HTD~~Gs~~yN~~LS~rRA~aV~~~L~~~Gv~~~~i~~~G~G  163 (190)
T COG2885          91 SSVLKPKAQATLDELAKYLKKNPI----TRILVEG-HTDSTGSDEYNQALSERRAEAVADYLVSQGVVADRISTVGYG  163 (190)
T ss_pred             CHHHCHHHHHHHHHHHHHHHHCCC----CEEEEEE-CCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEECC
T ss_conf             344398999999999999987899----7799975-578879867876888999999999999849970117898616


No 25 
>cd06271 PBP1_AglR_RafR_like Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold.  As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the represso
Probab=79.93  E-value=4.7  Score=20.12  Aligned_cols=94  Identities=15%  Similarity=0.118  Sum_probs=55.8

Q ss_pred             HHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHH--HHHHHHHHHCCCCHHHHHCCHHHHHHHHHHH-HHHHHHHHCCCCC
Q ss_conf             999999825200575338970688887788827--9999999974999878111101466577799-9999976236864
Q gi|255764508|r   99 ETMRLYKSCKQHSMHCTIIISGGDPQKHGLAES--IVYNNKLLESGVERDDIKLETQSLDTFQNAQ-FSSSMIKNMQGKN  175 (242)
Q Consensus        99 ~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea--~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~-~~~~il~~~~~~~  175 (242)
                      .+-.|+++|..     +|.+-||.... ...+.  +..++.+.+.|++.+..+..... .+.+++. ..+++++..+..+
T Consensus       111 a~~~L~~~G~~-----~I~~i~~~~~~-~~~~~R~~Gf~~al~~~gl~~~~~~~~~~~-~~~~~~~~~~~~ll~~~~~p~  183 (268)
T cd06271         111 AVRRLIALGHR-----RIALLNPPEDL-TFAQHRRAGYRRALAEAGLPLDPALIVSGD-MTEEGGYAAAAELLALPDRPT  183 (268)
T ss_pred             HHHHHHHHCCC-----EEEECCCCCCC-HHHHHHHHHHHHHHHHCCCCCCCCEEEECC-CCHHHHHHHHHHHHHCCCCCC
T ss_conf             99999985987-----48754887546-079999999999999839997711365068-757779999999996599986


Q ss_pred             EEEECCHHHHHHHHHHHHHCCCEE
Q ss_conf             088534588999999999769818
Q gi|255764508|r  176 IILVSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       176 vilVTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      .++.+|+....-++..+++.|+++
T Consensus       184 Ai~~~nD~~A~g~l~~l~~~g~~v  207 (268)
T cd06271         184 AIVCSSELMALGVLAALAEAGLRP  207 (268)
T ss_pred             EEEECCHHHHHHHHHHHHHCCCCC
T ss_conf             899777799999999999829998


No 26 
>COG2240 PdxK Pyridoxal/pyridoxine/pyridoxamine kinase [Coenzyme metabolism]
Probab=79.67  E-value=4.7  Score=20.07  Aligned_cols=139  Identities=16%  Similarity=0.123  Sum_probs=71.2

Q ss_pred             HHHHHHHHHHHHHCCCCCCCCEEEECC--CCCCC-CCC-CHHHHHHHHHHHC--CCCHHHH---HCCHHHHHHHHHHHHH
Q ss_conf             899999999998252005753389706--88887-788-8279999999974--9998781---1110146657779999
Q gi|255764508|r   94 YSRIFETMRLYKSCKQHSMHCTIIISG--GDPQK-HGL-AESIVYNNKLLES--GVERDDI---KLETQSLDTFQNAQFS  164 (242)
Q Consensus        94 ~~Rl~~a~~L~~~~~~~~~~~~ii~SG--g~~~~-~~~-~Ea~~m~~~l~~~--Gv~~~~I---~~e~~s~nT~ena~~~  164 (242)
                      ++.+..-+++.++-++++++..+++--  |+..+ .-. .-++.+++.++..  .+.++.-   ++-..+-||.+++...
T Consensus        85 ~~qv~~i~~~v~~vk~~~P~~~~l~DPVMGD~gglYV~~~~~~~~~~~lip~AdiiTPN~fELe~Ltg~~~~~~~da~~a  164 (281)
T COG2240          85 AEQVRAIAGIVKAVKEANPNALYLCDPVMGDPGGLYVAPEVAEAYRDELLPLADIITPNIFELEILTGKPLNTLDDAVKA  164 (281)
T ss_pred             HHHHHHHHHHHHHHHCCCCCEEEEECCCCCCCCCEEECCCHHHHHHHHHCCHHHEECCCHHHHHHHHCCCCCCHHHHHHH
T ss_conf             89999999999998624987389967743679963526431899998642130074887999999849887888999999


Q ss_pred             HHHHHHCCCCCEEEECCHHH-H---------HHHHHHHHHC--CCEEEEEECCCC------CCCCCCCCCHHHHHHHHHH
Q ss_conf             99976236864088534588-9---------9999999976--981899842664------4311137545788989999
Q gi|255764508|r  165 SSMIKNMQGKNIILVSSAYH-L---------KRSQLYFQHF--GINTKASCSDYL------NAYYSIIPLSANFYLTELA  226 (242)
Q Consensus       165 ~~il~~~~~~~vilVTsa~H-m---------~RA~~~f~~~--gi~~~p~~~d~~------~~~~~~~p~~~~l~~~~~~  226 (242)
                      ++.+.+.++ ++++|||..- +         ......+.+.  .++..|..|...      .....=.+...++..+..+
T Consensus       165 a~~L~~~gp-~~vlVTS~~~~~~~~~~~~~~~~~~~~~~h~~~~v~~~~~GtGDL~sallla~lL~g~~~~~al~~~~~~  243 (281)
T COG2240         165 ARKLGADGP-KIVLVTSLSRAGMSTGNFEMLGKSAELAWHISPLVPFIPNGTGDLFSALLLARLLEGLSLTQALERATAA  243 (281)
T ss_pred             HHHHHHCCC-CEEEEECCCCCCCCCCEEEEECCCHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf             999751489-8899953453678773499961312233234322788999824999999999997599789999999999


Q ss_pred             HHHHHHH
Q ss_conf             9999999
Q gi|255764508|r  227 LKEYIGI  233 (242)
Q Consensus       227 ~~E~ig~  233 (242)
                      ++|-+..
T Consensus       244 V~evl~~  250 (281)
T COG2240         244 VYEVLQE  250 (281)
T ss_pred             HHHHHHH
T ss_conf             9999999


No 27 
>cd06290 PBP1_LacI_like_9 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold.  As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=79.29  E-value=4.9  Score=19.99  Aligned_cols=95  Identities=13%  Similarity=0.124  Sum_probs=54.7

Q ss_pred             HHHHHHHCCCCCCCCEEEECCCCCCCCCCCH-HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEE
Q ss_conf             9999982520057533897068888778882-799999999749998781111014665777999999976236864088
Q gi|255764508|r  100 TMRLYKSCKQHSMHCTIIISGGDPQKHGLAE-SIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIIL  178 (242)
Q Consensus       100 a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E-a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vil  178 (242)
                      +-.|+++|..+    -.+++|.... ....+ -+..++.+.+.|++.+.-++.....++.+......+++++++..+.++
T Consensus       107 ~~~L~~~G~~~----i~~i~~~~~~-~~~~~R~~Gf~~a~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~  181 (265)
T cd06290         107 TQHLIDLGHRR----IAHITGPRGH-IDARDRLAGYRKALEEAGLEVQPDLIVQGDFEEESGLEAVEELLQRGPDFTAIF  181 (265)
T ss_pred             HHHHHHHCCCC----EEEECCCCCC-HHHHHHHHHHHHHHHHCCCCCCHHHEECCCCCCHHHHHHHHHHHHHCCCCCCCE
T ss_conf             99999829986----5560488787-019999999999999869999888834166771789999999997199988421


Q ss_pred             ECCHHHHHHHHHHHHHCCCEE
Q ss_conf             534588999999999769818
Q gi|255764508|r  179 VSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       179 VTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      .+|+.--.-++..++..|+++
T Consensus       182 ~~nD~~A~g~~~~~~~~g~~v  202 (265)
T cd06290         182 AANDQTAYGARLALYRRGLRV  202 (265)
T ss_pred             ECCHHHHHHHHHHHHHHCCCC
T ss_conf             057899999999999809999


No 28 
>cd06288 PBP1_sucrose_transcription_regulator Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold.  As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=79.28  E-value=4.9  Score=19.99  Aligned_cols=97  Identities=12%  Similarity=0.100  Sum_probs=56.3

Q ss_pred             HHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCH-HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCE
Q ss_conf             999999982520057533897068888778882-7999999997499987811110146657779999999762368640
Q gi|255764508|r   98 FETMRLYKSCKQHSMHCTIIISGGDPQKHGLAE-SIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNI  176 (242)
Q Consensus        98 ~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E-a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~v  176 (242)
                      ..+-.|.++|..+     +.+-+|........| -+..++.+.+.|++.+..+......+..+-....+++++.......
T Consensus       106 ~a~~~L~~~G~~~-----i~~i~~~~~~~~~~~R~~gf~~a~~~~~i~~~~~~i~~~~~~~~~~~~~~~~ll~~~~~~da  180 (269)
T cd06288         106 DATRHLLAAGHRR-----IAFINGEPWMLAAKDRLKGYRQALAEAGIPFDPDLVVHGDWSADDGYEAAAALLDLDDRPTA  180 (269)
T ss_pred             HHHHHHHHHCCCC-----EEEEECCCCCHHHHHHHHHHHHHHHHCCCCCCCCEEECCCCCHHHHHHHHHHHHHCCCCCCE
T ss_conf             9999999848875-----57874898875799999999999997699866422412677667777777999855899861


Q ss_pred             EEECCHHHHHHHHHHHHHCCCEE
Q ss_conf             88534588999999999769818
Q gi|255764508|r  177 ILVSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       177 ilVTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      ++.+|+.-...++..+++.|+++
T Consensus       181 i~~~~d~~A~g~~~~l~~~gi~v  203 (269)
T cd06288         181 IFCGNDRMAMGAYQALLERGLRI  203 (269)
T ss_pred             ECCCCHHHHHHHHHHHHHCCCCC
T ss_conf             01477899999999999859999


No 29 
>PRK13608 diacylglycerol glucosyltransferase; Provisional
Probab=78.92  E-value=5  Score=19.92  Aligned_cols=58  Identities=14%  Similarity=0.343  Sum_probs=30.4

Q ss_pred             HHHHHHHHHHCCCCHHHHHCCHHHH-HHHHHHHHHHHHHHHCC---CCCEEEECC-HHHHHHH
Q ss_conf             7999999997499987811110146-65777999999976236---864088534-5889999
Q gi|255764508|r  131 SIVYNNKLLESGVERDDIKLETQSL-DTFQNAQFSSSMIKNMQ---GKNIILVSS-AYHLKRS  188 (242)
Q Consensus       131 a~~m~~~l~~~Gv~~~~I~~e~~s~-nT~ena~~~~~il~~~~---~~~vilVTs-a~Hm~RA  188 (242)
                      .+-+++.+++.|||+++|..-.-.- ..+.....-.+..++.+   .+..+||+. ++.+.+.
T Consensus       155 ~~~~~~~l~~~Gi~~~kI~vtGIPV~~~F~~~~~~~~~~~~~~l~~~~~~iLv~gG~~G~~~~  217 (391)
T PRK13608        155 TKETKQDFIDVGIDPSTVKVTGIPIDNKFETPINQKQWLIDNNLDPDKQTILMSAGAFGVSKG  217 (391)
T ss_pred             CHHHHHHHHHCCCCHHHEEEEEEECCHHHCCCCCHHHHHHHCCCCCCCCEEEEECCCCCHHHH
T ss_conf             999999999849997688998343586773755678999971899777689996886310246


No 30 
>TIGR02128 G6PI_arch bifunctional phosphoglucose/phosphomannose isomerase; InterPro: IPR011857   Mannose-6-phosphate isomerase or phosphomannose isomerase (5.3.1.8 from EC) (PMI) is the enzyme that catalyzes the interconversion of mannose-6-phosphate and fructose-6-phosphate. In eukaryotes PMI is involved in the synthesis of GDP-mannose, a constituent of N- and O-linked glycans and GPI anchors and in prokaryotes it participates in a variety of pathways, including capsular polysaccharide biosynthesis and D-mannose metabolism. PMI's belong to the cupin superfamily whose functions range from isomerase and epimerase activities involved in the modification of cell wall carbohydrates in bacteria and plants, to non-enzymatic storage proteins in plant seeds, and transcription factors linked to congenital baldness in mammals . Three classes of PMI have been defined .   These bifunctional isomerases form a distinct phylogenetic cluster within the larger phosphoglucose isomerase (PGI) superfamily . They show relatively low sequence identity to other PGIs, but contain similar structural elements and show almost complete conservation of the catalytic residues in the active site, indicating they use a similar catalytic mechanism . The family appears to have originated in the archaea, with the bacterial proteins being acquired through horizontal transfer.; GO: 0004347 glucose-6-phosphate isomerase activity, 0004476 mannose-6-phosphate isomerase activity.
Probab=78.27  E-value=2.5  Score=21.88  Aligned_cols=116  Identities=18%  Similarity=0.146  Sum_probs=80.3

Q ss_pred             CCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHH
Q ss_conf             54568758999625213777765554346820589999999999825200575338970688887788827999999997
Q gi|255764508|r   61 QWKKDGNIIVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLE  140 (242)
Q Consensus        61 ~~~~~~d~IVVLGgG~~~~~~~~~~~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~  140 (242)
                      ....+.|-||..|-|-.              ..+.|+...+.+-+++..     |+++-               ++|-..
T Consensus        22 ~~~e~~~~iv~~GmGGS--------------Gi~G~~~~~~~~~~~~~~-----Pvfvv---------------~DY~~p   67 (338)
T TIGR02128        22 LKIEAYDEIVISGMGGS--------------GIAGRILSELLLEKSFEV-----PVFVV---------------KDYRLP   67 (338)
T ss_pred             CCCCCCCCEEEECCCHH--------------HHHHHHHHHHHHHHCCCC-----CEEEE---------------CCCCCC
T ss_conf             13465562278725657--------------899999999865324788-----88887---------------077896


Q ss_pred             CCCC-HHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHHHCCCEEEEEECCCCC---CCCCCCC
Q ss_conf             4999-8781111014665777999999976236864088534588999999999769818998426644---3111375
Q gi|255764508|r  141 SGVE-RDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQHFGINTKASCSDYLN---AYYSIIP  215 (242)
Q Consensus       141 ~Gv~-~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa~Hm~RA~~~f~~~gi~~~p~~~d~~~---~~~~~~p  215 (242)
                      .-++ +..++.-.-|=||.|.......-.++.  .+++.|||.   -|-.-++++.|++++-.|..+++   .+++|+|
T Consensus        68 ~~v~~~~~lIAvSYSGNT~ETl~~~e~A~~~~--~~~~aITSG---G~L~e~A~e~g~~~i~iP~G~qPR~a~pysfiP  141 (338)
T TIGR02128        68 AFVDGKTLLIAVSYSGNTEETLSAVEEAKKKG--AKVIAITSG---GKLEEMAKEEGLDVIKIPKGLQPRAALPYSFIP  141 (338)
T ss_pred             CCCCCCEEEEEEECCCCHHHHHHHHHHHHHCC--CCEEEEECC---CHHHHHCCCCCCCEEEECCCCCCCCCCCHHHHH
T ss_conf             98898517999861786689999999998657--955999448---538863011487568828861132104056899


No 31 
>cd06267 PBP1_LacI_sugar_binding_like Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily.  In most cases, ligands are monosaccharide including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor. In this case, the domain sugar binding changes the DNA binding activity of the repressor domain.
Probab=77.82  E-value=5.4  Score=19.71  Aligned_cols=65  Identities=11%  Similarity=0.131  Sum_probs=42.9

Q ss_pred             HHHHHHHHCCCCHHHHHCCHHHHHHHHHHH-HHHHHHHHCCCCCEEEECCHHHHHHHHHHHHHCCCE
Q ss_conf             999999974999878111101466577799-999997623686408853458899999999976981
Q gi|255764508|r  133 VYNNKLLESGVERDDIKLETQSLDTFQNAQ-FSSSMIKNMQGKNIILVSSAYHLKRSQLYFQHFGIN  198 (242)
Q Consensus       133 ~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~-~~~~il~~~~~~~vilVTsa~Hm~RA~~~f~~~gi~  198 (242)
                      ..++.+.+.|++......... ..+.+++. ..+++++++...+.++.+++..-..++..+++.|++
T Consensus       137 gf~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~ai~~~~D~~A~g~~~~l~~~g~~  202 (264)
T cd06267         137 GYREALEEAGIPLDEELIVEG-DFSEESGYEAARELLASGERPTAIFAANDLMAIGALRALRELGLR  202 (264)
T ss_pred             HHHHHHHHCCCCCCHHEEECC-CCCHHHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHHHHHCCCC
T ss_conf             999999986999885307527-897799999999999659999899878879999999999982999


No 32 
>cd06284 PBP1_LacI_like_6 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group includes the ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors and are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold.  As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=76.55  E-value=5.8  Score=19.48  Aligned_cols=92  Identities=12%  Similarity=0.118  Sum_probs=54.5

Q ss_pred             HHHHHHCCCCCCCCEEEECCCCCCCCCCCH-HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHH-HHHHHHHHHCCCCCEEE
Q ss_conf             999982520057533897068888778882-7999999997499987811110146657779-99999976236864088
Q gi|255764508|r  101 MRLYKSCKQHSMHCTIIISGGDPQKHGLAE-SIVYNNKLLESGVERDDIKLETQSLDTFQNA-QFSSSMIKNMQGKNIIL  178 (242)
Q Consensus       101 ~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E-a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena-~~~~~il~~~~~~~vil  178 (242)
                      -.|.++|..     ++.+-+|+.......| -+...+.+.+.|++.+........ .|++++ ...+++++..+..+.++
T Consensus       108 ~~L~~~G~~-----~i~~i~~~~~~~~~~~R~~Gf~~a~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~ai~  181 (267)
T cd06284         108 DHLISLGHR-----RIALITGPRDNPLARDRLEGYRQALAEAGLPADEELIQEGD-FSLESGYAAARRLLALPDRPTAIF  181 (267)
T ss_pred             HHHHHHCCC-----EEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEECCC-CCHHHHHHHHHHHHHCCCCCCEEE
T ss_conf             999970997-----69996288887259999999999999839985512773278-767778899999996599998026


Q ss_pred             ECCHHHHHHHHHHHHHCCCE
Q ss_conf             53458899999999976981
Q gi|255764508|r  179 VSSAYHLKRSQLYFQHFGIN  198 (242)
Q Consensus       179 VTsa~Hm~RA~~~f~~~gi~  198 (242)
                      .+++.....++..++..|++
T Consensus       182 ~~nD~~A~g~~~~l~~~g~~  201 (267)
T cd06284         182 CFSDEMAIGAISALKELGLR  201 (267)
T ss_pred             ECCCHHHHHHHHHHHHCCCC
T ss_conf             57868899999999983999


No 33 
>TIGR02177 PorB_KorB 2-oxoacid:acceptor oxidoreductase, beta subunit, pyruvate/2-ketoisovalerate family; InterPro: IPR011896    A number of anaerobic and microaerophilic species lack pyruvate dehydrogenase and have instead a four subunit, oxygen-sensitive pyruvate oxidoreductase, with either ferredoxins or flavodoxins used as the acceptor. Several related four-subunit enzymes may exist in the same species. This entry describes the beta subunits, representing mostly pyruvate and 2-ketoisovalerate specific enzymes..
Probab=76.12  E-value=4.7  Score=20.12  Aligned_cols=80  Identities=18%  Similarity=0.253  Sum_probs=44.1

Q ss_pred             CCCEEEEECCCCCCCCCCCCCCCCCCCCHHH-H---HHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHH
Q ss_conf             8758999625213777765554346820589-9---99999999825200575338970688887788827999999997
Q gi|255764508|r   65 DGNIIVLLGNGTTIIPTIPAIRIEPSFQSYS-R---IFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLE  140 (242)
Q Consensus        65 ~~d~IVVLGgG~~~~~~~~~~~~~~~~~~~~-R---l~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~  140 (242)
                      +.+++||=|=|  ...-.|++-..-+.++.- |   +=.|+.|.      ++++++|+.||||..-|+-=+...+.--. 
T Consensus        27 P~qvvVVSGIG--CS~ktPhY~n~~g~h~LHGRA~P~A~G~KlA------NP~L~Viv~GGDGD~~GIG~~Hfva~gRR-   97 (302)
T TIGR02177        27 PEQVVVVSGIG--CSAKTPHYVNVNGFHGLHGRALPVATGIKLA------NPKLKVIVVGGDGDLYGIGGNHFVAAGRR-   97 (302)
T ss_pred             CCCEEEEECCC--CCCCCCCCCCCCCCCCCCCCCCHHHHHHHHC------CCCCEEEEEECCCCCHHHHHHHHHHHHCC-
T ss_conf             85279981313--1134773001366452335631011012010------89846898606864101105778754114-


Q ss_pred             CCCCHHHHHCCHHH
Q ss_conf             49998781111014
Q gi|255764508|r  141 SGVERDDIKLETQS  154 (242)
Q Consensus       141 ~Gv~~~~I~~e~~s  154 (242)
                       .++-.-|+-+|+.
T Consensus        98 -N~dIt~l~~DN~V  110 (302)
T TIGR02177        98 -NVDITVLVHDNQV  110 (302)
T ss_pred             -CCCCEEEEECCEE
T ss_conf             -7882488424705


No 34 
>cd06296 PBP1_CatR_like Ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group includes the ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=75.99  E-value=6  Score=19.39  Aligned_cols=96  Identities=13%  Similarity=0.069  Sum_probs=55.3

Q ss_pred             HHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCH-HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHH-HHHHHHHHHCCCCC
Q ss_conf             999999982520057533897068888778882-7999999997499987811110146657779-99999976236864
Q gi|255764508|r   98 FETMRLYKSCKQHSMHCTIIISGGDPQKHGLAE-SIVYNNKLLESGVERDDIKLETQSLDTFQNA-QFSSSMIKNMQGKN  175 (242)
Q Consensus        98 ~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E-a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena-~~~~~il~~~~~~~  175 (242)
                      ..+-.|.++|..     +|.+-+|........+ -+..++.+.+.|++.+..++.... .+.|.+ ...++++++.+...
T Consensus       107 ~a~~~L~~~G~~-----~I~~i~~~~~~~~~~~R~~Gf~~a~~~~~~~~~~~~i~~~~-~~~~~~~~~~~~ll~~~~~~~  180 (270)
T cd06296         107 AATEHLLELGHR-----RIGFITGPPDLLCSRARLDGYRAALAEAGIPVDPALVREGD-FSTESGFRAAAELLALPERPT  180 (270)
T ss_pred             HHHHHHHHHCCC-----CEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHEEECC-CHHHHHHHHHHHHHHCCCCCC
T ss_conf             999999985897-----28884599886559999999999999869998855533065-017899999999995499886


Q ss_pred             EEEECCHHHHHHHHHHHHHCCCEE
Q ss_conf             088534588999999999769818
Q gi|255764508|r  176 IILVSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       176 vilVTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      .++.+|+.....++..+++.|+++
T Consensus       181 aii~~~D~~A~g~~~~l~~~gi~v  204 (270)
T cd06296         181 AIFAGNDLMALGVYEAARERGLRI  204 (270)
T ss_pred             CEEECCCHHHHHHHHHHHHCCCCC
T ss_conf             203478689999999999869999


No 35 
>cd01575 PBP1_GntR Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. This group represents the ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of GntR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding, 
Probab=75.18  E-value=6.3  Score=19.25  Aligned_cols=93  Identities=12%  Similarity=0.127  Sum_probs=52.5

Q ss_pred             HHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHH--HHHHHHHHHCCCCHHHHHCCHHHHHHHHHH-HHHHHHHHHCCCCC
Q ss_conf             999999825200575338970688887788827--999999997499987811110146657779-99999976236864
Q gi|255764508|r   99 ETMRLYKSCKQHSMHCTIIISGGDPQKHGLAES--IVYNNKLLESGVERDDIKLETQSLDTFQNA-QFSSSMIKNMQGKN  175 (242)
Q Consensus        99 ~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea--~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena-~~~~~il~~~~~~~  175 (242)
                      .+-.|.++|..     +|.+=+|..... .++.  +..++.+.+.|++...++..+.. +|.++. ....++++.++..+
T Consensus       107 a~~~L~~~G~~-----~i~~i~~~~~~~-~~~~R~~G~~~al~~~g~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~d  179 (268)
T cd01575         107 MARHLLARGYR-----RIGFLGARMDDT-RAQQRLEGFRAALRAAGLDPPLVVTTPEP-SSFALGRELLAELLARWPDLD  179 (268)
T ss_pred             HHHHHHHCCCC-----EEEEECCCCCCH-HHHHHHHHHHHHHHHCCCCCCEEEEECCC-CCHHHHHHHHHHHHHCCCCCC
T ss_conf             99999974997-----699984898873-69999999999999769898808995489-988999999999995699983


Q ss_pred             EEEECCHHHHHHHHHHHHHCCCE
Q ss_conf             08853458899999999976981
Q gi|255764508|r  176 IILVSSAYHLKRSQLYFQHFGIN  198 (242)
Q Consensus       176 vilVTsa~Hm~RA~~~f~~~gi~  198 (242)
                      .++.+|+.-..-++..++..|+.
T Consensus       180 ai~~~nD~~A~g~~~~l~~~g~~  202 (268)
T cd01575         180 AVFCSNDDLALGALFECQRRGIS  202 (268)
T ss_pred             EEEECCHHHHHHHHHHHHHHCCC
T ss_conf             79987889999999999983899


No 36 
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=74.83  E-value=6.5  Score=19.20  Aligned_cols=94  Identities=13%  Similarity=0.045  Sum_probs=55.2

Q ss_pred             HHHHHHHCCCCCCCCEEEECCCCCCCCCCCH-HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHH-HHHHHHHHCCCCCEE
Q ss_conf             9999982520057533897068888778882-79999999974999878111101466577799-999997623686408
Q gi|255764508|r  100 TMRLYKSCKQHSMHCTIIISGGDPQKHGLAE-SIVYNNKLLESGVERDDIKLETQSLDTFQNAQ-FSSSMIKNMQGKNII  177 (242)
Q Consensus       100 a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E-a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~-~~~~il~~~~~~~vi  177 (242)
                      +-.|++.|..     +|.+-||........+ -+..++.+.+.|++.+.-++.... .+.+... ...+++.+....+.+
T Consensus       168 ~~~L~~~Ghr-----rI~~i~~~~~~~~~~~R~~G~~~al~~~gl~~~~~~v~~~~-~~~~~~~~~~~~ll~~~~~~tAi  241 (346)
T PRK10401        168 TRMLLNNGHQ-----RIGYLSSSHGIEDDAMRKAGWLSALKEQGIIPPESWIGTGT-PDMQGGEAAMVELLGRNLQLTAV  241 (346)
T ss_pred             HHHHHHCCCC-----CEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCHHEEEECC-CCHHHHHHHHHHHHHCCCCCCCC
T ss_conf             9999962998-----28999479887168999999999999849998701487268-75788999999998159998861


Q ss_pred             EECCHHHHHHHHHHHHHCCCEE
Q ss_conf             8534588999999999769818
Q gi|255764508|r  178 LVSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       178 lVTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      +.+|+.--.-++..++..|+.+
T Consensus       242 ~~~nD~~A~g~l~al~~~Gl~V  263 (346)
T PRK10401        242 FAYNDNMAAGALTALKDNGIAI  263 (346)
T ss_pred             EECCHHHHHHHHHHHHHCCCCC
T ss_conf             4448899999999999859989


No 37 
>pfam01650 Peptidase_C13 Peptidase C13 family. Members of this family are asparaginyl peptidases. The blood fluke parasite Schistosoma mansoni has at least five Clan CA cysteine peptidases in its digestive tract including cathepsins B (2 isoforms), C, F and L. All have been recombinantly expressed as active enzymes, albeit in various stages of activation. In addition, a Clan CD peptidase, termed asparaginyl endopeptidase or 'legumain' has been identified. This has formerly been characterized as a 'haemoglobinase', but this term is probably incorrect. Two cDNAs have been described for Schistosoma mansoni legumain; one encodes an active enzyme whereas the active site cysteine residue encoded by the second cDNA is substituted by an asparagine residue. Both forms have been recombinantly expressed.
Probab=74.74  E-value=3.5  Score=20.95  Aligned_cols=14  Identities=14%  Similarity=0.150  Sum_probs=6.0

Q ss_pred             HCCCCCEEEECCHH
Q ss_conf             23686408853458
Q gi|255764508|r  170 NMQGKNIILVSSAY  183 (242)
Q Consensus       170 ~~~~~~vilVTsa~  183 (242)
                      ++..++++++-++-
T Consensus       147 ~~ry~~lvf~veaC  160 (258)
T pfam01650       147 RGKYKKLVFYVEAC  160 (258)
T ss_pred             HCCHHEEEEEEECC
T ss_conf             36501688764100


No 38 
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=74.11  E-value=6.7  Score=19.08  Aligned_cols=92  Identities=14%  Similarity=0.146  Sum_probs=54.9

Q ss_pred             HHHHHCCCCCCCCEEEECCCCCCCCCCCH-HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHH-HHHHHHHHCCCCCEEEE
Q ss_conf             99982520057533897068888778882-79999999974999878111101466577799-99999762368640885
Q gi|255764508|r  102 RLYKSCKQHSMHCTIIISGGDPQKHGLAE-SIVYNNKLLESGVERDDIKLETQSLDTFQNAQ-FSSSMIKNMQGKNIILV  179 (242)
Q Consensus       102 ~L~~~~~~~~~~~~ii~SGg~~~~~~~~E-a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~-~~~~il~~~~~~~vilV  179 (242)
                      .|++.|..     +|.+-|+........| -+..++.+.+.|++.+......... +.+.+. ..++++++++..+.++.
T Consensus       119 ~L~~~G~~-----~I~~i~~~~~~~~~~~R~~Gf~~a~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~ai~~  192 (275)
T cd06295         119 HLLARGRR-----RIAFLGGPQDMPEGEERLEGYREALAEAGLPLDPRLVAPGDF-TEESGRAAMRALLERGPDFDAVFA  192 (275)
T ss_pred             HHHHHCCC-----EEEEECCCCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEECCC-CHHHHHHHHHHHHHCCCCCCEEEE
T ss_conf             99980998-----798705886672699999999999998699999417996577-668799998889854999870341


Q ss_pred             CCHHHHHHHHHHHHHCCCEE
Q ss_conf             34588999999999769818
Q gi|255764508|r  180 SSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       180 Tsa~Hm~RA~~~f~~~gi~~  199 (242)
                      +++.-.--++..+++.|+++
T Consensus       193 ~nD~~A~g~~~~~~~~g~~i  212 (275)
T cd06295         193 ASDLMALGALRALREAGRRV  212 (275)
T ss_pred             CCCHHHHHHHHHHHHCCCCC
T ss_conf             47587899999999749998


No 39 
>cd06287 PBP1_LacI_like_8 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold.  As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=73.35  E-value=7  Score=18.96  Aligned_cols=91  Identities=11%  Similarity=0.106  Sum_probs=55.5

Q ss_pred             HHHHHCCCCCCCCEEE-ECCCCCCCCCCCH-HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEE
Q ss_conf             9998252005753389-7068888778882-7999999997499987811110146657779999999762368640885
Q gi|255764508|r  102 RLYKSCKQHSMHCTII-ISGGDPQKHGLAE-SIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILV  179 (242)
Q Consensus       102 ~L~~~~~~~~~~~~ii-~SGg~~~~~~~~E-a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilV  179 (242)
                      .|...|-.     +|- ++| ........+ .+..++.+.+.|++...+..++. .+..+-....+++++++.....+++
T Consensus       112 hLi~~Ghr-----rIa~i~g-~~~~~~~~~R~~gy~~a~~~~gl~~~~~~~~~~-~~~~~g~~a~~~ll~~~~~~~AI~~  184 (269)
T cd06287         112 HLRAQGAR-----QIALIVG-SARRNSYLEAEAAYRAFAAEHGMPPVVLRVDEA-GGEEAGYAACAQLLAQHPDLDALCV  184 (269)
T ss_pred             HHHHCCCC-----EEEEEEC-CCCCHHHHHHHHHHHHHHHHCCCCCCEEEECCC-CCHHHHHHHHHHHHCCCCCCCEEEE
T ss_conf             99987998-----7999968-986758999999999999877999847997688-9859999999999717999977998


Q ss_pred             CCHHHHHHHHHHHHHCCCEE
Q ss_conf             34588999999999769818
Q gi|255764508|r  180 SSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       180 Tsa~Hm~RA~~~f~~~gi~~  199 (242)
                      +++..-.-++..++..|+.+
T Consensus       185 ~nD~~A~g~l~al~~~Gl~V  204 (269)
T cd06287         185 PVDAFAVGAVRAATELGRAV  204 (269)
T ss_pred             ECHHHHHHHHHHHHHHCCCC
T ss_conf             27999999999999858877


No 40 
>cd06274 PBP1_FruR Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs. Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to members of the type I periplasmic binding protein superfamily. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor
Probab=72.88  E-value=7.2  Score=18.89  Aligned_cols=96  Identities=10%  Similarity=0.115  Sum_probs=54.0

Q ss_pred             HHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHH-HHHHHHHHHCCCCHHHHHCCHHHHHHHHHHH-HHHHHHHHCCC-C
Q ss_conf             9999999825200575338970688887788827-9999999974999878111101466577799-99999762368-6
Q gi|255764508|r   98 FETMRLYKSCKQHSMHCTIIISGGDPQKHGLAES-IVYNNKLLESGVERDDIKLETQSLDTFQNAQ-FSSSMIKNMQG-K  174 (242)
Q Consensus        98 ~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea-~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~-~~~~il~~~~~-~  174 (242)
                      ..+-.|++.|..     +|.+-||........|- +..++.+.+.|++.+..++..... +.|... ..++++.+++. .
T Consensus       106 ~a~~~L~~~Ghr-----~I~~i~~~~~~~~~~~R~~Gf~~al~~~g~~~~~~~i~~~~~-~~~~g~~~~~~~l~~~~~~p  179 (264)
T cd06274         106 ELTRELLAAPPE-----EVLFLGGLPELSPSRERLAGFRQALADAGLPVQPDWIYAEGY-SPESGYQLMAELLARLGRLP  179 (264)
T ss_pred             HHHHHHHHCCCC-----EEEEECCCCCCCCHHHHHHHHHHHHHHCCCCCCCEEEEECCC-CHHHHHHHHHHHHHHCCCCC
T ss_conf             999999985996-----699976898773099999999999997799877407982688-87899999999998656887


Q ss_pred             CEEEECCHHHHHHHHHHHHHCCCEE
Q ss_conf             4088534588999999999769818
Q gi|255764508|r  175 NIILVSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       175 ~vilVTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      +.++.+++....-++..++..|+.+
T Consensus       180 ~ai~~~nd~~a~g~l~~l~~~g~~v  204 (264)
T cd06274         180 RALFTTSYTLLEGVLRFLRERPGLA  204 (264)
T ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCC
T ss_conf             4220176999999999999859999


No 41 
>PRK09330 cell division protein FtsZ; Validated
Probab=72.86  E-value=2.7  Score=21.68  Aligned_cols=67  Identities=12%  Similarity=0.176  Sum_probs=43.6

Q ss_pred             EEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHH---CCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCH
Q ss_conf             38970688887788827999999997499987811---110146657779999999762368640885345
Q gi|255764508|r  115 TIIISGGDPQKHGLAESIVYNNKLLESGVERDDIK---LETQSLDTFQNAQFSSSMIKNMQGKNIILVSSA  182 (242)
Q Consensus       115 ~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~---~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa  182 (242)
                      .++++.|.|.+.|.--|.+.++.+.++|+-.=.|+   +.-+++...++|..--+-|+++ .+.+|+|-+.
T Consensus        99 mvFItAGmGGGTGTGAaPviA~iAke~g~LtV~vVT~PF~fEG~~R~~~A~~Gi~~L~~~-vDtlIvIpNd  168 (387)
T PRK09330         99 MVFITAGMGGGTGTGAAPVVAEIAKEMGILTVGVVTKPFSFEGKKRMKQAEEGIEELRKH-VDTLIVIPND  168 (387)
T ss_pred             EEEEECCCCCCCCCCHHHHHHHHHHHCCCEEEEEEECCEEECCHHHHHHHHHHHHHHHHH-CCEEEEECCH
T ss_conf             799962667887776048999988557984999995895101787999999999999986-8879997608


No 42 
>cd01574 PBP1_LacI Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of LacI is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=72.35  E-value=7.4  Score=18.82  Aligned_cols=93  Identities=9%  Similarity=0.041  Sum_probs=51.7

Q ss_pred             HHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCH-HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCE
Q ss_conf             999999982520057533897068888778882-7999999997499987811110146657779999999762368640
Q gi|255764508|r   98 FETMRLYKSCKQHSMHCTIIISGGDPQKHGLAE-SIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNI  176 (242)
Q Consensus        98 ~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E-a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~v  176 (242)
                      ..+-.|.++|..     ++.+-||........+ -+..++.+.+.|++...++..+   .+.+++....+.+.+++..+.
T Consensus       106 ~a~~~L~~~G~~-----~i~~i~~~~~~~~~~~R~~G~~~al~~~~i~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~a  177 (264)
T cd01574         106 LATEHLLELGHR-----TIAHVAGPEEWLSARARLAGWRAALEAAGIAPPPVLEGD---WSAESGYRAGRELLREGDPTA  177 (264)
T ss_pred             HHHHHHHHCCCC-----CEEECCCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEECC---CCHHHHHHHHHHHHHCCCCCE
T ss_conf             999999984998-----273258997775799999999999998698974488668---997999999999983799968


Q ss_pred             EEECCHHHHHHHHHHHHHCCCE
Q ss_conf             8853458899999999976981
Q gi|255764508|r  177 ILVSSAYHLKRSQLYFQHFGIN  198 (242)
Q Consensus       177 ilVTsa~Hm~RA~~~f~~~gi~  198 (242)
                      ++++++.---.++..+++.|++
T Consensus       178 ii~~~D~~A~g~i~~l~~~g~~  199 (264)
T cd01574         178 VFAANDQMALGVLRALHELGLR  199 (264)
T ss_pred             EEECCHHHHHHHHHHHHHHCCC
T ss_conf             9636429999999999982998


No 43 
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=72.22  E-value=7.4  Score=18.80  Aligned_cols=95  Identities=13%  Similarity=0.140  Sum_probs=56.6

Q ss_pred             HHHHHHHCCCCCCCCEEEECCCCCCCCCCCH-HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEE
Q ss_conf             9999982520057533897068888778882-799999999749998781111014665777999999976236864088
Q gi|255764508|r  100 TMRLYKSCKQHSMHCTIIISGGDPQKHGLAE-SIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIIL  178 (242)
Q Consensus       100 a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E-a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vil  178 (242)
                      +-.|+..|..     +|.+-||........| -+..++.+.+.|++.+.........+..+-....+++++.+...+.++
T Consensus       114 ~~~L~~~Ghr-----~I~~i~~~~~~~~~~~R~~Gf~~al~~~g~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~tai~  188 (270)
T cd06294         114 TEYLIKLGHK-----KIAFVGGDLDLEVTQDRLQGYKQALEDHGIPDRNEVIISLDFSEEGGYKALKKLLEQHPRPTAIV  188 (270)
T ss_pred             HHHHHHCCCC-----EEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCCEEECCCCCHHHHHHHHHHHHHCCCCCCEEE
T ss_conf             9999976995-----69998189986589999999999999869997733331377667889999999984699984899


Q ss_pred             ECCHHHHHHHHHHHHHCCCEE
Q ss_conf             534588999999999769818
Q gi|255764508|r  179 VSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       179 VTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      ..|+....-++..++..|+++
T Consensus       189 ~~nD~~A~g~~~al~~~g~~i  209 (270)
T cd06294         189 ATDDLLALGVLKVLNELGLKV  209 (270)
T ss_pred             ECCHHHHHHHHHHHHHCCCCC
T ss_conf             877499999999999839999


No 44 
>TIGR02201 heptsyl_trn_III lipopolysaccharide heptosyltransferase III, putative; InterPro: IPR011916    This family consists of examples of the putative ADP-heptose:LPS heptosyltransferase III, an enzyme of LPS inner core region biosynthesis. LPS, composed of lipid A, a core region, and O antigen, is found in the outer membrane of Gram-negative bacteria. This enzyme may be less widely distributed than heptosyltransferases I and II..
Probab=72.03  E-value=4.2  Score=20.41  Aligned_cols=72  Identities=15%  Similarity=0.223  Sum_probs=53.5

Q ss_pred             CCCHH--HHHHHHHHHCCCCHHHHHCCHHHH---HHHHHHHHHH--HHHHHCCCCCEEEECCHHHHHHHHHHHH-HCCCE
Q ss_conf             88827--999999997499987811110146---6577799999--9976236864088534588999999999-76981
Q gi|255764508|r  127 GLAES--IVYNNKLLESGVERDDIKLETQSL---DTFQNAQFSS--SMIKNMQGKNIILVSSAYHLKRSQLYFQ-HFGIN  198 (242)
Q Consensus       127 ~~~Ea--~~m~~~l~~~Gv~~~~I~~e~~s~---nT~ena~~~~--~il~~~~~~~vilVTsa~Hm~RA~~~f~-~~gi~  198 (242)
                      +++||  +.|+..|-+.||.+.=|++.+.||   -=|||.++|+  +=|...|+.  ++.||+.=-.--.+..+ .+|+.
T Consensus       164 ~y~~adw~a~ralL~eaGv~~~YiVIqPtsRwfFKCW~~drfsali~AL~a~Gy~--vVLTsgPD~~e~~mV~~I~~g~~  241 (347)
T TIGR02201       164 SYSEADWKAVRALLDEAGVSENYIVIQPTSRWFFKCWEDDRFSALIDALAAEGYE--VVLTSGPDKDELKMVDEIAAGCR  241 (347)
T ss_pred             CCCHHHHHHHHHHHHHCCCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHCCCE--EEECCCCCHHHHHHHHHHHHCCC
T ss_conf             7886459999985232579998178736736310166213589999988518956--98828989867999999971168


Q ss_pred             EE
Q ss_conf             89
Q gi|255764508|r  199 TK  200 (242)
Q Consensus       199 ~~  200 (242)
                      ..
T Consensus       242 ~~  243 (347)
T TIGR02201       242 SD  243 (347)
T ss_pred             CC
T ss_conf             98


No 45 
>TIGR01373 soxB sarcosine oxidase, beta subunit family; InterPro: IPR006278   These sequences represent the beta subunit of a family of known and putative heterotetrameric sarcosine oxidases. Five operons of such oxidases are found in Mesorhizobium loti and three in Agrobacterium tumefaciens, a high enough copy number to suggest that not all members share the same function. The model is designated as subfamily rather than equivalog for this reason.    Sarcosine oxidase catalyzes the oxidative demethylation of sarcosine to glycine. The reaction converts tetrahydrofolate to 5,10-methylene-tetrahydrofolate . Bacterial sarcosine oxidases have been isolated from over a dozen different organisms and fall into two major classes (1) monomeric form that contains only covalent flavin and (2) heterotetrameric (alpha, beta, gamma, delta) forms that contain a covalent and noncovalent flavin, this entry represents the heterotetrameric form.; GO: 0008115 sarcosine oxidase activity, 0046653 tetrahydrofolate metabolic process.
Probab=71.74  E-value=2.1  Score=22.39  Aligned_cols=25  Identities=24%  Similarity=0.446  Sum_probs=18.5

Q ss_pred             HCCCCCCCCCCCCCCCEEEEECCCC
Q ss_conf             1245444645456875899962521
Q gi|255764508|r   52 SYQRPLLSPQWKKDGNIIVLLGNGT   76 (242)
Q Consensus        52 ~~~~~~~~~~~~~~~d~IVVLGgG~   76 (242)
                      .+.+.-..|++++.+|+|||-|||.
T Consensus        17 ~W~~~Wr~P~PK~~YDviIvGgGGH   41 (407)
T TIGR01373        17 GWKPAWRSPEPKPEYDVIIVGGGGH   41 (407)
T ss_pred             CHHHHCCCCCCCCCCCEEEECCCCC
T ss_conf             3077177733688546788868860


No 46 
>PRK03868 glucose-6-phosphate isomerase; Provisional
Probab=71.54  E-value=7.7  Score=18.70  Aligned_cols=73  Identities=14%  Similarity=0.175  Sum_probs=51.9

Q ss_pred             HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCC-----CCCEEEECCHHHHHHHHHHHHHCCCEEEEEECC
Q ss_conf             799999999749998781111014665777999999976236-----864088534588999999999769818998426
Q gi|255764508|r  131 SIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQ-----GKNIILVSSAYHLKRSQLYFQHFGINTKASCSD  205 (242)
Q Consensus       131 a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~-----~~~vilVTsa~Hm~RA~~~f~~~gi~~~p~~~d  205 (242)
                      +..+.+.+......+.-+++-+||-+|.|.....+.+++..+     .++++.||++--  -....+...|+.+.+.|-+
T Consensus        98 p~~~~~~l~~l~~~~TlfiViSKSgtT~ET~~~~~~~~~~~~~~~~~~~~~i~iTd~~s--~L~~~a~~~~~~~f~ip~~  175 (409)
T PRK03868         98 PISINKTLKKINLEETLFIVISKSGTTIETISIFKYILEHFKLDKLELKNFLVITDPDS--PLEQFAKENGIKSFNIPKN  175 (409)
T ss_pred             HHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCCCCEEEEECCCH--HHHHHHHHCCCEEEECCCC
T ss_conf             89999999608935179999859998389999999999972455330025799936841--6665444258608726777


No 47 
>PRK10808 outer membrane protein A; Reviewed
Probab=70.21  E-value=8.2  Score=18.51  Aligned_cols=85  Identities=12%  Similarity=0.152  Sum_probs=48.3

Q ss_pred             CCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCC---CCC---CCCCCH--HHHHHHHHHHCCCCHHHHHCCHHH---
Q ss_conf             434682058999999999982520057533897068---888---778882--799999999749998781111014---
Q gi|255764508|r   86 RIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGG---DPQ---KHGLAE--SIVYNNKLLESGVERDDIKLETQS---  154 (242)
Q Consensus        86 ~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg---~~~---~~~~~E--a~~m~~~l~~~Gv~~~~I~~e~~s---  154 (242)
                      ...+...+.+.++.-+.-.++...+  ...|.+.|=   .|+   ....||  |+..++||++.||++++|..+..+   
T Consensus       232 ss~l~p~~~~~L~~~~~~l~~~~~~--~~~i~v~GhtD~~G~~~yN~~LS~~RA~~V~~~l~~~Gi~~~~i~~~g~Ge~~  309 (347)
T PRK10808        232 KATLKPEGQQALDQLYSQLSNLDPK--DGSVVVLGYTDRIGSDAYNQALSERRAQSVVDYLISKGIPADKISARGMGESN  309 (347)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHCCCC--CCEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHEEEEEECCCC
T ss_conf             0205866899999999999745877--65189998369988878879999999999999999869984518999864668


Q ss_pred             ---HHHHHHHHHHHHHHHHCC
Q ss_conf             ---665777999999976236
Q gi|255764508|r  155 ---LDTFQNAQFSSSMIKNMQ  172 (242)
Q Consensus       155 ---~nT~ena~~~~~il~~~~  172 (242)
                         .|+.++.+.-..++...-
T Consensus       310 pva~n~~~~~~~~~~li~c~a  330 (347)
T PRK10808        310 PVTGNTCDNVKPRAALIDCLA  330 (347)
T ss_pred             CCCCCCCCCCCCCCCHHHCCC
T ss_conf             888897702244300010247


No 48 
>cd06283 PBP1_RegR_EndR_KdgR_like Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR. Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR, all of which are members of the LacI-GalR family of bacterial transcription regulators. RegR regulates bacterial competence and the expression of virulence factors, including hyaluronidase. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold.  As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=69.85  E-value=8.4  Score=18.46  Aligned_cols=67  Identities=13%  Similarity=0.222  Sum_probs=46.3

Q ss_pred             HHHHHHHHHCCCCHHHHHCCHHHHHHHHHH-HHHHHHHHHCCCCCEEEECCHHHHHHHHHHHHHCCCEE
Q ss_conf             999999997499987811110146657779-99999976236864088534588999999999769818
Q gi|255764508|r  132 IVYNNKLLESGVERDDIKLETQSLDTFQNA-QFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       132 ~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena-~~~~~il~~~~~~~vilVTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      +.+++.+.+.|.+....+.+... ++.+.+ ...+++++.++....++.+|+.-..-++..++..|+++
T Consensus       137 ~g~~~a~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~aii~~~D~~A~g~~~~l~~~g~~v  204 (267)
T cd06283         137 EGFKEALAEHGIGVNEELIEIDD-EDADELDERLRQLLNKPKKKTAIFAANGLILLEVLKALKELGIRI  204 (267)
T ss_pred             HHHHHHHHHCCCCCCCEEEEECC-CCHHHHHHHHHHHHHCCCCCCEECCCCCHHHHHHHHHHHHCCCCC
T ss_conf             99999999759976514898335-426779999999984799986420377099999999999829988


No 49 
>PRK13018 cell division protein FtsZ; Provisional
Probab=69.72  E-value=4.2  Score=20.42  Aligned_cols=66  Identities=12%  Similarity=0.189  Sum_probs=35.5

Q ss_pred             EEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHH---CCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCH
Q ss_conf             8970688887788827999999997499987811---110146657779999999762368640885345
Q gi|255764508|r  116 IIISGGDPQKHGLAESIVYNNKLLESGVERDDIK---LETQSLDTFQNAQFSSSMIKNMQGKNIILVSSA  182 (242)
Q Consensus       116 ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~---~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa  182 (242)
                      ++++.|.|.+.|.--|.+.++.+.++|+-.=.|+   +.-+++...++|..--+-|+++ .+.+++|.+.
T Consensus       115 VFItAGmGGGTGTGAAPVIA~iAke~GaLtVavVT~PF~fEG~~R~~~A~~Gl~~L~~~-vDtlIvIpNd  183 (387)
T PRK13018        115 VFVTAGMGGGTGTGAAPVVAEIAKEQGALVIGVVTKPFKFEGRARMQKAEEGIERLREA-ADTVIVIDNN  183 (387)
T ss_pred             EEEEECCCCCCCCCHHHHHHHHHHHCCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHHH-CCEEEEECHH
T ss_conf             99995347851377789999999981993999944895777689999999999999986-9969997328


No 50 
>TIGR00065 ftsZ cell division protein FtsZ; InterPro: IPR000158   In bacteria, FtsZ , ,  is an essential cell division protein which appears to be involved in the initiation of this event. It assembles into a cytokinetic ring on the inner surface of the cytoplasmic membrane at the place where division will occur. The ring serves as a scaffold that is disassembled when septation is completed. FtsZ ring formation is initiated at a single site on one side of the bacterium and appears to grow bidirectionally. In Escherichia coli, MinCD IPR005526 from INTERPRO, encoded by the MinB locus, form a complex which appears to block the formation of FtsZ rings at the cell poles, at the ancient mid cell division sites, whilst MinE, encoded at the same locus, specifically prevents the action of MinCD at mid cell.    FtsZ is a GTP binding protein PDOC00199 from PROSITEDOC with a GTPase activity. It undergoes GTP-dependent polymerization into filaments (or tubules) that seem to form a cytoskeleton involved in septum synthesis. The structure and the properties of FtsZ clearly provide it with the capacity for the cytoskeletal, perhaps motor role, necessary for "contraction" along the division plane. In addition, however, the FtsZ ring structure provides the framework for the recruitment or assembly of the ten or so membrane and cytoplasmic proteins, uniquely required for cell division in E. coli or Bacillus subtilis, some of which are required for biogenesis of the new hemispherical poles of the two daughter cells. FtsZ can polymerize into various structures, for example a single linear polymer of FtsZ monomers, called a protofilament. Protofilaments can associate laterally to form pairs (sometimes called thick filaments, bundles (ill-defined linear associations of multiple protofilaments or thick filaments, sheets (parallel or anti-parallel two-dimensional associations of thick filaments and tubes (anti-parallel associations of thick filaments in a circular fashion to form a tubular structure). In addition, small circles of FtsZ monomers (a short protofilament bent around to join itself, apparently head to tail) have been observed and termed mini-rings.    FtsZ is a protein of about 400 residues which is well conserved across bacterial species and which is also present in the chloroplast of plants  as well as in archaebacteria . FtsZ shows structural similarity with eukaryotic tubulins. This similarity is probably both evolutionary and functionally significant.; GO: 0005525 GTP binding, 0005737 cytoplasm.
Probab=68.90  E-value=1.8  Score=22.75  Aligned_cols=84  Identities=17%  Similarity=0.251  Sum_probs=48.5

Q ss_pred             EEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHH-H
Q ss_conf             897068888778882799999999749998781111014665777999999976236864088534588999999999-7
Q gi|255764508|r  116 IIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQ-H  194 (242)
Q Consensus       116 ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa~Hm~RA~~~f~-~  194 (242)
                      +++|-|-|.+.|+--|.+.++.+-++|                              .=+|-+||-||-+=+.+..-+ .
T Consensus       110 VFitAGmGGGTGTGAAPVvA~~AK~~G------------------------------aLTvavVT~PF~~EG~kr~~~A~  159 (365)
T TIGR00065       110 VFITAGMGGGTGTGAAPVVAKIAKELG------------------------------ALTVAVVTKPFKFEGKKRRKKAE  159 (365)
T ss_pred             EEEEECCCCCCCCCCHHHHHHHHHHCC------------------------------EEEEEEECCCCCCHHHHHHHHHH
T ss_conf             899725866866663578999997579------------------------------06999842874101589999999


Q ss_pred             CCCEEEEEECCC--------CCCCC-CCCCCHHHHHHHHHHHHH
Q ss_conf             698189984266--------44311-137545788989999999
Q gi|255764508|r  195 FGINTKASCSDY--------LNAYY-SIIPLSANFYLTELALKE  229 (242)
Q Consensus       195 ~gi~~~p~~~d~--------~~~~~-~~~p~~~~l~~~~~~~~E  229 (242)
                      .||+----.||-        .-... .-.|..+.|...+..+++
T Consensus       160 ~Gl~~L~~~~Dt~ivIPNdkLL~v~p~~~p~~~AF~~AD~vL~~  203 (365)
T TIGR00065       160 EGLERLKQAVDTLIVIPNDKLLEVVPNNLPLNDAFKVADDVLRR  203 (365)
T ss_pred             HHHHHHHHHCCEEEEECCHHHHHHCCCCCCHHHHHHHHHHHHHH
T ss_conf             87898765568478826646888606898889999999999997


No 51 
>TIGR01479 GMP_PMI mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; InterPro: IPR006375   This enzyme is known to be bifunctional, as both mannose-6-phosphate isomerase (5.3.1.8 from EC) (PMI) and mannose-1-phosphate guanylyltransferase (2.7.7.22 from EC) in Pseudomonas aeruginosa, Xanthomonas campestris, and Acetobacter xylinus. The literature on the enzyme from Escherichia coli attributes mannose-6-phosphate isomerase activity to an adjacent gene, but the present sequence has not been shown to lack the activity. The PMI domain lies at the C-terminal. ; GO: 0008928 mannose-1-phosphate guanylyltransferase (GDP) activity, 0009103 lipopolysaccharide biosynthetic process.
Probab=68.56  E-value=5.7  Score=19.56  Aligned_cols=78  Identities=17%  Similarity=0.220  Sum_probs=62.7

Q ss_pred             CCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHC--CCCCEEEECCHHHHHHH
Q ss_conf             5753389706888877888279999999974999878111101466577799999997623--68640885345889999
Q gi|255764508|r  111 SMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNM--QGKNIILVSSAYHLKRS  188 (242)
Q Consensus       111 ~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~--~~~~vilVTsa~Hm~RA  188 (242)
                      ....|++++...       ..-..++.+.+.|.+...|++|+.++||..-....+....+.  +.+.+++|-.+-|.-+-
T Consensus        49 ~~~~p~~~~n~~-------~~f~~~~~~~~~~~~~~~~~l~p~g~~~~p~~~~~~~~~~~~~~~~~~~~l~~~~d~~~~~  121 (478)
T TIGR01479        49 DCSSPLVICNEE-------HRFLVAEQLRELGLLASNILLEPVGRNTAPAIALAALLALRRAPGEDPLLLVLAADHVITD  121 (478)
T ss_pred             CCCCCEEEECCH-------HHHHHHHHHHHHCCCCCCEEECCCCCCHHHHHHHHHHHHHHCCCCCCCEEEEEECCCHHHH
T ss_conf             223652552420-------3468888898606522221430266641578999999876405787747898615511100


Q ss_pred             HHHHHHC
Q ss_conf             9999976
Q gi|255764508|r  189 QLYFQHF  195 (242)
Q Consensus       189 ~~~f~~~  195 (242)
                      ...|...
T Consensus       122 ~~~~~~~  128 (478)
T TIGR01479       122 EDAFRAA  128 (478)
T ss_pred             HHHHHHH
T ss_conf             3678999


No 52 
>COG2102 Predicted ATPases of PP-loop superfamily [General function prediction only]
Probab=68.38  E-value=9  Score=18.26  Aligned_cols=74  Identities=9%  Similarity=0.120  Sum_probs=50.5

Q ss_pred             CCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEE--EECCHHHHHHHHHHHHHCCCEEE
Q ss_conf             877888279999999974999878111101466577799999997623686408--85345889999999997698189
Q gi|255764508|r  124 QKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNII--LVSSAYHLKRSQLYFQHFGINTK  200 (242)
Q Consensus       124 ~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vi--lVTsa~Hm~RA~~~f~~~gi~~~  200 (242)
                      .....+..+....++..+|+|   ++....+..-..+....++.++..+.+-++  =|-|.||-.|-..+++..|+++.
T Consensus        41 ~m~H~~n~~~~~~~Ae~~gi~---l~~~~~~g~~e~eve~L~~~l~~l~~d~iv~GaI~s~yqk~rve~lc~~lGl~~~  116 (223)
T COG2102          41 YMFHTPNLELAELQAEAMGIP---LVTFDTSGEEEREVEELKEALRRLKVDGIVAGAIASEYQKERVERLCEELGLKVY  116 (223)
T ss_pred             EEEECCCHHHHHHHHHHCCCC---EEEEECCCCCHHHHHHHHHHHHHCCCCEEEECHHHHHHHHHHHHHHHHHHCCEEE
T ss_conf             442222567999998744883---5998347630556999999997376337997343309999999999997297885


No 53 
>cd06280 PBP1_LacI_like_4 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold.  As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=68.29  E-value=9  Score=18.25  Aligned_cols=64  Identities=13%  Similarity=0.136  Sum_probs=44.9

Q ss_pred             HHHHHHHHHCCCCHHHHHCCHHHHHHHHHH-HHHHHHHHHCCCCCEEEECCHHHHHHHHHHHHHCCCEE
Q ss_conf             999999997499987811110146657779-99999976236864088534588999999999769818
Q gi|255764508|r  132 IVYNNKLLESGVERDDIKLETQSLDTFQNA-QFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       132 ~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena-~~~~~il~~~~~~~vilVTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      +..++.+.+.|++.+....+.    |.|.+ ...+++++.....+.++.+++.....++..++..|+++
T Consensus       134 ~Gf~~al~~~gi~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~~nD~~A~g~l~~l~~~g~~v  198 (263)
T cd06280         134 AGYEDAMRRHGLAPDARFVAP----TAEAAEAALAAWLAAPERPEALVASNGLLLLGALRAVRAAGLRI  198 (263)
T ss_pred             HHHHHHHHHCCCCCCEEEECC----CHHHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHHHHHHCCCC
T ss_conf             999999997699976378248----76789999999982799997899678899999999999848999


No 54 
>COG0052 RpsB Ribosomal protein S2 [Translation, ribosomal structure and biogenesis]
Probab=68.21  E-value=9  Score=18.24  Aligned_cols=120  Identities=13%  Similarity=0.119  Sum_probs=63.6

Q ss_pred             HHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCH-HHHHCCHHHHH--HHHH---------
Q ss_conf             58999999999982520057533897068888778882799999999749998-78111101466--5777---------
Q gi|255764508|r   93 SYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVER-DDIKLETQSLD--TFQN---------  160 (242)
Q Consensus        93 ~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~-~~I~~e~~s~n--T~en---------  160 (242)
                      +..++..|....+...++  .-+|+|-|-+-+.     .+..++++...|.+- ..=|+-..=+|  |..+         
T Consensus        46 T~~~l~~A~~~v~~~~~~--~g~ILfVgTK~~a-----~~~V~~~A~r~g~~yV~~RwLgG~LTN~~ti~~si~rl~~lE  118 (252)
T COG0052          46 TLERLREAYKFLRRIAAN--GGKILFVGTKKQA-----QEPVKEFAERTGAYYVNGRWLGGMLTNFKTIRKSIKRLKELE  118 (252)
T ss_pred             HHHHHHHHHHHHHHHHCC--CCEEEEEECHHHH-----HHHHHHHHHHHCCCEECCCCCCCCCCCCHHHHHHHHHHHHHH
T ss_conf             899999999999999728--9979999520887-----899999999959951327643742447405888999999999


Q ss_pred             ---------------HHHHHH---HHHHC-------CCCCEEEECCHHHHHHHHHHHHHCCCEEEEE-ECCCCCCCCC-C
Q ss_conf             ---------------999999---97623-------6864088534588999999999769818998-4266443111-3
Q gi|255764508|r  161 ---------------AQFSSS---MIKNM-------QGKNIILVSSAYHLKRSQLYFQHFGINTKAS-CSDYLNAYYS-I  213 (242)
Q Consensus       161 ---------------a~~~~~---il~~~-------~~~~vilVTsa~Hm~RA~~~f~~~gi~~~p~-~~d~~~~~~~-~  213 (242)
                                     +...++   +.+..       +...+++|+++-|-.=|...+++.||.++.. -||..+...+ -
T Consensus       119 ~~~~~~~~~~tKkE~l~l~re~~kL~k~lgGIk~m~~~Pd~l~ViDp~~e~iAv~EA~klgIPVvAlvDTn~dpd~VD~~  198 (252)
T COG0052         119 KMEEDGFDGLTKKEALMLTRELEKLEKSLGGIKDMKGLPDVLFVIDPRKEKIAVKEANKLGIPVVALVDTNCDPDGVDYV  198 (252)
T ss_pred             HHHHCCCCCCCHHHHHHHHHHHHHHHHHHCCHHHCCCCCCEEEEECCCHHHHHHHHHHHCCCCEEEEECCCCCCCCCCEE
T ss_conf             87641432100788887777899998740141112679998999688176899999997599989984189997657655


Q ss_pred             CCCHHH
Q ss_conf             754578
Q gi|255764508|r  214 IPLSAN  219 (242)
Q Consensus       214 ~p~~~~  219 (242)
                      +|..+.
T Consensus       199 IP~Ndd  204 (252)
T COG0052         199 IPGNDD  204 (252)
T ss_pred             ECCCCH
T ss_conf             228870


No 55 
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=67.33  E-value=9.4  Score=18.13  Aligned_cols=93  Identities=6%  Similarity=0.056  Sum_probs=53.2

Q ss_pred             HHHHHHCCCCCCCCEEEECCCCCCCCCCCH-HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHH-HHHHHHHHHCCCCCEEE
Q ss_conf             999982520057533897068888778882-7999999997499987811110146657779-99999976236864088
Q gi|255764508|r  101 MRLYKSCKQHSMHCTIIISGGDPQKHGLAE-SIVYNNKLLESGVERDDIKLETQSLDTFQNA-QFSSSMIKNMQGKNIIL  178 (242)
Q Consensus       101 ~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E-a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena-~~~~~il~~~~~~~vil  178 (242)
                      -.|+..|..     +|.+-+|........+ -+..++.+.+.|++.+.-++.+... +.|+. ....++++.....+.++
T Consensus       171 ~~L~~~Ghr-----~Ia~i~~~~~~~~~~~R~~gf~~al~~~gl~~~~~~i~~~~~-~~~~g~~~~~~ll~~~~~ptAi~  244 (335)
T PRK10703        171 RYLIERGHR-----DIGVIPGPLERNTGAGRLAGFMKAMEEANIKVPEEWIVQGDF-EPESGYEAMQQILSQEHRPTAVF  244 (335)
T ss_pred             HHHHHCCCC-----EEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCHHEEEECCC-CHHHHHHHHHHHHHCCCCCCEEE
T ss_conf             999975998-----699995887652178999999999998599988132896578-85889999999995699986689


Q ss_pred             ECCHHHHHHHHHHHHHCCCEE
Q ss_conf             534588999999999769818
Q gi|255764508|r  179 VSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       179 VTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      ..|+....-++..++..|+.+
T Consensus       245 ~~nD~~A~g~~~~l~~~g~~V  265 (335)
T PRK10703        245 CGGDIMAMGAICAADEMGLRV  265 (335)
T ss_pred             ECCHHHHHHHHHHHHHCCCCC
T ss_conf             687599999999999719999


No 56 
>cd06289 PBP1_MalI_like Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. This group includes the ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. They are members of the LacI-GalR family of repressor proteins which are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold.  As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=67.09  E-value=9.5  Score=18.10  Aligned_cols=96  Identities=15%  Similarity=0.087  Sum_probs=54.1

Q ss_pred             HHHHHHHHCCCCCCCCEEEECCCCCCCCCCCH-HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEE
Q ss_conf             99999982520057533897068888778882-79999999974999878111101466577799999997623686408
Q gi|255764508|r   99 ETMRLYKSCKQHSMHCTIIISGGDPQKHGLAE-SIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNII  177 (242)
Q Consensus        99 ~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E-a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vi  177 (242)
                      .+-.|++.|..     ++.+-||........+ -+..++.+.+.|++.+..+..+...+........+++++++...+.+
T Consensus       108 a~~~L~~~G~~-----~i~~i~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai  182 (268)
T cd06289         108 ATEHLISLGHR-----RIAFIGGLEDSSTRRERLAGYRAALAEAGLPFDSELVVEGPPSRQGGAEAVAQLLDLPPRPTAI  182 (268)
T ss_pred             HHHHHHHHCCC-----EEEEECCCCCCCHHHHHHHHHHHHHHHCCCCCCCCEEECCCCCHHHHHHHHHHHHHCCCCCCEE
T ss_conf             99999973987-----0999528988706999999999999976998664345316886556999999998469998620


Q ss_pred             EECCHHHHHHHHHHHHHCCCEE
Q ss_conf             8534588999999999769818
Q gi|255764508|r  178 LVSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       178 lVTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      +-+++.....++..+++.|+++
T Consensus       183 i~~~D~~A~g~l~~l~~~gi~v  204 (268)
T cd06289         183 VCFNDLVAFGAMSGLRRAGLTP  204 (268)
T ss_pred             CCCCHHHHHHHHHHHHHCCCCC
T ss_conf             3576899999999999849999


No 57 
>cd06272 PBP1_hexuronate_repressor_like Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor 
Probab=65.97  E-value=10  Score=17.96  Aligned_cols=95  Identities=13%  Similarity=0.090  Sum_probs=53.2

Q ss_pred             HHHHHHHHCCCCCCCCEEEECCCCCCCCCCCH-HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEE
Q ss_conf             99999982520057533897068888778882-79999999974999878111101466577799999997623686408
Q gi|255764508|r   99 ETMRLYKSCKQHSMHCTIIISGGDPQKHGLAE-SIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNII  177 (242)
Q Consensus        99 ~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E-a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vi  177 (242)
                      .+-.|.+.|..     +|.+-|+........| .+...+.+.+.|++.+.-++.....+..+-....++++++....+.+
T Consensus       102 a~~~L~~~G~~-----~i~~i~~~~~~~~~~~R~~gf~~al~~~g~~~~~~~i~~~~~~~~~~~~~~~~ll~~~~~p~Ai  176 (261)
T cd06272         102 AVLYLAEKGHK-----KIAYIGDLSLDRRQRKRFKGFLETCDENGISISDSHIDVDGLSAEGGDNAAKKLLKESDLPTAI  176 (261)
T ss_pred             HHHHHHHCCCC-----CEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCHHHHHHHHHHHHHHCCCCCCCE
T ss_conf             99999986998-----2899669888735999999999999985998551389830310367999999998527898610


Q ss_pred             EECCHHHHHHHHHHHHHCCCE
Q ss_conf             853458899999999976981
Q gi|255764508|r  178 LVSSAYHLKRSQLYFQHFGIN  198 (242)
Q Consensus       178 lVTsa~Hm~RA~~~f~~~gi~  198 (242)
                      +.+|+.-..-++..+++.|+.
T Consensus       177 ~~~nD~~A~g~~~~l~~~g~~  197 (261)
T cd06272         177 ICGSYDIALGVLSALNKQGIS  197 (261)
T ss_pred             EECCHHHHHHHHHHHHHHCCC
T ss_conf             127689999999999980999


No 58 
>PRK11070 ssDNA exonuclease RecJ; Provisional
Probab=65.59  E-value=10  Score=17.91  Aligned_cols=68  Identities=12%  Similarity=0.094  Sum_probs=29.3

Q ss_pred             CCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCC---CCEEEECCHHHHHH----HHHHHHHCCCEEE
Q ss_conf             8827999999997499987811110146657779999999762368---64088534588999----9999997698189
Q gi|255764508|r  128 LAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQG---KNIILVSSAYHLKR----SQLYFQHFGINTK  200 (242)
Q Consensus       128 ~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~---~~vilVTsa~Hm~R----A~~~f~~~gi~~~  200 (242)
                      ..||+.+++.+.++.  .+|=-+|.+   .+++|....+-+...+.   ..+++..+.||--=    |..+.++.+-.++
T Consensus       309 ~~~A~~la~~L~~~N--~~Rk~ie~~---i~~eA~~~~e~~~~~~~~~~~~ivl~~~~WH~GViGIVAsRL~e~y~rP~i  383 (574)
T PRK11070        309 IGEARVLANELDALN--QTRKEIEQG---MQVEALTLCEKLERSSDTLPGGLAMYHPEWHQGVVGILASRIKERFHRPVI  383 (574)
T ss_pred             HHHHHHHHHHHHHHH--HHHHHHHHH---HHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCHHHHHHHHHHHHHCCCEE
T ss_conf             999999999999989--999999999---999999999987634676771699964886750699999999999799889


No 59 
>PRK08674 bifunctional phosphoglucose/phosphomannose isomerase; Validated
Probab=65.58  E-value=10  Score=17.91  Aligned_cols=53  Identities=17%  Similarity=0.078  Sum_probs=20.6

Q ss_pred             HCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHHHCCCEEEEEECCC
Q ss_conf             1110146657779999999762368640885345889999999997698189984266
Q gi|255764508|r  149 KLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQHFGINTKASCSDY  206 (242)
Q Consensus       149 ~~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa~Hm~RA~~~f~~~gi~~~p~~~d~  206 (242)
                      +.-+.|=||.|.....++-.+. | -+++.|||.=-+.+   ++++.+...+.+|..+
T Consensus        83 IavSySGnTeETL~a~~~A~~r-g-a~vi~ItsGG~L~~---~a~~~~~~~i~vp~g~  135 (328)
T PRK08674         83 IAVSYSGNTEETLSAVEQAKKR-G-AKIIAITSGGKLAE---MAKEKGVPVIKIPGGY  135 (328)
T ss_pred             EEECCCCCCHHHHHHHHHHHHC-C-CCEEEEECCCCHHH---HHHHCCCCEEEECCCC
T ss_conf             9982899977999999999975-9-95899948970678---9987799889426986


No 60 
>PRK07232 malic enzyme; Reviewed
Probab=64.72  E-value=4.6  Score=20.16  Aligned_cols=68  Identities=10%  Similarity=0.123  Sum_probs=28.2

Q ss_pred             HHHHHHHHHHHCCCCHHHHHCCHH-----HHHHHHHHHHHHHHHHH--CCCCCEEEEC-CHHHHHHHHHHHHHCCC
Q ss_conf             279999999974999878111101-----46657779999999762--3686408853-45889999999997698
Q gi|255764508|r  130 ESIVYNNKLLESGVERDDIKLETQ-----SLDTFQNAQFSSSMIKN--MQGKNIILVS-SAYHLKRSQLYFQHFGI  197 (242)
Q Consensus       130 Ea~~m~~~l~~~Gv~~~~I~~e~~-----s~nT~ena~~~~~il~~--~~~~~vilVT-sa~Hm~RA~~~f~~~gi  197 (242)
                      .+.+.++-+++-||....|.=-+.     +.--..+....+.+.++  .+.+||++-- ..--+.||...+...|+
T Consensus       390 v~~ava~aa~~~gva~~~i~d~~~Y~~~L~~rl~~s~~~mr~I~erAK~~pKRIVFpEGEDeRVLrAA~~~~~EGI  465 (753)
T PRK07232        390 IAPAVAKAAMDSGVATRPIADMDAYREKLEAFVYRTGLVMKPIFAKAKKDPKRVVFAEGEEERVLRAAQEVVDEGL  465 (753)
T ss_pred             HHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCEEEECCCCCHHHHHHHHHHHHCCC
T ss_conf             4299999999748887885559999999998767408899999999974886698258877789999999997698


No 61 
>COG2266 GTP:adenosylcobinamide-phosphate guanylyltransferase [Coenzyme metabolism]
Probab=63.73  E-value=11  Score=17.69  Aligned_cols=43  Identities=21%  Similarity=0.259  Sum_probs=21.3

Q ss_pred             HHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCH
Q ss_conf             999999997499987811110146657779999999762368640885345
Q gi|255764508|r  132 IVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSA  182 (242)
Q Consensus       132 ~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa  182 (242)
                      ...+.++.+.||+    +++.....=.+...++-+-+..    .+++|+++
T Consensus        53 p~t~~~~~~~gv~----vi~tpG~GYv~Dl~~al~~l~~----P~lvvsaD   95 (177)
T COG2266          53 PKTKEYLESVGVK----VIETPGEGYVEDLRFALESLGT----PILVVSAD   95 (177)
T ss_pred             HHHHHHHHHCCCE----EEECCCCCHHHHHHHHHHHCCC----CEEEEECC
T ss_conf             7699999735936----9975998708999999974499----45998655


No 62 
>PRK12862 malic enzyme; Reviewed
Probab=63.64  E-value=4.6  Score=20.18  Aligned_cols=68  Identities=12%  Similarity=0.161  Sum_probs=32.7

Q ss_pred             HHHHHHHHHHHCCCCHHHHH-----CCHHHHHHHHHHHHHHHHHHH--CCCCCEEEEC-CHHHHHHHHHHHHHCCC
Q ss_conf             27999999997499987811-----110146657779999999762--3686408853-45889999999997698
Q gi|255764508|r  130 ESIVYNNKLLESGVERDDIK-----LETQSLDTFQNAQFSSSMIKN--MQGKNIILVS-SAYHLKRSQLYFQHFGI  197 (242)
Q Consensus       130 Ea~~m~~~l~~~Gv~~~~I~-----~e~~s~nT~ena~~~~~il~~--~~~~~vilVT-sa~Hm~RA~~~f~~~gi  197 (242)
                      .+.+.++-+++-||....|.     .|.-..--......-+.+.++  .+.+||++-- ..--+.||...+...|+
T Consensus       396 v~~ava~aa~~sgva~~~i~d~~~y~~~L~~~~~~s~~~mr~I~erAK~~PKRIVFaEGEDeRVLrAA~~~~~EGI  471 (761)
T PRK12862        396 IAPAVAQAAMDSGVATRPIEDMDAYREQLNQFVYHSGLIMKPVFAAAKAAPKRVVFAEGEDERVLRAAQVVVDEGL  471 (761)
T ss_pred             HHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCEEEECCCCCHHHHHHHHHHHHCCC
T ss_conf             5399999998628876885679999999998867308899999999974886698358877789999999997599


No 63 
>PRK09526 lacI lac repressor; Reviewed
Probab=63.29  E-value=11  Score=17.64  Aligned_cols=93  Identities=11%  Similarity=0.019  Sum_probs=55.1

Q ss_pred             HHHHHHHCCCCCCCCEEEECCCCCCCCCCCH-HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEE
Q ss_conf             9999982520057533897068888778882-799999999749998781111014665777999999976236864088
Q gi|255764508|r  100 TMRLYKSCKQHSMHCTIIISGGDPQKHGLAE-SIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIIL  178 (242)
Q Consensus       100 a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E-a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vil  178 (242)
                      +-.|+..|..     +|.+-||........+ .+..++.+.+.|+....++..+.  +..+......+++.+....+.++
T Consensus       173 ~~~L~~~Ghr-----~I~~i~~~~~~~~~~~R~~Gf~~~~~~~~l~~~~~~~~~~--~~~~~~~~~~~~l~~~~~ptai~  245 (342)
T PRK09526        173 VEHLVELGHQ-----QIALLAGPLSSVSARLRLAGWLEYLTRNQLSPIAVREGDW--SAMSGYQQTLQMLNEGPVFTAVL  245 (342)
T ss_pred             HHHHHHCCCC-----EEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCEEEECCC--CHHHHHHHHHHHHHCCCCCCEEE
T ss_conf             9999975997-----5999958976600999999999999977989616995689--87899999999983699997587


Q ss_pred             ECCHHHHHHHHHHHHHCCCEE
Q ss_conf             534588999999999769818
Q gi|255764508|r  179 VSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       179 VTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      ++++..-..++..+++.|+.+
T Consensus       246 ~~~D~~A~g~i~~l~~~g~~v  266 (342)
T PRK09526        246 VANDQMALGVLRALHESGLRV  266 (342)
T ss_pred             ECCHHHHHHHHHHHHHHCCCC
T ss_conf             567799999999999809999


No 64 
>cd06279 PBP1_LacI_like_3 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold.  As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=62.63  E-value=12  Score=17.56  Aligned_cols=66  Identities=14%  Similarity=0.156  Sum_probs=47.0

Q ss_pred             HHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHH-HHHHHHCCCCCEEEECCHHHHHHHHHHHHHCCCE
Q ss_conf             99999997499987811110146657779999-9997623686408853458899999999976981
Q gi|255764508|r  133 VYNNKLLESGVERDDIKLETQSLDTFQNAQFS-SSMIKNMQGKNIILVSSAYHLKRSQLYFQHFGIN  198 (242)
Q Consensus       133 ~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~-~~il~~~~~~~vilVTsa~Hm~RA~~~f~~~gi~  198 (242)
                      ..++.+.+.|++.+...+-..+.+|.|..... +++++.+...+.++.+++.--.-++..++..|++
T Consensus       154 G~~~al~~~gl~~~~~~i~~~~~~~~~~g~~~~~~ll~~~~~ptai~~~nD~~A~g~~~~l~~~Gi~  220 (283)
T cd06279         154 GYLEALEEAGIDISDVPIWEIPENDRASGEEAARELLDASPRPTAILCMSDVLALGALQVARELGLR  220 (283)
T ss_pred             HHHHHHHHCCCCCCCEEEEECCCCCHHHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHHHHHHCCC
T ss_conf             9999999859997720578459999999999999999559999669857729999999999981899


No 65 
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=62.60  E-value=12  Score=17.56  Aligned_cols=43  Identities=21%  Similarity=0.207  Sum_probs=27.9

Q ss_pred             CHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHH
Q ss_conf             058999999999982520057533897068888778882799999999
Q gi|255764508|r   92 QSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLL  139 (242)
Q Consensus        92 ~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~  139 (242)
                      +..+|+.++++...+- .+    -+|+|||-|+.++---++++++++-
T Consensus        45 D~~~~I~~~l~~a~~r-~D----~vI~tGGLGPT~DDiT~e~vAka~g   87 (255)
T COG1058          45 DNPDRIVEALREASER-AD----VVITTGGLGPTHDDLTAEAVAKALG   87 (255)
T ss_pred             CCHHHHHHHHHHHHHC-CC----EEEECCCCCCCCCHHHHHHHHHHHC
T ss_conf             9999999999999718-99----8998798589962768999999829


No 66 
>PRK10076 pyruvate formate lyase II activase; Provisional
Probab=61.96  E-value=12  Score=17.48  Aligned_cols=39  Identities=18%  Similarity=0.286  Sum_probs=22.0

Q ss_pred             CCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCC
Q ss_conf             2521377776555434682058999999999982520057533897068
Q gi|255764508|r   73 GNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGG  121 (242)
Q Consensus        73 GgG~~~~~~~~~~~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg  121 (242)
                      |||++.+...|..|          -.-..+|.+.++..+.+.-|-.||-
T Consensus        39 gGGVT~SGGEpl~Q----------~~F~~ellk~~k~~gihtaieTsG~   77 (213)
T PRK10076         39 GGGVTLSGGEVLMQ----------AEFATRFLQRLRLWGVSCAIETAGD   77 (213)
T ss_pred             CCEEEEECCHHHCC----------HHHHHHHHHHHHHCCCCEEEECCCC
T ss_conf             98078607526359----------9999999999986699889976888


No 67 
>PRK08384 thiamine biosynthesis protein ThiI; Provisional
Probab=61.82  E-value=12  Score=17.47  Aligned_cols=67  Identities=15%  Similarity=0.138  Sum_probs=34.7

Q ss_pred             HHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCC-CCEEEECCHHHHHHHHHHHHHCCCEEE
Q ss_conf             999999997499987811110146657779999999762368-640885345889999999997698189
Q gi|255764508|r  132 IVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQG-KNIILVSSAYHLKRSQLYFQHFGINTK  200 (242)
Q Consensus       132 ~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~-~~vilVTsa~Hm~RA~~~f~~~gi~~~  200 (242)
                      .+..=.+++.|+.-.-+.+ +.+..|.|-+....+.+..... .++-+|. .-++.||..++++.|...+
T Consensus       192 PVAa~~mmKRG~~v~~vhf-~~~~~~~~kv~~l~~~L~~y~~~~~~~~~~-~~~~~~a~~ia~~~~~~al  259 (310)
T PRK08384        192 AVAIFLMMKRGVEVIPVHI-GMGEKNLEKVRKLWNQLKKYSYGSKGRLVV-VKNFERVNKIIRDFGAKGV  259 (310)
T ss_pred             HHHHHHHHHCCCEEEEEEE-CCCHHHHHHHHHHHHHHHHHCCCCCEEEEE-ECHHHHHHHHHHHHCCCEE
T ss_conf             9999999856987999985-688789999999999999867998469999-6659999999998599899


No 68 
>TIGR02079 THD1 threonine dehydratase; InterPro: IPR011820    This entry represents threonine dehydratase, the first step in the pathway converting threonine into isoleucine. At least two other clades of biosynthetic threonine dehydratases are described by IPR005787 from INTERPRO and IPR005789 from INTERPRO. The sequences described by this entry are exclusively found in species containing the rest of the isoleucine pathway and which are generally lacking in members of the other two clades of threonine dehydratases. The sequences associated with this entry are often cluster with other elements of the isoleucine pathway.; GO: 0004794 L-threonine ammonia-lyase activity, 0030170 pyridoxal phosphate binding, 0009097 isoleucine biosynthetic process.
Probab=61.04  E-value=5.2  Score=19.82  Aligned_cols=75  Identities=20%  Similarity=0.218  Sum_probs=40.0

Q ss_pred             CCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHH
Q ss_conf             54568758999625213777765554346820589999999999825200575338970688887788827999999997
Q gi|255764508|r   61 QWKKDGNIIVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLE  140 (242)
Q Consensus        61 ~~~~~~d~IVVLGgG~~~~~~~~~~~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~  140 (242)
                      +..++.++|.|+|||.|.....+            =+.+...+| +|..+.    .|+-=.+       ++=+.|+|+-+
T Consensus       296 ~ei~gKTVVC~vSGGNNDi~R~~------------Ei~eRsl~y-~GLKhY----Fiv~FPQ-------RpGALreFln~  351 (415)
T TIGR02079       296 EEIKGKTVVCVVSGGNNDIERTE------------EIRERSLLY-EGLKHY----FIVRFPQ-------RPGALREFLND  351 (415)
T ss_pred             HCCCCCEEEEEEECCCCCCCCCH------------HHHHHHHHH-CCCCEE----EEECCCC-------CCCHHHHHHHH
T ss_conf             00469727999527757533136------------789888873-177036----8752789-------88636887654


Q ss_pred             -CCCCHHHHH-CCHHHHHHHHH
Q ss_conf             -499987811-11014665777
Q gi|255764508|r  141 -SGVERDDIK-LETQSLDTFQN  160 (242)
Q Consensus       141 -~Gv~~~~I~-~e~~s~nT~en  160 (242)
                       +| |.++|. +|..=++..|+
T Consensus       352 vLG-P~DDIT~FEY~KK~nRe~  372 (415)
T TIGR02079       352 VLG-PNDDITKFEYTKKSNRET  372 (415)
T ss_pred             HCC-CCCCCCCCEEEECCCCCC
T ss_conf             067-887523310002014787


No 69 
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold.  As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=59.95  E-value=13  Score=17.26  Aligned_cols=93  Identities=11%  Similarity=0.063  Sum_probs=56.0

Q ss_pred             HHHHHHHHCCCCCCCCEEE-ECCCCCCCCCCCHH--HHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             9999998252005753389-70688887788827--99999999749998781111014665777999999976236864
Q gi|255764508|r   99 ETMRLYKSCKQHSMHCTII-ISGGDPQKHGLAES--IVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKN  175 (242)
Q Consensus        99 ~a~~L~~~~~~~~~~~~ii-~SGg~~~~~~~~Ea--~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~  175 (242)
                      .+-.|++.|..     +|. ++| .......+..  +..++.+.+.|++...++..+  .+..+.....++++.++...+
T Consensus       107 ~~~~L~~~G~~-----~i~~i~~-~~~~~~~~~~R~~Gf~~a~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~  178 (266)
T cd06282         107 VAQALAALGHR-----RIAMLAG-RLAASDRARQRYAGYRAAMRAAGLAPLPPVEIP--FNTAALPSALLALLTAHPAPT  178 (266)
T ss_pred             HHHHHHHCCCC-----EEEEEEC-CCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEC--CCHHHHHHHHHHHHHCCCCCC
T ss_conf             99999973995-----6999977-788886899999999999998699976179934--872689999999983799984


Q ss_pred             EEEECCHHHHHHHHHHHHHCCCEE
Q ss_conf             088534588999999999769818
Q gi|255764508|r  176 IILVSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       176 vilVTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      .++.+++..-..++..++..|+++
T Consensus       179 ai~~~nD~~A~g~l~al~~~g~~v  202 (266)
T cd06282         179 AIFCSNDLLALAVIRALRRLGLRV  202 (266)
T ss_pred             EEEECCCHHHHHHHHHHHHCCCCC
T ss_conf             798538889999999999849999


No 70 
>cd06275 PBP1_PurR Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. This dimeric PurR belongs to the LacI-GalR family of transcription regulators and is activated to bind to DNA operator sites by initially binding either of high affinity corepressors, hypoxanthine or guanine. PurR is composed of two functional domains: aan N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the purine transcription repressor undergoes a 
Probab=59.83  E-value=13  Score=17.24  Aligned_cols=93  Identities=11%  Similarity=0.056  Sum_probs=51.9

Q ss_pred             HHHHHHHHCCCCCCCCEEEECCCCCCCCCCCH--HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHH-HHHHHHHHHCCCCC
Q ss_conf             99999982520057533897068888778882--7999999997499987811110146657779-99999976236864
Q gi|255764508|r   99 ETMRLYKSCKQHSMHCTIIISGGDPQKHGLAE--SIVYNNKLLESGVERDDIKLETQSLDTFQNA-QFSSSMIKNMQGKN  175 (242)
Q Consensus        99 ~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E--a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena-~~~~~il~~~~~~~  175 (242)
                      .+-.|.++|..+     +.+-+|.... ..+.  -+..++.+.+.|++-...+..+. ..+.+.+ ...++++..+...+
T Consensus       108 a~~~Li~~G~~~-----i~~i~~~~~~-~~~~~R~~Gf~~al~~~~i~~~~~~i~~~-~~~~~~~~~~~~~~l~~~~~~~  180 (269)
T cd06275         108 ATRHLIELGHRR-----IGCITGPLEK-APAQQRLAGFRRAMAEAGLPVNPGWIVEG-DFECEGGYEAMQRLLAQPKRPT  180 (269)
T ss_pred             HHHHHHHHCCCE-----EEECCCCCCC-HHHHHHHHHHHHHHHHCCCCCCHHHHCCC-CCCHHHHHHHHHHHHHHCCCCC
T ss_conf             999999829971-----7755699777-16999999999999985999765550367-7776889999999997089966


Q ss_pred             EEEECCHHHHHHHHHHHHHCCCE
Q ss_conf             08853458899999999976981
Q gi|255764508|r  176 IILVSSAYHLKRSQLYFQHFGIN  198 (242)
Q Consensus       176 vilVTsa~Hm~RA~~~f~~~gi~  198 (242)
                      .++.+++.--..++...+..|++
T Consensus       181 aii~~~d~~A~g~~~~l~~~gi~  203 (269)
T cd06275         181 AVFCGNDLMAMGALCAAQEAGLR  203 (269)
T ss_pred             EEECCCHHHHHHHHHHHHHCCCC
T ss_conf             12318749999999999980887


No 71 
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=59.70  E-value=13  Score=17.23  Aligned_cols=95  Identities=13%  Similarity=0.068  Sum_probs=53.5

Q ss_pred             HHHHHHHHCCCCCCCCEEEECCCCCCCCCCCH-HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHH-HHHHHHHHHCCCCCE
Q ss_conf             99999982520057533897068888778882-7999999997499987811110146657779-999999762368640
Q gi|255764508|r   99 ETMRLYKSCKQHSMHCTIIISGGDPQKHGLAE-SIVYNNKLLESGVERDDIKLETQSLDTFQNA-QFSSSMIKNMQGKNI  176 (242)
Q Consensus        99 ~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E-a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena-~~~~~il~~~~~~~v  176 (242)
                      .+-.|+..|..     +|.+-+|........+ -+..++.+.+.|++.+.-++.... .+.+.. ....+++......+.
T Consensus       167 a~~~L~~~Ghr-----~Ia~i~~~~~~~~~~~R~~g~~~al~~~gl~~~~~~i~~~~-~~~~~~~~~~~~ll~~~~~~tA  240 (342)
T PRK10727        167 ATRHLIQQGHT-----RIGYLCSNHSISDAEDRLQGYYDALAESGIPANDRLVTFGE-PDESGGEQAMTELLGRGRNFTA  240 (342)
T ss_pred             HHHHHHHCCCC-----EEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEECC-CCHHHHHHHHHHHHHCCCCCCC
T ss_conf             99999974997-----59999689888359999999999999769999820588157-8778899999999855999774


Q ss_pred             EEECCHHHHHHHHHHHHHCCCEE
Q ss_conf             88534588999999999769818
Q gi|255764508|r  177 ILVSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       177 ilVTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      ++..|+.--.-++..++..|+++
T Consensus       241 i~~~nD~~A~g~l~al~~~Gl~V  263 (342)
T PRK10727        241 VACYNDSMAAGAMGVLNDNGIDV  263 (342)
T ss_pred             CEECCHHHHHHHHHHHHHCCCCC
T ss_conf             15546999999999999829999


No 72 
>pfam10686 DUF2493 Protein of unknown function (DUF2493). Members of this family are all Proteobacteria. The function is not known.
Probab=59.15  E-value=13  Score=17.17  Aligned_cols=45  Identities=18%  Similarity=0.294  Sum_probs=29.1

Q ss_pred             HHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCH
Q ss_conf             58999999999982520057533897068888778882799999999749998
Q gi|255764508|r   93 SYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVER  145 (242)
Q Consensus        93 ~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~  145 (242)
                      ..+++..+++-+++-.    .-.++++||...+   .| .+..+++.+.|||.
T Consensus        16 D~~~i~~~Ld~~~~~~----pd~vlihGG~~kG---ad-~lA~~WA~~~gv~~   60 (71)
T pfam10686        16 DHRLIWDALDKVHARH----PDMVLLHGGAPKG---AE-RIAARWARRRGVPQ   60 (71)
T ss_pred             HHHHHHHHHHHHHHHC----CCEEEEECCCCCC---HH-HHHHHHHHHCCCCE
T ss_conf             0999999999999868----9879997798633---79-99999999869976


No 73 
>COG1167 ARO8 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]
Probab=58.70  E-value=13  Score=17.12  Aligned_cols=69  Identities=13%  Similarity=0.179  Sum_probs=46.3

Q ss_pred             HHHHHHHH-HCCC--CHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHHHCCCEEEEEECCC
Q ss_conf             99999999-7499--987811110146657779999999762368640885345889999999997698189984266
Q gi|255764508|r  132 IVYNNKLL-ESGV--ERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQHFGINTKASCSDY  206 (242)
Q Consensus       132 ~~m~~~l~-~~Gv--~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa~Hm~RA~~~f~~~gi~~~p~~~d~  206 (242)
                      +..++++. +.|+  .+++|++.+-+.+-.+   ...+.+-+.|  ..++|.++-+ +++...|+..|++++|+|+|.
T Consensus       139 ~~ia~~l~~~~g~~~~~~~IiiT~G~q~al~---l~~~~l~~pG--d~v~vE~PtY-~~~~~~~~~~g~~~~~vp~d~  210 (459)
T COG1167         139 EAIAAYLLARRGISCEPEQIVITSGAQQALD---LLLRLLLDPG--DTVLVEDPTY-PGALQALEALGARVIPVPVDE  210 (459)
T ss_pred             HHHHHHHHHHCCCCCCHHHEEECCCHHHHHH---HHHHHHCCCC--CEEEECCCCH-HHHHHHHHHCCCCEEEECCCC
T ss_conf             9999999997499888303898064999999---9999847999--9999899982-899999998699478606788


No 74 
>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold.  As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=58.21  E-value=14  Score=17.07  Aligned_cols=94  Identities=12%  Similarity=0.116  Sum_probs=52.5

Q ss_pred             HHHHHHHCCCCCCCCEEEECCCCCCCCCCCH-HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEE
Q ss_conf             9999982520057533897068888778882-799999999749998781111014665777999999976236864088
Q gi|255764508|r  100 TMRLYKSCKQHSMHCTIIISGGDPQKHGLAE-SIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIIL  178 (242)
Q Consensus       100 a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E-a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vil  178 (242)
                      +-.|.+.|..     +|.+-+|........+ -+..++.+.+.|++.+..+..... ++........++++..+..+.++
T Consensus       108 ~~~L~~~G~~-----~I~~i~~~~~~~~~~~R~~G~~~al~~~g~~~~~~~~~~~~-~~~~~~~~~~~ll~~~~~p~ai~  181 (269)
T cd06281         108 VEYLISLGHR-----RIALVGGGSNTRPGRERLEGYKAAFAAAGLPPDPALVRLST-PAASGFDATRALLALPDRPTAII  181 (269)
T ss_pred             HHHHHHCCCC-----CEEEEECCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEECCC-CHHHHHHHHHHHHHCCCCCCEEE
T ss_conf             9999975998-----66898078877679999999999999779999943997799-74899999999980799996565


Q ss_pred             ECCHHHHHHHHHHHHHCCCEE
Q ss_conf             534588999999999769818
Q gi|255764508|r  179 VSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       179 VTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      ..|+.-...++..+++.|+++
T Consensus       182 ~~~d~~A~g~l~~l~~~g~~V  202 (269)
T cd06281         182 AGGTQVLVGVLRALREAGLRI  202 (269)
T ss_pred             ECCHHHHHHHHHHHHHCCCCC
T ss_conf             123388999999999819999


No 75 
>COG1099 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]
Probab=57.81  E-value=14  Score=17.02  Aligned_cols=95  Identities=18%  Similarity=0.337  Sum_probs=62.6

Q ss_pred             HHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHH-HHHHHHHHHCCCCHHHHHCCHHHHHHHH---------------
Q ss_conf             999999999825200575338970688887788827-9999999974999878111101466577---------------
Q gi|255764508|r   96 RIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAES-IVYNNKLLESGVERDDIKLETQSLDTFQ---------------  159 (242)
Q Consensus        96 Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea-~~m~~~l~~~Gv~~~~I~~e~~s~nT~e---------------  159 (242)
                      =+.+-++|.+     ..+.|+|+--  +..+. .|+ ...-+.+.+.|++++.+++|-....|..               
T Consensus       115 vf~~QL~LA~-----e~dvPviVHT--Pr~nK-~e~t~~ildi~~~~~l~~~lvvIDH~N~etv~~vld~e~~vGlTvqP  186 (254)
T COG1099         115 VFREQLELAR-----ELDVPVIVHT--PRRNK-KEATSKILDILIESGLKPSLVVIDHVNEETVDEVLDEEFYVGLTVQP  186 (254)
T ss_pred             HHHHHHHHHH-----HCCCCEEEEC--CCCCC-HHHHHHHHHHHHHCCCCHHHEEHHCCCHHHHHHHHHCCCEEEEEECC
T ss_conf             9999999998-----7499679967--87760-56789999999874998012101206587799997255357788537


Q ss_pred             ---HHHHHHHHHHHCCCCCEEEE-------CCHHHHHHHHHHHHHCCCE
Q ss_conf             ---79999999762368640885-------3458899999999976981
Q gi|255764508|r  160 ---NAQFSSSMIKNMQGKNIILV-------SSAYHLKRSQLYFQHFGIN  198 (242)
Q Consensus       160 ---na~~~~~il~~~~~~~vilV-------Tsa~Hm~RA~~~f~~~gi~  198 (242)
                         ...+..+|+++++.+++++=       ++..-.||+....+..|+.
T Consensus       187 gKlt~~eAveIV~ey~~~r~ilnSD~~s~~sd~lavprtal~m~~~gv~  235 (254)
T COG1099         187 GKLTVEEAVEIVREYGAERIILNSDAGSAASDPLAVPRTALEMEERGVG  235 (254)
T ss_pred             CCCCHHHHHHHHHHHCCCEEEEECCCCCCCCCCHHHHHHHHHHHHHCCC
T ss_conf             7688899999999818662998366554436620215999999980577


No 76 
>cd06292 PBP1_LacI_like_10 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold.  As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=56.93  E-value=14  Score=16.93  Aligned_cols=93  Identities=12%  Similarity=0.065  Sum_probs=54.7

Q ss_pred             HHHHHHHHCCCCCCCCEEEECCCCCCCCCCCH-HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHH-HHHHHCCCCCE
Q ss_conf             99999982520057533897068888778882-79999999974999878111101466577799999-99762368640
Q gi|255764508|r   99 ETMRLYKSCKQHSMHCTIIISGGDPQKHGLAE-SIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSS-SMIKNMQGKNI  176 (242)
Q Consensus        99 ~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E-a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~-~il~~~~~~~v  176 (242)
                      .+-.|++.|..+    -.+++|. .......+ -+..++.+.+.|++.+...+.... .+.+...... ++++ ++. +.
T Consensus       113 a~~~L~~~G~~~----i~~i~~~-~~~~~~~~R~~G~~~a~~~~~~~~~~~~i~~~~-~~~~~~~~~~~~~l~-~~~-~a  184 (273)
T cd06292         113 AVRHLVALGHRR----IGFASGP-GRTVPRRRKIAGFRAALEEAGLEPPEALVARGM-FSVEGGQAAAVELLG-SGP-TA  184 (273)
T ss_pred             HHHHHHHHCCCE----EEEECCC-CCCCHHHHHHHHHHHHHHHCCCCCCCEEEEECC-CCHHHHHHHHHHHHH-CCC-CE
T ss_conf             999999859980----8995178-777159999999999999849997714897167-777889999999974-799-65


Q ss_pred             EEECCHHHHHHHHHHHHHCCCEE
Q ss_conf             88534588999999999769818
Q gi|255764508|r  177 ILVSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       177 ilVTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      ++.+++....+++..++..|+++
T Consensus       185 i~~~nD~~A~g~~~~l~~~g~~i  207 (273)
T cd06292         185 IVAASDLMALGAIRAARRRGLRV  207 (273)
T ss_pred             EEECCCHHHHHHHHHHHHCCCCC
T ss_conf             77458599999999999839989


No 77 
>cd06293 PBP1_LacI_like_11 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=56.89  E-value=14  Score=16.93  Aligned_cols=94  Identities=14%  Similarity=0.074  Sum_probs=53.1

Q ss_pred             HHHHHHHCCCCCCCCEEEECCCCCCCCCCCH-HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHH-HHHHHHHHCCCCCEE
Q ss_conf             9999982520057533897068888778882-79999999974999878111101466577799-999997623686408
Q gi|255764508|r  100 TMRLYKSCKQHSMHCTIIISGGDPQKHGLAE-SIVYNNKLLESGVERDDIKLETQSLDTFQNAQ-FSSSMIKNMQGKNII  177 (242)
Q Consensus       100 a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E-a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~-~~~~il~~~~~~~vi  177 (242)
                      +-.|.+.|..+     |.+=+|........+ -+..++.+.+.|++.+..+..... .+.+.+. ..++++.+....+.+
T Consensus       108 ~~~L~~~G~~~-----I~~i~~~~~~~~~~~R~~G~~~a~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~av  181 (269)
T cd06293         108 TRHLARAGHRR-----IAFVGGPDALISARERYAGYREALAEAHIPEVPEYVCFGD-YTREFGRAAAAQLLARGDPPTAI  181 (269)
T ss_pred             HHHHHHHCCCE-----EEEECCCCCCCHHHHHHHHHHHHHHHCCCCCCCEEEEECC-CCHHHHHHHHHHHHHCCCCCCEE
T ss_conf             99999829983-----8995488776339999999999999769999934899556-31135999999998479998589


Q ss_pred             EECCHHHHHHHHHHHHHCCCEE
Q ss_conf             8534588999999999769818
Q gi|255764508|r  178 LVSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       178 lVTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      +.+++.-..-++..++..|+++
T Consensus       182 ~~~nD~~A~g~l~~l~~~gi~v  203 (269)
T cd06293         182 FAASDEIAIGLLEVLRERGLSI  203 (269)
T ss_pred             EECCHHHHHHHHHHHHHCCCCC
T ss_conf             9688599999999999849999


No 78 
>cd02201 FtsZ_type1 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes.  FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at the site of bacterial cell division, which is required for constriction of cell membrane and cell envelope to yield two daughter cells.
Probab=56.84  E-value=11  Score=17.76  Aligned_cols=67  Identities=12%  Similarity=0.151  Sum_probs=43.6

Q ss_pred             EEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHH---CCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHH
Q ss_conf             8970688887788827999999997499987811---1101466577799999997623686408853458
Q gi|255764508|r  116 IIISGGDPQKHGLAESIVYNNKLLESGVERDDIK---LETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAY  183 (242)
Q Consensus       116 ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~---~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa~  183 (242)
                      ++++.|.|.+.|.--|...++.+.++|+-.=.|.   +..++....++|...-+-|++. .+.++++.++-
T Consensus        88 vfi~AGmGGGTGTGaaPviA~~Ake~g~LtvavVT~PF~~EG~~R~~~A~~gl~~L~~~-~D~~Ivi~Ndk  157 (304)
T cd02201          88 VFITAGMGGGTGTGAAPVIAKIAKEMGALTVAVVTKPFSFEGKKRMRQAEEGLEELRKH-VDTLIVIPNDK  157 (304)
T ss_pred             EEEEECCCCCCCCCHHHHHHHHHHHCCCEEEEEEECCHHHHHHHHHHHHHHHHHHHHHH-CCCEEEEEHHH
T ss_conf             99994257986631789999988667985999996785775289999999999999985-89459963599


No 79 
>TIGR00644 recJ single-stranded-DNA-specific exonuclease RecJ; InterPro: IPR004610 All proteins in this family are 5'-3' single-strand DNA exonucleases. These proteins are used in some aspects of mismatch repair, recombination, and recombinational repair. RecJ is a single-stranded DNA-specific endonuclease which is required for many types of recombination events, although the stringency of the requirement for RecJ appears to vary with the type of recombinational event monitored, and the other recombination gene products which are available.; GO: 0008409 5'-3' exonuclease activity, 0006281 DNA repair, 0006310 DNA recombination.
Probab=56.62  E-value=15  Score=16.90  Aligned_cols=103  Identities=20%  Similarity=0.247  Sum_probs=72.7

Q ss_pred             CHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCC--CCHHHHHCCHHHHHHHHHHHHHHHHHH
Q ss_conf             058999999999982520057533897068888778882799999999749--998781111014665777999999976
Q gi|255764508|r   92 QSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESG--VERDDIKLETQSLDTFQNAQFSSSMIK  169 (242)
Q Consensus        92 ~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~G--v~~~~I~~e~~s~nT~ena~~~~~il~  169 (242)
                      .+++|+.+|++=         +-+|++=| |..-+|++=+.+|.++|.++|  +. -++.+=++-..-|.--...-..+.
T Consensus        43 kAv~ri~~A~~~---------~eki~i~G-DyDvDGiTSt~~l~~~L~~lGp~~~-~~~~IPnR~~egYG~~~~~~~~~~  111 (705)
T TIGR00644        43 KAVERIIEAIEN---------NEKILIFG-DYDVDGITSTAILVEFLRELGPYVQ-VDYYIPNRFTEGYGLSPEALRELK  111 (705)
T ss_pred             HHHHHHHHHHHC---------CCCEEEEE-CCCCCHHHHHHHHHHHHHHCCCCCE-EEEEECCCCCCCCCCCHHHHHHHH
T ss_conf             999999999972---------89389996-1752268999999999995099732-466626635777788989999998


Q ss_pred             HCCCCCEEEECCHHHHHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             23686408853458899999999976981899842664
Q gi|255764508|r  170 NMQGKNIILVSSAYHLKRSQLYFQHFGINTKASCSDYL  207 (242)
Q Consensus       170 ~~~~~~vilVTsa~Hm~RA~~~f~~~gi~~~p~~~d~~  207 (242)
                      +.|.+=+|-|=+.---..+..++++.|++|+  -|||+
T Consensus       112 ~~G~~LiiTVD~Gi~a~~e~~~a~~~G~dVI--VtDHH  147 (705)
T TIGR00644       112 ENGVSLIITVDNGISAHEEIEYAKELGIDVI--VTDHH  147 (705)
T ss_pred             HCCCEEEEECCCCHHHHHHHHHHHHCCCEEE--EECCC
T ss_conf             6698399982687426999999986698199--97256


No 80 
>PRK11145 pflA pyruvate formate lyase-activating enzyme 1; Provisional
Probab=56.59  E-value=15  Score=16.89  Aligned_cols=22  Identities=18%  Similarity=0.496  Sum_probs=10.9

Q ss_pred             HHHHHHHHCCCCCCCCEEEECC
Q ss_conf             9999998252005753389706
Q gi|255764508|r   99 ETMRLYKSCKQHSMHCTIIISG  120 (242)
Q Consensus        99 ~a~~L~~~~~~~~~~~~ii~SG  120 (242)
                      ...++.+..+..+...-+..+|
T Consensus        87 f~~~l~~~~k~~gi~taidTnG  108 (246)
T PRK11145         87 FVRDWFRACKKEGIHTCLDTNG  108 (246)
T ss_pred             HHHHHHHHHHHCCCCEEEECCC
T ss_conf             9999999998879989998999


No 81 
>TIGR02407 ectoine_ectB diaminobutyrate--2-oxoglutarate aminotransferase; InterPro: IPR012773    Members of this family of class III pyridoxal-phosphate-dependent aminotransferases are diaminobutyrate--2-oxoglutarate aminotransferase (2.6.1.76 from EC) that catalyze the first step in ectoine biosynthesis from L-aspartate beta-semialdehyde. This family is readily separated phylogenetically from enzymes with the same substrate and product but involved in other process such as siderophore (Q9Z3R2 from SWISSPROT) or 1,3-diaminopropane (P44951 from SWISSPROT) biosynthesis. Ectoine is a compatible solute particularly effective in conferring salt tolerance.; GO: 0030170 pyridoxal phosphate binding, 0047307 diaminobutyrate-pyruvate transaminase activity, 0019491 ectoine biosynthetic process.
Probab=56.25  E-value=9.3  Score=18.15  Aligned_cols=11  Identities=27%  Similarity=0.754  Sum_probs=5.5

Q ss_pred             CCEEEECCHHH
Q ss_conf             64088534588
Q gi|255764508|r  174 KNIILVSSAYH  184 (242)
Q Consensus       174 ~~vilVTsa~H  184 (242)
                      .+|+==|++||
T Consensus       126 ~nvvaFTNaFH  136 (413)
T TIGR02407       126 SNVVAFTNAFH  136 (413)
T ss_pred             CCEEEECCCCH
T ss_conf             40688517730


No 82 
>PRK12653 fructose-6-phosphate aldolase; Reviewed
Probab=56.06  E-value=15  Score=16.84  Aligned_cols=55  Identities=13%  Similarity=0.060  Sum_probs=44.1

Q ss_pred             HCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECC---HHHHHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             111014665777999999976236864088534---58899999999976981899842664
Q gi|255764508|r  149 KLETQSLDTFQNAQFSSSMIKNMQGKNIILVSS---AYHLKRSQLYFQHFGINTKASCSDYL  207 (242)
Q Consensus       149 ~~e~~s~nT~ena~~~~~il~~~~~~~vilVTs---a~Hm~RA~~~f~~~gi~~~p~~~d~~  207 (242)
                      .+++.+.|-.+.....+++++.++.+.-+|+-|   ..|..++.    ..|.+.+..|.|-.
T Consensus       134 R~~d~g~Dg~~~i~~i~~~~~~~~~~tkILaASiR~~~~v~~a~----~~Gad~iTip~~v~  191 (220)
T PRK12653        134 RIDAQGGSGIQTVTDLHQLLKMHAPQAKVLAASFKTPRQALDCL----LAGCESITLPLDVA  191 (220)
T ss_pred             EHHHCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCHHHHHHHH----HCCCCEEECCHHHH
T ss_conf             06433898266899999999976999889998389999999999----86999998399999


No 83 
>COG0329 DapA Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=55.74  E-value=15  Score=16.81  Aligned_cols=18  Identities=22%  Similarity=0.259  Sum_probs=8.7

Q ss_pred             CCCHHHHHHHHHHHCCCC
Q ss_conf             888279999999974999
Q gi|255764508|r  127 GLAESIVYNNKLLESGVE  144 (242)
Q Consensus       127 ~~~Ea~~m~~~l~~~Gv~  144 (242)
                      .+.|+-...+.+.+.|++
T Consensus        84 ~t~eai~lak~a~~~Gad  101 (299)
T COG0329          84 STAEAIELAKHAEKLGAD  101 (299)
T ss_pred             CHHHHHHHHHHHHHCCCC
T ss_conf             799999999999970999


No 84 
>cd02191 FtsZ FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes.  FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at the site of bacterial cell division, which is required for constriction of cell membrane and cell envelope to yield two daughter cells.
Probab=55.64  E-value=9.7  Score=18.05  Aligned_cols=69  Identities=13%  Similarity=0.094  Sum_probs=47.2

Q ss_pred             EEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHH---CCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHHHH
Q ss_conf             8970688887788827999999997499987811---110146657779999999762368640885345889
Q gi|255764508|r  116 IIISGGDPQKHGLAESIVYNNKLLESGVERDDIK---LETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHL  185 (242)
Q Consensus       116 ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~---~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa~Hm  185 (242)
                      ++++.|.|.+.|.--+...++.+.++|+..=.|.   ++.++....+||...-+-|++. .+.++++-+.--+
T Consensus        88 vfi~AGmGGGTGtGaaPviA~~Ake~g~ltvavVt~PF~~EG~~r~~~A~~gl~~L~~~-~D~~Ivi~Nd~L~  159 (303)
T cd02191          88 VFITAGLGGGTGTGGAPVVAEHLKRIGTLTVAVVTLPFSDEGGIRMLNAAEGFQTLVRE-VDNLMVIPNEKLR  159 (303)
T ss_pred             EEEEEECCCCCCCCHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHHHHHHHHHH-CCEEEEECHHHHH
T ss_conf             99998418970042899999999975993899997872551199999999999999986-9979996068998


No 85 
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=54.74  E-value=16  Score=16.70  Aligned_cols=93  Identities=15%  Similarity=0.118  Sum_probs=52.5

Q ss_pred             HHHHHHHCCCCCCCCEEEECCCCCCCCCCCH--HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHH-HHHHHHHHCCCCCE
Q ss_conf             9999982520057533897068888778882--79999999974999878111101466577799-99999762368640
Q gi|255764508|r  100 TMRLYKSCKQHSMHCTIIISGGDPQKHGLAE--SIVYNNKLLESGVERDDIKLETQSLDTFQNAQ-FSSSMIKNMQGKNI  176 (242)
Q Consensus       100 a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E--a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~-~~~~il~~~~~~~v  176 (242)
                      +-.|++.|..     +|.+-+|.... ...+  -+..++.+.+.|++.+.-++.. +..+.|... ...++++.....+.
T Consensus       176 ~~~L~~~Ghr-----~I~~i~~~~~~-~~~~~R~~G~~~al~~~gl~~~~~~i~~-~~~~~~~g~~~~~~ll~~~~~ptA  248 (341)
T PRK11041        176 VNYLYELGHK-----RIACIAGPEEM-PLCHYRLQGYVQALRRCGITVDPQYIAR-GDFTFEAGAKAMQQLLELPQPPTA  248 (341)
T ss_pred             HHHHHHCCCC-----EEEEEECCCCC-HHHHHHHHHHHHHHHHCCCCCCCCEEEE-CCCCHHHHHHHHHHHHHCCCCCCE
T ss_conf             9999974997-----69999689877-6899999999999998699999104895-467679999999999955999857


Q ss_pred             EEECCHHHHHHHHHHHHHCCCEE
Q ss_conf             88534588999999999769818
Q gi|255764508|r  177 ILVSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       177 ilVTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      ++..|+..-..++..++..|+.+
T Consensus       249 i~~~nD~~A~g~l~al~~~Gl~V  271 (341)
T PRK11041        249 VFCHSDVMALGALSQAKRQGLKV  271 (341)
T ss_pred             EEECCHHHHHHHHHHHHHHCCCC
T ss_conf             98767799999999999718989


No 86 
>pfam08869 XisI XisI protein. The fdxN element, along with two other DNA elements, is excised from the chromosome during heterocyst differentiation in cyanobacteria. The xisH as well as the xisF and xisI genes are required.
Probab=54.67  E-value=7.7  Score=18.70  Aligned_cols=23  Identities=35%  Similarity=0.485  Sum_probs=18.9

Q ss_pred             HHHHHHHHCCCCHHHHHCCHHHH
Q ss_conf             99999997499987811110146
Q gi|255764508|r  133 VYNNKLLESGVERDDIKLETQSL  155 (242)
Q Consensus       133 ~m~~~l~~~Gv~~~~I~~e~~s~  155 (242)
                      ..++.|++.|||+++|++--.+-
T Consensus        77 gIa~eLv~~GVPk~dIVLgFh~P   99 (110)
T pfam08869        77 GIANELVEAGVPKEDIVLGFHPP   99 (110)
T ss_pred             CHHHHHHHCCCCHHHEEEECCCC
T ss_conf             08999998599889989922682


No 87 
>pfam02602 HEM4 Uroporphyrinogen-III synthase HemD. This family consists of uroporphyrinogen-III synthase HemD EC:4.2.1.75 also known as Hydroxymethylbilane hydrolyase (cyclizing) from eukaryotes, bacteria and archaea. This enzyme catalyses the reaction: Hydroxymethylbilane <= uroporphyrinogen-III + H(2)O. Some members of this family are multi-functional proteins possessing other enzyme activities related to porphyrin biosynthesis, with pfam00590, however the aligned region corresponds with the uroporphyrinogen-III synthase EC:4.2.1.75 activity only. Uroporphyrinogen-III synthase is the fourth enzyme in the heme pathway. Mutant forms of the Uroporphyrinogen-III synthase gene cause congenital erythropoietic porphyria in humans a recessive inborn error of metabolism also known as Gunther disease.
Probab=54.41  E-value=16  Score=16.67  Aligned_cols=19  Identities=5%  Similarity=0.127  Sum_probs=9.0

Q ss_pred             CEEEECCHHHHHHHHHHHH
Q ss_conf             4088534588999999999
Q gi|255764508|r  175 NIILVSSAYHLKRSQLYFQ  193 (242)
Q Consensus       175 ~vilVTsa~Hm~RA~~~f~  193 (242)
                      .++++||+.-..+-..++.
T Consensus       168 d~i~ftS~~~v~~f~~~~~  186 (229)
T pfam02602       168 DAVVFTSPSTVRSFLELLP  186 (229)
T ss_pred             CEEEECCHHHHHHHHHHHH
T ss_conf             8999879999999999877


No 88 
>KOG0622 consensus
Probab=54.33  E-value=11  Score=17.79  Aligned_cols=69  Identities=17%  Similarity=0.205  Sum_probs=47.0

Q ss_pred             HHHHHCCCCHHHHHCCH---------------HHHHHHHHHHHHHHHHHHCCCCCEEE--ECCHH---------------
Q ss_conf             99997499987811110---------------14665777999999976236864088--53458---------------
Q gi|255764508|r  136 NKLLESGVERDDIKLET---------------QSLDTFQNAQFSSSMIKNMQGKNIIL--VSSAY---------------  183 (242)
Q Consensus       136 ~~l~~~Gv~~~~I~~e~---------------~s~nT~ena~~~~~il~~~~~~~vil--VTsa~---------------  183 (242)
                      +....+||++++|+.-+               -+.+|++|..+..++.+.++-.+++|  =|++-               
T Consensus       114 ~lvl~~gv~P~riIyanpcK~~s~IkyAa~~gV~~~tfDne~el~kv~~~hP~a~llLrIatdds~a~~~l~~KFG~~~~  193 (448)
T KOG0622         114 DLVLSLGVSPERIIYANPCKQVSQIKYAAKHGVSVMTFDNEEELEKVAKSHPNANLLLRIATDDSTATCRLNLKFGCSLD  193 (448)
T ss_pred             HHHHHCCCCHHHEEECCCCCCHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCCCCCCCHH
T ss_conf             99986698856668627875199999999759707862589999999974997338999736887455556675687778


Q ss_pred             HHHHHHHHHHHCCCEEEEEEC
Q ss_conf             899999999976981899842
Q gi|255764508|r  184 HLKRSQLYFQHFGINTKASCS  204 (242)
Q Consensus       184 Hm~RA~~~f~~~gi~~~p~~~  204 (242)
                      -.+--+-.++..|++++++.-
T Consensus       194 ~~~~lLd~ak~l~lnvvGvsf  214 (448)
T KOG0622         194 NCRHLLDMAKELELNVVGVSF  214 (448)
T ss_pred             HHHHHHHHHHHCCCEEEEEEE
T ss_conf             999999999871865888998


No 89 
>cd06298 PBP1_CcpA_like Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation. Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. In gram-positive bacteria, CCR is controlled by HPr, a phosphoenolpyruvate:sugar phsophotrasnferase system (PTS) and a transcriptional regulator CcpA. Moreover, CcpA can regulate sporulation and antibiotic resistance as well as play a role in virulence development of certain pathogens such as the group A streptococcus. The ligand binding domain of CcpA is a member of the LacI-GalR family of bacterial transcription regulators.
Probab=54.25  E-value=16  Score=16.65  Aligned_cols=94  Identities=15%  Similarity=0.117  Sum_probs=53.0

Q ss_pred             HHHHHHHHCCCCCCCCEEEECCCCCCCCCCCH--HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHH-HHHHHHHCCCCC
Q ss_conf             99999982520057533897068888778882--799999999749998781111014665777999-999976236864
Q gi|255764508|r   99 ETMRLYKSCKQHSMHCTIIISGGDPQKHGLAE--SIVYNNKLLESGVERDDIKLETQSLDTFQNAQF-SSSMIKNMQGKN  175 (242)
Q Consensus        99 ~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E--a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~-~~~il~~~~~~~  175 (242)
                      .+-.|+.+|..     +|.+=+|........+  -+..++.+.+.|++.+..+..... .+.+.... .++++++ +..+
T Consensus       107 a~~~L~~~G~~-----~I~~i~~~~~~~~~~~~R~~gf~~a~~~~g~~~~~~~i~~~~-~~~~~~~~~~~~l~~~-~~~~  179 (268)
T cd06298         107 ATELLIKNGHK-----KIAFISGPLEDSINGDERLAGYKEALSEANIEFDESLIFEGD-YTYESGYELAEELLED-GKPT  179 (268)
T ss_pred             HHHHHHHCCCC-----EEEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHEECCC-HHHHHHHHHHHHHHHC-CCCC
T ss_conf             99999972996-----699996787776259999999999999849997601200354-0377899999999836-9997


Q ss_pred             EEEECCHHHHHHHHHHHHHCCCEE
Q ss_conf             088534588999999999769818
Q gi|255764508|r  176 IILVSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       176 vilVTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      .++.+++.....++..++..|+++
T Consensus       180 ai~~~nD~~A~g~l~~l~~~g~~v  203 (268)
T cd06298         180 AAFVTDDELAIGILNAAQDAGLKV  203 (268)
T ss_pred             EEEECCHHHHHHHHHHHHHCCCCC
T ss_conf             899668799999999999749999


No 90 
>pfam07788 DUF1626 Protein of unknown function (DUF1626). This is a family consisting of sequences from hypothetical proteins of unknown function expressed by certain species of archaebacteria. One member is thought to be similar to tropomyosin.
Probab=54.02  E-value=16  Score=16.63  Aligned_cols=25  Identities=20%  Similarity=0.379  Sum_probs=13.9

Q ss_pred             CCCEEEECCHHHHHHHHHHHHHCCCE
Q ss_conf             86408853458899999999976981
Q gi|255764508|r  173 GKNIILVSSAYHLKRSQLYFQHFGIN  198 (242)
Q Consensus       173 ~~~vilVTsa~Hm~RA~~~f~~~gi~  198 (242)
                      .++.++||..-| +||+..+++.|++
T Consensus        46 ~~rlivItP~id-~ra~~~A~~LGIe   70 (70)
T pfam07788        46 VDRLIVVTPFID-DRARAMAKDLGIE   70 (70)
T ss_pred             CCEEEEECCCCC-HHHHHHHHHHCCC
T ss_conf             762899846659-7899999982989


No 91 
>PRK03767 TrpR binding protein WrbA; Provisional
Probab=54.00  E-value=16  Score=16.62  Aligned_cols=75  Identities=23%  Similarity=0.159  Sum_probs=41.0

Q ss_pred             CCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHH--HHHH
Q ss_conf             46454568758999625213777765554346820589999999999825200575338970688887788827--9999
Q gi|255764508|r   58 LSPQWKKDGNIIVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAES--IVYN  135 (242)
Q Consensus        58 ~~~~~~~~~d~IVVLGgG~~~~~~~~~~~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea--~~m~  135 (242)
                      ..+++...+|+||. |.        |...+.+......=++..-.+|.+++-.+...-.+.|.|...+.  -|.  ..|.
T Consensus        62 a~~~dL~~aDgiif-Gs--------PT~~G~~aaq~K~F~D~t~~~W~~g~l~gK~a~~FTssgs~~Gg--qe~TL~~~~  130 (200)
T PRK03767         62 ATPQELADYDAIIF-GT--------PTRFGNMAGQMRNFLDQTGGLWASGALVGKVGSVFTSTGTQHGG--QESTITSTW  130 (200)
T ss_pred             CCHHHHHHCCEEEE-CC--------CCCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCC--HHHHHHHHH
T ss_conf             78999973772263-27--------75567754999999997568886191147457999627999887--899999999


Q ss_pred             HHHHHCCC
Q ss_conf             99997499
Q gi|255764508|r  136 NKLLESGV  143 (242)
Q Consensus       136 ~~l~~~Gv  143 (242)
                      .++.+.|.
T Consensus       131 ~~~~hhGM  138 (200)
T PRK03767        131 TTLLHHGM  138 (200)
T ss_pred             HHHHHCCE
T ss_conf             99997787


No 92 
>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=52.57  E-value=10  Score=17.96  Aligned_cols=133  Identities=17%  Similarity=0.134  Sum_probs=70.8

Q ss_pred             EEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCC-CCCCH-H-------HHHHHH--
Q ss_conf             999625213777765554346820589999999999825200575338970688887-78882-7-------999999--
Q gi|255764508|r   69 IVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQK-HGLAE-S-------IVYNNK--  137 (242)
Q Consensus        69 IVVLGgG~~~~~~~~~~~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~-~~~~E-a-------~~m~~~--  137 (242)
                      +=+|=||...-.+.|....-+.       .+|+.+.++- ++..+++++.===+..+ +-++| +       .-|++|  
T Consensus        53 a~~LRGGAfKPRTSPYsFQGlg-------~~gl~~l~~A-~~~~GL~~vTEvmd~~d~e~~~~y~D~lQiGARNmQNF~L  124 (262)
T TIGR01361        53 AKILRGGAFKPRTSPYSFQGLG-------EEGLKLLRRA-ADETGLPVVTEVMDPRDVEIVAEYADILQIGARNMQNFEL  124 (262)
T ss_pred             CCEEECCCCCCCCCCCCCCCCH-------HHHHHHHHHH-HHHCCCEEEEEEECHHHHHHHHHHHHHHHHCCCCCCCHHH
T ss_conf             4043066348888884124741-------8999999999-9860994898863625677787651134222541225699


Q ss_pred             HHHCCCCHHHHHCCHHHH-HHHHHHHHHHHHHHHCC-CCCEEEECCHHHHHHHHHHHHHC---CCE-----------EEE
Q ss_conf             997499987811110146-65777999999976236-86408853458899999999976---981-----------899
Q gi|255764508|r  138 LLESGVERDDIKLETQSL-DTFQNAQFSSSMIKNMQ-GKNIILVSSAYHLKRSQLYFQHF---GIN-----------TKA  201 (242)
Q Consensus       138 l~~~Gv~~~~I~~e~~s~-nT~ena~~~~~il~~~~-~~~vilVTsa~Hm~RA~~~f~~~---gi~-----------~~p  201 (242)
                      |.+.|= .++=++-.++. ||.||-.++++.+-+.| ..+|||+      -|=.++|++.   .+|           .-|
T Consensus       125 L~~vG~-~~KPVLLKRG~~aTi~EwL~AAEYIl~~GsN~~ViLC------ERGIRTfE~~TR~TLD~saV~~~K~~tHLP  197 (262)
T TIGR01361       125 LKEVGK-QGKPVLLKRGMGATIEEWLEAAEYILSEGSNGNVILC------ERGIRTFEKSTRNTLDLSAVPLLKKETHLP  197 (262)
T ss_pred             HHHHHH-CCCCEEEECCCCHHHHHHHHHHHHHHHCCCCCCEEEE------ECCCCCCCCHHHHHHHHHHHHHHHHCCCCC
T ss_conf             999722-3797553077215899999999999846889954899------758567630024533378999998605898


Q ss_pred             EECC--CCCCCCCCCCC
Q ss_conf             8426--64431113754
Q gi|255764508|r  202 SCSD--YLNAYYSIIPL  216 (242)
Q Consensus       202 ~~~d--~~~~~~~~~p~  216 (242)
                      +-+|  |-++.+++.++
T Consensus       198 i~VDPSH~~GrRdLV~p  214 (262)
T TIGR01361       198 IIVDPSHAAGRRDLVLP  214 (262)
T ss_pred             EEECCCCCCCHHHHHHH
T ss_conf             78718798762457889


No 93 
>TIGR02197 heptose_epim ADP-L-glycero-D-manno-heptose-6-epimerase; InterPro: IPR011912   Lipopolysaccharides (LPS) are glycolipids that consitutes the outer monolayer of the outer membranes of most Gram-negative bacteria . They consist of lipid A (endotoxin) which anchors LPS to the outer membrane, a non-repeating core oligosachharide, and an immunogenic O-antigen repeat polymer, which is an oligosaccharide of 1-40 units that variesbetween different strains of bacteria. Although the O-antigen and most of the core domain are not necessary for growth in the lab, they appear to help bacteria resist environmental stresses including the complement system and antibiotics.   This family consists of examples of ADP-L-glycero-D-mannoheptose-6-epimerase, an enzyme involved in biosynthesis of the inner core of LPS in Gram-negative bacteria . This enzyme is homologous to UDP-glucose 4-epimerase (IPR005886 from INTERPRO) and belongs to the NAD dependent epimerase/dehydratase family. It participates in the biosynthetic pathway leading to incorporation of heptose, a conserved sugar, into the core region of LPS, performing the reaction shown below: ADP-D-glycero-D-manno-heptose = ADP-L-glycero-D-manno-heptose It is a homopentameric enzyme with each monomer composed of two domains: an N-terminal modified Rossman fold domain for NADP binding, and a C-terminal substrate binding domain.; GO: 0008712 ADP-glyceromanno-heptose 6-epimerase activity, 0050661 NADP binding, 0005975 carbohydrate metabolic process.
Probab=52.23  E-value=5.9  Score=19.46  Aligned_cols=59  Identities=12%  Similarity=0.075  Sum_probs=33.3

Q ss_pred             CCHHHHHHHHHHH---CCCCHHH-HHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHHHCCCEEE
Q ss_conf             8827999999997---4999878-11110146657779999999762368640885345889999999997698189
Q gi|255764508|r  128 LAESIVYNNKLLE---SGVERDD-IKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQHFGINTK  200 (242)
Q Consensus       128 ~~Ea~~m~~~l~~---~Gv~~~~-I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa~Hm~RA~~~f~~~gi~~~  200 (242)
                      +...+........   .+ .-+. ++.--.|.||..|..+   +++          |+--=.+|-+-++...+++.+
T Consensus        65 i~k~~~~~~l~~~~~~~~-~~~avfH~GAcS~TTe~D~~~---~m~----------nN~~ys~~Ll~~c~~~~~~~I  127 (353)
T TIGR02197        65 IDKDDLLDRLEKGSEALG-KIEAVFHQGACSDTTETDGEY---MME----------NNYQYSKRLLDWCAEKGVPFI  127 (353)
T ss_pred             CCCHHHHHHHHHCCCCCC-CCCEEEECCHHHHHHHHHHHH---HHH----------HHHHHHHHHHHHHHHCCCCEE
T ss_conf             588546999983020138-833799733125358862799---998----------899999999999996489868


No 94 
>TIGR00735 hisF imidazoleglycerol phosphate synthase, cyclase subunit; InterPro: IPR004651 Histidine is formed by several complex and distinct biochemical reactions catalysed by eight enzymes. Proteins involved in steps 4 and 6 of the histidine biosynthesis pathway are contained in one family. These enzymes are called His6 and His7 in eukaryotes and HisA and HisF in prokaryotes. HisA is a phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase (), involved in the fourth step of histidine biosynthesis. The bacterial HisF protein is a cyclase which catalyzes the cyclization reaction that produces D-erythro-imidazole glycerol phosphate during the sixth step of histidine biosynthesis. The yeast His7 protein is a bifunctional protein which catalyzes an amido-transferase reaction that generates imidazole-glycerol phosphate and 5-aminoimidazol-4-carboxamide. The latter is the ribonucleotide used for purine biosynthesis. The enzyme also catalyzes the cyclization reaction that produces D-erythro-imidazole glycerol phosphate, and is involved in the fifth and sixth steps in histidine biosynthesis.    This family describes the histidine biosynthesis protein, HisF. ; GO: 0000107 imidazoleglycerol-phosphate synthase activity, 0000105 histidine biosynthetic process, 0005737 cytoplasm, 0009382 imidazoleglycerol-phosphate synthase complex.
Probab=52.09  E-value=16  Score=16.65  Aligned_cols=20  Identities=25%  Similarity=0.424  Sum_probs=13.0

Q ss_pred             CCCEEEECCCCCCCCCCCHH
Q ss_conf             75338970688887788827
Q gi|255764508|r  112 MHCTIIISGGDPQKHGLAES  131 (242)
Q Consensus       112 ~~~~ii~SGg~~~~~~~~Ea  131 (242)
                      ...|+|-|||-|..+...||
T Consensus       256 v~iPVIASGGAG~~eHf~EA  275 (312)
T TIGR00735       256 VKIPVIASGGAGKPEHFYEA  275 (312)
T ss_pred             CCCCEEEECCCCCCCCHHHH
T ss_conf             66565750787985300322


No 95 
>COG0281 SfcA Malic enzyme [Energy production and conversion]
Probab=52.07  E-value=5.8  Score=19.52  Aligned_cols=76  Identities=20%  Similarity=0.413  Sum_probs=38.4

Q ss_pred             HHHHHHHHCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCC
Q ss_conf             99999621245444645456875899962521377776555434682058999999999982520057533897068888
Q gi|255764508|r   45 LLKHLQFSYQRPLLSPQWKKDGNIIVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQ  124 (242)
Q Consensus        45 l~~~le~~~~~~~~~~~~~~~~d~IVVLGgG~~~~~~~~~~~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~  124 (242)
                      +...+..+...|....+  ...++||+|+|                      +..|+++-.+-   -.+.+++++|....
T Consensus       158 ie~~lr~~~~IPvFhDD--qqGTaiv~lA~----------------------llnalk~~gk~---l~d~kiv~~GAGAA  210 (432)
T COG0281         158 IEERLRYRMNIPVFHDD--QQGTAIVTLAA----------------------LLNALKLTGKK---LKDQKIVINGAGAA  210 (432)
T ss_pred             HHHHHHHCCCCCCCCCC--CCHHHHHHHHH----------------------HHHHHHHHCCC---CCCEEEEEECCCHH
T ss_conf             99998634789834545--32799999999----------------------99999984997---22038999677588


Q ss_pred             CCCCCHHHHHHHHHHHCCCCHHHHHCCHH
Q ss_conf             77888279999999974999878111101
Q gi|255764508|r  125 KHGLAESIVYNNKLLESGVERDDIKLETQ  153 (242)
Q Consensus       125 ~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~  153 (242)
                            +-...+.+...|+.+++|++-++
T Consensus       211 ------giaia~~l~~~g~~~~~i~~~D~  233 (432)
T COG0281         211 ------GIAIADLLVAAGVKEENIFVVDR  233 (432)
T ss_pred             ------HHHHHHHHHHHCCCCCCEEEECC
T ss_conf             ------99999999982898445899816


No 96 
>TIGR03234 OH-pyruv-isom hydroxypyruvate isomerase. This enzyme interconverts tartronate semi-aldehyde (TSA, aka 2-hydroxy 3-oxopropionate) and hydroxypyruvate. The E. coli enzyme has been characterized and found to be specific for TSA, contain no cofactors, and have a rather high Km for hydroxypyruvate of 12.5 mM. The gene is ofter found in association with glyoxalate carboligase (which produces TSA), but has been shown to have no effect on growth on glyoxalate when knocked out. This is consistent with the fact that the gene for tartronate semialdehyde reductase (glxR) is also associated and may have primary responsibility for the catabolism of TSA.
Probab=51.71  E-value=17  Score=16.39  Aligned_cols=91  Identities=18%  Similarity=0.274  Sum_probs=49.8

Q ss_pred             HHHHHHHHHHHHCCCCCCCCEE--EECCCCCCCCCCCHH--------HHHHHHHHHCCCCHHHHHCCHH--------HHH
Q ss_conf             9999999999825200575338--970688887788827--------9999999974999878111101--------466
Q gi|255764508|r   95 SRIFETMRLYKSCKQHSMHCTI--IISGGDPQKHGLAES--------IVYNNKLLESGVERDDIKLETQ--------SLD  156 (242)
Q Consensus        95 ~Rl~~a~~L~~~~~~~~~~~~i--i~SGg~~~~~~~~Ea--------~~m~~~l~~~Gv~~~~I~~e~~--------s~n  156 (242)
                      +.+..++++.+.-     +++.  +++|..+.+....++        ....+++.+.||   ++.+|+-        -.|
T Consensus        84 ~~~~~ai~~a~~l-----g~~~i~~~~G~~~~~~~~e~~~~~~~e~l~~~a~~a~~~Gv---~l~iEpln~~e~~g~~i~  155 (254)
T TIGR03234        84 EGVALAIAYARAL-----GCPQVNCLAGKRPAGVSPEEARATLVENLRYAADALDRIGL---TLLIEPINSFDMPGFFLT  155 (254)
T ss_pred             HHHHHHHHHHHHH-----CCCEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCC---EEEEEECCHHCCCCCHHC
T ss_conf             7389999999996-----89868867568888999899999999999999999996598---898863562116986107


Q ss_pred             HHHHHHHHHHHHHHCCCCCEEEECCHHHHHHH----HHHHHHCC
Q ss_conf             57779999999762368640885345889999----99999769
Q gi|255764508|r  157 TFQNAQFSSSMIKNMQGKNIILVSSAYHLKRS----QLYFQHFG  196 (242)
Q Consensus       157 T~ena~~~~~il~~~~~~~vilVTsa~Hm~RA----~~~f~~~g  196 (242)
                      |.+.+.   ++++.-+.+++-+.=+.|||.+.    ...+++.+
T Consensus       156 t~~~a~---~lv~~v~~p~v~l~~D~~H~~~~~~d~~~~i~~~~  196 (254)
T TIGR03234       156 TTEQAL---AVIDDVGRENLKLQYDLYHMQRMGGDLARTLAAYA  196 (254)
T ss_pred             CHHHHH---HHHHHHCCCCEEEEEECHHHHHCCCCHHHHHHHCC
T ss_conf             999999---99998087765688870565744889999999703


No 97 
>pfam00154 RecA recA bacterial DNA recombination protein. RecA is a DNA-dependent ATPase and functions in DNA repair systems. RecA protein catalyses an ATP-dependent DNA strand-exchange reaction that is the central step in the repair of dsDNA breaks by homologous recombination.
Probab=51.54  E-value=18  Score=16.37  Aligned_cols=51  Identities=24%  Similarity=0.227  Sum_probs=34.3

Q ss_pred             CHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECC
Q ss_conf             82799999999749998781111014665777999999976236864088534
Q gi|255764508|r  129 AESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSS  181 (242)
Q Consensus       129 ~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTs  181 (242)
                      +|...-.+|+..+||+.+++++-.-  +|.|++....+.+-+.+...+++|-|
T Consensus        88 ~E~a~d~~~a~~lGVD~~~l~~~qp--d~~Eqal~i~~~li~~~~~~liViDS  138 (322)
T pfam00154        88 AEHALDPVYAKKLGVDIDNLLVSQP--DTGEQALEIADMLVRSGAVDLIVVDS  138 (322)
T ss_pred             HHHHCCHHHHHHCCCCHHHEEEECC--CHHHHHHHHHHHHHCCCCCCEEEEEC
T ss_conf             3660598899980988025389778--83999999999985379976599825


No 98 
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia.  This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=50.95  E-value=18  Score=16.32  Aligned_cols=94  Identities=9%  Similarity=0.020  Sum_probs=49.6

Q ss_pred             HHHHHHHHCCCCCCCCEEEECCCCCCCCCCCH-HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEE
Q ss_conf             99999982520057533897068888778882-79999999974999878111101466577799999997623686408
Q gi|255764508|r   99 ETMRLYKSCKQHSMHCTIIISGGDPQKHGLAE-SIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNII  177 (242)
Q Consensus        99 ~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E-a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vi  177 (242)
                      .+-.|.+.|..     +|.+-||........+ -+..++.+.+.|++.+.........+..+.....++++++ ++ +.+
T Consensus       107 a~~~L~~~G~~-----~i~~i~~~~~~~~~~~R~~gf~~a~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~-~p-~ai  179 (265)
T cd06299         107 AVSLLVALGHK-----KIGYISGPQDTSTGRERLEAFRQACASLGLEVNEDLVVLGGYSQESGYAGATKLLDQ-GA-TAI  179 (265)
T ss_pred             HHHHHHHCCCC-----EEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCCEEEEECCCHHHHHHHHHHHHHC-CC-CEE
T ss_conf             99999974998-----388604898875699999999999997699999305998403557899999999963-99-854


Q ss_pred             EECCHHHHHHHHHHHHHCCCEE
Q ss_conf             8534588999999999769818
Q gi|255764508|r  178 LVSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       178 lVTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      +.+++..-.-++..++..|+.+
T Consensus       180 ~~~nD~~A~g~~~~l~~~g~~v  201 (265)
T cd06299         180 IAGDSMMTIGAIRAIHDAGLVI  201 (265)
T ss_pred             ECCCCHHHHHHHHHHHHHCCCC
T ss_conf             5068588999999999838999


No 99 
>cd00983 recA RecA is a  bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response.  RecA couples ATP hydrolysis to DNA strand exchange.
Probab=50.48  E-value=18  Score=16.27  Aligned_cols=51  Identities=22%  Similarity=0.197  Sum_probs=34.4

Q ss_pred             CHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECC
Q ss_conf             82799999999749998781111014665777999999976236864088534
Q gi|255764508|r  129 AESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSS  181 (242)
Q Consensus       129 ~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTs  181 (242)
                      +|...-.+++..+||+.++++.-.-  +|.|++....+-+-+.+...+++|-|
T Consensus        91 aE~a~d~~~a~~lGVD~~~l~~~qp--~~~Eq~l~i~~~li~s~~~dliViDS  141 (325)
T cd00983          91 AEHALDPVYAKKLGVDLDNLLISQP--DTGEQALEIADSLVRSGAVDLIVVDS  141 (325)
T ss_pred             HHHCCCHHHHHHCCCCHHHEEEECC--CHHHHHHHHHHHHHCCCCCCEEEECC
T ss_conf             2542598999980998467589666--38999999999975158876799815


No 100
>PRK09967 putative outer membrane lipoprotein; Provisional
Probab=49.67  E-value=19  Score=16.19  Aligned_cols=68  Identities=13%  Similarity=0.095  Sum_probs=44.2

Q ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCC-------CCH--HHHHHHHHHHCC-CCHHHHHC
Q ss_conf             76555434682058999999999982520057533897068888778-------882--799999999749-99878111
Q gi|255764508|r   81 TIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHG-------LAE--SIVYNNKLLESG-VERDDIKL  150 (242)
Q Consensus        81 ~~~~~~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~-------~~E--a~~m~~~l~~~G-v~~~~I~~  150 (242)
                      -.+.....+..++...+.+-+...++.+.    .++.+.| .....|       .+|  |++.++++.+.| ||+++|..
T Consensus        55 ~Fd~d~~~L~~~s~~~L~~~A~~L~~~p~----~~v~I~G-HTD~~G~~~yN~~LS~rRA~aV~~~l~~~g~i~~~ri~~  129 (160)
T PRK09967         55 LFAKNDYKLLPESQQQIQTMAAKLASTGL----THARMDG-HTDNYGEDSYNEGLSLKRANVVADAWAMGGQIPRSNLTT  129 (160)
T ss_pred             EECCCCCCCCHHHHHHHHHHHHHHHHCCC----CEEEEEE-ECCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEE
T ss_conf             92699501199899999999999997899----6299987-479989989999999999999999998537854435899


Q ss_pred             CHH
Q ss_conf             101
Q gi|255764508|r  151 ETQ  153 (242)
Q Consensus       151 e~~  153 (242)
                      ...
T Consensus       130 ~g~  132 (160)
T PRK09967        130 QGL  132 (160)
T ss_pred             EEC
T ss_conf             964


No 101
>PRK12861 malic enzyme; Reviewed
Probab=49.43  E-value=9  Score=18.25  Aligned_cols=69  Identities=10%  Similarity=0.128  Sum_probs=32.7

Q ss_pred             HHHHHHHHHHHCCCCHHHHHCCHHHHHHHH-----HHHHHHHHHHHC-------CCCCEEEEC-CHHHHHHHHHHHHHCC
Q ss_conf             279999999974999878111101466577-----799999997623-------686408853-4588999999999769
Q gi|255764508|r  130 ESIVYNNKLLESGVERDDIKLETQSLDTFQ-----NAQFSSSMIKNM-------QGKNIILVS-SAYHLKRSQLYFQHFG  196 (242)
Q Consensus       130 Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~e-----na~~~~~il~~~-------~~~~vilVT-sa~Hm~RA~~~f~~~g  196 (242)
                      .+.+.++-+++-||....|.=-+.=+...+     .....+.+...-       +.+||++-- ..--+.||-..+..+|
T Consensus       391 v~~ava~aa~~sgva~~~i~d~~~Y~~~L~~rl~~s~~~mr~i~~~ak~~~r~~~pKRIVFaEGEdeRVLRAAq~~~dEG  470 (762)
T PRK12861        391 IAPAVAKAAMEGGVATRPLADLDAYVEQLQQFVYHSGAFMKPLFATARQLVRDGGKARIVFTEGEDERVLRAVQVIVDEK  470 (762)
T ss_pred             HCHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCEEEECCCCCHHHHHHHHHHHHCC
T ss_conf             05999999986287668824699999999977672388999999999754235687469924887768999999999749


Q ss_pred             CE
Q ss_conf             81
Q gi|255764508|r  197 IN  198 (242)
Q Consensus       197 i~  198 (242)
                      +-
T Consensus       471 ia  472 (762)
T PRK12861        471 LA  472 (762)
T ss_pred             CC
T ss_conf             84


No 102
>COG2117 Predicted subunit of tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]
Probab=47.60  E-value=19  Score=16.16  Aligned_cols=13  Identities=15%  Similarity=0.026  Sum_probs=7.3

Q ss_pred             HHHHHHHHHCCCC
Q ss_conf             9999999825200
Q gi|255764508|r   98 FETMRLYKSCKQH  110 (242)
Q Consensus        98 ~~a~~L~~~~~~~  110 (242)
                      .+|+-|-+-|...
T Consensus        15 LaA~iL~klgyev   27 (198)
T COG2117          15 LAALILDKLGYEV   27 (198)
T ss_pred             HHHHHHHHHCCCC
T ss_conf             8999998717871


No 103
>TIGR02351 thiH thiazole biosynthesis protein ThiH; InterPro: IPR012726    Members of this protein family are the ThiH proteins involved in thiamine biosynthesis. They are homologues of the BioB protein of biotin biosynthesis. Genes encoding these proteins are generally found in operons with other thiamin biosynthesis genes. ; GO: 0005506 iron ion binding, 0051539 4 iron 4 sulfur cluster binding, 0009228 thiamin biosynthetic process.
Probab=47.49  E-value=20  Score=15.97  Aligned_cols=21  Identities=19%  Similarity=0.444  Sum_probs=10.3

Q ss_pred             HHHHHHHHHHCCCEEEEEECC
Q ss_conf             999999999769818998426
Q gi|255764508|r  185 LKRSQLYFQHFGINTKASCSD  205 (242)
Q Consensus       185 m~RA~~~f~~~gi~~~p~~~d  205 (242)
                      .++++-.|...+|+|+|.-+|
T Consensus       146 ~~l~k~~F~~l~iEv~Pl~~e  166 (378)
T TIGR02351       146 IKLAKEYFSSLAIEVQPLTEE  166 (378)
T ss_pred             HHHHHHHCCCCEEEEEECCHH
T ss_conf             999875278544887307704


No 104
>TIGR01481 ccpA catabolite control protein A; InterPro: IPR006377   Catabolite control protein A is a LacI family global transcriptional regulator found in Gram-positive bacteria. CcpA is involved in repressing carbohydrate utilization genes [ex: alpha-amylase (amyE), acetyl-coenzyme A synthase (acsA)] and in activating genes involved in transporting excess carbon from the cell [e.g. acetate kinase (ackA), alpha-acetolactate synthase (alsS)]. Additionally, disruption of CcpA in Bacillus megaterium, Staphylococcus xylosus, Lactobacillus casei and Lactocacillus pentosus also decreases growth rate, which suggests CcpA is involved in the regulation of other metabolic pathways.; GO: 0030528 transcription regulator activity, 0045449 regulation of transcription.
Probab=47.48  E-value=20  Score=15.97  Aligned_cols=124  Identities=15%  Similarity=0.137  Sum_probs=73.7

Q ss_pred             EEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEE-EECCCCCCC-CCCCHHHHHHHHHHHCCCCHHH
Q ss_conf             99625213777765554346820589999999999825200575338-970688887-7888279999999974999878
Q gi|255764508|r   70 VLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTI-IISGGDPQK-HGLAESIVYNNKLLESGVERDD  147 (242)
Q Consensus        70 VVLGgG~~~~~~~~~~~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~i-i~SGg~~~~-~~~~Ea~~m~~~l~~~Gv~~~~  147 (242)
                      |||.|-...+...|+...       |+..++-+.-...-+++. -+| ++||..... ++..--.-.++-|.+.||+=+.
T Consensus       142 VVLAGt~D~~~~~pSVNI-------Dy~~A~kEav~~l~~~Gh-K~iAfv~G~L~~~~N~~~~l~GykE~L~~~gI~~~e  213 (332)
T TIGR01481       142 VVLAGTVDKENELPSVNI-------DYKQATKEAVKELIAKGH-KKIAFVSGSLSDSVNGEVRLEGYKEALKKAGIAYEE  213 (332)
T ss_pred             EEEECCCCCCCCCCCCCC-------CHHHHHHHHHHHHHHCCC-CEEEEEECCCCCCCCCEECCCHHHHHHHHCCCCCCC
T ss_conf             899535486546773101-------678999999999863358-268887367571104520133046788736874142


Q ss_pred             -HHCCHHHHHHHHHHHHHHHHHHHCCC-CCEEEECCHHHHHHHHHHHHHCCCEEEEEECCC
Q ss_conf             -11110146657779999999762368-640885345889999999997698189984266
Q gi|255764508|r  148 -IKLETQSLDTFQNAQFSSSMIKNMQG-KNIILVSSAYHLKRSQLYFQHFGINTKASCSDY  206 (242)
Q Consensus       148 -I~~e~~s~nT~ena~~~~~il~~~~~-~~vilVTsa~Hm~RA~~~f~~~gi~~~p~~~d~  206 (242)
                       .+.|  |.=.|..-.-..+-|...+. .+.++|+|+=---=.+--+-..|++   +|-|+
T Consensus       214 ~L~~~--~~YsY~~G~K~~~~l~~s~p~~tAv~v~~DE~A~G~lnaa~D~Gi~---VPeDL  269 (332)
T TIGR01481       214 DLVIE--AKYSYDAGVKLAAELLESSPKITAVVVADDELAIGILNAALDAGIK---VPEDL  269 (332)
T ss_pred             CEEEE--CCCCCHHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHHHHHCCCC---CCCCC
T ss_conf             21330--4555044699999998538996589981828899999999857898---87645


No 105
>cd06277 PBP1_LacI_like_1 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold.  As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=47.47  E-value=20  Score=15.97  Aligned_cols=94  Identities=15%  Similarity=0.058  Sum_probs=50.5

Q ss_pred             HHHHHHHHCCCCCCCCEEEECCCCCCCCCCCH-HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEE
Q ss_conf             99999982520057533897068888778882-79999999974999878111101466577799999997623686408
Q gi|255764508|r   99 ETMRLYKSCKQHSMHCTIIISGGDPQKHGLAE-SIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNII  177 (242)
Q Consensus        99 ~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E-a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vi  177 (242)
                      .+-.|.+.|..     +|.+-||........| -+..++.+.+.|++.+.-+......+..+.+....+.++  +..+.+
T Consensus       109 a~~~L~~~Ghr-----~I~~i~~~~~~~~~~~R~~Gf~~al~~~gl~~~~~~~~~~~~~~~~~~~~~~~~~~--~~ptAi  181 (268)
T cd06277         109 ATEYLIEKGHR-----KIGFVGDPLYSPSFEERYEGYKKALLDHGIPFNEDYDITEKEEDEEDIGKFIDELK--PLPTAF  181 (268)
T ss_pred             HHHHHHHCCCC-----CEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEECCCCHHHHHHHHHHHCC--CCCCEE
T ss_conf             99999970998-----36997278888129999999999999859999822466258777999999998478--899879


Q ss_pred             EECCHHHHHHHHHHHHHCCCEE
Q ss_conf             8534588999999999769818
Q gi|255764508|r  178 LVSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       178 lVTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      +.+++....-++..++..|+++
T Consensus       182 ~~~nD~~A~g~~~~l~~~g~~v  203 (268)
T cd06277         182 FCSNDGVAFLLIKVLKEMGIRV  203 (268)
T ss_pred             EECCHHHHHHHHHHHHHCCCCC
T ss_conf             9688599999999999859999


No 106
>PRK10510 putative outer membrane lipoprotein; Provisional
Probab=46.99  E-value=21  Score=15.92  Aligned_cols=79  Identities=16%  Similarity=0.222  Sum_probs=52.3

Q ss_pred             CEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCC-------CCH--HHHHHHH
Q ss_conf             5899962521377776555434682058999999999982520057533897068888778-------882--7999999
Q gi|255764508|r   67 NIIVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHG-------LAE--SIVYNNK  137 (242)
Q Consensus        67 d~IVVLGgG~~~~~~~~~~~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~-------~~E--a~~m~~~  137 (242)
                      ..++.+-+.+..+.+    .......+...+..-++..+++|.    ..|-+.| .....|       .||  |+..++|
T Consensus       105 ~l~l~mp~~I~F~~d----sa~l~p~~~~~L~~vA~~L~~yp~----~~V~I~G-HTD~~G~~~yN~~LS~~RA~aV~~y  175 (219)
T PRK10510        105 NIILNMPNNVTFDSS----SATLKPAGANTLTGVAMVLKEYPK----TAVNVVG-YTDSTGSHDLNMRLSQQRADSVASA  175 (219)
T ss_pred             EEEEECCCCCEEECC----CHHCCHHHHHHHHHHHHHHHHCCC----CEEEEEE-EECCCCCHHHHHHHHHHHHHHHHHH
T ss_conf             789967888566188----521296789999999999998899----2799998-7689671999999999999999999


Q ss_pred             HHHCCCCHHHHHCCHHH
Q ss_conf             99749998781111014
Q gi|255764508|r  138 LLESGVERDDIKLETQS  154 (242)
Q Consensus       138 l~~~Gv~~~~I~~e~~s  154 (242)
                      |.+.||++++|.....+
T Consensus       176 L~~~GV~~~Ri~~~G~G  192 (219)
T PRK10510        176 LITQGVDASRIRTQGLG  192 (219)
T ss_pred             HHHCCCCHHHEEEEEEC
T ss_conf             99859995648999876


No 107
>CHL00181 cbbX CbbX; Provisional
Probab=46.12  E-value=21  Score=15.83  Aligned_cols=24  Identities=13%  Similarity=0.315  Sum_probs=10.6

Q ss_pred             HHHHH-HHHHHHHCCCCCEEEECCHH
Q ss_conf             77999-99997623686408853458
Q gi|255764508|r  159 QNAQF-SSSMIKNMQGKNIILVSSAY  183 (242)
Q Consensus       159 ena~~-~~~il~~~~~~~vilVTsa~  183 (242)
                      .+|.. ..+.++.+.. ++++|=..|
T Consensus       145 ~eaidtLl~~me~~~~-~lvvI~AGY  169 (287)
T CHL00181        145 AEAIEILLQVMENQRD-DLVVIFAGY  169 (287)
T ss_pred             HHHHHHHHHHHHHCCC-CEEEEEECC
T ss_conf             9999999999870799-889998467


No 108
>cd01544 PBP1_GalR Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalR is a dimeric protein like GalS and is exclusively involved in the regulation of galactose permease, the low-affinity galactose transporter. GalS is involved in regulating expression of the high-affinity galactose transporter encoded by the mgl operon. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold.  Hence, they are structurally homologous to the periplasmic sugar bindi
Probab=45.95  E-value=21  Score=15.82  Aligned_cols=93  Identities=15%  Similarity=0.160  Sum_probs=53.5

Q ss_pred             HHHHHHHCCCCCCCCEEEECCCCCCCCCCCH------HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHH-HHHHHHHHHCC
Q ss_conf             9999982520057533897068888778882------7999999997499987811110146657779-99999976236
Q gi|255764508|r  100 TMRLYKSCKQHSMHCTIIISGGDPQKHGLAE------SIVYNNKLLESGVERDDIKLETQSLDTFQNA-QFSSSMIKNMQ  172 (242)
Q Consensus       100 a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E------a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena-~~~~~il~~~~  172 (242)
                      +-.|++.|..     +|.+-||........+      -+..++.+.+.|+..+..+.+. . .|.++. ....+++++..
T Consensus       104 ~~~Li~~Ghr-----~I~~i~g~~~~~~~~~~~~~~R~~Gy~~al~~~g~~~~~~~~~~-~-~~~~~g~~~~~~~l~~~~  176 (270)
T cd01544         104 LDYLLELGHT-----RIGFIGGEEKTTDGHEYIEDPRETAFREYMKEKGLYDPELIYIG-D-FTVESGYQLMKEALKSLG  176 (270)
T ss_pred             HHHHHHCCCC-----EEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEEC-C-CCHHHHHHHHHHHHHCCC
T ss_conf             9999977998-----69999577667751225689999999999998599996449966-8-997999999999997288


Q ss_pred             C--CCEEEECCHHHHHHHHHHHHHCCCEE
Q ss_conf             8--64088534588999999999769818
Q gi|255764508|r  173 G--KNIILVSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       173 ~--~~vilVTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      .  .+.++.+++.--.-++..++..|+++
T Consensus       177 ~~~ptAi~~~nD~~A~g~l~~l~~~gl~V  205 (270)
T cd01544         177 DNLPTAFFIASDPMAIGALRALQEAGIKV  205 (270)
T ss_pred             CCCCCEEEECCCHHHHHHHHHHHHCCCCC
T ss_conf             78997899823188999999999879988


No 109
>KOG4038 consensus
Probab=45.13  E-value=8.6  Score=18.38  Aligned_cols=31  Identities=16%  Similarity=0.180  Sum_probs=23.2

Q ss_pred             HHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHH
Q ss_conf             9999999974999878111101466577799999997
Q gi|255764508|r  132 IVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMI  168 (242)
Q Consensus       132 ~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il  168 (242)
                      .+|.++..++|.      ..++|+|||||..+.++--
T Consensus        85 ~i~eewffefgf------vipnstntwqs~ieaapes  115 (150)
T KOG4038          85 RIMEEWFFEFGF------VIPNSTNTWQSTIEAAPES  115 (150)
T ss_pred             EEHHHHHHHHCE------ECCCCCCHHHHHHHHCCHH
T ss_conf             567876444123------4368760689998619143


No 110
>COG2022 ThiG Uncharacterized enzyme of thiazole biosynthesis [Nucleotide transport and metabolism]
Probab=44.84  E-value=22  Score=15.71  Aligned_cols=73  Identities=16%  Similarity=0.126  Sum_probs=55.5

Q ss_pred             HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEE----------EECCHHHHHHHHHHHHHCCCEEE
Q ss_conf             79999999974999878111101466577799999997623686408----------85345889999999997698189
Q gi|255764508|r  131 SIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNII----------LVSSAYHLKRSQLYFQHFGINTK  200 (242)
Q Consensus       131 a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vi----------lVTsa~Hm~RA~~~f~~~gi~~~  200 (242)
                      .+..-+.+...|+.   ++--+.+-.|.|+|+.++++.++-...+++          |--+.+-..+|--..-+.|+.|-
T Consensus        58 ~~~~l~~l~~~~~~---~LPNTaGc~taeEAv~tArlARE~~~t~wiKlEVi~d~~tLlPD~~etl~Aae~Lv~eGF~Vl  134 (262)
T COG2022          58 GDGILDLLIPLGVT---LLPNTAGCRTAEEAVRTARLAREALGTNWIKLEVIGDEKTLLPDPIETLKAAEQLVKEGFVVL  134 (262)
T ss_pred             CCHHHHHHHHCCCE---ECCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCHHHHHHHHHHHHHCCCEEE
T ss_conf             53088774113867---678764558899999999999997069848999936876548875789999999986798885


Q ss_pred             EEECCC
Q ss_conf             984266
Q gi|255764508|r  201 ASCSDY  206 (242)
Q Consensus       201 p~~~d~  206 (242)
                      ||-+|.
T Consensus       135 PY~~dD  140 (262)
T COG2022         135 PYTTDD  140 (262)
T ss_pred             ECCCCC
T ss_conf             036887


No 111
>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=44.83  E-value=22  Score=15.71  Aligned_cols=70  Identities=10%  Similarity=0.118  Sum_probs=41.6

Q ss_pred             HHHHHHHHHHHCCCCHHHHHCCHHHHHHH-HHHHHHHHHHHHCCCCCEE--EECCHHHHHHHHHHHHHCCCEEE
Q ss_conf             27999999997499987811110146657-7799999997623686408--85345889999999997698189
Q gi|255764508|r  130 ESIVYNNKLLESGVERDDIKLETQSLDTF-QNAQFSSSMIKNMQGKNII--LVSSAYHLKRSQLYFQHFGINTK  200 (242)
Q Consensus       130 Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~-ena~~~~~il~~~~~~~vi--lVTsa~Hm~RA~~~f~~~gi~~~  200 (242)
                      -.+.++.++..+|+|--.+.... +.+.+ |.....-+-+++++.+.++  =|-|.+|..|-...+++.|+++.
T Consensus        46 ~~~l~~~qAealgiPl~~~~~~~-~~~~~~~~l~~~L~~~k~~gi~~vv~GdI~s~~qr~~~e~~c~~lgl~~~  118 (194)
T cd01994          46 NHELLELQAEAMGIPLIRIEISG-EEEDEVEDLKELLRKLKEEGVDAVVFGAILSEYQRTRVERVCERLGLEPL  118 (194)
T ss_pred             CHHHHHHHHHHCCCCEEEEECCC-CCCHHHHHHHHHHHHHHHCCCCEEEECCCCCHHHHHHHHHHHHHCCCEEE
T ss_conf             78999999998599669996689-87179999999999999759959999963328899999999997398887


No 112
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=44.76  E-value=22  Score=15.70  Aligned_cols=92  Identities=13%  Similarity=0.059  Sum_probs=52.5

Q ss_pred             HHHHHHHHCCCCCCCCEEEECCCCCCCCCCCH--HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHH-HHHHHHHHHCCCCC
Q ss_conf             99999982520057533897068888778882--7999999997499987811110146657779-99999976236864
Q gi|255764508|r   99 ETMRLYKSCKQHSMHCTIIISGGDPQKHGLAE--SIVYNNKLLESGVERDDIKLETQSLDTFQNA-QFSSSMIKNMQGKN  175 (242)
Q Consensus        99 ~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E--a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena-~~~~~il~~~~~~~  175 (242)
                      .+-.|.+.|..     +|.+-||.... ..+.  -+..++.+.+.|++.+-  ...... +.|.+ ...++++++....+
T Consensus       170 a~~~L~~~Ghr-----rI~~i~~~~~~-~~~~~R~~Gf~~al~~~g~~~~~--~~~~~~-~~~~g~~~~~~ll~~~~~p~  240 (330)
T PRK11303        170 LAESLLKFPAE-----SILLLGALPEL-SVSFLREQGFRQALKDDPREVHF--LYAESF-SREAGAQLFEKWLETHGMPD  240 (330)
T ss_pred             HHHHHHHCCCC-----EEEEEECCCCC-HHHHHHHHHHHHHHHHCCCCEEE--EECCCC-CHHHHHHHHHHHHHCCCCCC
T ss_conf             99999986999-----79999689756-37999999999999967998059--964889-98999999999983799997


Q ss_pred             EEEECCHHHHHHHHHHHHHCCCEE
Q ss_conf             088534588999999999769818
Q gi|255764508|r  176 IILVSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       176 vilVTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      .++..|+.-..-++..++..|+++
T Consensus       241 Ai~~~nD~~A~g~l~al~~~g~~V  264 (330)
T PRK11303        241 ALFTTSYTLLQGVLDVLLERPGKL  264 (330)
T ss_pred             EEEECCHHHHHHHHHHHHHCCCCC
T ss_conf             799748999999999999859999


No 113
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=44.74  E-value=22  Score=15.70  Aligned_cols=91  Identities=13%  Similarity=0.145  Sum_probs=52.9

Q ss_pred             HHHHHHHCCCCCCCCEEEECCCCCCCCCCCH--HHHHHHHHHHCCCCH-HHHHCCHHHHHHHHHHHH-HHHHHHHCCC-C
Q ss_conf             9999982520057533897068888778882--799999999749998-781111014665777999-9999762368-6
Q gi|255764508|r  100 TMRLYKSCKQHSMHCTIIISGGDPQKHGLAE--SIVYNNKLLESGVER-DDIKLETQSLDTFQNAQF-SSSMIKNMQG-K  174 (242)
Q Consensus       100 a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E--a~~m~~~l~~~Gv~~-~~I~~e~~s~nT~ena~~-~~~il~~~~~-~  174 (242)
                      +-.|.++|..     +|.+-||.. ....++  -+..++.+.+.|++. +..+.+...  |.+.... ..+++..... .
T Consensus       167 ~~~L~~~G~~-----~i~~i~~~~-~~~~~~~R~~Gf~~al~~~~~~~~~~~i~~~~~--~~~~g~~~~~~ll~~~~~~p  238 (333)
T COG1609         167 TEHLIELGHR-----RIAFIGGPL-DSSASRERLEGYRAALREAGLPINPEWIVEGDF--SEESGYEAAERLLARGEPRP  238 (333)
T ss_pred             HHHHHHCCCC-----EEEEEECCC-CCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCC--CHHHHHHHHHHHHHCCCCCC
T ss_conf             9999987998-----599996798-772189999999999997599977423661678--87899999999985489999


Q ss_pred             CEEEECCHHHHHHHHHHHHHCCCE
Q ss_conf             408853458899999999976981
Q gi|255764508|r  175 NIILVSSAYHLKRSQLYFQHFGIN  198 (242)
Q Consensus       175 ~vilVTsa~Hm~RA~~~f~~~gi~  198 (242)
                      +.++.+|+.-..-++..++..|+.
T Consensus       239 tAif~~nD~~Alg~l~~~~~~g~~  262 (333)
T COG1609         239 TAIFCANDLMALGALRALRELGLR  262 (333)
T ss_pred             CEEEECCCHHHHHHHHHHHHCCCC
T ss_conf             789987809999999999980899


No 114
>KOG2388 consensus
Probab=44.70  E-value=22  Score=15.70  Aligned_cols=96  Identities=17%  Similarity=0.273  Sum_probs=64.7

Q ss_pred             HHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             99999999982520057533897068888778882799999999749998781111014665777999999976236864
Q gi|255764508|r   96 RIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKN  175 (242)
Q Consensus        96 Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~  175 (242)
                      +-..+.++..++.    .+.++.+||++.--+.+    +.+-+...|++..+=+++..+..+..-..-+.+...+.+.=.
T Consensus        85 ~~~~G~~~i~~~~----~a~~llaGgqgtRLg~~----~pkg~~~~G~~~~~slf~~qae~il~lq~~a~~~~~~~~~I~  156 (477)
T KOG2388          85 WWKEGLRLIAEGK----VAVVLLAGGQGTRLGSS----GPKGCYPIGLPSGKSLFQIQAERILKLQELASMAVSDGVDIP  156 (477)
T ss_pred             HHHCCHHHHHCCC----EEEEEECCCCEEEECCC----CCCCEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCEE
T ss_conf             8761746663586----03899516740311357----875336647756540655349999999997665404688648


Q ss_pred             EEEECCHHHHHHHHHHHHH---CCCEE
Q ss_conf             0885345889999999997---69818
Q gi|255764508|r  176 IILVSSAYHLKRSQLYFQH---FGINT  199 (242)
Q Consensus       176 vilVTsa~Hm~RA~~~f~~---~gi~~  199 (242)
                      +++-||++-+-+..-.|+.   .|++.
T Consensus       157 w~ImtS~~T~e~T~~~f~~~~~FGl~~  183 (477)
T KOG2388         157 WYIMTSAFTHEATLEYFESHKYFGLKP  183 (477)
T ss_pred             EEEECCCCCCHHHHHHHHHCCCCCCCH
T ss_conf             999536886177776775358877774


No 115
>PRK13685 hypothetical protein; Provisional
Probab=44.15  E-value=23  Score=15.64  Aligned_cols=123  Identities=12%  Similarity=0.172  Sum_probs=59.0

Q ss_pred             CCCCCEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCC---CCCCE-EEECCCCCCC--CCCCHHHHHHH
Q ss_conf             568758999625213777765554346820589999999999825200---57533-8970688887--78882799999
Q gi|255764508|r   63 KKDGNIIVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQH---SMHCT-IIISGGDPQK--HGLAESIVYNN  136 (242)
Q Consensus        63 ~~~~d~IVVLGgG~~~~~~~~~~~~~~~~~~~~Rl~~a~~L~~~~~~~---~~~~~-ii~SGg~~~~--~~~~Ea~~m~~  136 (242)
                      ....+.++++-    ....+...+..|     +|+..+-+..+....+   +...- ++++| ....  .-+..-+..++
T Consensus        86 ~~~~~i~l~lD----~S~SM~a~D~~p-----~Rl~~ak~~~~~fi~~~~~~driGlv~Fa~-~a~~~~plT~D~~~~~~  155 (326)
T PRK13685         86 RNRAVVMLVID----VSQSMRATDVEP-----NRLAAAQEAAKQFADQLTPGINLGLIAFAG-TATVLVSPTTNREATKN  155 (326)
T ss_pred             CCCCCEEEEEE----CCCCCCCCCCCC-----CHHHHHHHHHHHHHHHCCCCCEEEEEEECC-CCEECCCCCCCHHHHHH
T ss_conf             57886799998----975655878895-----689999999999997379888289999658-72014898753999999


Q ss_pred             HHHHCCCCHHHHHCCHHHHHHHHHHHHHH-HHHH----------HCCCCCEEEECCHHHH-------H----HHHHHHHH
Q ss_conf             99974999878111101466577799999-9976----------2368640885345889-------9----99999997
Q gi|255764508|r  137 KLLESGVERDDIKLETQSLDTFQNAQFSS-SMIK----------NMQGKNIILVSSAYHL-------K----RSQLYFQH  194 (242)
Q Consensus       137 ~l~~~Gv~~~~I~~e~~s~nT~ena~~~~-~il~----------~~~~~~vilVTsa~Hm-------~----RA~~~f~~  194 (242)
                      .+.+..+.       +  .+-.+++..++ +-++          +...+.++|+|+.-+.       |    -|-.++++
T Consensus       156 ~l~~l~~~-------~--~taiG~ai~~Al~~l~~~~~~~~~~~~~~~~~IILLTDG~~n~g~~~~~p~~~~~AA~~A~~  226 (326)
T PRK13685        156 ALDKLQLA-------D--RTATGEGIFTALQAIATVGAVIGGGDTPPPARIVLFSDGKETVPTNPDNPKGAYTAARTAKD  226 (326)
T ss_pred             HHHHCCCC-------C--CCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEECCCCCCCCCCCCCCCHHHHHHHHHHH
T ss_conf             99846878-------8--88640689999999986332014567778867999748997778898873029999999998


Q ss_pred             CCCEEEEEEC
Q ss_conf             6981899842
Q gi|255764508|r  195 FGINTKASCS  204 (242)
Q Consensus       195 ~gi~~~p~~~  204 (242)
                      .|++++.+..
T Consensus       227 ~gi~IyTIgv  236 (326)
T PRK13685        227 QGVPISTISF  236 (326)
T ss_pred             CCCCEEEEEE
T ss_conf             5994899997


No 116
>TIGR01830 3oxo_ACP_reduc 3-oxoacyl-(acyl-carrier-protein) reductase; InterPro: IPR011284   This entry represents 3-oxoacyl-[ACP] reductase, also called 3-ketoacyl-acyl carrier protein reductase, an enzyme of fatty acid biosynthesis found in many plant and bacterial species. This enzyme is involved in type II fatty acid biosynthesis, where the individual metabolic transformations are carried out by different enzymes rather than by a single enzyme as occurs in type I fatty acid biosynthesis .   Structural studies show that the enzyme is a tetramer which forms a typical Rossman fold , . Unlike other members of the short-chain dehydrogenase/reductase superfamily, the enzyme undergoes a marked conformational change upon binding of the NADP(H)cofactor. This conformational change aligns the side chains of the catalytic triad at the active site in an active conformation and increases the affinity of the enzyme for its substrate.; GO: 0004316 3-oxoacyl-[acyl-carrier-protein] reductase activity, 0051287 NAD binding, 0006633 fatty acid biosynthetic process.
Probab=43.98  E-value=23  Score=15.62  Aligned_cols=53  Identities=15%  Similarity=0.191  Sum_probs=28.7

Q ss_pred             HHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHH
Q ss_conf             999998252005753389706888877888279999999974999878111101466577799
Q gi|255764508|r  100 TMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQ  162 (242)
Q Consensus       100 a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~  162 (242)
                      |.+|.++|      ++++++++..    ..+++.+.+.+.+.|+...-+..+=..++-.+++.
T Consensus        15 A~~LA~~G------a~V~i~y~~~----e~~~~~~~~e~~~~G~~a~~~~~dvs~~~~~~~~~   67 (238)
T TIGR01830        15 ALKLAKEG------AKVIITYRTS----EEGAEEVVEEIKELGVKAAGVVLDVSDREDVKALV   67 (238)
T ss_pred             HHHHHHCC------CEEEEECCCC----HHHHHHHHHHHHHCCCEEEEEEECCCCHHHHHHHH
T ss_conf             99998679------9599965982----57888999999856975999960388889999999


No 117
>PRK04020 rps2P 30S ribosomal protein S2; Provisional
Probab=43.66  E-value=23  Score=15.59  Aligned_cols=132  Identities=14%  Similarity=0.101  Sum_probs=72.1

Q ss_pred             CHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHH-HHHCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             0589999999999825200575338970688887788827999999997499987-811110146657779999999762
Q gi|255764508|r   92 QSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERD-DIKLETQSLDTFQNAQFSSSMIKN  170 (242)
Q Consensus        92 ~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~-~I~~e~~s~nT~ena~~~~~il~~  170 (242)
                      .+.+++..|++..+....    ..|++-|.+...     .+..++++...|.+-= .=|+-.    |..|     +.++.
T Consensus        50 kT~~~L~~A~~~l~~~~~----~~ILfVgtk~qa-----~~~v~~~A~~~g~~yv~~RWlgG----~LTN-----~~l~~  111 (204)
T PRK04020         50 KTDERIRIAAKFLSRYEP----EKILVVSSRQYG-----QKPVKKFAEVVGAKAITGRFIPG----TLTN-----PSLKG  111 (204)
T ss_pred             HHHHHHHHHHHHHHHCCC----CEEEEEECCHHH-----HHHHHHHHHHHCCEEECCCCCCC----CCCC-----HHHCC
T ss_conf             999999999999996079----849999798999-----99999999996990682622798----6568-----31302


Q ss_pred             CCCCCEEEECCHHHHHHHHHHHHHCCCEEEEEE-CCCCCCC-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             368640885345889999999997698189984-2664431-1137545788989999999999999998648
Q gi|255764508|r  171 MQGKNIILVSSAYHLKRSQLYFQHFGINTKASC-SDYLNAY-YSIIPLSANFYLTELALKEYIGILIAYYRGN  241 (242)
Q Consensus       171 ~~~~~vilVTsa~Hm~RA~~~f~~~gi~~~p~~-~d~~~~~-~~~~p~~~~l~~~~~~~~E~ig~l~~~~~g~  241 (242)
                      ..-..+++|+++-.-.-|...+.+.|+.+++.. ||..+.. ..-+|..+.-..+-..+.-.++--+.+.||.
T Consensus       112 ~~ePdlliV~Dp~~e~~AV~EA~~l~IPvIaivDTn~dp~~Vdy~IP~NDds~~SI~Li~~lLa~ail~~kg~  184 (204)
T PRK04020        112 YIEPDVLVVTDPRGDAQAVKEAIEIGIPVVALCDTDNLTSNVDLVIPTNNKGRKALALIYWLLAREILRERGE  184 (204)
T ss_pred             CCCCCEEEEECCCCCHHHHHHHHHCCCCEEEEECCCCCCHHCCEEEECCCCCHHHHHHHHHHHHHHHHHHCCC
T ss_conf             5689989997886304899999876999899827998911157365168830738999999999999997397


No 118
>pfam01936 DUF88 Protein of unknown function DUF88. This highly conserved bacterial protein has no known function. The alignment contains many conserved aspartates, suggesting an enzymatic function such as an endonuclease or glycosyl hydrolase (Bateman A pers. obs).
Probab=43.14  E-value=24  Score=15.54  Aligned_cols=74  Identities=9%  Similarity=0.096  Sum_probs=49.4

Q ss_pred             HHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHH--HHHHHCCCCCEEEECCHHHHHHHHHHHHHCCCEEEEEECC
Q ss_conf             9999999974999878111101466577799999--9976236864088534588999999999769818998426
Q gi|255764508|r  132 IVYNNKLLESGVERDDIKLETQSLDTFQNAQFSS--SMIKNMQGKNIILVSSAYHLKRSQLYFQHFGINTKASCSD  205 (242)
Q Consensus       132 ~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~--~il~~~~~~~vilVTsa~Hm~RA~~~f~~~gi~~~p~~~d  205 (242)
                      ....+.|.+.|+.....-.-...+|+.+.....-  +++.+++.+.++|||++--..++....+..|..+..+...
T Consensus        47 ~~~~~~L~~~Gi~v~~~~~~~~~Kn~~D~~l~vD~~~~~~~~~~d~~ilvsgD~Df~~~~~~lr~~g~~v~~~~~~  122 (140)
T pfam01936        47 RKFPDALSSTGIPVQHKPLTKSGKNAVDVGLAVDALELAYDNNPDTFVLVSGDGDFAPLLERLRERGKRVEVLGAE  122 (140)
T ss_pred             HHHHHHHHHCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCHHHHHHHHHHHHCCCEEEEEECC
T ss_conf             7799999986971899455158765034999999999973389998999926740799999999889999999658


No 119
>COG1509 KamA Lysine 2,3-aminomutase [Amino acid transport and metabolism]
Probab=42.66  E-value=24  Score=15.49  Aligned_cols=97  Identities=14%  Similarity=0.143  Sum_probs=51.7

Q ss_pred             HHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHH-CCHH------HHHHHHHHHHHH
Q ss_conf             589999999999825200575338970688887788827999999997499987811-1101------466577799999
Q gi|255764508|r   93 SYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIK-LETQ------SLDTFQNAQFSS  165 (242)
Q Consensus        93 ~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~-~e~~------s~nT~ena~~~~  165 (242)
                      ..+++.+|++..++.++-.   -+|+|||++-.-...+-+.+-+-|.+  ||--+|+ +-++      .+=|    -...
T Consensus       142 ~~~~~~~al~YIa~hPeI~---eVllSGGDPL~ls~~~L~~ll~~L~~--IpHv~iiRi~TR~pvv~P~RIt----~~L~  212 (369)
T COG1509         142 NKEEWDKALDYIAAHPEIR---EVLLSGGDPLSLSDKKLEWLLKRLRA--IPHVKIIRIGTRLPVVLPQRIT----DELC  212 (369)
T ss_pred             CHHHHHHHHHHHHCCCHHH---EEEECCCCCCCCCHHHHHHHHHHHHC--CCCEEEEEEECCCCEECHHHHC----HHHH
T ss_conf             8899999999997395165---17740787563688999999998754--8964699862467431544406----9999


Q ss_pred             HHHHHCCCCCEEEECCHHHHH-------HHHHHHHHCCCEE
Q ss_conf             997623686408853458899-------9999999769818
Q gi|255764508|r  166 SMIKNMQGKNIILVSSAYHLK-------RSQLYFQHFGINT  199 (242)
Q Consensus       166 ~il~~~~~~~vilVTsa~Hm~-------RA~~~f~~~gi~~  199 (242)
                      +++++. .+.+.++|..-|-.       -|+...++.|+..
T Consensus       213 ~~l~~~-~~~v~~~tH~NHp~Eit~e~~~A~~~L~~aGv~l  252 (369)
T COG1509         213 EILGKS-RKPVWLVTHFNHPNEITPEAREACAKLRDAGVPL  252 (369)
T ss_pred             HHHHCC-CCEEEEECCCCCHHHCCHHHHHHHHHHHHCCCEE
T ss_conf             987235-8607998035883546899999999999759565


No 120
>PRK09354 recA recombinase A; Provisional
Probab=42.63  E-value=24  Score=15.49  Aligned_cols=59  Identities=20%  Similarity=0.196  Sum_probs=38.8

Q ss_pred             CHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECC-HHHHHHHH
Q ss_conf             82799999999749998781111014665777999999976236864088534-58899999
Q gi|255764508|r  129 AESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSS-AYHLKRSQ  189 (242)
Q Consensus       129 ~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTs-a~Hm~RA~  189 (242)
                      +|...-..|+..+||+.+++++-.-  +|.|++....+-+-..+.-.+++|-| +--.||+.
T Consensus        96 aE~ald~~~a~~lGVd~d~llv~qp--d~~Eqal~i~e~Lvrsg~vd~IVvDSVaAL~pk~E  155 (350)
T PRK09354         96 AEHALDPVYAKKLGVDIDNLLVSQP--DTGEQALEIADALVRSGAVDLIVVDSVAALVPKAE  155 (350)
T ss_pred             ECCCCCHHHHHHCCCCHHHEEEECC--CHHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHH
T ss_conf             0002798899984977157178568--67999999999998548841899825334576888


No 121
>PRK00969 hypothetical protein; Provisional
Probab=42.08  E-value=3.5  Score=20.90  Aligned_cols=110  Identities=19%  Similarity=0.215  Sum_probs=61.5

Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCC--CCHHHHHHHHHHHC-------C-CCHHHHHCCHHHHHHH
Q ss_conf             682058999999999982520057533897068888778--88279999999974-------9-9987811110146657
Q gi|255764508|r   89 PSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHG--LAESIVYNNKLLES-------G-VERDDIKLETQSLDTF  158 (242)
Q Consensus        89 ~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~--~~Ea~~m~~~l~~~-------G-v~~~~I~~e~~s~nT~  158 (242)
                      ++.....|+.+|++|.+--..-+ ...+-..-.+-..-|  ..||+   ..+.+.       | ...++|+.++...+|.
T Consensus       286 ~sHtvVG~V~~GiELid~a~~G~-~itv~t~Peri~llG~t~~eA~---~~~~~~gIe~~~dg~~~~daVVV~Q~P~~Tl  361 (508)
T PRK00969        286 LSHTVVGRVTHGIELVDFAEEGD-RLTVKTVPERLDLLGLTLKEAE---ELLEKLGIELEKDGYTGEDAVVVEQDPPTTL  361 (508)
T ss_pred             CCCCEEEEEECCEEEEECCCCCC-EEEEEECCHHHEECCCCHHHHH---HHHHHCCCEEEECCCCCCCCEEEECCCCHHH
T ss_conf             66204678803523320305787-7999957467142289899999---9998669689844777898389965895178


Q ss_pred             HHHHHHHHHHHHCCCCCEEEEC-CHHHHHHHHHHHHHC-CCEEEEE
Q ss_conf             7799999997623686408853-458899999999976-9818998
Q gi|255764508|r  159 QNAQFSSSMIKNMQGKNIILVS-SAYHLKRSQLYFQHF-GINTKAS  202 (242)
Q Consensus       159 ena~~~~~il~~~~~~~vilVT-sa~Hm~RA~~~f~~~-gi~~~p~  202 (242)
                      |=...-+--+..-..++++=|+ -+-+-||+.++||+. |+...|+
T Consensus       362 dIL~~~kV~~~~i~~~~li~IeLydd~AP~s~~yFR~~tGL~~~~V  407 (508)
T PRK00969        362 DILKEGKVTTKGIPPDKLIEIELYDDKAPRSVWYFRKVTGLKTKPV  407 (508)
T ss_pred             HHHHCCCEEEEEECHHHEEEEEECCCCCCHHHHHHHHHCCCCCCCC
T ss_conf             7751581799961868779999746578357899988508752436


No 122
>TIGR02247 HAD-1A3-hyp Epoxide hydrolase N-terminal domain-like phosphatase; InterPro: IPR011945    This entry represents a small clade of sequences from the metazoa and bacteria. In eukaryotes, this domain exists as an N-terminal fusion to the soluble epoxide hydrolase enzyme and has recently been shown to be an active phosphatase, although the nature of the biological substrate is unclear . These appear to be members of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases by general homology and the conservation of all of the recognized catalytic motifs  (although the first motif is unusual in the replacement of the more common aspartate with glycine). The variable domain is found in between motifs 1 and 2, indicating membership in subfamily I and phylogeny and prediction of the alpha helical nature of the variable domain indicate membership in subfamily IA..
Probab=41.94  E-value=12  Score=17.42  Aligned_cols=58  Identities=9%  Similarity=-0.053  Sum_probs=39.1

Q ss_pred             CCHHHHHCCHHHH----HHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHHHCCCEEEE
Q ss_conf             9987811110146----6577799999997623686408853458899999999976981899
Q gi|255764508|r  143 VERDDIKLETQSL----DTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQHFGINTKA  201 (242)
Q Consensus       143 v~~~~I~~e~~s~----nT~ena~~~~~il~~~~~~~vilVTsa~Hm~RA~~~f~~~gi~~~p  201 (242)
                      |+-..+.-+=.|.    --+-|+..+-+.++.+|. +..++|+++|+-|--.+++..+-...|
T Consensus        88 v~~~~~~~~l~s~~q~tkl~p~m~~~i~~~~~~Gf-kt~~lTNN~~l~~GPGmaq~~~~~~~p  149 (228)
T TIGR02247        88 VRIKPVFELLSSEIQVTKLLPEMVKAIKSLRAKGF-KTALLTNNFYLDKGPGMAQEAEEALLP  149 (228)
T ss_pred             CCCCEEEEEEECCEECCCCCHHHHHHHHHHHHCCC-EEEEEECCCCCCCCCCHHHHCCCCCCH
T ss_conf             34310233430640002568789999999975777-588861673056776401220466113


No 123
>TIGR01941 nqrF NADH:ubiquinone oxidoreductase, Na(+)-translocating, F subunit; InterPro: IPR010205   This entry represents the NqrF subunit of the six-protein, Na(+)-pumping NADH-quinone reductase of a number of marine and pathogenic Gram-negative bacteria.; GO: 0016655 oxidoreductase activity acting on NADH or NADPH quinone or similar compound as acceptor, 0051537 2 iron 2 sulfur cluster binding, 0006814 sodium ion transport, 0009276 1-2nm peptidoglycan-based cell wall, 0016021 integral to membrane.
Probab=41.89  E-value=25  Score=15.42  Aligned_cols=14  Identities=7%  Similarity=-0.083  Sum_probs=4.7

Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             14665777999999
Q gi|255764508|r  153 QSLDTFQNAQFSSS  166 (242)
Q Consensus       153 ~s~nT~ena~~~~~  166 (242)
                      -+-.--|+...+++
T Consensus       116 m~i~~~Ee~fgvk~  129 (425)
T TIGR01941       116 MSIEIPEEVFGVKK  129 (425)
T ss_pred             CEEEECEEEECCCC
T ss_conf             77873203423110


No 124
>pfam03599 CdhD CO dehydrogenase/acetyl-CoA synthase delta subunit.
Probab=41.64  E-value=25  Score=15.39  Aligned_cols=85  Identities=21%  Similarity=0.151  Sum_probs=50.5

Q ss_pred             HHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHH-------HHHHHHHHHHHH
Q ss_conf             8999999999982520057533897068888778882799999999749998781111014-------665777999999
Q gi|255764508|r   94 YSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQS-------LDTFQNAQFSSS  166 (242)
Q Consensus        94 ~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s-------~nT~ena~~~~~  166 (242)
                      .+-..+-++|.+++     +|++.+++.    .+..+-..+.+.+.+.|+  ++|++|+.+       ..|++|....++
T Consensus       128 ~~N~~~m~~lA~~~-----~~Pv~v~a~----~dl~~l~~L~~~l~~~Gi--kdlVLDPgT~~~g~~l~~t~~n~~~IRR  196 (384)
T pfam03599       128 LDNYKEIAELALEY-----KHPVLLWSI----NDLNELKNLNRKLLKAGV--KDIVLDPTTEALGYGIKDTIDNFVRIRR  196 (384)
T ss_pred             HHHHHHHHHHHHHC-----CCCEEEECC----CCHHHHHHHHHHHHHCCC--CCEEECCCCCCCCCCHHHHHHHHHHHHH
T ss_conf             98999999999974-----982899748----889999999999997698--5489889886667468999999999999


Q ss_pred             HHHH----CCCCCEEEECCHHHHHHHH
Q ss_conf             9762----3686408853458899999
Q gi|255764508|r  167 MIKN----MQGKNIILVSSAYHLKRSQ  189 (242)
Q Consensus       167 il~~----~~~~~vilVTsa~Hm~RA~  189 (242)
                      ..-+    .+..-+-+.|+++.+.-+.
T Consensus       197 aAlkgdr~lgyPi~~~~~~a~~~~~~~  223 (384)
T pfam03599       197 AAIKGDKDLGFPISSGTTNAWGARESW  223 (384)
T ss_pred             HHHCCCCCCCCCEEECCCCCCHHHHHH
T ss_conf             986579778885551456664036889


No 125
>TIGR03268 methan_mark_3 putative methanogenesis marker protein 3. A single member of this protein family is found in each of the first ten complete genome sequences of archaeal methanogens, and nowhere else. This protein family was detected by the method of partial phylogenetic profiling (see Haft, et al., 2006). The functions of proteins in this family are unknown, but their role is likely one essential to methanogenesis.
Probab=41.61  E-value=3.5  Score=20.93  Aligned_cols=110  Identities=16%  Similarity=0.189  Sum_probs=61.4

Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCC--CCHHHHHHHHHHHC-------C-CCHHHHHCCHHHHHHH
Q ss_conf             682058999999999982520057533897068888778--88279999999974-------9-9987811110146657
Q gi|255764508|r   89 PSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHG--LAESIVYNNKLLES-------G-VERDDIKLETQSLDTF  158 (242)
Q Consensus        89 ~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~--~~Ea~~m~~~l~~~-------G-v~~~~I~~e~~s~nT~  158 (242)
                      ++.....|+.+|++|.+--..- ....+-..-.+-..-|  ..||+   ..+.+.       | ...++|+.++...+|.
T Consensus       283 ~sHtvVG~V~~GiELid~a~~G-~~ltv~t~Peri~llGlt~~eA~---~~~~~~gIe~~~dG~~~~daVVV~Q~P~~Tl  358 (503)
T TIGR03268       283 LSHNVVGHVTRGIELIDIAQEG-DRLSVETEPPRIDLVGLTQEEAE---ELLEELGIELEKEGVDGDDAVVVKQEPPYTL  358 (503)
T ss_pred             CCCCEEEEEECCEEEEEHHCCC-CEEEEEECCHHHEECCCCHHHHH---HHHHHCCCEEEECCCCCCCCEEEECCCCHHH
T ss_conf             6630467880351321031479-77999847457042388899999---9998669689844777898489965894278


Q ss_pred             HHHHHHHHHHHHCCCCCEEEEC-CHHHHHHHHHHHHHC-CCEEEEE
Q ss_conf             7799999997623686408853-458899999999976-9818998
Q gi|255764508|r  159 QNAQFSSSMIKNMQGKNIILVS-SAYHLKRSQLYFQHF-GINTKAS  202 (242)
Q Consensus       159 ena~~~~~il~~~~~~~vilVT-sa~Hm~RA~~~f~~~-gi~~~p~  202 (242)
                      |=...-+--+..-..++++=|+ -+-+-||+.++||+. |+...|+
T Consensus       359 eIL~~~kV~~~~v~~~~vi~IeLydd~AP~s~~yFR~~tGL~~~~V  404 (503)
T TIGR03268       359 DVLKEGKVKVEGVPKDKVIEIELYDDNAPRSVWYFRKFTGLKTKPV  404 (503)
T ss_pred             HHHHCCCEEEEEECHHHEEEEEECCCCCCHHHHHHHHHCCCCCCCC
T ss_conf             7752581799961868779999746578357899988518752436


No 126
>TIGR02416 CO_dehy_Mo_lg carbon-monoxide dehydrogenase, large subunit; InterPro: IPR012780   Carbon monoxide dehydrogenases catalyse the reversible oxidation of carbon monoxide to carbon dioxide as shown below , : CO + H(2)O + A == CO(2) + AH(2) A variety of electron acceptors can be used by these enzymes including ferredoxin, methyl viologen and benzyl viologen. Under anaerobic conditions, carbon monoxide is utilised by a number of methanogenic archaea and acetogenic, sulphate-reducing or phototrophic bacteria. Under aerobic conditions carbon monoxide can be used as sole carbon and energy source by the carboxidotrophic bacteria, a taxonomically diverse group of obligate or facultative chemolithoautotrophic species. The anaerobic dehydrogenases are mostly nickel-containing iron-sulphur enzymes, while the The aerobic enzymes categorised so far are molybdenum-containing iron-sulphur proteins.   This entry represents the large subunit of the molybdenum-containing carbon monoxide dehydrogenase found in aerobic bacteria. This enzyme is a dimer of heterotrimers, where each heterotrimer consists of a small iron-sulphur subunit, a medium FAD-containing flavoprotein subunit and a large molybdopterin-containign subunit which contains the active site , . The large subunit is divided into two domains. The N-terminal domain is composed of mainly of a five-and four-stranded mixed beta-sheet and interacts with the small and medium subunits. The C-terminal domain contains a region which interacts with its counterpart in the overall dimer, providing the main dimer contact, and a beta-sheet surrounded by alpha helices. The active site located in this subunit contains a novel dinuclear heterometal [CuSMo(=O)OH] cluster.; GO: 0005507 copper ion binding, 0018492 carbon-monoxide dehydrogenase (acceptor) activity, 0030151 molybdenum ion binding.
Probab=40.98  E-value=12  Score=17.52  Aligned_cols=32  Identities=22%  Similarity=0.300  Sum_probs=20.7

Q ss_pred             CCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHH
Q ss_conf             88887788827999999997499987811110146
Q gi|255764508|r  121 GDPQKHGLAESIVYNNKLLESGVERDDIKLETQSL  155 (242)
Q Consensus       121 g~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~  155 (242)
                      .+|+++.++=|++++   .++|||+++|.+|+--+
T Consensus       499 sQGQGH~TTyAQIiA---~ELGIP~e~I~v~~GdT  530 (775)
T TIGR02416       499 SQGQGHETTYAQIIA---TELGIPAEDIDVEEGDT  530 (775)
T ss_pred             CCCCCCCCHHHHHHH---HHCCCCCCCEEEECCCC
T ss_conf             369864304666655---55278801106720787


No 127
>PRK13529 malate dehydrogenase; Provisional
Probab=40.45  E-value=13  Score=17.28  Aligned_cols=30  Identities=10%  Similarity=0.227  Sum_probs=12.3

Q ss_pred             CEEEECCCCCCCCCCCHHHHHHHHHHHCCCCH
Q ss_conf             33897068888778882799999999749998
Q gi|255764508|r  114 CTIIISGGDPQKHGLAESIVYNNKLLESGVER  145 (242)
Q Consensus       114 ~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~  145 (242)
                      .++++.|....  ++.-|+...+.+.+.|++.
T Consensus       296 ~riv~~GAGsA--g~GIA~~l~~~~~~~Gls~  325 (563)
T PRK13529        296 QRVVFLGAGSA--GCGIAEQIVAAMVREGLSE  325 (563)
T ss_pred             CEEEEECCCHH--HHHHHHHHHHHHHHCCCCH
T ss_conf             47999657748--7899999999998769998


No 128
>cd06291 PBP1_Qymf_like Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. This group includes the ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. Qymf is a strict anaerobe that could be grown in the presence of borax and its cells are straight rods that produce endospores. This group is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription
Probab=40.33  E-value=26  Score=15.26  Aligned_cols=94  Identities=16%  Similarity=0.121  Sum_probs=54.7

Q ss_pred             HHHHHHHCCCCCCCCEEEECCCCCCCCCCC-H-HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEE
Q ss_conf             999998252005753389706888877888-2-79999999974999878111101466577799999997623686408
Q gi|255764508|r  100 TMRLYKSCKQHSMHCTIIISGGDPQKHGLA-E-SIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNII  177 (242)
Q Consensus       100 a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~-E-a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vi  177 (242)
                      +-.|++.|..     +|.+-+|........ + -+..++.+.+.|++.+.+..+. ..+..+.....++++++.+..+.+
T Consensus       104 ~~~L~~~Ghr-----~I~~i~~~~~~~~~~~~R~~Gf~~al~~~g~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~Ai  177 (265)
T cd06291         104 AEELIERGCK-----HIAHIGGPNNTVSPTNLRYEGFLDVLKENGLEVRIIEIQE-NFDDAEKKEEIKELLEEYPDIDGI  177 (265)
T ss_pred             HHHHHHCCCC-----EEEEEECCCCCCCHHHHHHHHHHHHHHHCCCCCEEEEECC-CCCHHHHHHHHHHHHHCCCCCCEE
T ss_conf             9999973996-----4999966888874899999999999997699960899768-898699999999998559998843


Q ss_pred             EECCHHHHHHHHHHHHHCCCEE
Q ss_conf             8534588999999999769818
Q gi|255764508|r  178 LVSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       178 lVTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      +.+|+.--..++..++..|+++
T Consensus       178 ~~~nD~~A~g~~~al~~~g~~v  199 (265)
T cd06291         178 FASNDLTAILVLKEAQQRGIRV  199 (265)
T ss_pred             ECCCHHHHHHHHHHHHHCCCCC
T ss_conf             2166899999999999819999


No 129
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=40.06  E-value=26  Score=15.24  Aligned_cols=90  Identities=10%  Similarity=0.014  Sum_probs=50.8

Q ss_pred             HHHHHCCCCCCCCEEEECCCCCCCCCCCH-HHHHHHHHHHCCCCHHH--HHCCHHHHHHHHHHH-HHHHHHHHCCCCCEE
Q ss_conf             99982520057533897068888778882-79999999974999878--111101466577799-999997623686408
Q gi|255764508|r  102 RLYKSCKQHSMHCTIIISGGDPQKHGLAE-SIVYNNKLLESGVERDD--IKLETQSLDTFQNAQ-FSSSMIKNMQGKNII  177 (242)
Q Consensus       102 ~L~~~~~~~~~~~~ii~SGg~~~~~~~~E-a~~m~~~l~~~Gv~~~~--I~~e~~s~nT~ena~-~~~~il~~~~~~~vi  177 (242)
                      .|+..|..     +|.+-||........| -+..++.+.+.|++...  ++..   ..+.++.. ..++++......+.+
T Consensus       168 ~L~~~Ghr-----~I~~i~~~~~~~~~~~R~~gf~~al~~~gl~~~~~~~~~~---~~~~~~g~~~~~~ll~~~~~ptAi  239 (327)
T PRK10423        168 YLIDKGHT-----RIACITGPLDKTPARLRLEGYRAAMKRAGLNIPDGYEVTG---DFEFNGGFDAMQQLLAHPLRPQAV  239 (327)
T ss_pred             HHHHCCCC-----EEEEECCCCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEEC---CCCHHHHHHHHHHHHHCCCCCCEE
T ss_conf             99975997-----4999668876617999999999999985999884369960---467378999999998479999845


Q ss_pred             EECCHHHHHHHHHHHHHCCCEE
Q ss_conf             8534588999999999769818
Q gi|255764508|r  178 LVSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       178 lVTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      +..|+..-.-++..++..|+.+
T Consensus       240 ~~~nD~~A~g~~~al~~~g~~i  261 (327)
T PRK10423        240 FTGNDAMAVGVYQALYQAGLQV  261 (327)
T ss_pred             EECCCHHHHHHHHHHHHCCCCC
T ss_conf             5178099999999999869999


No 130
>PTZ00339 UDP-N-acetylglucosamine pyrophosphorylase; Provisional
Probab=40.03  E-value=26  Score=15.23  Aligned_cols=90  Identities=12%  Similarity=0.164  Sum_probs=53.6

Q ss_pred             HHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHH------
Q ss_conf             99999999825200575338970688887788827999999997499987811110146657779999999762------
Q gi|255764508|r   97 IFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKN------  170 (242)
Q Consensus        97 l~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~------  170 (242)
                      -..|+++.++|+.-    -+++.||+|.--|.+....|-    .-|.|..+-+++-.+..    .....++...      
T Consensus        98 ~~~Gl~~I~~gkVa----vlllAGGqGTRLG~~~PKG~~----~igl~s~ksLfql~aer----i~~lq~la~~~~~~~~  165 (499)
T PTZ00339         98 KEVGLEIIKKGEVA----VLILAGGLGTRLGSDKPKGLL----ECTPLKKKSLFQFHCEK----IRRLEEMAAAASGGGD  165 (499)
T ss_pred             HHHHHHHHHCCCEE----EEEECCCCCCCCCCCCCCEEE----ECCCCCCCCHHHHHHHH----HHHHHHHHHHHCCCCC
T ss_conf             99889999739889----999507874667999997111----15899987199999999----9999999887506788


Q ss_pred             CCCCCEEEECCHHHHHHHHHHHHHC---CCE
Q ss_conf             3686408853458899999999976---981
Q gi|255764508|r  171 MQGKNIILVSSAYHLKRSQLYFQHF---GIN  198 (242)
Q Consensus       171 ~~~~~vilVTsa~Hm~RA~~~f~~~---gi~  198 (242)
                      ...-.+++.||..-..-....|+..   |++
T Consensus       166 ~~~ip~yIMTS~~t~~~T~~ff~~~~~FGl~  196 (499)
T PTZ00339        166 DPTIYILVLTSSFNHDQTRQFLQENNFFGLD  196 (499)
T ss_pred             CCCEEEEEECCCCHHHHHHHHHHHCCCCCCC
T ss_conf             8860399977850469999999867777887


No 131
>COG0722 AroG 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]
Probab=39.70  E-value=27  Score=15.20  Aligned_cols=71  Identities=11%  Similarity=0.241  Sum_probs=38.3

Q ss_pred             CCCCEEEECCCC-CCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHH----HHHHHHHHHHC--CCCCEE--EECC
Q ss_conf             575338970688-88778882799999999749998781111014665777----99999997623--686408--8534
Q gi|255764508|r  111 SMHCTIIISGGD-PQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQN----AQFSSSMIKNM--QGKNII--LVSS  181 (242)
Q Consensus       111 ~~~~~ii~SGg~-~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~en----a~~~~~il~~~--~~~~vi--lVTs  181 (242)
                      ++++.+|.-||+ ++......-....+.+.+.|.+ .+|.++-.--|+-.+    ..-.+.++.+.  |.+.+.  +|-|
T Consensus       226 Np~~HvILRGG~~~PNYda~~v~~~~~~l~~~gl~-~~lmID~SH~NS~K~~~~Q~~V~~~v~~Qi~~G~~~I~GvMiES  304 (351)
T COG0722         226 NPDGHVILRGGKKGPNYDAASVAAACEQLEKAGLP-PRLMIDCSHANSGKDYRRQPKVARDVCQQIAAGERAIRGVMIES  304 (351)
T ss_pred             CCCCEEEECCCCCCCCCCHHHHHHHHHHHHHCCCC-CEEEEECCCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEEEH
T ss_conf             98735993179889998989999999999976999-74898646775664766738999999999866876058998701


Q ss_pred             H
Q ss_conf             5
Q gi|255764508|r  182 A  182 (242)
Q Consensus       182 a  182 (242)
                      .
T Consensus       305 ~  305 (351)
T COG0722         305 H  305 (351)
T ss_pred             H
T ss_conf             2


No 132
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB; InterPro: IPR014149   This entry represents TrbB, a protein, which is encoded in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer . TrbB is a homologue of the vir system VirB11 ATPase , and the Flp pilus system ATPase TadA ..
Probab=39.69  E-value=27  Score=15.20  Aligned_cols=78  Identities=12%  Similarity=0.104  Sum_probs=43.4

Q ss_pred             CHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHH-HCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             058999999999982520057533897068888778882799999999749998781-1110146657779999999762
Q gi|255764508|r   92 QSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDI-KLETQSLDTFQNAQFSSSMIKN  170 (242)
Q Consensus        92 ~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I-~~e~~s~nT~ena~~~~~il~~  170 (242)
                      ...+-+.+|+.=      ++   -|+++||-|++. ++=+.+.=+....+..|.+|| ++||.            .-++.
T Consensus       127 aQ~d~l~~Av~a------r~---NIlv~GGTGSGK-TTLaNAlla~I~~l~~P~dR~vIiEDT------------~ElQC  184 (315)
T TIGR02782       127 AQRDVLREAVAA------RK---NILVVGGTGSGK-TTLANALLAEIAKLNDPDDRVVIIEDT------------AELQC  184 (315)
T ss_pred             HHHHHHHHHHHH------CC---CEEEECCCCCCH-HHHHHHHHHHHHHCCCCCCEEEEEECC------------HHHHH
T ss_conf             899999999971------29---889981458857-999999999885216999618998547------------13201


Q ss_pred             CCCCCEEEECCHHH---HHHHHHH
Q ss_conf             36864088534588---9999999
Q gi|255764508|r  171 MQGKNIILVSSAYH---LKRSQLY  191 (242)
Q Consensus       171 ~~~~~vilVTsa~H---m~RA~~~  191 (242)
                      .=.+.|.+=|++-=   |-|-...
T Consensus       185 ~A~N~V~lrT~d~~Gi~M~~LLk~  208 (315)
T TIGR02782       185 AAENLVALRTSDDVGISMTRLLKA  208 (315)
T ss_pred             CCCCEEEEECCCCCCCCHHHHHHH
T ss_conf             378706874489866147888887


No 133
>cd05017 SIS_PGI_PMI_1 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to fructose 6-phosphate, and mannose 6-phosphate to fructose 6-phosphate, respectively at an equal rate. This protein contains two SIS domains. This alignment is based on the first SIS domain.
Probab=39.57  E-value=27  Score=15.19  Aligned_cols=57  Identities=11%  Similarity=-0.005  Sum_probs=42.5

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHHHCCCEEEEEECCCCC
Q ss_conf             81111014665777999999976236864088534588999999999769818998426644
Q gi|255764508|r  147 DIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQHFGINTKASCSDYLN  208 (242)
Q Consensus       147 ~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa~Hm~RA~~~f~~~gi~~~p~~~d~~~  208 (242)
                      -++.-..|=||.|.....++-.+. + -+++.|||.=.|.+   ++++.++..+..|..+.+
T Consensus        46 lvi~~S~SGnTeEtl~~~~~a~~~-g-a~vi~itsGG~L~~---~a~~~~~p~v~iP~g~~P  102 (119)
T cd05017          46 LVIAVSYSGNTEETLSAVEQAKER-G-AKIVAITSGGKLLE---MAREHGVPVIIIPKGLQP  102 (119)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC-C-CEEEEECCCCHHHH---HHHHCCCCEEECCCCCCC
T ss_conf             899992897968999999999985-9-90999849955999---998879998987999995


No 134
>TIGR01846 type_I_sec_HlyB type I secretion system ATPase; InterPro: IPR010132   Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This entry contains one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N terminus, but rather carry signals located toward the extreme C terminus to direct type I secretion.; GO: 0005524 ATP binding, 0008565 protein transporter activity, 0015031 protein transport, 0016021 integral to membrane.
Probab=39.50  E-value=27  Score=15.18  Aligned_cols=54  Identities=17%  Similarity=0.124  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             3999999999999830114899999999999999998999999999996212454
Q gi|255764508|r    2 LLSWIFLIVSYWHLLCQSIRKIFFMSCFMLLFSFIGWGIIPTILLKHLQFSYQRP   56 (242)
Q Consensus         2 ~l~li~lii~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~le~~~~~~   56 (242)
                      .+=++|.++.+..+|..+-... ++.++.++.++..+..++-.|-+.+|+.|++.
T Consensus       267 ~lDl~F~~vF~AVMf~YSp~LT-~vV~~SL~~Y~~~s~~v~p~LRkRVe~kfe~~  320 (703)
T TIGR01846       267 VLDLLFVVVFLAVMFFYSPTLT-GVVIGSLVCYALLSVFVSPILRKRVEDKFERS  320 (703)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             9877788867878876401688-78999999999999985001102357764134


No 135
>cd06196 FNR_like_1 Ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which varies in orientation with respect to the NAD(P) binding domain. The N-terminal region may contain a flavin prosthetic group (as in flavoenzymes) or use flavin as a substrate. Ferredoxin is reduced in the final stage of photosystem I. The flavoprotein Ferredoxin-NADP+ reductase transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) which then transfers a hydride ion to convert NADP+ to NADPH.
Probab=39.49  E-value=22  Score=15.70  Aligned_cols=47  Identities=17%  Similarity=0.156  Sum_probs=21.9

Q ss_pred             EEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHH
Q ss_conf             38970688887788827999999997499987811110146657779999999
Q gi|255764508|r  115 TIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSM  167 (242)
Q Consensus       115 ~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~i  167 (242)
                      .++++||.|-    +=--.|-+.+...|-.. ++.+-. +..|.+.+.+-.++
T Consensus       102 ~lliagG~GI----tP~~sml~~l~~~~~~~-~~~l~~-~~r~~~d~~~~~el  148 (218)
T cd06196         102 GVFIAGGAGI----TPFIAILRDLAAKGKLE-GNTLIF-ANKTEKDIILKDEL  148 (218)
T ss_pred             EEEEECCCCC----HHHHHHHHHHHHCCCCC-CEEEEE-ECCCHHHHHHHHHH
T ss_conf             0999657560----26999999999729989-989999-68988898899999


No 136
>cd02877 GH18_hevamine_XipI_class_III This conserved domain family includes xylanase inhibitor Xip-I, and the class III plant chitinases such as hevamine, concanavalin B, and PPL2, all of which have a glycosyl hydrolase family 18 (GH18) domain. Hevamine is a class III endochitinase that hydrolyzes the linear polysaccharide chains of chitin and peptidoglycan and is important for defense against pathogenic bacteria and fungi.  PPL2 (Parkia platycephala lectin 2) is a class III chitinase from Parkia platycephala seeds that hydrolyzes beta(1-4) glycosidic bonds linking 2-acetoamido-2-deoxy-beta-D-glucopyranose units in chitin.
Probab=38.66  E-value=28  Score=15.10  Aligned_cols=84  Identities=14%  Similarity=0.215  Sum_probs=43.5

Q ss_pred             HHHHHHHHHHHCCCCCCCCEEEEC-CCCCCCCCC---CHHHHHHHHHHHC-C---------------CCHHHHHCCHHHH
Q ss_conf             999999999825200575338970-688887788---8279999999974-9---------------9987811110146
Q gi|255764508|r   96 RIFETMRLYKSCKQHSMHCTIIIS-GGDPQKHGL---AESIVYNNKLLES-G---------------VERDDIKLETQSL  155 (242)
Q Consensus        96 Rl~~a~~L~~~~~~~~~~~~ii~S-Gg~~~~~~~---~Ea~~m~~~l~~~-G---------------v~~~~I~~e~~s~  155 (242)
                      .+.+.+..-+   ++  ..||++| ||.....+.   .+|+..++++-.+ |               ++-=++-+|..+.
T Consensus        60 ~i~~dI~~CQ---~~--GkkVlLSlGG~~g~~~l~s~~~A~~fA~~lw~~fg~g~~~~~~RPfG~avlDG~D~DiE~g~~  134 (280)
T cd02877          60 QLGADIKHCQ---SK--GKKVLLSIGGAGGSYSLSSDADAKDFADYLWNAFGGGTDSGVPRPFGDAVVDGFDFDIEHGSP  134 (280)
T ss_pred             HHHHHHHHHH---HC--CCEEEEECCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCEEEECCEEECCCCCC
T ss_conf             6899999999---87--998999736888861558989999999999997378876677577775133031011127884


Q ss_pred             HHHHHHHHHHHHHHHCCCCCEEEECCHHH
Q ss_conf             65777999999976236864088534588
Q gi|255764508|r  156 DTFQNAQFSSSMIKNMQGKNIILVSSAYH  184 (242)
Q Consensus       156 nT~ena~~~~~il~~~~~~~vilVTsa~H  184 (242)
                      .-+.++...-+-+......+-+++|.|.-
T Consensus       135 ~~y~~l~~~Lr~l~~~~~~k~~~LTaAPq  163 (280)
T cd02877         135 ENYDALAKRLRSLFASDPSKKYYLTAAPQ  163 (280)
T ss_pred             CCHHHHHHHHHHHHCCCCCCEEEEEECCC
T ss_conf             03999999999986147885389985788


No 137
>TIGR02918 TIGR02918 conserved hypothetical protein TIGR02918; InterPro: IPR014267   Members of this entry are found only in Gram-positive bacteria of the Firmicutes lineage, including several species of Staphylococcus, Streptococcus, and Lactobacillus..
Probab=38.60  E-value=6.3  Score=19.28  Aligned_cols=57  Identities=16%  Similarity=0.192  Sum_probs=40.5

Q ss_pred             CCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHHHH
Q ss_conf             8827999999997499987811110146657779999999762368640885345889
Q gi|255764508|r  128 LAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHL  185 (242)
Q Consensus       128 ~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa~Hm  185 (242)
                      .+--+..+.+|.+++...++|++-|+|++- .|..-=+.+++++|..|+.+|=.|=|=
T Consensus       198 YsK~eliayFl~~L~LT~~Di~IlDR~~~d-knliiGQ~Vl~Nkg~AklgVVvHAEHf  254 (511)
T TIGR02918       198 YSKQELIAYFLKQLNLTKKDIIILDRSTGD-KNLIIGQAVLENKGPAKLGVVVHAEHF  254 (511)
T ss_pred             CCHHHHHHHHHHHCCCCCCCEEEEECCCCC-CEEEEEEEEEEECCCEEEEEEEEEEEC
T ss_conf             186999999999606985668999736899-305871388875087028999974636


No 138
>PRK07535 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated
Probab=38.46  E-value=22  Score=15.73  Aligned_cols=105  Identities=14%  Similarity=0.157  Sum_probs=54.4

Q ss_pred             HHHHHHHHHHHHHCCCCCCCCEEEECCCCCCC-CCCCH-----HHHHHHHHHHCCCCHHHHHCCHHH----------HHH
Q ss_conf             89999999999825200575338970688887-78882-----799999999749998781111014----------665
Q gi|255764508|r   94 YSRIFETMRLYKSCKQHSMHCTIIISGGDPQK-HGLAE-----SIVYNNKLLESGVERDDIKLETQS----------LDT  157 (242)
Q Consensus        94 ~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~-~~~~E-----a~~m~~~l~~~Gv~~~~I~~e~~s----------~nT  157 (242)
                      .+|+.+-+.|.|++-+     .+|.---+..+ ....|     ++-+-+.+.+.|+|+++|++|+-.          ..|
T Consensus       102 ~er~~~i~pLakkyga-----~vI~L~~de~Gip~tae~R~~ia~~i~~~a~~~Gi~~edi~~DpLv~~i~t~~~~~~~~  176 (268)
T PRK07535        102 EERLEAVLPLVKKYNA-----PVVALTMDDTGIPKDAEVRLAVAKKLVEKAADFGIPPDDIYIDPLVLPLSAAQTAGVEV  176 (268)
T ss_pred             HHHHHHHHHHHHHHCC-----EEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHCCCCHHHEEEECCCCEEECCCHHHHHH
T ss_conf             0569999999998499-----79999428999999999999999999999998599889988845512100680789999


Q ss_pred             HHHHHHHHHHHHHCCCCCEEEECC-HHHHHHH-------HHHHHHCCCEE-EEEECC
Q ss_conf             777999999976236864088534-5889999-------99999769818-998426
Q gi|255764508|r  158 FQNAQFSSSMIKNMQGKNIILVSS-AYHLKRS-------QLYFQHFGINT-KASCSD  205 (242)
Q Consensus       158 ~ena~~~~~il~~~~~~~vilVTs-a~Hm~RA-------~~~f~~~gi~~-~p~~~d  205 (242)
                      .|-.+..++.+.  +.+.++=+++ .|-+|.=       ..++-..|++. +-=|.|
T Consensus       177 leair~ik~~~P--~v~t~~GlSNiSFGlP~R~~lNs~FL~~a~~~GLd~aI~nP~~  231 (268)
T PRK07535        177 LETIRRIKELYP--KVHTTCGLSNISFGLPNRKLINRAFLVMAMGAGMDSAILDPTD  231 (268)
T ss_pred             HHHHHHHHHHCC--CCCEEEEEECCCCCCHHHHHHHHHHHHHHHHCCCCEEECCCCC
T ss_conf             999999998787--7775245400114753389999999999998699846459998


No 139
>pfam06925 MGDG_synth Monogalactosyldiacylglycerol (MGDG) synthase. This family represents a conserved region of approximately 180 residues within plant and bacterial monogalactosyldiacylglycerol (MGDG) synthase (EC:2.4.1.46). In Arabidopsis, there are two types of MGDG synthase which differ in their N-terminal portion: type A and type B.
Probab=38.43  E-value=28  Score=15.07  Aligned_cols=62  Identities=15%  Similarity=0.246  Sum_probs=36.0

Q ss_pred             HHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHHHCCC----EEEEEECCCCC-CCCCCCCCHHHHHHH
Q ss_conf             9999999762368640885345889999999997698----18998426644-311137545788989
Q gi|255764508|r  161 AQFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQHFGI----NTKASCSDYLN-AYYSIIPLSANFYLT  223 (242)
Q Consensus       161 a~~~~~il~~~~~~~vilVTsa~Hm~RA~~~f~~~gi----~~~p~~~d~~~-~~~~~~p~~~~l~~~  223 (242)
                      ....++++++.+++ +++-|.++=..=+....++.|.    ..+.+-|||.+ ...|+.|..+.+...
T Consensus        78 ~~~l~~~i~~~~PD-~IV~Thp~~~~~~l~~lk~~~~~~~~p~~tViTD~~~~H~~W~~~~~D~y~Va  144 (169)
T pfam06925        78 ARELAALLKEFQPD-IIISTHPLPAAVPLSVLKSKGLLKRVLVVTVVTDFRTCHPFWLHPEIDRYYVP  144 (169)
T ss_pred             HHHHHHHHHHHCCC-EEEECCHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCCCCCCCCCCCEEEEC
T ss_conf             99999999984939-99999762667899999983878899789998988666578168999989979


No 140
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain.  The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=37.58  E-value=29  Score=14.99  Aligned_cols=91  Identities=10%  Similarity=0.071  Sum_probs=49.9

Q ss_pred             HHHHHHCCCCCCCCEEEECCCCCCCCCCCH-HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHH-HHHHHHHHCCCCCEEE
Q ss_conf             999982520057533897068888778882-79999999974999878111101466577799-9999976236864088
Q gi|255764508|r  101 MRLYKSCKQHSMHCTIIISGGDPQKHGLAE-SIVYNNKLLESGVERDDIKLETQSLDTFQNAQ-FSSSMIKNMQGKNIIL  178 (242)
Q Consensus       101 ~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E-a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~-~~~~il~~~~~~~vil  178 (242)
                      -.|.++|..     ++.+-++........+ .+.+++.+.+.|...... ... ...+.+++. ..++++.+++..+.++
T Consensus       111 ~~l~~~g~~-----~i~~i~~~~~~~~~~~R~~g~~~~~~~~~~~~~~~-~~~-~~~~~~~~~~~~~~~l~~~~~~dai~  183 (264)
T cd01537         111 EHLAEKGHR-----RIALLAGPLGSSTARERVAGFKDALKEAGPIEIVL-VQE-GDWDAEKGYQAAEELLTAHPDPTAIF  183 (264)
T ss_pred             HHHHHCCCC-----CEEECCCCCCCCHHHHHHHHHHHHHHHCCCCCCEE-EEE-CCCCHHHHHHHHHHHHHHCCCCEEEE
T ss_conf             999862986-----24530488777069999999999999779998537-995-79998999999999985089976999


Q ss_pred             ECCHHHHHHHHHHHHHCCCE
Q ss_conf             53458899999999976981
Q gi|255764508|r  179 VSSAYHLKRSQLYFQHFGIN  198 (242)
Q Consensus       179 VTsa~Hm~RA~~~f~~~gi~  198 (242)
                      .+++.....++..+++.|++
T Consensus       184 ~~~d~~A~gv~~al~~~g~~  203 (264)
T cd01537         184 AANDDMALGALRALREAGLR  203 (264)
T ss_pred             ECCHHHHHHHHHHHHHCCCC
T ss_conf             89869999999999974999


No 141
>PRK09954 hypothetical protein; Provisional
Probab=37.33  E-value=29  Score=14.96  Aligned_cols=81  Identities=17%  Similarity=0.095  Sum_probs=42.2

Q ss_pred             CEEEEECCCCCCCCCCCCCCCCC----------CCCHHHHHHHHHHHHHHCCCCCCCCEEEEC-CCCCCCCCCCHHHHHH
Q ss_conf             58999625213777765554346----------820589999999999825200575338970-6888877888279999
Q gi|255764508|r   67 NIIVLLGNGTTIIPTIPAIRIEP----------SFQSYSRIFETMRLYKSCKQHSMHCTIIIS-GGDPQKHGLAESIVYN  135 (242)
Q Consensus        67 d~IVVLGgG~~~~~~~~~~~~~~----------~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~S-Gg~~~~~~~~Ea~~m~  135 (242)
                      ..|||.||-.-.....+.....+          +... ---+.|..|.|.|...    .+|-. |.|      .+++.+.
T Consensus        58 ~~vvvIGganiD~~g~~~~~l~~~~SNpg~i~~s~GG-vGrNiA~nLarLG~~v----~lIs~VG~D------~~G~~ll  126 (362)
T PRK09954         58 EYCVVVGAINMDIRGMADIRYPQAASHPGTIHCSAGG-VGRNIAHNLALLGRDV----HLLSAIGDD------FYGETLL  126 (362)
T ss_pred             CCEEEECCCEEEEEECCCCCCCCCCCCCCEEEECCCC-HHHHHHHHHHHCCCCE----EEEEEECCC------HHHHHHH
T ss_conf             7189988707864304477665699999636888884-8999999999769976----999996385------8799999


Q ss_pred             HHHHHCCCCHHHHHC-CHHHHHHH
Q ss_conf             999974999878111-10146657
Q gi|255764508|r  136 NKLLESGVERDDIKL-ETQSLDTF  158 (242)
Q Consensus       136 ~~l~~~Gv~~~~I~~-e~~s~nT~  158 (242)
                      +.+.+.||+.+.+.. ++.++.||
T Consensus       127 ~~l~~~GVd~~~v~~~~~~~T~ty  150 (362)
T PRK09954        127 EETRRAGVNVSGCIRLHGQSTSTY  150 (362)
T ss_pred             HHHHHCCCCCCEEEECCCCCCCEE
T ss_conf             999985997330798489997189


No 142
>cd04255 AAK_UMPK-MosAB AAK_UMPK-MosAB: This CD includes the alpha and beta subunits of the Mo storage protein (MosA and MosB) which are related to uridine monophosphate kinase (UMPK) enzymes that catalyze the phosphorylation of UMP by ATP, yielding UDP, and playing a key role in pyrimidine nucleotide biosynthesis. The Mo storage protein from the nitrogen-fixing bacterium, Azotobacter vinelandii, is characterized as an alpha4-beta4 octamer containing a polynuclear molybdenum-oxide cluster which is ATP-dependent to bind Mo and pH-dependent to release Mo. These and related bacterial sequences in this CD are members of the Amino Acid Kinase Superfamily (AAK).
Probab=37.32  E-value=29  Score=14.96  Aligned_cols=88  Identities=17%  Similarity=0.169  Sum_probs=55.7

Q ss_pred             HHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCE
Q ss_conf             99999999825200575338970688887788827999999997499987811110146657779999999762368640
Q gi|255764508|r   97 IFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNI  176 (242)
Q Consensus        97 l~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~v  176 (242)
                      +++=.++-++++      -+|.|||..+      |.-....-.++|.|.. ++-+=.+.-..|||.-...++.++|..  
T Consensus        54 v~Ei~~~~~~hk------~li~TGgG~R------aRHiy~igldLgmPtG-vLa~L~~~vs~QNa~ml~~LLa~~G~~--  118 (262)
T cd04255          54 VEEIVALRPEHK------LLILTGGGTR------ARHVYSIGLDLGMPTG-VLAKLGASVSEQNAEMLATLLAKHGGS--  118 (262)
T ss_pred             HHHHHHHHHHCC------EEEEECCCHH------HHHHHHHHHCCCCCHH-HHHHHHHHHHHHHHHHHHHHHCCCCCE--
T ss_conf             999997513152------8998367500------3343123414799611-567764224464799999984313870--


Q ss_pred             EEECCHHHHHHHHHHHHHCCCEEEEE
Q ss_conf             88534588999999999769818998
Q gi|255764508|r  177 ILVSSAYHLKRSQLYFQHFGINTKAS  202 (242)
Q Consensus       177 ilVTsa~Hm~RA~~~f~~~gi~~~p~  202 (242)
                      .+-++.+-   ..-+|-++|.-++..
T Consensus       119 ~i~~~~~~---~l~~~l~~~~~~v~~  141 (262)
T cd04255         119 KVGHGDLL---QLPTFLKAGRAPVIS  141 (262)
T ss_pred             EECCCCHH---HHHHHHHCCCEEEEE
T ss_conf             25787789---999998658710442


No 143
>PRK07748 sporulation inhibitor KapD; Provisional
Probab=37.20  E-value=20  Score=15.99  Aligned_cols=26  Identities=12%  Similarity=0.082  Sum_probs=12.7

Q ss_pred             CCCEEEECC-HHHHHHHHHHHHHCCCE
Q ss_conf             864088534-58899999999976981
Q gi|255764508|r  173 GKNIILVSS-AYHLKRSQLYFQHFGIN  198 (242)
Q Consensus       173 ~~~vilVTs-a~Hm~RA~~~f~~~gi~  198 (242)
                      .++.+++|- .+-+..-...++..|++
T Consensus        92 ~~~~~~~tWG~~D~~~L~~~c~~~~i~  118 (205)
T PRK07748         92 RCKPTIVTWGNMDMKVLKHNCEKAGVP  118 (205)
T ss_pred             CCCEEEEEECHHHHHHHHHHHHHHCCC
T ss_conf             787289871788999999999993899


No 144
>pfam11019 DUF2608 Protein of unknown function (DUF2608). This family is conserved in Bacteria. The function is not known.
Probab=37.08  E-value=29  Score=14.94  Aligned_cols=30  Identities=20%  Similarity=0.083  Sum_probs=19.4

Q ss_pred             CCCEEEECC-HHHHHHHHHHHHHCCCEEEEE
Q ss_conf             864088534-588999999999769818998
Q gi|255764508|r  173 GKNIILVSS-AYHLKRSQLYFQHFGINTKAS  202 (242)
Q Consensus       173 ~~~vilVTs-a~Hm~RA~~~f~~~gi~~~p~  202 (242)
                      +++|+.|.+ .-|..+....+++.|+..+++
T Consensus       177 P~~IIfIDd~~enl~s~~~~ck~~~I~f~G~  207 (251)
T pfam11019       177 PKKIIFVDDNKENLESMGEACKKANILFLGI  207 (251)
T ss_pred             CCEEEEECCCHHHHHHHHHHHHHCCCCEEEE
T ss_conf             8659997598899999999996589947999


No 145
>pfam00691 OmpA OmpA family. The Pfam entry also includes MotB and related proteins which are not included in the Prosite family.
Probab=36.56  E-value=30  Score=14.89  Aligned_cols=58  Identities=19%  Similarity=0.310  Sum_probs=32.3

Q ss_pred             CCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCC-------CC--HHHHHHHHHHHCCCCHHHHHCC
Q ss_conf             82058999999999982520057533897068888778-------88--2799999999749998781111
Q gi|255764508|r   90 SFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHG-------LA--ESIVYNNKLLESGVERDDIKLE  151 (242)
Q Consensus        90 ~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~-------~~--Ea~~m~~~l~~~Gv~~~~I~~e  151 (242)
                      ...+...+.+-++..+...   ...+|.+.|- ....+       .+  =|+..+++|++.||++++|...
T Consensus        10 ~~~~~~~L~~~a~~l~~~~---~~~~v~I~Gh-tD~~g~~~~N~~LS~~RA~~V~~~L~~~Gv~~~ri~~~   76 (97)
T pfam00691        10 TAEARETLDRLAEVLKAPE---LKIAIKIEGH-TDSRGSAKYNWELSARRAQAVANYLVNHGIPPSRISVE   76 (97)
T ss_pred             CHHHHHHHHHHHHHHHHCC---CCEEEEEEEE-ECCCCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHEEEE
T ss_conf             9899999999999997189---9728999999-89999888999999999999999999859997898998


No 146
>PRK09318 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional
Probab=36.28  E-value=27  Score=15.15  Aligned_cols=103  Identities=13%  Similarity=0.225  Sum_probs=53.0

Q ss_pred             CCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHH-HHHCCCCH--HHHHCC-HHHHHHHHHHHHHH
Q ss_conf             820589999999999825200575338970688887788827999999-99749998--781111-01466577799999
Q gi|255764508|r   90 SFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNK-LLESGVER--DDIKLE-TQSLDTFQNAQFSS  165 (242)
Q Consensus        90 ~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~-l~~~Gv~~--~~I~~e-~~s~nT~ena~~~~  165 (242)
                      .++....+..+++...+.   + +.-+++- ..+.+.+.  ..-++.| +.+.|.+.  .+.-+. ..-.-+|.-   -+
T Consensus       251 ~~d~g~qL~~Al~~I~~e---g-GvlVyLr-~egrgigl--~~ki~ay~lqd~g~dt~ean~~lg~~~D~R~YGi---GA  320 (387)
T PRK09318        251 RCDCGSQLENALRMISKE---G-GILIYLR-QEGRGIGL--SNKIKAYELQDKGLDTVEANLALGFKEDERDYAA---AF  320 (387)
T ss_pred             CCCCHHHHHHHHHHHHHC---C-CEEEEEE-CCCCCCCH--HHHHHHHHHHHCCCCCHHCHHCCCCCCCCCCCHH---HH
T ss_conf             888557999999999855---9-8899992-58865106--7777766644427873000000477666651339---99


Q ss_pred             HHHHHCCCCCEEEECCHHHHHHHHHHHHHCCCEEE---EEECC
Q ss_conf             99762368640885345889999999997698189---98426
Q gi|255764508|r  166 SMIKNMQGKNIILVSSAYHLKRSQLYFQHFGINTK---ASCSD  205 (242)
Q Consensus       166 ~il~~~~~~~vilVTsa~Hm~RA~~~f~~~gi~~~---p~~~d  205 (242)
                      |||+..|.+++.|.|+...   -..-.+..|++++   |.++.
T Consensus       321 QIL~dLGV~kmrLLTnnP~---K~~gL~GfGLeIve~vPl~~~  360 (387)
T PRK09318        321 QILKALGIEKVRLLTNNPR---KTKALEKYGIEVVETVPLYGE  360 (387)
T ss_pred             HHHHHCCCCCEEEECCCCC---CHHHHHHCCCEEEEEEECCCC
T ss_conf             9999869993799689950---455574279789888715899


No 147
>cd06189 flavin_oxioreductase NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN, or riboflavin via NAD(P)H. Flavin is used as a substrate, rather than a tightly bound prosthetic group as in flavoenzymes; weaker binding is due to the absence of a binding site for the AMP moeity of FAD.
Probab=36.26  E-value=27  Score=15.15  Aligned_cols=42  Identities=26%  Similarity=0.289  Sum_probs=18.8

Q ss_pred             EEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHH
Q ss_conf             897068888778882799999999749998781111014665777999
Q gi|255764508|r  116 IIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQF  163 (242)
Q Consensus       116 ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~  163 (242)
                      ++++||.|    ++=--.|-+.+.+.+-. ..+.+-.-.+ |.+++.+
T Consensus       102 vlIAgG~G----ItP~~s~l~~~~~~~~~-~~v~l~~g~r-~~~~~~~  143 (224)
T cd06189         102 ILIAGGTG----FAPIKSILEHLLAQGSK-RPIHLYWGAR-TEEDLYL  143 (224)
T ss_pred             EEEECCCC----CCHHHHHHHHHHHCCCC-CCCEEEECCC-CHHHHHH
T ss_conf             99936877----55399999999975999-9816774269-9799868


No 148
>cd06209 BenDO_FAD_NAD Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal ferredoxin at the end fused to an FAD/NADP(P) domain.  In dioxygenase FAD/NAD(P) binding domain, the reductase transfers 2 electrons from NAD(P)H to the oxygenase which insert into an aromatic substrate, an initial step in microbial aerobic degradation of aromatic rings. Flavin oxidoreductases use flavins as substrates, unlike flavoenzymes which have a flavin prosthetic group.
Probab=36.22  E-value=30  Score=14.85  Aligned_cols=43  Identities=14%  Similarity=0.166  Sum_probs=20.7

Q ss_pred             EEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHH
Q ss_conf             3897068888778882799999999749998781111014665777999
Q gi|255764508|r  115 TIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQF  163 (242)
Q Consensus       115 ~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~  163 (242)
                      -++++||.|-.    =-..|.+.+.+.+-+ .++.+-..+++. +...+
T Consensus       105 ~vlIagG~GIt----P~~s~l~~l~~~~~~-~~v~l~yg~r~~-~d~~~  147 (228)
T cd06209         105 LLMLAGGTGLA----PFLSMLDVLAEDGSA-HPVHLVYGVTRD-ADLVE  147 (228)
T ss_pred             EEEEECCCCCC----HHHHHHHHHHHCCCC-CCEEEEEECCCH-HHHHH
T ss_conf             89996687734----299999999975999-838999824978-99878


No 149
>cd06211 phenol_2-monooxygenase_like Phenol 2-monooxygenase (phenol hydroxylase) is a flavoprotein monooxygenase, able to use molecular oxygen as a substrate in the microbial degredation of phenol. This protein is encoded by a single gene and uses a tightly bound FAD cofactor in the NAD(P)H dependent conversion of phenol and O2 to catechol and H2O. This group is related to the NAD binding ferredoxin reductases.
Probab=36.19  E-value=27  Score=15.19  Aligned_cols=44  Identities=27%  Similarity=0.252  Sum_probs=20.3

Q ss_pred             EEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHH
Q ss_conf             89706888877888279999999974999878111101466577799999
Q gi|255764508|r  116 IIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSS  165 (242)
Q Consensus       116 ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~  165 (242)
                      ++++||.|-.    =--.|-+.+.+.|.+. ++.+-..++ +.+.+.+..
T Consensus       113 vlIAgG~GIt----P~~s~l~~l~~~~~~~-~v~l~~~~r-~~~d~~~~~  156 (238)
T cd06211         113 IFIAGGSGLS----SPRSMILDLLERGDTR-KITLFFGAR-TRAELYYLD  156 (238)
T ss_pred             EEEECCCCCC----HHHHHHHHHHHCCCCC-EEEEEECCC-CHHHHHHHH
T ss_conf             9997487724----5999999999759996-499994268-879989999


No 150
>cd06213 oxygenase_e_transfer_subunit The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S] ferredoxin center (fused to the FAD/NADH domain and/or discrete) to the oxygenase. Dioxygenases add both atoms of oxygen to the substrate while mono-oxygenases add one atom to the substrate and one atom to water. In dioxygenases, Class I enzymes are 2 component, containing a reductase with  Rieske type [2Fe-2S] redox centers and an oxygenase. Class II are 3 component, having discrete flavin and ferredoxin proteins and an oxygenase. Class III have 2 [2Fe-2S] centers, one fused to the flavin domain and the other separate.
Probab=36.09  E-value=27  Score=15.17  Aligned_cols=37  Identities=16%  Similarity=0.246  Sum_probs=18.5

Q ss_pred             EEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHH
Q ss_conf             389706888877888279999999974999878111101466
Q gi|255764508|r  115 TIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLD  156 (242)
Q Consensus       115 ~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~n  156 (242)
                      -++++||.|-.    =-..|-+.+.+.+- ..++.+-..+++
T Consensus       103 ivliAgG~GIt----P~~s~l~~~~~~~~-~~~v~l~~g~r~  139 (227)
T cd06213         103 ILCIAGGSGLA----PILAILEQARAAGT-KRDVTLLFGART  139 (227)
T ss_pred             EEEEECCCCCC----HHHHHHHHHHHCCC-CCCCEEEECCCC
T ss_conf             89997684644----09999999997399-877478751599


No 151
>PRK06096 molybdenum transport protein ModD; Provisional
Probab=35.98  E-value=30  Score=14.83  Aligned_cols=125  Identities=10%  Similarity=0.068  Sum_probs=61.5

Q ss_pred             EEEEECCCCCCCCCCCCCCCCCCCC-----HHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCC
Q ss_conf             8999625213777765554346820-----58999999999982520057533897068888778882799999999749
Q gi|255764508|r   68 IIVLLGNGTTIIPTIPAIRIEPSFQ-----SYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESG  142 (242)
Q Consensus        68 ~IVVLGgG~~~~~~~~~~~~~~~~~-----~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~G  142 (242)
                      .-|..|||.+..-++...-.--.++     ..+-+.++++-.++..   +..+|.+-=     +..    .-...+.+.|
T Consensus       142 ~AV~~GGg~nHR~gLsD~vLIKdNH~~~~~~~~~~~~ai~~~r~~~---p~~kIeVEv-----~tl----~~~~ea~~~g  209 (284)
T PRK06096        142 QAILAAGGLIHRAGCAETILLFANHRHFLHDNQDWSGAINQLRRHA---PEKKIVVEA-----DTP----KEAIAALRAQ  209 (284)
T ss_pred             HHHHHCCCCCCCCCCCCEEEEECCHHHHHHCCHHHHHHHHHHHHHC---CCCCEEEEE-----CCH----HHHHHHHHCC
T ss_conf             9999759304468876358870024988725357999999999758---999889980-----999----9999998579


Q ss_pred             CCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             99878111101466577799999997623686408853458899999999976981899842664431
Q gi|255764508|r  143 VERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQHFGINTKASCSDYLNAY  210 (242)
Q Consensus       143 v~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa~Hm~RA~~~f~~~gi~~~p~~~d~~~~~  210 (242)
                      +  +.|.+|+-+-....++.   ++++..+.+-.+-++-.-..-....+ .+.|++++-..+-|...+
T Consensus       210 a--D~IlLDnmsp~~l~~av---~~~~~~~~~~~lEaSGGI~~~ni~~y-A~tGVD~i~tsa~~~a~p  271 (284)
T PRK06096        210 P--DVLQLDKFSPQQATEIA---QIAPSLAPHCTLALTGGINLTTLKNY-LDCGIRLFITSAPYYAAP  271 (284)
T ss_pred             C--CEEEECCCCHHHHHHHH---HHHHHHCCCEEEEEECCCCHHHHHHH-HHCCCCEEEECCCCCCCH
T ss_conf             9--99996898999999999---99872179779999899999999999-980999998282106783


No 152
>PRK12815 carB carbamoyl phosphate synthase large subunit; Reviewed
Probab=35.67  E-value=31  Score=14.80  Aligned_cols=66  Identities=12%  Similarity=0.145  Sum_probs=37.5

Q ss_pred             HHHHHHHHCCCCHHHHH-CCHHHHHHHHHHHHHHHHHHHCCCC--CEEEECCHHHHHHHHHHHHHCCCEEEEEEC
Q ss_conf             99999997499987811-1101466577799999997623686--408853458899999999976981899842
Q gi|255764508|r  133 VYNNKLLESGVERDDIK-LETQSLDTFQNAQFSSSMIKNMQGK--NIILVSSAYHLKRSQLYFQHFGINTKASCS  204 (242)
Q Consensus       133 ~m~~~l~~~Gv~~~~I~-~e~~s~nT~ena~~~~~il~~~~~~--~vilVTsa~Hm~RA~~~f~~~gi~~~p~~~  204 (242)
                      -++..|.+.|++   |+ ....+-+..|+=....+++.+.+.+  +...+||   ..-|...+++.|..+.--|+
T Consensus       644 nla~~L~~~gv~---IlGts~~~Id~aEdR~~F~~ll~~l~i~~p~~~~~~~---~~ea~~~a~~iGyPvlvRPS  712 (1068)
T PRK12815        644 NLAKPLEEAGLP---ILGTSPDTIDRLEDRDRFYQLLDELGLPHVPGLTATS---EEEALAFAKRIGYPVLIRPS  712 (1068)
T ss_pred             HHHHHHHHCCCE---EECCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCEECC---HHHHHHHHHHCCCCEEECCC
T ss_conf             999999976994---9827868864241399999999973899999635456---67999999864997784244


No 153
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=35.63  E-value=31  Score=14.79  Aligned_cols=48  Identities=6%  Similarity=0.026  Sum_probs=39.5

Q ss_pred             HHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHHHCCCEEEEEEC
Q ss_conf             577799999997623686408853458899999999976981899842
Q gi|255764508|r  157 TFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQHFGINTKASCS  204 (242)
Q Consensus       157 T~ena~~~~~il~~~~~~~vilVTsa~Hm~RA~~~f~~~gi~~~p~~~  204 (242)
                      ..|.+...++.++..+.+.+++=|+...+.+|.-+++..|=..++.|-
T Consensus       522 a~~da~~~A~~l~~~g~~~vVIDT~~~~~~~a~~LA~~l~a~Y~~Lp~  569 (584)
T PRK13406        522 AEEDALAAARALRAAGLPALVIDTSPRPQPQARALAEAMGARYLPLPR  569 (584)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHCCCCEEECCC
T ss_conf             899999999999976997899948988862699999983991897897


No 154
>TIGR01816 sdhA_forward succinate dehydrogenase, flavoprotein subunit; InterPro: IPR011281   Succinate dehydrogenase and fumarate reductase are homologous enzymes reversible in principle but favoured under different circumstances. This entry represents a narrowly defined clade of the succinate dehydrogenase flavoprotein subunit as found in mitochondria, in Rickettsia, in Escherichia coli and other proteobacteria, and in a few other lineages. However, excluded are all known fumarate reductases. It also excludes putative succinate dehydrogenases that appear to diverged before the split between E. coli succinate dehydrogenase and fumarate reductase.; GO: 0016627 oxidoreductase activity acting on the CH-CH group of donors, 0050660 FAD binding, 0006099 tricarboxylic acid cycle.
Probab=35.24  E-value=31  Score=14.75  Aligned_cols=11  Identities=27%  Similarity=0.126  Sum_probs=4.4

Q ss_pred             HHHHHHHHHHH
Q ss_conf             88999999999
Q gi|255764508|r  183 YHLKRSQLYFQ  193 (242)
Q Consensus       183 ~Hm~RA~~~f~  193 (242)
                      -|+++=.+.-|
T Consensus       316 ~HLg~E~l~~k  326 (615)
T TIGR01816       316 DHLGEEVLEEK  326 (615)
T ss_pred             CCCCHHHHHHH
T ss_conf             34885788652


No 155
>PRK05756 pyridoxamine kinase; Validated
Probab=35.11  E-value=31  Score=14.74  Aligned_cols=83  Identities=16%  Similarity=0.160  Sum_probs=44.7

Q ss_pred             HHHHHHHHHHCCCCCCCCEEEEC---CCCCCCCCCCH--HHHHHHHHHHCCCCHHHHH---------CCHHHHHHHHHHH
Q ss_conf             99999999825200575338970---68888778882--7999999997499987811---------1101466577799
Q gi|255764508|r   97 IFETMRLYKSCKQHSMHCTIIIS---GGDPQKHGLAE--SIVYNNKLLESGVERDDIK---------LETQSLDTFQNAQ  162 (242)
Q Consensus        97 l~~a~~L~~~~~~~~~~~~ii~S---Gg~~~~~~~~E--a~~m~~~l~~~Gv~~~~I~---------~e~~s~nT~ena~  162 (242)
                      +..-++..++.++++++..+++-   |..+.+--.++  .+.+++.++    |.-+|+         +-...-+|.|++.
T Consensus        90 ~~~i~~~i~~~k~~np~~~~v~DPVmGD~g~g~yv~~~~~~~~~~~ll----p~AdiiTPN~fEle~LtG~~i~~~~~~~  165 (287)
T PRK05756         90 GEAILGAVRRVKAANPQALYLCDPVMGHPEKGCIVAPGVAEFLRDRAL----PAADIITPNLFELEWLSGHPVETLEDAV  165 (287)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEECCEEECCCCCEECCHHHHHHHHHHCC----CCCCEEECCHHHHHHHCCCCCCCHHHHH
T ss_conf             999999999998529982799665250489855328769999998522----5357983888999997699659999999


Q ss_pred             HHHHHHHHCCCCCEEEECCHHH
Q ss_conf             9999976236864088534588
Q gi|255764508|r  163 FSSSMIKNMQGKNIILVSSAYH  184 (242)
Q Consensus       163 ~~~~il~~~~~~~vilVTsa~H  184 (242)
                      ...+.+.+.+. +.++|||..+
T Consensus       166 ~A~~~l~~~g~-~~VvvtS~~~  186 (287)
T PRK05756        166 AAARALIARGP-KIVLVTSLAR  186 (287)
T ss_pred             HHHHHHHHHCC-CEEEEECCCC
T ss_conf             99999997199-8899916877


No 156
>cd01543 PBP1_XylR Ligand-binding domain of DNA transcription repressor specific for xylose (XylR). Ligand-binding domain of DNA transcription repressor specific for xylose (XylR), a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of XylR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=35.10  E-value=31  Score=14.74  Aligned_cols=94  Identities=10%  Similarity=0.070  Sum_probs=51.9

Q ss_pred             HHHHHHHHCCCCCCCCEEEECCCCCCCCCCC-H-HHHHHHHHHHCCCCHHHHHC-CHHHHHHHHHHH-HHHHHHHHCCCC
Q ss_conf             9999998252005753389706888877888-2-79999999974999878111-101466577799-999997623686
Q gi|255764508|r   99 ETMRLYKSCKQHSMHCTIIISGGDPQKHGLA-E-SIVYNNKLLESGVERDDIKL-ETQSLDTFQNAQ-FSSSMIKNMQGK  174 (242)
Q Consensus        99 ~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~-E-a~~m~~~l~~~Gv~~~~I~~-e~~s~nT~ena~-~~~~il~~~~~~  174 (242)
                      .+-.|++.|..     +|.+-|....  ..+ | -+..++.+.+.|++...+.. ......+++.+. ...+++++.+..
T Consensus       100 a~~~L~~~Ghr-----~I~~ig~~~~--~~~~~R~~Gf~~al~~~g~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~p  172 (265)
T cd01543         100 AAEHFLERGFR-----HFAFYGLPGA--RWSDEREEAFRQLVAEAGYECSFFYRGLSTDAQSWEEEQEELAQWLQSLPKP  172 (265)
T ss_pred             HHHHHHHCCCC-----EEEEECCCCC--HHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCC
T ss_conf             99999986997-----4999899988--0699999999999997799976341245446753999999999998359998


Q ss_pred             CEEEECCHHHHHHHHHHHHHCCCEE
Q ss_conf             4088534588999999999769818
Q gi|255764508|r  175 NIILVSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       175 ~vilVTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      ..++.+++..-.-++..++..|+++
T Consensus       173 tAi~~~nD~~A~g~l~~l~~~Gi~V  197 (265)
T cd01543         173 VGIFACTDARARQLLEACRRAGIAV  197 (265)
T ss_pred             EEEEECCHHHHHHHHHHHHHHHCCC
T ss_conf             3999883699999999999832257


No 157
>cd05295 MDH_like Malate dehydrogenase-like. These MDH-like proteins are related to other groups in the MDH family but do not have conserved substrate and cofactor binding residues. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carboxylation of pyruvate. Members of this subgroup are uncharacterized MDH-like proteins from animals. They are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains, among others.
Probab=35.02  E-value=31  Score=14.73  Aligned_cols=80  Identities=19%  Similarity=0.090  Sum_probs=42.4

Q ss_pred             CCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHH-C----CCCCCCCEEEECCCCCCC--------
Q ss_conf             645456875899962521377776555434682058999999999982-5----200575338970688887--------
Q gi|255764508|r   59 SPQWKKDGNIIVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKS-C----KQHSMHCTIIISGGDPQK--------  125 (242)
Q Consensus        59 ~~~~~~~~d~IVVLGgG~~~~~~~~~~~~~~~~~~~~Rl~~a~~L~~~-~----~~~~~~~~ii~SGg~~~~--------  125 (242)
                      ..+-.+++|+++++|+.-.       ..+.   +-.+-+..-..+++. |    +.-..++|+++.|..+..        
T Consensus       193 ~~~AF~dad~ailvga~pr-------~~gm---er~dlL~~n~~IF~~qG~aln~~Ak~~vKVLVvG~nPaNtNalI~~~  262 (452)
T cd05295         193 LDVAFKDAHVIVLLDDFLI-------KEGE---DLEGCIRSRVAICQLYGPLIEKNAKEDVKVIVAGRTFLNLKTSILIK  262 (452)
T ss_pred             HHHHHCCCCEEEEECCCCC-------CCCC---CHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHH
T ss_conf             9998557988999588478-------8887---18899998779999999999854456866999678865168899997


Q ss_pred             --CC-----------CCHHHHHHHHHHHCCCCHHHH
Q ss_conf             --78-----------882799999999749998781
Q gi|255764508|r  126 --HG-----------LAESIVYNNKLLESGVERDDI  148 (242)
Q Consensus       126 --~~-----------~~Ea~~m~~~l~~~Gv~~~~I  148 (242)
                        ..           ..|-++..+.+.+.||+.++|
T Consensus       263 ~Ap~Ip~~Nf~AmtrLD~NRA~aqlA~Klgv~~~~V  298 (452)
T cd05295         263 YAPSIPRKNIIAVARLQENRAKALLARKLNVNSAGI  298 (452)
T ss_pred             HCCCCCHHHEEEEHHHHHHHHHHHHHHHHCCCHHHC
T ss_conf             589997576351027666689999998839987773


No 158
>pfam04122 CW_binding_2 Putative cell wall binding repeat 2. This repeat is found in multiple tandem copies in proteins including amidase enhancers and adhesins.
Probab=34.79  E-value=32  Score=14.70  Aligned_cols=72  Identities=14%  Similarity=0.224  Sum_probs=37.4

Q ss_pred             HHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             89999999999825200575338970688887788827999999997499987811110146657779999999762368
Q gi|255764508|r   94 YSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQG  173 (242)
Q Consensus        94 ~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~  173 (242)
                      .+|...++.+.+..... .+.-++++| .    ..+.|-....++.+.+.|   |++-+.+   ..  ..+++.++..+.
T Consensus         6 ~dRyeTa~~va~~~~~~-~~~v~la~G-~----~~~DaLsa~~lAa~~~~P---Illt~~~---~~--~~~~~~l~~~~~   71 (90)
T pfam04122         6 KDRYETAAKIAKEFGGK-ADTVYVANG-E----DFADALSAAPLAAKNGAP---ILLTGDS---LP--SSTKDYLKSKKI   71 (90)
T ss_pred             CCHHHHHHHHHHHHCCC-CCEEEEEEC-C----CCCCHHHHHHHHHHCCCE---EEEECCC---CC--HHHHHHHHHCCC
T ss_conf             68999999999985779-998999958-8----643168789999856981---9998999---99--999999997699


Q ss_pred             CCEEEE
Q ss_conf             640885
Q gi|255764508|r  174 KNIILV  179 (242)
Q Consensus       174 ~~vilV  179 (242)
                      +++++|
T Consensus        72 ~~v~ii   77 (90)
T pfam04122        72 KKVYII   77 (90)
T ss_pred             CEEEEE
T ss_conf             879998


No 159
>cd01424 MGS_CPS_II Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways responsible for the synthesis of pyrimidine nucleotides or arginine. The MGS-like domain is the C-terminal domain of CarB and appears to play a regulatory role in CPS function by binding allosteric effector molecules, including UMP and ornithine.
Probab=34.76  E-value=32  Score=14.70  Aligned_cols=62  Identities=18%  Similarity=0.329  Sum_probs=37.1

Q ss_pred             CCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEE-------ECCHHHH
Q ss_conf             533897068888778882799999999749998781111014665777999999976236864088-------5345889
Q gi|255764508|r  113 HCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIIL-------VSSAYHL  185 (242)
Q Consensus       113 ~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vil-------VTsa~Hm  185 (242)
                      +..|+.|.|            .+++|.+.||+.+.+.-.....   .|+   .+.+++...+=++=       .++.|++
T Consensus        26 Gf~i~AT~G------------Ta~~L~~~Gi~~~~v~k~~e~~---p~i---~d~i~~~~i~lVINt~~~~~~~~dg~~I   87 (110)
T cd01424          26 GFKLVATEG------------TAKYLQEAGIPVEVVNKVSEGR---PNI---VDLIKNGEIQLVINTPSGKRAIRDGFSI   87 (110)
T ss_pred             CCEEEECCH------------HHHHHHHCCCCCEEEECCCCCC---CCH---HHHHHCCCEEEEEECCCCCCCCCCHHHH
T ss_conf             999998716------------9999986498640330056799---768---9999779358999778898657429999


Q ss_pred             HHHHHHH
Q ss_conf             9999999
Q gi|255764508|r  186 KRSQLYF  192 (242)
Q Consensus       186 ~RA~~~f  192 (242)
                      +|+...+
T Consensus        88 Rr~Av~~   94 (110)
T cd01424          88 RRAALEY   94 (110)
T ss_pred             HHHHHHC
T ss_conf             9999976


No 160
>TIGR01768 GGGP-family geranylgeranylglyceryl phosphate synthase family protein; InterPro: IPR008205   This family contains prokaryotic proteins that are related to pcrB. Staphylococcus aureus chromosomal gene pcrA encodes a protein with significant similarity (40 0dentity) to two Escherichia coli helicases: the helicase II encoded by the uvrD gene and the Rep helicase. PcrB gene seems to belong to an operon containing at least one other gene, pcrBA, downstream from pcrB . The PcrB proteins often contain an FMN binding site although the function of these proteins is still unknown..
Probab=34.67  E-value=32  Score=14.69  Aligned_cols=17  Identities=6%  Similarity=0.106  Sum_probs=6.2

Q ss_pred             HHHHCCHHHHHHHHHHH
Q ss_conf             78111101466577799
Q gi|255764508|r  146 DDIKLETQSLDTFQNAQ  162 (242)
Q Consensus       146 ~~I~~e~~s~nT~ena~  162 (242)
                      +..++=--+-.|.|.|.
T Consensus       195 e~~L~vGGGIRs~E~A~  211 (242)
T TIGR01768       195 EVKLIVGGGIRSVEKAR  211 (242)
T ss_pred             CEEEEEECCCCCHHHHH
T ss_conf             32578407647889999


No 161
>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=34.40  E-value=32  Score=14.67  Aligned_cols=89  Identities=15%  Similarity=0.150  Sum_probs=49.6

Q ss_pred             CHHHHHHHHHHHHHHCCCCCCCCEEEEC--CCCCCCCCCCHH-H-------HHHHHHHHCCCCHHHHHCCHHHHHHH--H
Q ss_conf             0589999999999825200575338970--688887788827-9-------99999997499987811110146657--7
Q gi|255764508|r   92 QSYSRIFETMRLYKSCKQHSMHCTIIIS--GGDPQKHGLAES-I-------VYNNKLLESGVERDDIKLETQSLDTF--Q  159 (242)
Q Consensus        92 ~~~~Rl~~a~~L~~~~~~~~~~~~ii~S--Gg~~~~~~~~Ea-~-------~m~~~l~~~Gv~~~~I~~e~~s~nT~--e  159 (242)
                      .+.+++...+++.+.-     +++.++.  |.........|. +       .+.+++.+.||.   +.+|+......  .
T Consensus        61 ~~~~~~~~~l~~a~~l-----G~~~i~~~~g~~~~~~~~~~~~~~~~~~l~~~~~~a~~~gi~---i~iE~~~~~~~~~~  132 (201)
T pfam01261        61 AALEALKRAIELAAAL-----GAKVVVVHPGGALPGEDREEALDRLAESLNELAELAEEYGVK---LALENHPGTGVELG  132 (201)
T ss_pred             HHHHHHHHHHHHHHHC-----CCCEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCEE---EEEEECCCCCCCCC
T ss_conf             9999999999999973-----995899826887889999999999999999999988755738---99998799886789


Q ss_pred             HHHHHHHHHHHCCCCCEEEECCHHHHHHH
Q ss_conf             79999999762368640885345889999
Q gi|255764508|r  160 NAQFSSSMIKNMQGKNIILVSSAYHLKRS  188 (242)
Q Consensus       160 na~~~~~il~~~~~~~vilVTsa~Hm~RA  188 (242)
                      +.....+++++-+.+++-++=+.+||.++
T Consensus       133 ~~~~~~~l~~~v~~~~~~~~~D~~h~~~~  161 (201)
T pfam01261       133 YFEEALRLIEEVDSPNVGLCLDTGHAFAA  161 (201)
T ss_pred             CHHHHHHHHHHCCCCCCCCCCCHHHHHHC
T ss_conf             99999999986499865511056899981


No 162
>TIGR01514 NAPRTase nicotinate phosphoribosyltransferase; InterPro: IPR006406   This family represents nicotinate phosphoribosyltransferase, the first enzyme in the salvage pathway of NAD biosynthesis from nicontinate (niacin). Members are primarily proteobacterial but also include yeasts and Methanosarcina acetivorans. A related family, apparently non-overlapping in species distribution, is IPR006405 from INTERPRO. Members of that family differ in substantially in sequence and have a long C-terminal extension missing from this family, but are proposed also to act as nicotinate phosphoribosyltransferase. ; GO: 0004516 nicotinate phosphoribosyltransferase activity, 0019357 nicotinate nucleotide biosynthetic process.
Probab=34.39  E-value=32  Score=14.68  Aligned_cols=25  Identities=24%  Similarity=0.417  Sum_probs=20.1

Q ss_pred             CCEEEECCHHHHHHHHHHHHHCCCEEEEEEC
Q ss_conf             6408853458899999999976981899842
Q gi|255764508|r  174 KNIILVSSAYHLKRSQLYFQHFGINTKASCS  204 (242)
Q Consensus       174 ~~vilVTsa~Hm~RA~~~f~~~gi~~~p~~~  204 (242)
                      +.+++=||++|+      +++.|+++++--+
T Consensus       213 ks~~~GTSN~~l------A~k~gl~PiGT~A  237 (430)
T TIGR01514       213 KSWLLGTSNVHL------AKKLGLKPIGTVA  237 (430)
T ss_pred             CEEEEECCHHHH------HHHCCCCCCCCCC
T ss_conf             357860617899------9781884106776


No 163
>pfam09873 DUF2100 Uncharacterized protein conserved in archaea (DUF2100). This domain, found in various hypothetical archaeal proteins, has no known function.
Probab=34.33  E-value=32  Score=14.66  Aligned_cols=76  Identities=12%  Similarity=0.160  Sum_probs=46.9

Q ss_pred             CCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHH-CCHHHHHHHHHHHHHHHHHHHCCCCCEEEECC------
Q ss_conf             00575338970688887788827999999997499987811-11014665777999999976236864088534------
Q gi|255764508|r  109 QHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIK-LETQSLDTFQNAQFSSSMIKNMQGKNIILVSS------  181 (242)
Q Consensus       109 ~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~-~e~~s~nT~ena~~~~~il~~~~~~~vilVTs------  181 (242)
                      ...++++|+.|||.      -+.+-|+..  .--+|+.... +|.+-.-+.+|..   +++.+.++.++++|-.      
T Consensus       125 ~~~p~lnIv~TeG~------L~~EDmk~I--nPkiPEkal~GieKk~ei~r~~ie---~~I~k~~p~kivvVv~e~D~~d  193 (215)
T pfam09873       125 EIVPDLNIVSTEGP------LEIEDMRII--NPKIPEKALEGIEKKCEIARNQIE---RVIRKINPSKIVVVVEEGDRAD  193 (215)
T ss_pred             CCCCCCCEEECCCC------CCHHHHHHH--CCCCCHHHHHHHHHHHHHHHHHHH---HHHHHCCCCEEEEEECCCCCHH
T ss_conf             34986435634887------778999873--878888999889999999999999---9998469651799972798332


Q ss_pred             HHHHHHHHHHHHHC
Q ss_conf             58899999999976
Q gi|255764508|r  182 AYHLKRSQLYFQHF  195 (242)
Q Consensus       182 a~Hm~RA~~~f~~~  195 (242)
                      -.--.||.-+..+.
T Consensus       194 ELl~~rAkeLy~ae  207 (215)
T pfam09873       194 ELLYKRAKELYNAE  207 (215)
T ss_pred             HHHHHHHHHHHCCC
T ss_conf             99999999970842


No 164
>cd06210 MMO_FAD_NAD_binding Methane monooxygenase (MMO) reductase of methanotrophs catalyzes the NADH-dependent hydroxylation of methane to methanol. This multicomponent enzyme mediates electron transfer via a hydroxylase (MMOH), a coupling protein, and a reductase which is comprised of an N-terminal [2Fe-2S] ferredoxin domain, an FAD binding subdomain, and an NADH binding subdomain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. Dioxygenases add both atom of oxygen to the substrate, while mono-oxygenases add one atom to the substrate and one atom to water.
Probab=34.23  E-value=30  Score=14.84  Aligned_cols=46  Identities=15%  Similarity=0.207  Sum_probs=20.8

Q ss_pred             EEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHH
Q ss_conf             3897068888778882799999999749998781111014665777999999
Q gi|255764508|r  115 TIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSS  166 (242)
Q Consensus       115 ~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~  166 (242)
                      .++++||.|-    +=--.|-+.+.+.|-+. ++.+-. +..+.+.+.+..+
T Consensus       111 ~~liAgG~GI----tP~~s~l~~l~~~~~~~-~~~l~~-g~r~~~d~~~~~e  156 (236)
T cd06210         111 RWFVAGGTGL----APLLSMLRRMAEWGEPQ-EARLFF-GVNTEAELFYLDE  156 (236)
T ss_pred             EEEEECCCCC----CHHHHHHHHHHHCCCCC-EEEEEE-ECCCHHHHHHHHH
T ss_conf             8999468652----07999999999729997-289997-4287777899999


No 165
>TIGR01125 TIGR01125 MiaB-like tRNA modifying enzyme YliG, TIGR01125; InterPro: IPR005840   This is a family of mainly hypothetical proteins of unknown function. .
Probab=34.15  E-value=32  Score=14.64  Aligned_cols=52  Identities=13%  Similarity=0.093  Sum_probs=35.5

Q ss_pred             CCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCC
Q ss_conf             645456875899962521377776555434682058999999999982520057533897068888
Q gi|255764508|r   59 SPQWKKDGNIIVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQ  124 (242)
Q Consensus        59 ~~~~~~~~d~IVVLGgG~~~~~~~~~~~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~  124 (242)
                      .....++||+|||=.||.-.++.         .+|.+-+.+.++-=+++     +.+|||+|=.+.
T Consensus        30 ~~~~~e~AD~vIvNTC~FI~~A~---------~ES~~~i~e~~d~K~~y-----~~KviV~GCL~~   81 (475)
T TIGR01125        30 VTPNYEDADVVIVNTCGFIEDAK---------QESIDTIGELLDAKDEY-----GKKVIVTGCLVE   81 (475)
T ss_pred             EECCCCCCCEEEECCCCCHHHHH---------HHHHHHHHHHHHHHHHC-----CCEEEEECCCCC
T ss_conf             30684547778980442304789---------99999999998758652-----975999655665


No 166
>COG2604 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.83  E-value=33  Score=14.61  Aligned_cols=75  Identities=16%  Similarity=0.174  Sum_probs=35.8

Q ss_pred             HHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCE
Q ss_conf             99999999825200575338970688887788827999999997499987811110146657779999999762368640
Q gi|255764508|r   97 IFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNI  176 (242)
Q Consensus        97 l~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~v  176 (242)
                      +..-+++.|++..+    -+|++||..           -..|.+.||-++=+..-+.-.=+       .+.+++...+++
T Consensus       236 L~Kql~lLK~y~~k----~~IFcadsa-----------l~~L~k~GIkPDyVc~ld~~di~-------~e~~~n~~~k~i  293 (594)
T COG2604         236 LEKQLPLLKKYQDK----ATIFCADSA-----------LPILAKHGIKPDYVCSLDPDDIA-------YEFFQNDFNKDI  293 (594)
T ss_pred             HHHCCHHHHHHCCC----EEEEECCCC-----------CHHHHHCCCCCCEEEEECCHHHH-------HHHHHCCCCCCC
T ss_conf             44436888860555----399988975-----------45798679997769985641889-------999843467786


Q ss_pred             EEECCHHHHHHHHHHHH
Q ss_conf             88534588999999999
Q gi|255764508|r  177 ILVSSAYHLKRSQLYFQ  193 (242)
Q Consensus       177 ilVTsa~Hm~RA~~~f~  193 (242)
                      .++=+.+--||+....+
T Consensus       294 p~~~~~~~h~~vv~~~k  310 (594)
T COG2604         294 PLILASITHPRVVEYLK  310 (594)
T ss_pred             CEEEECCCCHHHHHHHC
T ss_conf             05543116699998633


No 167
>PRK13289 nitric oxide dioxygenase; Provisional
Probab=33.71  E-value=31  Score=14.78  Aligned_cols=39  Identities=13%  Similarity=0.156  Sum_probs=20.5

Q ss_pred             EEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHH
Q ss_conf             89706888877888279999999974999878111101466577
Q gi|255764508|r  116 IIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQ  159 (242)
Q Consensus       116 ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~e  159 (242)
                      ++++||.|    ++=--.|-+.+.+.|- ...|.+-..++|..+
T Consensus       265 VLIAgGiG----ITPmlSML~~l~~~~~-~r~V~liygaR~~~~  303 (399)
T PRK13289        265 VLISGGVG----ITPMLSMLETLAKQQP-TRPVHFIHAAENGDV  303 (399)
T ss_pred             EEEECCCC----CCHHHHHHHHHHHHCC-CCCEEEEEECCCHHH
T ss_conf             99953767----3359999999997099-985799995698798


No 168
>COG3962 Acetolactate synthase [Amino acid transport and metabolism]
Probab=33.65  E-value=33  Score=14.59  Aligned_cols=47  Identities=23%  Similarity=0.334  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHH-HHHHHHHHHCCCCHHHHHCCHH
Q ss_conf             9999999999825200575338970688887788827-9999999974999878111101
Q gi|255764508|r   95 SRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAES-IVYNNKLLESGVERDDIKLETQ  153 (242)
Q Consensus        95 ~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea-~~m~~~l~~~Gv~~~~I~~e~~  153 (242)
                      ..+..|+.+.|.-+.     |+|+.||...   +|+| +..+.+.+..|||    +.|.+
T Consensus       217 ~eL~~A~~lik~ak~-----PlIvaGGGv~---YS~A~~~L~af~E~~~iP----v~ETQ  264 (617)
T COG3962         217 RELADAAALIKSAKK-----PLIVAGGGVL---YSGAREALRAFAETHGIP----VVETQ  264 (617)
T ss_pred             HHHHHHHHHHHHCCC-----CEEEECCCEE---ECHHHHHHHHHHHHCCCC----EEECC
T ss_conf             999999999983579-----7799668654---430799999999864996----57635


No 169
>cd04743 NPD_PKS 2-Nitropropane dioxygenase (NPD)-like domain, associated with polyketide synthases (PKS). NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDPs are members of the NAD(P)H-dependent flavin oxidoreductase family that reduce a range of alternative  electron acceptors. Most use FAD/FMN as a cofactor and NAD(P)H as electron donor. Some contain 4Fe-4S cluster to transfer electron from FAD to FMN.
Probab=33.26  E-value=33  Score=14.55  Aligned_cols=113  Identities=16%  Similarity=0.210  Sum_probs=53.0

Q ss_pred             CCCCEEEEECC---CCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHH
Q ss_conf             68758999625---213777765554346820589999999999825200575338970688887788827999999997
Q gi|255764508|r   64 KDGNIIVLLGN---GTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLE  140 (242)
Q Consensus        64 ~~~d~IVVLGg---G~~~~~~~~~~~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~  140 (242)
                      ..+|+||+=|.   |....        ..+......+..++..+. .+.+..+.|+|..||...+.+..-+-++..-+.+
T Consensus       122 ~GaDavIaEG~EaGGHiG~--------~~Tm~Lvpqvvdav~~~~-~~~~~~~IPViaAGGI~DGRg~aaa~aLgA~~a~  192 (320)
T cd04743         122 NGARKFIFEGRECGGHVGP--------RSSFVLWESAIDALLAAN-GPDKAGKIHLLFAGGIHDERSAAMVSALAAPLAE  192 (320)
T ss_pred             CCCCEEEEECCCCCCCCCC--------CCHHHHHHHHHHHHHCCC-CCCCCCCCCEEEECCCCCCHHHHHHHHHCCCHHH
T ss_conf             4999999957457677675--------301340598988986035-6655678748997674561899999983884223


Q ss_pred             CCCCHHHHHCCHHHHHHHHH-------HHHHHHHHHHCCCCCEEEECCHHHHHHH
Q ss_conf             49998781111014665777-------9999999762368640885345889999
Q gi|255764508|r  141 SGVERDDIKLETQSLDTFQN-------AQFSSSMIKNMQGKNIILVSSAYHLKRS  188 (242)
Q Consensus       141 ~Gv~~~~I~~e~~s~nT~en-------a~~~~~il~~~~~~~vilVTsa~Hm~RA  188 (242)
                      .|+. --+.+.++=.-|.|-       -.|=.++++.+  ++..++|..=|--|.
T Consensus       193 ~g~~-~GVqmGTrfl~t~E~v~~gai~~~~k~~~~~a~--~~~~~~tg~Gh~~R~  244 (320)
T cd04743         193 RGAK-VGVLMGTAYLFTEEAVSAGAILPTFQDQAIAAT--RTALLETGPGHATRC  244 (320)
T ss_pred             CCCC-CEEEEECHHHCCHHHHCCCHHHHHHHHHHHHCC--CCCEEEECCCCCEEE
T ss_conf             1562-227860441101554223314289999997256--753586559963255


No 170
>COG5493 Uncharacterized conserved protein containing a coiled-coil domain [Function unknown]
Probab=33.25  E-value=33  Score=14.55  Aligned_cols=54  Identities=15%  Similarity=0.183  Sum_probs=35.3

Q ss_pred             HHCCHHHHHHHHHHHHHHHH------HHHCCCCCEEEECCHHHHH---HHHHHHHHCCCEEEE
Q ss_conf             11110146657779999999------7623686408853458899---999999976981899
Q gi|255764508|r  148 IKLETQSLDTFQNAQFSSSM------IKNMQGKNIILVSSAYHLK---RSQLYFQHFGINTKA  201 (242)
Q Consensus       148 I~~e~~s~nT~ena~~~~~i------l~~~~~~~vilVTsa~Hm~---RA~~~f~~~gi~~~p  201 (242)
                      |..|-+|.=+.......++.      .+...++++++||.--|-+   |+..++++.|+.++|
T Consensus       165 vlVEItS~ikrgDl~~i~rk~elYer~~gvki~~vivitpFihdr~p~~~kAmAe~mGIeii~  227 (231)
T COG5493         165 VLVEITSAIKRGDLPVIRRKKELYERAKGVKINKVIVITPFIHDRYPDRVKAMAERMGIEIIP  227 (231)
T ss_pred             EEEEEHHHHHCCCHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCCHHHHHHHHHHCCCEECC
T ss_conf             999736334135629999989999985187632599971432454768999999984926218


No 171
>PRK12655 fructose-6-phosphate aldolase; Reviewed
Probab=32.28  E-value=35  Score=14.44  Aligned_cols=53  Identities=13%  Similarity=0.101  Sum_probs=43.8

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHCCCCCEEEECC---HHHHHHHHHHHHHCCCEEEEEECCC
Q ss_conf             11014665777999999976236864088534---5889999999997698189984266
Q gi|255764508|r  150 LETQSLDTFQNAQFSSSMIKNMQGKNIILVSS---AYHLKRSQLYFQHFGINTKASCSDY  206 (242)
Q Consensus       150 ~e~~s~nT~ena~~~~~il~~~~~~~vilVTs---a~Hm~RA~~~f~~~gi~~~p~~~d~  206 (242)
                      +++.+.|-.+.....+++++.++.+.-+|+-|   ..|+.++.    +.|.+.+.+|.+-
T Consensus       135 ~~d~G~Dg~~~i~~i~~~~~~~~~~tkILaASiR~~~~v~~a~----~~Gad~vTipp~v  190 (220)
T PRK12655        135 VDAQGGDGIRMVQELQTLLEMHAPESMVLAASFKTPRQALDCL----LAGCQSITLPLDV  190 (220)
T ss_pred             HHHCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCHHHHHHHH----HCCCCEEEECHHH
T ss_conf             7555898489999999999975999689998389999999999----8699999819999


No 172
>cd06185 PDR_like Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal  ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur [2Fe-2S] cluster domain. Although structurally homologous to FNR, PDR binds FMN rather than FAD in it's FNR-like domain. Electron transfer between pyrimidines and iron-sulfur clusters (Rieske center [2Fe-2S]) or heme groups is mediated by flavins in respiration, photosynthesis, and oxygenase systems. Type I dioxygenase systems, including the hydroxylate phthalate system, have 2 components, a monomeric reductase consisting of a flavin and a 2Fe-2S center and a multimeric oxygenase. In contrast to other Rieske dioxygenases the ferredoxin like domain is C-, not N-terminal.
Probab=31.80  E-value=35  Score=14.41  Aligned_cols=46  Identities=17%  Similarity=0.357  Sum_probs=21.1

Q ss_pred             EEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHH
Q ss_conf             389706888877888279999999974999878111101466577799999997
Q gi|255764508|r  115 TIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMI  168 (242)
Q Consensus       115 ~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il  168 (242)
                      .++++||.|    ++=-..|-+.+...|-+   +.+-.-+ .|.++..+..++-
T Consensus       101 ~vliAgG~G----ItP~~sml~~l~~~~~~---~~L~y~~-r~~~d~~f~~eL~  146 (211)
T cd06185         101 HLLIAGGIG----ITPILSMARALAARGAD---FELHYAG-RSREDAAFLDELA  146 (211)
T ss_pred             EEEEECCCC----CCHHHHHHHHHHHCCCC---EEEEEEE-CCHHHHHHHHHHH
T ss_conf             799963776----37599999999976997---9999983-8879925799997


No 173
>cd06212 monooxygenase_like The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons. These flavoprotein monooxygenases use molecular oxygen as a substrate and require reduced FAD. One atom of oxygen is incorportated into the aromatic compond, while the other is used to form a molecule of water. In contrast dioxygenases add both atoms of oxygen to the substrate.
Probab=31.63  E-value=36  Score=14.38  Aligned_cols=45  Identities=11%  Similarity=0.219  Sum_probs=19.6

Q ss_pred             EEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHH
Q ss_conf             897068888778882799999999749998781111014665777999999
Q gi|255764508|r  116 IIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSS  166 (242)
Q Consensus       116 ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~  166 (242)
                      ++++||.|-..    --.|-+.+.+.+- ...|.+-..+++. +.+.+..+
T Consensus       107 vliAgG~GitP----~~sml~~~~~~~~-~~~v~l~~g~r~~-~d~~~~~e  151 (232)
T cd06212         107 VLIGGGSGMAP----LLSLLRDMAASGS-DRPVRFFYGARTA-RDLFYLEE  151 (232)
T ss_pred             EEEECCCCCCH----HHHHHHHHHHCCC-CCEEEEEEECCCH-HHHHHHHH
T ss_conf             99956877025----9999999997499-9748999844887-88788999


No 174
>cd06187 O2ase_reductase_like The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S] ferredoxin center (fused to the FAD/NADH domain and/or discrete) to the oxygenase. Dioxygenases add both atoms of oxygen to the substrate, while mono-oxygenases (aka mixed oxygenases) add one atom to the substrate and one atom to water. In dioxygenases, Class I enzymes are 2 component, containing a reductase with Rieske type  [2Fe-2S] redox centers and an oxygenase. Class II are 3 component, having discrete flavin and ferredoxin proteins and an oxygenase. Class III have 2 [2Fe-2S] centers, one fused to the flavin domain and the other separate.
Probab=31.53  E-value=36  Score=14.36  Aligned_cols=45  Identities=20%  Similarity=0.132  Sum_probs=20.8

Q ss_pred             EEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHH
Q ss_conf             897068888778882799999999749998781111014665777999999
Q gi|255764508|r  116 IIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSS  166 (242)
Q Consensus       116 ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~  166 (242)
                      ++++||.|    ++=--.|.+.+.+.+-+ .++.+-..++ +.+++.+..+
T Consensus       102 vliAgG~G----ItP~~s~l~~~~~~~~~-~~v~l~~g~r-~~~d~~~~~e  146 (224)
T cd06187         102 LCIAGGTG----LAPLRAIVEDALRRGEP-RPVHLFFGAR-TERDLYDLEG  146 (224)
T ss_pred             EEEECCCC----CCHHHHHHHHHHHCCCC-CEEEEEEECC-CHHHHHHHHH
T ss_conf             99965756----23599999999975999-8289997158-8799888999


No 175
>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=31.36  E-value=36  Score=14.35  Aligned_cols=69  Identities=7%  Similarity=0.058  Sum_probs=43.6

Q ss_pred             CHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEE--EECCHHHHHHHHHHHHHCCCEEE
Q ss_conf             8279999999974999878111101466577799999997623686408--85345889999999997698189
Q gi|255764508|r  129 AESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNII--LVSSAYHLKRSQLYFQHFGINTK  200 (242)
Q Consensus       129 ~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vi--lVTsa~Hm~RA~~~f~~~gi~~~  200 (242)
                      ...++.+.++..+|+|-   +....+....++....++.+++.+.+.++  =|-|.+|..|-...+++.|+++.
T Consensus        45 ~~~~l~~~qA~algiPl---~~~~~~~~~e~~~~~L~~~l~~~~i~~vv~GdI~s~~qr~~~e~~c~~lgl~~~  115 (219)
T pfam01902        45 PNLHLTKLLAEALGIPI---IKLYTKGEEEKEVEDLAGFLESLDVDALVAGAIYSEYQKSRIESVCRELGLKPF  115 (219)
T ss_pred             CCHHHHHHHHHHCCCCE---EEEECCCCHHHHHHHHHHHHHHCCCCEEEECCCCCHHHHHHHHHHHHHCCCEEE
T ss_conf             78899999999759968---999679861799999999998759869999860368899999999997298897


No 176
>PRK12775 putative trifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta/ferritin domain-containing protein; Provisional
Probab=31.29  E-value=36  Score=14.34  Aligned_cols=121  Identities=14%  Similarity=0.136  Sum_probs=67.0

Q ss_pred             CCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHH
Q ss_conf             54446454568758999625213777765554346820589999999999825200575338970688887788827999
Q gi|255764508|r   55 RPLLSPQWKKDGNIIVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVY  134 (242)
Q Consensus        55 ~~~~~~~~~~~~d~IVVLGgG~~~~~~~~~~~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m  134 (242)
                      -|.-.|.+.++..-+++.|||+-..+..             -+.+  .|.++|    .. -+.+.|+...+.-+-|-+ |
T Consensus        88 GPLG~Ps~Ie~~G~Vv~VgGGvGiApv~-------------Piak--aLke~G----N~-V~~IiGaR~kdlvilede-~  146 (993)
T PRK12775         88 GPLGLPQHIDKAGHVVFVGGGLGVAPIF-------------PQLR--AFKEAG----AR-TTAIMGFRNKDLVFWEDK-F  146 (993)
T ss_pred             CCCCCCCCCCCCCEEEEEECCEEHHHHH-------------HHHH--HHHHCC----CE-EEEEEECCCCCCEEHHHH-H
T ss_conf             6799964102577399990877430238-------------9999--999859----90-899984266002334999-9


Q ss_pred             HHHHHHCCCCHHHHHCCHHHHHHHHHHHH-HHHHHHHCCCCCEEEECCHHHHHHHHHHHHHCCCEEEE
Q ss_conf             99999749998781111014665777999-99997623686408853458899999999976981899
Q gi|255764508|r  135 NNKLLESGVERDDIKLETQSLDTFQNAQF-SSSMIKNMQGKNIILVSSAYHLKRSQLYFQHFGINTKA  201 (242)
Q Consensus       135 ~~~l~~~Gv~~~~I~~e~~s~nT~ena~~-~~~il~~~~~~~vilVTsa~Hm~RA~~~f~~~gi~~~p  201 (242)
                      +++.-+     =-|..++-|.--...... .++++++.+.+.++.|-..-.|+.....-+..|++++.
T Consensus       147 ~~~sde-----l~i~TDDGS~G~kG~VTd~L~elle~~k~D~V~aIGP~~MMK~vs~~Tk~ygIpT~V  209 (993)
T PRK12775        147 REYADD-----LIICTDDGSYGEPGFVTAALKRVCEKQKPDKVVAIGPMPMMHACVETTRPFGVKTMV  209 (993)
T ss_pred             HHHCCC-----EEEECCCCCCCCCCEEHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHHCCCCCCEEE
T ss_conf             864683-----899768999875642069999998668988899989889999999872525997589


No 177
>TIGR03402 FeS_nifS cysteine desulfurase NifS. Members of this protein family are NifS, one of several related families of cysteine desulfurase involved in iron-sulfur (FeS) cluster biosynthesis. NifS is part of the NIF system, usually associated with other nif genes involved in nitrogenase expression and nitrogen fixation. The protein family is given a fairly broad interpretation here. It includes a clade nearly always found in extended nitrogen fixation genomic regions, plus a second clade more closely related to the first than to IscS and also part of NifS-like/NifU-like systems. This model does not extend to a more distantly clade found in the epsilon proteobacteria such as Helicobacter pylori, also named NifS in the literature, built instead in TIGR03403.
Probab=31.17  E-value=36  Score=14.33  Aligned_cols=18  Identities=11%  Similarity=-0.033  Sum_probs=8.4

Q ss_pred             CHHHHHHHHHHHHHHHHH
Q ss_conf             457889899999999999
Q gi|255764508|r  216 LSANFYLTELALKEYIGI  233 (242)
Q Consensus       216 ~~~~l~~~~~~~~E~ig~  233 (242)
                      +.+-.+..-.+++|-+..
T Consensus       355 T~edId~li~aL~~iv~~  372 (379)
T TIGR03402       355 TEEDIDYVLEVLPPIIAR  372 (379)
T ss_pred             CHHHHHHHHHHHHHHHHH
T ss_conf             999999999999999999


No 178
>TIGR01007 eps_fam capsular exopolysaccharide family; InterPro: IPR005702    This family describes the capsular exopolysaccharide proteins in bacteria. The exopolysaccharide gene cluster consists of several genes which encode a number of proteins which regulate the exoploysaccharide biosynthesis (EPS). At least 13 genes EpsA to EpsM in streptococcus species seem to direct the EPS proteins and share high homology. ; GO: 0030234 enzyme regulator activity, 0045227 capsule polysaccharide biosynthetic process.
Probab=30.80  E-value=37  Score=14.29  Aligned_cols=84  Identities=21%  Similarity=0.223  Sum_probs=57.1

Q ss_pred             CCEEEECCCCCCCCCCCH---HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHH--
Q ss_conf             533897068888778882---799999999749998781111014665777999999976236864088534588999--
Q gi|255764508|r  113 HCTIIISGGDPQKHGLAE---SIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKR--  187 (242)
Q Consensus       113 ~~~ii~SGg~~~~~~~~E---a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa~Hm~R--  187 (242)
                      ++.+|.||--++  .++|   ++.|++.+...-=-=|=|++|.-+-++.=-|.    ++.+ ..+..+|||.|....|  
T Consensus        98 nL~vi~sG~vPP--NPt~LL~s~~F~~l~e~~~~~fD~iiiDTPPig~V~DAa----i~a~-~~d~~~LV~~A~~~~k~~  170 (207)
T TIGR01007        98 NLDVITSGPVPP--NPTELLQSSNFKTLIETLRKYFDYIIIDTPPIGTVIDAA----IIAR-AVDASILVTDAGKIKKRE  170 (207)
T ss_pred             CCEEECCCCCCC--CHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCHHHHHH----HHHH-HHCCEEEEEECCCCCHHH
T ss_conf             872751788787--754788889999999998716888999518866678899----9998-729779887225326467


Q ss_pred             ---HHHHHHHCCCEEEEEE
Q ss_conf             ---9999997698189984
Q gi|255764508|r  188 ---SQLYFQHFGINTKASC  203 (242)
Q Consensus       188 ---A~~~f~~~gi~~~p~~  203 (242)
                         |+...++.|=++-++-
T Consensus       171 v~KAK~~LEq~G~~~LGvv  189 (207)
T TIGR01007       171 VKKAKEQLEQAGSKFLGVV  189 (207)
T ss_pred             HHHHHHHHHHHCCCEEEEE
T ss_conf             8999999986178411588


No 179
>KOG3814 consensus
Probab=30.77  E-value=37  Score=14.28  Aligned_cols=20  Identities=15%  Similarity=0.522  Sum_probs=14.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q ss_conf             39999999999998301148
Q gi|255764508|r    2 LLSWIFLIVSYWHLLCQSIR   21 (242)
Q Consensus         2 ~l~li~lii~~~~~~~~~~~   21 (242)
                      -+-+++|++..|.++.|+..
T Consensus       162 A~kll~L~ig~walf~Rk~~  181 (531)
T KOG3814         162 AFKLLILLIGIWALFFRKAM  181 (531)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999999899823210


No 180
>KOG0430 consensus
Probab=30.75  E-value=12  Score=17.36  Aligned_cols=64  Identities=13%  Similarity=0.259  Sum_probs=39.2

Q ss_pred             HHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHH--HHHCC----CCCEEEECCHHHHHHHHH-------HHHHCCCEE
Q ss_conf             99999997499987811110146657779999999--76236----864088534588999999-------999769818
Q gi|255764508|r  133 VYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSM--IKNMQ----GKNIILVSSAYHLKRSQL-------YFQHFGINT  199 (242)
Q Consensus       133 ~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~i--l~~~~----~~~vilVTsa~Hm~RA~~-------~f~~~gi~~  199 (242)
                      +|.+.+.+.|.+.+.|..-|    +|++...+..-  +.+..    | .-.+++|.||-+|...       .++|.|+-.
T Consensus       886 iie~VA~~~g~d~~eVR~~N----~y~eg~~~~~~~~~~~~~l~~~w-~~~~~sS~y~~Rk~ev~~FN~~N~WrKRGi~~  960 (1257)
T KOG0430         886 IIERIAFELGKDPEEVRKIN----FYVEGSLTYYHGELQHCTLPQLW-PECLVSSKFEKRKSEIEEFNKENRWKKRGLAM  960 (1257)
T ss_pred             HHHHHHHHHCCCHHHHHHHH----HHHHCCCCCCCCCCCCCCHHHHH-HHHHHHHHHHHHHHHHHHHHHCCCEECCCCEE
T ss_conf             99999999698999986521----34303522156773547489999-99987555888999999850305001156157


Q ss_pred             EE
Q ss_conf             99
Q gi|255764508|r  200 KA  201 (242)
Q Consensus       200 ~p  201 (242)
                      +|
T Consensus       961 vp  962 (1257)
T KOG0430         961 VP  962 (1257)
T ss_pred             EE
T ss_conf             33


No 181
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=30.51  E-value=37  Score=14.25  Aligned_cols=58  Identities=16%  Similarity=0.151  Sum_probs=44.8

Q ss_pred             HCCHHHHHHHHHHHHHHHHHHHCCCCCEE----------EECCHHHHHHHHHHHHHCCCEEEEEECCC
Q ss_conf             11101466577799999997623686408----------85345889999999997698189984266
Q gi|255764508|r  149 KLETQSLDTFQNAQFSSSMIKNMQGKNII----------LVSSAYHLKRSQLYFQHFGINTKASCSDY  206 (242)
Q Consensus       149 ~~e~~s~nT~ena~~~~~il~~~~~~~vi----------lVTsa~Hm~RA~~~f~~~gi~~~p~~~d~  206 (242)
                      +--+.+--|.|+|+.++++.++....+++          |--+.+-..+|-...-+.|+.|-||-+|.
T Consensus       141 LPNTAGc~ta~eAvr~a~lARe~~~t~~iKLEVi~D~~tL~Pd~~etl~Aae~Lv~eGF~VlpY~~dD  208 (327)
T PRK11840        141 LPNTAGCFTAEDAVRTLRLAREAGGWDLVKLEVLGDQKTLYPDMVETLKAAEVLVKEGFQVMVYCSDD  208 (327)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCHHHHHHHHHHHHHCCCEEEEEECCC
T ss_conf             98565778899999999999985599858999807976679985899999999997898898871698


No 182
>cd01173 pyridoxal_pyridoxamine_kinase Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate  (PLP), by catalyzing the phosphorylation of the precursor vitamin B6  in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and require its precursors in the form of vitamin B6 (pyridoxal, pyridoxine, and pyridoxamine) from their diet. Pyridoxal kinase encoding genes are also found in many other species including yeast and bacteria.
Probab=30.46  E-value=37  Score=14.25  Aligned_cols=85  Identities=13%  Similarity=0.169  Sum_probs=44.7

Q ss_pred             HHHHHHHHHHCCCCCCCCEEEEC---CCCCCCCCCCH--HHHHHHHHHHC--CC----CHHHHHCCHHHHHHHHHHHHHH
Q ss_conf             99999999825200575338970---68888778882--79999999974--99----9878111101466577799999
Q gi|255764508|r   97 IFETMRLYKSCKQHSMHCTIIIS---GGDPQKHGLAE--SIVYNNKLLES--GV----ERDDIKLETQSLDTFQNAQFSS  165 (242)
Q Consensus        97 l~~a~~L~~~~~~~~~~~~ii~S---Gg~~~~~~~~E--a~~m~~~l~~~--Gv----~~~~I~~e~~s~nT~ena~~~~  165 (242)
                      +..-.+..++.++++++.++++-   |..+.....+|  .+.|++.+..+  -+    ++-.++. ...-+|.+++....
T Consensus        87 i~~v~~~i~~~k~~~~~~~~v~DPVmgD~g~~y~~~~~~~~~~r~~L~p~AdviTPN~~Ea~~Lt-g~~i~~~~~~~~aa  165 (254)
T cd01173          87 VEAVAEIVKRLKEKNPNLLYVCDPVMGDNGKLYVVAEEIVPVYRDLLVPLADIITPNQFELELLT-GKKINDLEDAKAAA  165 (254)
T ss_pred             HHHHHHHHHHHHHCCCCCCEEECCEEECCCCCCCCCHHHHHHHHHHHHCCCCEECCCHHHHHHHH-CCCCCCHHHHHHHH
T ss_conf             99999999998624898738965158529988437889999999973131007158989999982-99979999999999


Q ss_pred             HHHHHCCCCCEEEECCHH
Q ss_conf             997623686408853458
Q gi|255764508|r  166 SMIKNMQGKNIILVSSAY  183 (242)
Q Consensus       166 ~il~~~~~~~vilVTsa~  183 (242)
                      +.+.+.+. +.++|||.-
T Consensus       166 ~~L~~~g~-~~Vvitg~~  182 (254)
T cd01173         166 RALHAKGP-KTVVVTSVE  182 (254)
T ss_pred             HHHHHHCC-CEEEECCCC
T ss_conf             99997089-999999865


No 183
>cd06194 FNR_N-term_Iron_sulfur_binding Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an N-terminal Iron-Sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap betweed the two domains. Ferredoxin-NADP+ reductase first accepts one electron from reduced ferredoxin to form a flavin semiquinone intermediate. The enzyme then accepts a second e
Probab=30.06  E-value=38  Score=14.20  Aligned_cols=42  Identities=12%  Similarity=0.168  Sum_probs=18.4

Q ss_pred             EEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHH
Q ss_conf             897068888778882799999999749998781111014665777999
Q gi|255764508|r  116 IIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQF  163 (242)
Q Consensus       116 ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~  163 (242)
                      ++++||.|-.    =--.|-+.+...+- ..+|.+-.-++ |.+...+
T Consensus       101 vlIAgG~Git----P~~s~l~~~~~~~~-~~~i~l~~g~r-~~~~l~~  142 (222)
T cd06194         101 LLVGAGTGLA----PLWGIARAALRQGH-QGEIRLVHGAR-DPDDLYL  142 (222)
T ss_pred             EEEECCCCCC----CHHHHHHHHHHHCC-CCEEEEEEEEC-CHHHHHH
T ss_conf             9997476755----09999999998399-97599999839-9899430


No 184
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=30.00  E-value=38  Score=14.20  Aligned_cols=40  Identities=13%  Similarity=0.080  Sum_probs=33.4

Q ss_pred             HHHHHCCCCCEEEECCHHHHHHHHHHHHHCCCEEEEEECC
Q ss_conf             9976236864088534588999999999769818998426
Q gi|255764508|r  166 SMIKNMQGKNIILVSSAYHLKRSQLYFQHFGINTKASCSD  205 (242)
Q Consensus       166 ~il~~~~~~~vilVTsa~Hm~RA~~~f~~~gi~~~p~~~d  205 (242)
                      ++..+...+.++|||++--+-.+....+..|..++-+..+
T Consensus        93 ~~a~~~~~D~~vLvSgD~Df~p~v~~lr~~Gk~V~v~~~~  132 (149)
T cd06167          93 ELAYKRRIDTIVLVSGDSDFVPLVERLRELGKRVIVVGFE  132 (149)
T ss_pred             HHHHCCCCCEEEEEECCHHHHHHHHHHHHCCCEEEEEECC
T ss_conf             9961389998999957772799999999879999999748


No 185
>TIGR02478 6PF1K_euk 6-phosphofructokinase; InterPro: IPR009161    Members of this family are eukaryotic (with one exception) ATP-dependent 6-phosphofructokinases (2.7.1.11 from EC) in which two tandem copies of the phosphofructokinase are found . Members are found, often including several isozymes, in animals and fungi and in the bacterium Propionibacterium acnes KPA171202 (a human skin commensal).   Phosphofructokinase (PFK) catalyses the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate, which then enters the Embden-Meyerhof pathway. PFK is a key regulatory enzyme in glycolysis.   For additional information please see , , .; GO: 0003872 6-phosphofructokinase activity, 0006096 glycolysis, 0005737 cytoplasm.
Probab=29.81  E-value=30  Score=14.88  Aligned_cols=14  Identities=0%  Similarity=-0.249  Sum_probs=5.3

Q ss_pred             HHHHHHHHHHCCCC
Q ss_conf             99999997623686
Q gi|255764508|r  161 AQFSSSMIKNMQGK  174 (242)
Q Consensus       161 a~~~~~il~~~~~~  174 (242)
                      +...+.-+++++++
T Consensus       488 ~~~iA~~f~~~kiD  501 (777)
T TIGR02478       488 LGEIAYKFQKHKID  501 (777)
T ss_pred             HHHHHHHHHHCCCC
T ss_conf             89999999860988


No 186
>pfam05690 ThiG Thiazole biosynthesis protein ThiG. This family consists of several bacterial thiazole biosynthesis protein G sequences. ThiG, together with ThiF and ThiH, is proposed to be involved in the synthesis of 4-methyl-5-(b-hydroxyethyl)thiazole (THZ) which is an intermediate in the thiazole production pathway.
Probab=29.78  E-value=38  Score=14.17  Aligned_cols=71  Identities=14%  Similarity=0.118  Sum_probs=50.4

Q ss_pred             HHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCE----------EEECCHHHHHHHHHHHHHCCCEEEEE
Q ss_conf             99999997499987811110146657779999999762368640----------88534588999999999769818998
Q gi|255764508|r  133 VYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNI----------ILVSSAYHLKRSQLYFQHFGINTKAS  202 (242)
Q Consensus       133 ~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~v----------ilVTsa~Hm~RA~~~f~~~gi~~~p~  202 (242)
                      ..-+++-..++   .++--+.+--|.|+|+.++++.++-...++          .|--+.+-..+|-...-+.|+.|-||
T Consensus        52 ~~l~~i~~~~~---~iLPNTAGc~tA~EAVr~A~laRE~~~t~wIKLEVi~D~~~LlPD~~etl~Aae~Lv~eGF~VlpY  128 (246)
T pfam05690        52 NFLDLLDWLGI---TLLPNTAGCRTAEEAVRTARLAREAFGTNWIKLEVIGDSKTLLPDPIETLKAAEILVKEGFTVLPY  128 (246)
T ss_pred             HHHHHHHHCCC---EECCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCHHHHHHHHHHHHHCCCEEEEE
T ss_conf             58886413386---677763011889999999999999709974899982698877988789999999999789989886


Q ss_pred             ECCC
Q ss_conf             4266
Q gi|255764508|r  203 CSDY  206 (242)
Q Consensus       203 ~~d~  206 (242)
                      -+|.
T Consensus       129 ~~~D  132 (246)
T pfam05690       129 TTDD  132 (246)
T ss_pred             CCCC
T ss_conf             1799


No 187
>cd06188 NADH_quinone_reductase Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase, and has NADH and FAD binding sites. (Na+-NQR) is distinct from H+-translocating NADH:quinone oxidoreductases and noncoupled NADH:quinone oxidoreductases. The NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which vary in orientation with respect to the NAD(P) binding domain. The N-terminal domain of this group typically contains an iron-sulfur cluster binding domain.
Probab=29.39  E-value=39  Score=14.13  Aligned_cols=46  Identities=15%  Similarity=0.148  Sum_probs=20.6

Q ss_pred             EEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHH
Q ss_conf             389706888877888279999999974999878111101466577799999
Q gi|255764508|r  115 TIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSS  165 (242)
Q Consensus       115 ~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~  165 (242)
                      -+++.||.|-    +=-..|-+.+.+.+-+...|.+-.-++ |.+...+..
T Consensus       153 lvlIAgGtGI----aPl~Sml~~~l~~~~~~r~v~l~ygaR-~~~dl~~~~  198 (283)
T cd06188         153 MVFIGGGAGM----APLRSHIFHLLKTLKSKRKISFWYGAR-SLKELFYQE  198 (283)
T ss_pred             EEEEEECCCC----CHHHHHHHHHHHHCCCCCCEEEEEEEC-CHHHHHHHH
T ss_conf             2899835674----469999999998269997289999708-889974499


No 188
>cd04728 ThiG Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes the formation of thiazole from 1-deoxy-D-xylulose 5-phosphate (DXP) and dehydroglycine, with the help of the sulfur carrier protein ThiS that carries the sulfur needed for thiazole assembly on its carboxy terminus (ThiS-COSH).
Probab=29.20  E-value=39  Score=14.11  Aligned_cols=72  Identities=17%  Similarity=0.209  Sum_probs=49.9

Q ss_pred             HHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEE----------EECCHHHHHHHHHHHHHCCCEEEE
Q ss_conf             9999999974999878111101466577799999997623686408----------853458899999999976981899
Q gi|255764508|r  132 IVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNII----------LVSSAYHLKRSQLYFQHFGINTKA  201 (242)
Q Consensus       132 ~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vi----------lVTsa~Hm~RA~~~f~~~gi~~~p  201 (242)
                      +..-+++-..++   .++--+.+--|.|+|+.++++.++-...+++          |--+.+-..+|-...-+.|+.|-|
T Consensus        52 ~~~l~~i~~~~~---~~LPNTAGc~ta~EAvr~A~laRE~~~t~~IKLEVi~D~~~LlPD~~eTl~Aae~Lv~~GF~Vlp  128 (248)
T cd04728          52 ESFLDLLDKSGY---TLLPNTAGCRTAEEAVRTARLAREALGTDWIKLEVIGDDKTLLPDPIETLKAAEILVKEGFTVLP  128 (248)
T ss_pred             HHHHHHHHHCCC---EECCCCCCCCCHHHHHHHHHHHHHHHCCCEEEEEEECCCCCCCCCHHHHHHHHHHHHHCCCEEEE
T ss_conf             268987523386---68765401167999999999999984898699998179767798868999999999988998978


Q ss_pred             EECCC
Q ss_conf             84266
Q gi|255764508|r  202 SCSDY  206 (242)
Q Consensus       202 ~~~d~  206 (242)
                      |-+|.
T Consensus       129 Y~~~D  133 (248)
T cd04728         129 YCTDD  133 (248)
T ss_pred             ECCCC
T ss_conf             67889


No 189
>pfam00580 UvrD-helicase UvrD/REP helicase. The Rep family helicases are composed of four structural domains. The Rep family function as dimers. REP helicases catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. Bacillus subtilis addA and Escherichia coli exodeoxyribonuclease V beta have large insertions near to the carboxy-terminus relative to other members of the family.
Probab=28.79  E-value=40  Score=14.07  Aligned_cols=50  Identities=22%  Similarity=0.230  Sum_probs=34.2

Q ss_pred             HHHHHHHHHHHHHHHHHHC---C-----CCCEEEECCHHHHHHHHHHHHHCCCEEEEE
Q ss_conf             1466577799999997623---6-----864088534588999999999769818998
Q gi|255764508|r  153 QSLDTFQNAQFSSSMIKNM---Q-----GKNIILVSSAYHLKRSQLYFQHFGINTKAS  202 (242)
Q Consensus       153 ~s~nT~ena~~~~~il~~~---~-----~~~vilVTsa~Hm~RA~~~f~~~gi~~~p~  202 (242)
                      ...|..++|...++.+...   +     .+=.+|+-+..|.+.-...+++.||...-.
T Consensus       322 ~~~~~~~Ea~~ia~~I~~l~~~~~~~~~~DiAIL~R~~~~~~~l~~~L~~~gIP~~~~  379 (494)
T pfam00580       322 EAETEQEEAEFIADEIKALHKSGAAIPFGDIAVLVRSNSQSRAIEEALLKAGIPYKIL  379 (494)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEECCHHHHHHHHHHHHCCCCEEEE
T ss_conf             3799999999999999999877999885656899825231899999999779998998


No 190
>PRK03612 spermidine synthase; Provisional
Probab=28.74  E-value=40  Score=14.06  Aligned_cols=27  Identities=15%  Similarity=0.190  Sum_probs=19.3

Q ss_pred             CCHHHHHHHHHHHH----HCCCEEEEEECCC
Q ss_conf             34588999999999----7698189984266
Q gi|255764508|r  180 SSAYHLKRSQLYFQ----HFGINTKASCSDY  206 (242)
Q Consensus       180 Tsa~Hm~RA~~~f~----~~gi~~~p~~~d~  206 (242)
                      ||+||-|++.++-.    ..|+.+.||.++-
T Consensus       412 ~Sp~~~~~~f~~i~~T~~~~~~~~~~y~~~v  442 (516)
T PRK03612        412 TSPYFAPKAFWSIEATLEAAGFATTPYHVNV  442 (516)
T ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCCCEECC
T ss_conf             8975522034689999998388041324558


No 191
>PRK01688 histidinol-phosphate aminotransferase; Provisional
Probab=28.61  E-value=40  Score=14.05  Aligned_cols=67  Identities=10%  Similarity=0.160  Sum_probs=26.8

Q ss_pred             HHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHHHCCCEEEEEEC
Q ss_conf             999999974999878111101466577799999997623686408853458899999999976981899842
Q gi|255764508|r  133 VYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQHFGINTKASCS  204 (242)
Q Consensus       133 ~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa~Hm~RA~~~f~~~gi~~~p~~~  204 (242)
                      ..+..+...||+++.|++.+-|..-.+-+.   +.+-+.|.+.++.....|-|.+  ..++..|.++..+|.
T Consensus        62 Lr~alA~~~gv~~e~I~vGnGSdElI~~l~---raf~~pg~d~vl~~~PtF~~Y~--~~a~~~g~~~~~vpl  128 (355)
T PRK01688         62 VIENYAQYAGVKPEQVLVSRGADEGIELLI---RAFCEPGKDAILYCPPTYGMYS--VSAETIGVECRTVPT  128 (355)
T ss_pred             HHHHHHHHHCCCHHHEEEECCHHHHHHHHH---HHHHCCCCCEEEECCCCHHHHH--HHHHHCCCEEEEECC
T ss_conf             999999986858778998168999999999---9985589974997788768999--999867957999527


No 192
>PRK04165 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional
Probab=28.41  E-value=40  Score=14.02  Aligned_cols=48  Identities=27%  Similarity=0.385  Sum_probs=20.5

Q ss_pred             HHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHH
Q ss_conf             999999999825200575338970688887788827999999997499987811110146
Q gi|255764508|r   96 RIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSL  155 (242)
Q Consensus        96 Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~  155 (242)
                      -..+-++|.+++     +||+.++|.     +..|-..+.+-+.+.|+  .+|++|+.++
T Consensus       189 N~~~m~~LA~~~-----~~Pl~V~a~-----~L~~L~~l~~~~~~~Gi--kdlVLDpg~~  236 (454)
T PRK04165        189 NWKEMAELAKEY-----NCPLVVSAP-----NLEELKSLVKKLQAAGI--KDIVLDPGTE  236 (454)
T ss_pred             HHHHHHHHHHHC-----CCCEEEECC-----CHHHHHHHHHHHHHCCC--CCEEECCCCC
T ss_conf             899999999874-----984799779-----98999999999997698--5278889974


No 193
>TIGR03127 RuMP_HxlB 6-phospho 3-hexuloisomerase. Members of this protein family are 6-phospho 3-hexuloisomerase (PHI), or the PHI domain of a fusion protein. This enzyme is part of the ribulose monophosphate (RuMP) pathway, which in one direction removes the toxic metabolite formaldehyde by assimilation into fructose-6-phosphate. In the other direction, in species lacking a complete pentose phosphate pathway, the RuMP pathway yields ribulose-5-phosphate, necessary for nucleotide biosynthesis, at the cost of also yielding formaldehyde. These latter species tend usually have a formaldehyde-activating enzyme to attach formaldehyde to the C1 carrier tetrahydromethanopterin.
Probab=28.35  E-value=40  Score=14.02  Aligned_cols=89  Identities=15%  Similarity=0.101  Sum_probs=51.4

Q ss_pred             HHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHHHCCCEE-EEEEC--CCCCCCCCCCCCHHHHHH
Q ss_conf             781111014665777999999976236864088534588999999999769818-99842--664431113754578898
Q gi|255764508|r  146 DDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQHFGINT-KASCS--DYLNAYYSIIPLSANFYL  222 (242)
Q Consensus       146 ~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa~Hm~RA~~~f~~~gi~~-~p~~~--d~~~~~~~~~p~~~~l~~  222 (242)
                      +-++.-..|-+|.|- ....+..+++|. +++.||+..+-+=|    +...+.. +|.++  |....+.+..|.+.-+..
T Consensus        74 Dv~I~iS~SGeT~e~-~~~~~~aK~~ga-~ii~IT~~~~S~La----k~aD~~l~ip~~~~~~~~~~~~~~~p~~s~~e~  147 (179)
T TIGR03127        74 DLLIAISGSGETESL-VTVAKKAKEIGA-TVAAITTNPESTLG----KLADVVVEIPAATKKDSEGNYKSIQPLGSLFEQ  147 (179)
T ss_pred             CEEEEECCCCCCHHH-HHHHHHHHHCCC-EEEEEECCCCCHHH----HHCCEEEEECCCCCCCCCCCCCCCCCCCCHHHH
T ss_conf             999998199996899-999999998799-29999798989779----949999990686545777885666866749999


Q ss_pred             HHHHHHHHHHHHHHHHHC
Q ss_conf             999999999999999864
Q gi|255764508|r  223 TELALKEYIGILIAYYRG  240 (242)
Q Consensus       223 ~~~~~~E~ig~l~~~~~g  240 (242)
                      ...++-+.+.+.....+|
T Consensus       148 ~~l~~~Dal~~~l~~~~~  165 (179)
T TIGR03127       148 SLLLFLDAVILKLMKKKG  165 (179)
T ss_pred             HHHHHHHHHHHHHHHHCC
T ss_conf             999999999999999819


No 194
>COG0313 Predicted methyltransferases [General function prediction only]
Probab=28.04  E-value=41  Score=13.98  Aligned_cols=82  Identities=20%  Similarity=0.225  Sum_probs=51.3

Q ss_pred             HHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCH---------HHHHHHHHHHHHCCCEEEEE
Q ss_conf             999999997499987811110146657779999999762368640885345---------88999999999769818998
Q gi|255764508|r  132 IVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSA---------YHLKRSQLYFQHFGINTKAS  202 (242)
Q Consensus       132 ~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa---------~Hm~RA~~~f~~~gi~~~p~  202 (242)
                      ...+..|-.+||...  .+-...+|-.+...+..+.+++  .+++.+||+|         |++-|   .+++.|+.|+|.
T Consensus        40 R~t~~LL~~~~I~~~--~is~h~hne~~~~~~li~~l~~--g~~valVSDAG~P~ISDPG~~LV~---~a~~~gi~V~~l  112 (275)
T COG0313          40 RVTRKLLSHLGIKTP--LISYHEHNEKEKLPKLIPLLKK--GKSVALVSDAGTPLISDPGYELVR---AAREAGIRVVPL  112 (275)
T ss_pred             HHHHHHHHHHCCCCC--EECCCCCCHHHHHHHHHHHHHC--CCEEEEEECCCCCCCCCCCHHHHH---HHHHCCCCEEEC
T ss_conf             779999997399983--4503478677879999999866--984899805899766685099999---999869918966


Q ss_pred             ECCC-----------CC---CCCCCCCCHHHH
Q ss_conf             4266-----------44---311137545788
Q gi|255764508|r  203 CSDY-----------LN---AYYSIIPLSANF  220 (242)
Q Consensus       203 ~~d~-----------~~---~~~~~~p~~~~l  220 (242)
                      |-.-           .+   ...+|+|....=
T Consensus       113 PG~sA~~tAL~~SGl~~~~F~F~GFLP~k~~~  144 (275)
T COG0313         113 PGPSALITALSASGLPSQRFLFEGFLPRKSKE  144 (275)
T ss_pred             CCCCHHHHHHHHCCCCCCCEEEECCCCCCCCH
T ss_conf             88349999999758999972684117998327


No 195
>cd05844 GT1_like_7 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 homology. The large cleft that separates the two domains includes the catalytic center
Probab=28.00  E-value=33  Score=14.61  Aligned_cols=93  Identities=15%  Similarity=0.088  Sum_probs=52.8

Q ss_pred             HHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             89999999999825200575338970688887788827999999997499987811110146657779999999762368
Q gi|255764508|r   94 YSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQG  173 (242)
Q Consensus        94 ~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~  173 (242)
                      .+-+.+|+...+   .+.++.++++-|. |     ++.+.+++...++|+...-.++...+.+..      .+++..   
T Consensus       203 ~~~li~A~~~l~---~~~p~~~l~ivG~-G-----p~~~~l~~~~~~l~l~~~V~f~G~~~~~~v------~~~l~~---  264 (367)
T cd05844         203 PLLLLEAFARLA---RRVPEVRLVIIGD-G-----PLLAALEALARALGLGGRVTFLGAQPHAEV------RELMRR---  264 (367)
T ss_pred             HHHHHHHHHHHH---HHCCCEEEEEEEC-C-----CCHHHHHHHHHHCCCCCCEEECCCCCCHHH------HHHHHH---
T ss_conf             699999999979---6686979999988-8-----378999999997098763787788981889------999985---


Q ss_pred             CCEEEECCH-------HHHHHHHHHHHHCCCEEEEEEC
Q ss_conf             640885345-------8899999999976981899842
Q gi|255764508|r  174 KNIILVSSA-------YHLKRSQLYFQHFGINTKASCS  204 (242)
Q Consensus       174 ~~vilVTsa-------~Hm~RA~~~f~~~gi~~~p~~~  204 (242)
                      ..+.+..|-       --++-+...+...|..|+....
T Consensus       265 adv~v~PS~~~~~g~~Eg~~~~~lEAmA~G~PVVat~~  302 (367)
T cd05844         265 ARIFLQPSVTAPSGDAEGLPVVLLEAQASGVPVVATRH  302 (367)
T ss_pred             CCEEEEEEEECCCCCCCCCCHHHHHHHHCCCCEEEECC
T ss_conf             78799600203778856763799999984997899279


No 196
>PRK12309 transaldolase/EF-hand domain-containing protein; Provisional
Probab=27.99  E-value=41  Score=13.98  Aligned_cols=61  Identities=8%  Similarity=0.155  Sum_probs=40.0

Q ss_pred             CHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHHH
Q ss_conf             827999999997499987811110146657779999999762368640885345889999999997
Q gi|255764508|r  129 AESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQH  194 (242)
Q Consensus       129 ~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa~Hm~RA~~~f~~  194 (242)
                      .+|.-+-....+.||+.++|++---  .|||-.+.. +.|++.|++  .-+|==|.+.-|..+++.
T Consensus       114 ~kAr~Li~lYe~~GI~~dRilIKIa--sTWEGI~Aa-~~Le~eGI~--cNlTLlFs~aQA~acAeA  174 (391)
T PRK12309        114 AKARKLIGLYEDAGISRDRVLIKIA--STWEGIKAA-EVLEKEGIH--CNLTLLFGFHQAIACAEA  174 (391)
T ss_pred             HHHHHHHHHHHHCCCCCCCEEEECC--CCHHHHHHH-HHHHHCCCE--EEEEEECCHHHHHHHHHC
T ss_conf             9999999999972998343478547--878999999-999865960--436666479999999974


No 197
>cd01542 PBP1_TreR_like Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of TreR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding wh
Probab=27.41  E-value=42  Score=13.91  Aligned_cols=91  Identities=14%  Similarity=0.146  Sum_probs=52.9

Q ss_pred             HHHHHHHHCCCCCCCCEEEECCCCCCCCCCC-H-HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHH-HHHHHHHHCCCCC
Q ss_conf             9999998252005753389706888877888-2-79999999974999878111101466577799-9999976236864
Q gi|255764508|r   99 ETMRLYKSCKQHSMHCTIIISGGDPQKHGLA-E-SIVYNNKLLESGVERDDIKLETQSLDTFQNAQ-FSSSMIKNMQGKN  175 (242)
Q Consensus        99 ~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~-E-a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~-~~~~il~~~~~~~  175 (242)
                      .+-.|+++|..     +|.+-|+...+.... | -+..++.+.+.|++...+...+   .+.|.+. ..++++++.+ .+
T Consensus       105 a~~~L~~~Ghr-----~I~~i~~~~~~~~~~~~R~~G~~~al~~~g~~~~~~~~~~---~~~~~~~~~~~~ll~~~~-~~  175 (259)
T cd01542         105 LGEYLAQQGHK-----NIAYLGVSESDIAVGILRKQGYLDALKEHGICPPNIVETD---FSYESAYEAAQELLEPQP-PD  175 (259)
T ss_pred             HHHHHHHHCCC-----EEEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEECC---CCHHHHHHHHHHHHHCCC-CC
T ss_conf             99999982898-----5999955865606799999999999997699963599657---877789999999974579-98


Q ss_pred             EEEECCHHHHHHHHHHHHHCCCE
Q ss_conf             08853458899999999976981
Q gi|255764508|r  176 IILVSSAYHLKRSQLYFQHFGIN  198 (242)
Q Consensus       176 vilVTsa~Hm~RA~~~f~~~gi~  198 (242)
                      .++.+|+....-++..+++.|++
T Consensus       176 Ai~~~nD~~A~g~~~~l~~~g~~  198 (259)
T cd01542         176 AIVCATDTIALGAMKYLQELGRR  198 (259)
T ss_pred             CEEECCHHHHHHHHHHHHHCCCC
T ss_conf             32434589999999999981999


No 198
>pfam07085 DRTGG DRTGG domain. This presumed domain is about 120 amino acids in length. It is found associated with CBS domains pfam00571, as well as the CbiA domain pfam01656. The function of this domain is unknown. It is named the DRTGG domain after some of the most conserved residues. This domain may be very distantly related to a pair of CBS domains. There are no significant sequence similarities, but its length and association with CBS domains supports this idea (Bateman A, pers. obs.).
Probab=27.26  E-value=42  Score=13.89  Aligned_cols=39  Identities=23%  Similarity=0.268  Sum_probs=24.5

Q ss_pred             EEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHH
Q ss_conf             38970688887788827999999997499987811110146657779999
Q gi|255764508|r  115 TIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFS  164 (242)
Q Consensus       115 ~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~  164 (242)
                      -+|+|||...+      +.+.+.+.+.|+|     +-....|||+-+...
T Consensus        64 ~iIlTgg~~p~------~~v~~la~~~~ip-----ii~t~~dT~~ta~~i  102 (105)
T pfam07085        64 GLILTGGFEPS------EEVLKLAEEAGLP-----VLSTPYDTFTTARRI  102 (105)
T ss_pred             EEEEECCCCCC------HHHHHHHHHCCCE-----EEEECCCHHHHHHHH
T ss_conf             89994898989------9999999877983-----999668899999998


No 199
>TIGR01466 cobJ_cbiH precorrin-3B C17-methyltransferase; InterPro: IPR006363   Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase . In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase .    There are at least two distinct cobalamin biosynthetic pathways in bacteria :  Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway ; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis ; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii shermanii.     Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) . There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans.   This entry represents CobJ and CbiH precorrin-3B C(17)-methyltransferase (2.1.1.131 from EC), both as stand-alone enzymes and when CobJ forms part of a bifunctional enzyme. In the aerobic pathway, once CobG has generated precorrin-3b, CobJ catalyses the methylation of precorrin-3b at C-17 to form precorrin-4 (the extruded methylated C-20 fragment is left attached as an acyl group at C-1) . In the corresponding anaerobic pathway, CbiH carries out this ring contraction, using cobalt-precorrin-3b as a substrate to generate a tetramethylated delta-lactone.   These proteins belong to the superfamily of tetrapyrrole (corrin/porphyrin) methylases (IPR000878 from INTERPRO), which includes methylases that use S-adenosylmethionine (S-AdoMet) in the methylation of diverse substrates. A number of other methylases in the cobalamin biosynthesis pathway also belong to this domain superfamily (precorrin-3 methylase, IPR012203 from INTERPRO, IPR012059 from INTERPRO, IPR012382 from INTERPRO, IPR012797 from INTERPRO and others), and a fusion of precorrin-3B C17-methyltransferases with precorrin isomerase is represented by IPR014422 from INTERPRO.   Nomenclature note: precorrin-3B C17-methyltransferase is one of the two methyltransferases often referred to as precorrin-3 methylase (the other is precorrin-4 C11-methyltransferase, 2.1.1.133 from EC). ; GO: 0008168 methyltransferase activity, 0009236 cobalamin biosynthetic process.
Probab=27.12  E-value=42  Score=13.88  Aligned_cols=88  Identities=22%  Similarity=0.215  Sum_probs=48.9

Q ss_pred             HHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHH--HHHCCHHHHHHHHHHHHHHHHHHH-
Q ss_conf             89999999999825200575338970688887788827999999997499987--811110146657779999999762-
Q gi|255764508|r   94 YSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERD--DIKLETQSLDTFQNAQFSSSMIKN-  170 (242)
Q Consensus        94 ~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~--~I~~e~~s~nT~ena~~~~~il~~-  170 (242)
                      .+|...|+++.++|+.=     -++|+||+.=.+  -|.+.-+.+.+.+.++.  +|..-+-  =|-=++  .+-+|.. 
T Consensus        57 ~~Ra~~Ai~~A~~G~~V-----AlvSSGDpGiYg--MA~l~~E~~~~~~~~~~~~dieV~PG--iTA~~a--AAs~LGaP  125 (254)
T TIGR01466        57 IERAELAIELAKEGKTV-----ALVSSGDPGIYG--MAALVFEILEKKGLEDVAIDIEVIPG--ITAASA--AASLLGAP  125 (254)
T ss_pred             HHHHHHHHHHHHCCCEE-----EEEECCCHHHHH--HHHHHHHHHHHCCCCCCCEEEEECCC--HHHHHH--HHHHHCCC
T ss_conf             89999999998609948-----999368752788--89999999862389977234798588--337899--99973363


Q ss_pred             CCCCCEEEEC-CHHHHHHHHHHHH
Q ss_conf             3686408853-4588999999999
Q gi|255764508|r  171 MQGKNIILVS-SAYHLKRSQLYFQ  193 (242)
Q Consensus       171 ~~~~~vilVT-sa~Hm~RA~~~f~  193 (242)
                      .+-| ...|+ |+-=.|.+.-+-|
T Consensus       126 L~HD-Fc~ISLSDlLtPw~~Ie~R  148 (254)
T TIGR01466       126 LGHD-FCVISLSDLLTPWPVIEKR  148 (254)
T ss_pred             CCCC-EEEEECCCCCCCHHHHHHH
T ss_conf             1137-8888745556787899999


No 200
>TIGR02109 PQQ_syn_pqqE coenzyme PQQ biosynthesis protein E; InterPro: IPR011843    This entry describes coenzyme PQQ biosynthesis protein E, a gene required for the biosynthesis of pyrrolo-quinoline-quinone (coenzyme PQQ). PQQ is required for some glucose dehydrogenases and alcohol dehydrogenases.; GO: 0051539 4 iron 4 sulfur cluster binding, 0018189 pyrroloquinoline quinone biosynthetic process.
Probab=27.11  E-value=25  Score=15.33  Aligned_cols=100  Identities=12%  Similarity=0.139  Sum_probs=56.4

Q ss_pred             HHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHH----------------------C
Q ss_conf             589999999999825200575338970688887788827999999997499987811----------------------1
Q gi|255764508|r   93 SYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIK----------------------L  150 (242)
Q Consensus        93 ~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~----------------------~  150 (242)
                      +..|=.+.++..++     .+.|+.+=-=. .=+.+.+-+-|=+..+++|  +++|-                      +
T Consensus       130 A~~~Kl~~A~~v~~-----~g~PltLN~V~-HR~Ni~~i~~~i~La~~L~--AdrvE~A~~QyYGWA~~NR~aLlPt~~Q  201 (363)
T TIGR02109       130 AFEQKLAVARAVKA-----AGLPLTLNFVL-HRHNIDQIPEIIELAIELG--ADRVELATTQYYGWALLNRAALLPTREQ  201 (363)
T ss_pred             HHHHHHHHHHHHHH-----CCCCEEEEHCC-CCCHHHHHHHHHHHHHHCC--CCEEEEEEECCHHHHHHHHHHCCCCHHH
T ss_conf             89999999999996-----18981760200-2420213678999998638--9848887402022567745424898899


Q ss_pred             CHHHHHHHHHHHHHHHHHHH-CCCCCEEEECCHHHHHHHHHHHH---HCCCEEEEEE
Q ss_conf             10146657779999999762-36864088534588999999999---7698189984
Q gi|255764508|r  151 ETQSLDTFQNAQFSSSMIKN-MQGKNIILVSSAYHLKRSQLYFQ---HFGINTKASC  203 (242)
Q Consensus       151 e~~s~nT~ena~~~~~il~~-~~~~~vilVTsa~Hm~RA~~~f~---~~gi~~~p~~  203 (242)
                      -++|+-+.++++   +-++- .+.-+++.||.+||-.|=+.++.   +..++|.|..
T Consensus       202 l~~a~r~V~~aR---er~~g~~~~~~l~yV~PDYY~~RPK~CMgGWG~~fl~VTP~G  255 (363)
T TIGR02109       202 LEEATRIVEEAR---ERLKGQGNPLSLDYVVPDYYAERPKACMGGWGRVFLNVTPAG  255 (363)
T ss_pred             HHHHHHHHHHHH---HHHHHCCCCCEEEEECCCCHHCCCCCCCCCCCCCCEEECCCC
T ss_conf             999999999999---998607998236763487121068755686012223247788


No 201
>COG0084 TatD Mg-dependent DNase [DNA replication, recombination, and repair]
Probab=27.02  E-value=41  Score=13.97  Aligned_cols=51  Identities=22%  Similarity=0.297  Sum_probs=29.5

Q ss_pred             CCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHH
Q ss_conf             88279999999974999878111101466577799999997623686408853458
Q gi|255764508|r  128 LAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAY  183 (242)
Q Consensus       128 ~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa~  183 (242)
                      .+.+.-+++.+.++|     ..+-=.+.-|+.||...+++++.-+.+++++=|++.
T Consensus       157 FsGs~e~a~~~~d~G-----~yisisG~itfk~a~~~~ev~~~iPldrLL~ETDsP  207 (256)
T COG0084         157 FSGSAEEARKLLDLG-----FYISISGIVTFKNAEKLREVARELPLDRLLLETDAP  207 (256)
T ss_pred             CCCCHHHHHHHHHCC-----EEEEECCEEECCCCHHHHHHHHHCCHHHEEECCCCC
T ss_conf             789799999999769-----289978666417858899999959976768645798


No 202
>cd06278 PBP1_LacI_like_2 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold.  As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=26.96  E-value=43  Score=13.86  Aligned_cols=91  Identities=11%  Similarity=0.066  Sum_probs=50.6

Q ss_pred             HHHHHHHCCCCCCCCEEEECCCCCCCCCCCH-HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHH-HHHHHHHCCCCCEE
Q ss_conf             9999982520057533897068888778882-799999999749998781111014665777999-99997623686408
Q gi|255764508|r  100 TMRLYKSCKQHSMHCTIIISGGDPQKHGLAE-SIVYNNKLLESGVERDDIKLETQSLDTFQNAQF-SSSMIKNMQGKNII  177 (242)
Q Consensus       100 a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E-a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~-~~~il~~~~~~~vi  177 (242)
                      +-.|.+.|..     +|.+-||........| -+..++.+.+.|++...+.   .+..|+|.+.. .++++++....+.+
T Consensus       107 ~~~L~~~Gh~-----~I~~i~~~~~~~~~~~R~~G~~~al~~~gl~~~~~~---~~~~~~~~g~~~~~~ll~~~~~ptAi  178 (266)
T cd06278         107 AELLLAKGCR-----RIAFIGGPADTSTSRERERGFRDALAAAGVPVVVEE---AGDYSYEGGYEAARRLLASRPRPDAI  178 (266)
T ss_pred             HHHHHHCCCC-----EEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCEEEE---CCCCCHHHHHHHHHHHHHCCCCCCCC
T ss_conf             9999980998-----899996888881499999999999998699943898---18999899999999998459998862


Q ss_pred             EECCHHHHHHHHHHHH-HCCCE
Q ss_conf             8534588999999999-76981
Q gi|255764508|r  178 LVSSAYHLKRSQLYFQ-HFGIN  198 (242)
Q Consensus       178 lVTsa~Hm~RA~~~f~-~~gi~  198 (242)
                      +.+|+..-.-++..++ +.|+.
T Consensus       179 ~~~nD~~A~g~l~~l~~~~g~~  200 (266)
T cd06278         179 FCANDLLAIGVMDAARQEGGLR  200 (266)
T ss_pred             EECCHHHHHHHHHHHHHHCCCC
T ss_conf             5077899999999999735888


No 203
>PRK13462 acid phosphatase; Provisional
Probab=26.48  E-value=43  Score=13.80  Aligned_cols=25  Identities=20%  Similarity=0.589  Sum_probs=16.2

Q ss_pred             HHHHHHCCCCCEEEECCHHHHHHHHH
Q ss_conf             99976236864088534588999999
Q gi|255764508|r  165 SSMIKNMQGKNIILVSSAYHLKRSQL  190 (242)
Q Consensus       165 ~~il~~~~~~~vilVTsa~Hm~RA~~  190 (242)
                      .++++++..+++++||.+ +.-|+..
T Consensus       131 ~~i~~~~~~~~vlvVsHg-~~iR~ll  155 (203)
T PRK13462        131 ALALEHMESRDVVFVSHG-HFSRAVI  155 (203)
T ss_pred             HHHHHHCCCCEEEEEECC-HHHHHHH
T ss_conf             999987799818999484-8999999


No 204
>cd06184 flavohem_like_fad_nad_binding FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The hemoglobin domain adopts a globin fold with an embedded heme molecule. Flavohemoglobins also have a C-terminal reductase domain with bindiing sites for FAD and NAD(P)H. This domain catalyzes the conversion of NO + O2 + NAD(P)H to NO3- + NAD(P)+.  Instead of the oxygen transport function of hemoglobins, flavohemoglobins seem to act in NO dioxygenation and NO signalling.
Probab=26.31  E-value=44  Score=13.78  Aligned_cols=45  Identities=13%  Similarity=0.192  Sum_probs=23.5

Q ss_pred             EEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHH
Q ss_conf             897068888778882799999999749998781111014665777999999
Q gi|255764508|r  116 IIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSS  166 (242)
Q Consensus       116 ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~  166 (242)
                      +++.||.|    ++=-..|-+.+.+.+-. .+|.+-.-+++ .+.+.+..+
T Consensus       117 vlIAgG~G----ItP~~sml~~l~~~~~~-~~i~l~yg~r~-~~d~~~~~e  161 (247)
T cd06184         117 VLISAGVG----ITPMLSMLEALAAEGPG-RPVTFIHAARN-SAVHAFRDE  161 (247)
T ss_pred             EEEECCCC----CCHHHHHHHHHHHCCCC-CCEEEEEECCC-HHHHHHHHH
T ss_conf             99966876----35499999999864999-84899995699-799378999


No 205
>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=26.26  E-value=44  Score=13.78  Aligned_cols=56  Identities=16%  Similarity=0.068  Sum_probs=31.8

Q ss_pred             EEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHC-CCCCCCCEEE-ECCCCCCCCCCCHHHHHHHHHHHCCCCH
Q ss_conf             8999625213777765554346820589999999999825-2005753389-7068888778882799999999749998
Q gi|255764508|r   68 IIVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSC-KQHSMHCTII-ISGGDPQKHGLAESIVYNNKLLESGVER  145 (242)
Q Consensus        68 ~IVVLGgG~~~~~~~~~~~~~~~~~~~~Rl~~a~~L~~~~-~~~~~~~~ii-~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~  145 (242)
                      |||||+||.               ||+   +-++...+.| +-     .|. +|=--|+----.|=+..++.+..+||+.
T Consensus         1 Av~~lSGG~---------------DSt---T~~~~a~~~~Gky-----eV~a~TF~YGQR~H~~Ele~A~~ia~~Lgi~~   57 (227)
T TIGR00364         1 AVVVLSGGQ---------------DST---TVLLIALDEGGKY-----EVHAITFDYGQRAHSRELESARKIAEALGIRH   57 (227)
T ss_pred             CEEEEECCH---------------HHH---HHHHHHHHCCCCE-----EEEEECCCCHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             968743734---------------689---9999999617950-----79985465013789999999999999808970


Q ss_pred             H
Q ss_conf             7
Q gi|255764508|r  146 D  146 (242)
Q Consensus       146 ~  146 (242)
                      .
T Consensus        58 ~   58 (227)
T TIGR00364        58 H   58 (227)
T ss_pred             E
T ss_conf             7


No 206
>PRK13223 phosphoglycolate phosphatase; Provisional
Probab=26.09  E-value=44  Score=13.76  Aligned_cols=84  Identities=13%  Similarity=0.100  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             89999999999825200575338970688887788827999999997499987811110146657779999999762368
Q gi|255764508|r   94 YSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQG  173 (242)
Q Consensus        94 ~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~  173 (242)
                      +.++.+...+.+.       ...+++|.+.. .+=+..+.+...+.++|+++++.+.-.-|.|=.+-|+       .-|.
T Consensus       131 ~~~iL~~lgL~~~-------Fd~VvggDdv~-~~KPdP~~ll~ale~lGv~P~e~l~VGDS~~DI~AAk-------aAGi  195 (272)
T PRK13223        131 VAPLLDQMKIGRY-------FRWIIGGDTLP-QKKPDPAALLFVMKMAGVPPSQSLFVGDSRSDVLAAK-------AAGV  195 (272)
T ss_pred             HHHHHHHCCCHHH-------CCCCCCCCCCC-CCCCCHHHHHHHHHHHCCCHHHEEEECCCHHHHHHHH-------HCCC
T ss_conf             9999987497241-------46453457699-9999989999999995989768888889888999999-------8699


Q ss_pred             CCEEEECCHHHHHHHHHHHH
Q ss_conf             64088534588999999999
Q gi|255764508|r  174 KNIILVSSAYHLKRSQLYFQ  193 (242)
Q Consensus       174 ~~vilVTsa~Hm~RA~~~f~  193 (242)
                       +++-||=.||..+......
T Consensus       196 -~~VgVtyGYn~g~~i~~~~  214 (272)
T PRK13223        196 -QCVALSYGYNHGRPIAEES  214 (272)
T ss_pred             -CEEEECCCCCCCCCHHHCC
T ss_conf             -5899747999986366749


No 207
>pfam02230 Abhydrolase_2 Phospholipase/Carboxylesterase. This family consists of both phospholipases and carboxylesterases with broad substrate specificity, and is structurally related to alpha/beta hydrolases pfam00561.
Probab=26.06  E-value=44  Score=13.75  Aligned_cols=20  Identities=15%  Similarity=0.169  Sum_probs=13.3

Q ss_pred             CHHHHHHHHHHHHHCCCEEE
Q ss_conf             45889999999997698189
Q gi|255764508|r  181 SAYHLKRSQLYFQHFGINTK  200 (242)
Q Consensus       181 sa~Hm~RA~~~f~~~gi~~~  200 (242)
                      ..-...++...+++.|.++.
T Consensus       167 p~~~~~~~~~~L~~~g~~v~  186 (213)
T pfam02230       167 PLALGKLAKEYLKTLGNTVE  186 (213)
T ss_pred             CHHHHHHHHHHHHHCCCCEE
T ss_conf             79999999999997799869


No 208
>pfam00532 Peripla_BP_1 family. This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (pfam00356).
Probab=25.98  E-value=44  Score=13.74  Aligned_cols=95  Identities=14%  Similarity=0.120  Sum_probs=53.6

Q ss_pred             HHHHHHHHCCCCCCCCEEEECCCCCCCCCCCH-HHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHH-HHHHHHCCCCCE
Q ss_conf             99999982520057533897068888778882-7999999997499987811110146657779999-999762368640
Q gi|255764508|r   99 ETMRLYKSCKQHSMHCTIIISGGDPQKHGLAE-SIVYNNKLLESGVERDDIKLETQSLDTFQNAQFS-SSMIKNMQGKNI  176 (242)
Q Consensus        99 ~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~E-a~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~-~~il~~~~~~~v  176 (242)
                      .+-.|++.|..+    .+.+.+|........| -+..++.+.+.|++.+..++... .++.+.+... .++++++...+.
T Consensus       111 a~~~Li~~Ghrr----~i~~~~~~~~~~~~~~R~~Gf~~al~~~g~~~~~~~~~~~-~~~~~~g~~~~~~ll~~~~~~~A  185 (281)
T pfam00532       111 STQYLIAEGHKR----PIAVMAGPASALTARERVQGFMAALAAAGREVKIYHVATG-DNDIPDAALAANAMLVSHPTIDA  185 (281)
T ss_pred             HHHHHHHHCCCC----CEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEC-CCCHHHHHHHHHHHHHCCCCCEE
T ss_conf             999999838977----0477307876507899999999999975999982068836-88889999999999854999609


Q ss_pred             EEECCHHHHHHHHHHHHHCC-CE
Q ss_conf             88534588999999999769-81
Q gi|255764508|r  177 ILVSSAYHLKRSQLYFQHFG-IN  198 (242)
Q Consensus       177 ilVTsa~Hm~RA~~~f~~~g-i~  198 (242)
                      ++..++.--.-++..+++.| ++
T Consensus       186 i~~~nD~~A~G~~~al~~~G~~~  208 (281)
T pfam00532       186 IVAMNDEAAMGAVRALLKQGRVK  208 (281)
T ss_pred             EEECCHHHHHHHHHHHHHCCCCC
T ss_conf             99758799999999999829997


No 209
>TIGR02995 ectoine_ehuB ectoine/hydroxyectoine ABC transporter solute-binding protein; InterPro: IPR014337   Members of this entry are the extracellular solute-binding proteins of ABC transporters and they closely resemble amino acid transporters. The member from Sinorhizobium meliloti (Rhizobium meliloti) is involved in ectoine uptake, both for osmoprotection and for catabolism. All other members of the seed alignment are found associated with ectoine catabolic genes..
Probab=25.81  E-value=45  Score=13.72  Aligned_cols=45  Identities=16%  Similarity=0.245  Sum_probs=33.0

Q ss_pred             CCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHH
Q ss_conf             2005753389706888877888279999999974999878111101466577799
Q gi|255764508|r  108 KQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQ  162 (242)
Q Consensus       108 ~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~  162 (242)
                      -++++..||=+.||.          .--+|+.+-||+.++|+.-+...+..+..+
T Consensus       140 iAknP~~K~a~~~G~----------~e~~~ar~~GVk~eqi~~vPd~~~~l~~vq  184 (285)
T TIGR02995       140 IAKNPEVKVAVVAGA----------VEVKYAREAGVKEEQIVVVPDTASALKAVQ  184 (285)
T ss_pred             HHCCCCCEEEECCCC----------HHHHHHHHCCCCCCEEEEECCCHHHHHHHH
T ss_conf             006823127612472----------378999865898660788248716788877


No 210
>pfam10742 DUF2555 Protein of unknown function (DUF2555). This family is conserved in Cyanobacteria. The function is not known.
Probab=25.76  E-value=45  Score=13.72  Aligned_cols=40  Identities=13%  Similarity=-0.016  Sum_probs=28.0

Q ss_pred             HHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHH
Q ss_conf             4665777999999976236864088534588999999999
Q gi|255764508|r  154 SLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQ  193 (242)
Q Consensus       154 s~nT~ena~~~~~il~~~~~~~vilVTsa~Hm~RA~~~f~  193 (242)
                      +.-|.|.....++.+++.+..+..=.-+++|..||..+=|
T Consensus         7 ~~f~ee~va~LA~RLE~DdY~~pFd~L~DWhlLRalA~~R   46 (57)
T pfam10742         7 AAFTEEDVAELAKRLEEDDYPNPFDGLKDWHLLRALAIHR   46 (57)
T ss_pred             HHCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCC
T ss_conf             6669999999998632325887124566789999999518


No 211
>PRK01581 speE spermidine synthase; Validated
Probab=25.75  E-value=44  Score=13.79  Aligned_cols=76  Identities=12%  Similarity=0.099  Sum_probs=41.8

Q ss_pred             HHHHHHCCCCHHHHHCC-HHHHHHHHHHHHHHHH---HHH-CCCCC--EEEECCHHHHHHHHHHH----HHCCCEEEEEE
Q ss_conf             99999749998781111-0146657779999999---762-36864--08853458899999999----97698189984
Q gi|255764508|r  135 NNKLLESGVERDDIKLE-TQSLDTFQNAQFSSSM---IKN-MQGKN--IILVSSAYHLKRSQLYF----QHFGINTKASC  203 (242)
Q Consensus       135 ~~~l~~~Gv~~~~I~~e-~~s~nT~ena~~~~~i---l~~-~~~~~--vilVTsa~Hm~RA~~~f----~~~gi~~~p~~  203 (242)
                      -++|.+.+-.=+.|+++ +...|.--|-.||.+.   +++ ...+-  ++=-||+||-|+|.++-    +..|+.+.||-
T Consensus       206 f~wL~~~~~~FDvIIVDlPDP~n~~L~KLYS~eFY~Ll~~~La~dG~~vVQSTSPyfApkaFWsI~~Tl~aAGl~t~pYH  285 (363)
T PRK01581        206 KEFLSSPSSLYDVIIIDFPDPATELLSTLYTSELFARIATFLTEDGAFVCQSNSPADAPLVYWSIGNTIEHAGLTVKSYH  285 (363)
T ss_pred             HHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCEEEHHHHHHHCCCCCCCCE
T ss_conf             99986167544289995899986246667359999999986198853999607976576233677777987367541342


Q ss_pred             CCCCCCC
Q ss_conf             2664431
Q gi|255764508|r  204 SDYLNAY  210 (242)
Q Consensus       204 ~d~~~~~  210 (242)
                      ++-.+..
T Consensus       286 v~VPSFG  292 (363)
T PRK01581        286 TIVPSFG  292 (363)
T ss_pred             ECCCCCC
T ss_conf             0688886


No 212
>PRK11872 antC anthranilate dioxygenase reductase; Provisional
Probab=25.69  E-value=45  Score=13.71  Aligned_cols=45  Identities=16%  Similarity=0.172  Sum_probs=21.2

Q ss_pred             EEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHH
Q ss_conf             389706888877888279999999974999878111101466577799999
Q gi|255764508|r  115 TIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSS  165 (242)
Q Consensus       115 ~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~  165 (242)
                      -++++||.|    ++=--.|-+.+.+.|. ...|.+-.-+++ .+...+..
T Consensus       212 lvlIAgGtG----iaPilSmL~~l~~~~~-~~~v~L~~G~R~-~~dl~~~~  256 (340)
T PRK11872        212 LVFVAGGTG----LSAFLGMLDNLVEQGC-SPPVHLYYGVRS-EADLCELQ  256 (340)
T ss_pred             EEEEECCCC----HHHHHHHHHHHHHHCC-CCCEEEEEECCC-HHHHHHHH
T ss_conf             799944865----3779999999998189-986799996499-79977799


No 213
>pfam00919 UPF0004 Uncharacterized protein family UPF0004. This family is the N terminal half of the Prosite family. The C-terminal half has been shown to be related to MiaB proteins. This domain is a nearly always found in conjunction with pfam04055 and pfam01938 although its function is uncertain.
Probab=25.43  E-value=45  Score=13.68  Aligned_cols=48  Identities=13%  Similarity=0.159  Sum_probs=28.6

Q ss_pred             CCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCC
Q ss_conf             545687589996252137777655543468205899999999998252005753389706888
Q gi|255764508|r   61 QWKKDGNIIVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDP  123 (242)
Q Consensus        61 ~~~~~~d~IVVLGgG~~~~~~~~~~~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~  123 (242)
                      +...++|.+|+=+++++...             .++....+.-++.-  +.++.+|+++|=.+
T Consensus        32 ~~~~~AD~iiiNTC~V~~~A-------------~~k~~~~i~~~~~~--~~p~~~iiv~GC~a   79 (98)
T pfam00919        32 DDPEEADVVVVNTCAVREKA-------------EQKSRQTIRRLKRL--KNPDAKIVVTGCMA   79 (98)
T ss_pred             CCHHCCCEEEEEEEECCHHH-------------HHHHHHHHHHHHHH--CCCCCEEEEEEECC
T ss_conf             87100998999961311289-------------99999999999984--29998899998503


No 214
>PRK10411 DNA-binding transcriptional activator FucR; Provisional
Probab=25.16  E-value=27  Score=15.19  Aligned_cols=10  Identities=10%  Similarity=0.235  Sum_probs=4.2

Q ss_pred             EEEECCHHHH
Q ss_conf             0885345889
Q gi|255764508|r  176 IILVSSAYHL  185 (242)
Q Consensus       176 vilVTsa~Hm  185 (242)
                      +-+||+..+.
T Consensus       117 ltVvTNsl~i  126 (240)
T PRK10411        117 IQVFTNSHPI  126 (240)
T ss_pred             EEEEECCHHH
T ss_conf             1999898999


No 215
>COG2943 MdoH Membrane glycosyltransferase [Cell envelope biogenesis, outer membrane]
Probab=25.13  E-value=46  Score=13.64  Aligned_cols=122  Identities=16%  Similarity=0.184  Sum_probs=74.5

Q ss_pred             CCEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHH-----HHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHH
Q ss_conf             7589996252137777655543468205899999999-----99825200575338970688887788827999999997
Q gi|255764508|r   66 GNIIVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMR-----LYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLE  140 (242)
Q Consensus        66 ~d~IVVLGgG~~~~~~~~~~~~~~~~~~~~Rl~~a~~-----L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~  140 (242)
                      .++|++--.                ++..+|+.+|++     +.+.|...+-+. .+.|-..-.+...+|.++-.....+
T Consensus       145 rTAilmPiy----------------nEd~~rVfAgLrA~~eSla~Tg~~~~FD~-FVLSDs~dpdialAEq~a~~~l~~e  207 (736)
T COG2943         145 RTAILMPIY----------------NEDVNRVFAGLRATYESLAATGHAEHFDF-FVLSDSRDPDIALAEQKAWAELCRE  207 (736)
T ss_pred             CEEEEEECC----------------CCCHHHHHHHHHHHHHHHHHHCCCCCCEE-EEECCCCCCHHHHHHHHHHHHHHHH
T ss_conf             215773034----------------66789999989999999986176120028-9974899822566689999999998


Q ss_pred             CCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCC-CCEEEE------CCHHHHHHHHHHHHH---CCC-EEEEEECC
Q ss_conf             499987811110146657779999999762368-640885------345889999999997---698-18998426
Q gi|255764508|r  141 SGVERDDIKLETQSLDTFQNAQFSSSMIKNMQG-KNIILV------SSAYHLKRSQLYFQH---FGI-NTKASCSD  205 (242)
Q Consensus       141 ~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~-~~vilV------Tsa~Hm~RA~~~f~~---~gi-~~~p~~~d  205 (242)
                      .+- ..+|..--+-+|+---+=|..++.+.-|. .+-.+|      -+.--|-|-....+.   .|+ .+.|...+
T Consensus       208 ~~g-~~~ifYRrRr~n~~RKaGNIaDfcrRwG~~Y~~MlVLDADSvMtgd~lvrLv~~ME~~P~aGlIQt~P~~~g  282 (736)
T COG2943         208 LGG-EGNIFYRRRRRNVKRKAGNIADFCRRWGSAYSYMLVLDADSVMTGDCLVRLVRLMEANPDAGLIQTSPKASG  282 (736)
T ss_pred             HCC-CCCEEEHHHHHHHCCCCCCHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHCCCCCEEECCHHHCC
T ss_conf             367-772664067555223346788999873765325899605433572789999999852999760321503328


No 216
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=25.09  E-value=46  Score=13.64  Aligned_cols=60  Identities=13%  Similarity=0.100  Sum_probs=34.2

Q ss_pred             HHHHCCHHHHHHHH--HHHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHHH----CCCE-EEEEECC
Q ss_conf             78111101466577--79999999762368640885345889999999997----6981-8998426
Q gi|255764508|r  146 DDIKLETQSLDTFQ--NAQFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQH----FGIN-TKASCSD  205 (242)
Q Consensus       146 ~~I~~e~~s~nT~e--na~~~~~il~~~~~~~vilVTsa~Hm~RA~~~f~~----~gi~-~~p~~~d  205 (242)
                      +-|++|..+++-++  ...+.+++.+..+++.++||-++-.-..+...++.    .|++ ++..-.|
T Consensus        84 D~IlIDTaGr~~~d~~~~~el~~l~~~~~p~~~~LVl~a~~~~~~~~~~~~f~~~~~~~~~I~TKlD  150 (173)
T cd03115          84 DVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQDAVNQAKAFNEALGITGVILTKLD  150 (173)
T ss_pred             CEEEEECCCCCCCCHHHHHHHHHHHHHHCCCCCEEECCCCCHHHHHHHHHHHHHCCCCCEEEEEEEC
T ss_conf             9899978887879999999999998644897215742465506589999998742799789997143


No 217
>PRK03501 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=25.02  E-value=46  Score=13.63  Aligned_cols=14  Identities=43%  Similarity=0.570  Sum_probs=11.7

Q ss_pred             CCCCCCCEEEEECC
Q ss_conf             54568758999625
Q gi|255764508|r   61 QWKKDGNIIVLLGN   74 (242)
Q Consensus        61 ~~~~~~d~IVVLGg   74 (242)
                      ++.+++|.||++||
T Consensus        35 dd~~~aDliI~iGG   48 (264)
T PRK03501         35 DDPKNANIIVSIGG   48 (264)
T ss_pred             CCCCCCCEEEEECC
T ss_conf             89889899999997


No 218
>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator; InterPro: IPR014264   Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC (see Q06065 from SWISSPROT). These proteins have a Fis family DNA binding sequence, a response regulator receiver domain, and sigma-54 interaction domain. They are found strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system  common in Gram-positive bacteria, where members of IPR014265 from INTERPRO and IPR014266 from INTERPRO also occur..
Probab=24.92  E-value=46  Score=13.62  Aligned_cols=113  Identities=12%  Similarity=0.172  Sum_probs=54.9

Q ss_pred             EEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEE-ECCCCCCCCCCCHHHHHHHH-HHHCCCCH
Q ss_conf             89996252137777655543468205899999999998252005753389-70688887788827999999-99749998
Q gi|255764508|r   68 IIVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTII-ISGGDPQKHGLAESIVYNNK-LLESGVER  145 (242)
Q Consensus        68 ~IVVLGgG~~~~~~~~~~~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii-~SGg~~~~~~~~Ea~~m~~~-l~~~Gv~~  145 (242)
                      .||-|==|...+..              -..+|+...++=.+=.|+.|+| +||-+...+-. .|--|-.| +.++=+++
T Consensus        43 ~VVTLDLGLPPd~d--------------~a~EGl~~L~qIL~~~P~TKVIViTGN~~r~NAl-kAi~lGAYDFyqKP~d~  107 (451)
T TIGR02915        43 AVVTLDLGLPPDAD--------------GASEGLAALQQILAIAPDTKVIVITGNDDRENAL-KAIGLGAYDFYQKPIDP  107 (451)
T ss_pred             CEEECCCCCCCCCC--------------CHHHHHHHHHHHHHHCCCCEEEEEECCCCCHHHH-HHHHCCCCCCCCCCCCH
T ss_conf             64773675578988--------------7458999999999638980489986689838899-99643751013578757


Q ss_pred             HHH-HCCHHHHHHHHHHHHHHHHHHHCC-CCCE--EEECCHHHHHHHHHHHHHC
Q ss_conf             781-111014665777999999976236-8640--8853458899999999976
Q gi|255764508|r  146 DDI-KLETQSLDTFQNAQFSSSMIKNMQ-GKNI--ILVSSAYHLKRSQLYFQHF  195 (242)
Q Consensus       146 ~~I-~~e~~s~nT~ena~~~~~il~~~~-~~~v--ilVTsa~Hm~RA~~~f~~~  195 (242)
                      +-+ ++-+++..=++==.+=+.+-+..+ ..+.  -+||+.--|.|-..+-+|.
T Consensus       108 d~L~liv~RAf~L~~Le~ENRrL~~~~~~Gst~~~Gli~~~~~m~kic~tIekv  161 (451)
T TIGR02915       108 DVLKLIVDRAFRLYTLETENRRLQSALGGGSTALEGLITSSPGMQKICRTIEKV  161 (451)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCEEECCCCHHHHHHHHHHH
T ss_conf             899999999888888888769987406887410365220685067898886521


No 219
>COG2086 FixA Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=24.55  E-value=47  Score=13.57  Aligned_cols=106  Identities=12%  Similarity=0.123  Sum_probs=64.0

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCC---HHHHHHHHHHHHH
Q ss_conf             4682058999999999982520057533897068888778882799999999749998781111---0146657779999
Q gi|255764508|r   88 EPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLE---TQSLDTFQNAQFS  164 (242)
Q Consensus        88 ~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e---~~s~nT~ena~~~  164 (242)
                      ..+.....-+.+|++|-.++....   -..+|=|      .+.++...+.+..+|++ +.|+++   ....+|+.-+.-.
T Consensus        34 ~in~~D~~AvEeAlrLke~~~~~e---V~vlt~G------p~~a~~~lr~aLAmGaD-raili~d~~~~~~d~~~ta~~L  103 (260)
T COG2086          34 SINPFDLNAVEEALRLKEKGYGGE---VTVLTMG------PPQAEEALREALAMGAD-RAILITDRAFAGADPLATAKAL  103 (260)
T ss_pred             CCCHHHHHHHHHHHHHHCCCCCCE---EEEEEEC------CHHHHHHHHHHHHCCCC-EEEEEECCCCCCCCHHHHHHHH
T ss_conf             258120799999998614688866---9999946------45339999999854887-5999703223675589999999


Q ss_pred             HHHHHHCCCCCEEEECC-----HHHHHHHHHHHHHCCCEEEEEECC
Q ss_conf             99976236864088534-----588999999999769818998426
Q gi|255764508|r  165 SSMIKNMQGKNIILVSS-----AYHLKRSQLYFQHFGINTKASCSD  205 (242)
Q Consensus       165 ~~il~~~~~~~vilVTs-----a~Hm~RA~~~f~~~gi~~~p~~~d  205 (242)
                      ++.++..+.+  ++++-     .+--.=-.++++..|+...++..+
T Consensus       104 aa~~~~~~~~--LVl~G~qa~D~~t~qvg~~lAe~Lg~P~~t~v~~  147 (260)
T COG2086         104 AAAVKKIGPD--LVLTGKQAIDGDTGQVGPLLAELLGWPQVTYVSK  147 (260)
T ss_pred             HHHHHHCCCC--EEEEECCCCCCCCCCHHHHHHHHHCCCEEEEEEE
T ss_conf             9999874998--8998134435764665899999869850533788


No 220
>PRK03262 consensus
Probab=24.50  E-value=47  Score=13.57  Aligned_cols=19  Identities=11%  Similarity=0.113  Sum_probs=7.6

Q ss_pred             HHHHCCCCHHHHHCCHHHH
Q ss_conf             9997499987811110146
Q gi|255764508|r  137 KLLESGVERDDIKLETQSL  155 (242)
Q Consensus       137 ~l~~~Gv~~~~I~~e~~s~  155 (242)
                      .+...||++++|++.+-|.
T Consensus        66 iA~~~gv~~~~I~vGnGSd   84 (355)
T PRK03262         66 YAQYAGVKPEQVLVSRGAD   84 (355)
T ss_pred             HHHHHCCCHHHEEEECCHH
T ss_conf             9998685855799937899


No 221
>PRK12756 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional
Probab=24.39  E-value=47  Score=13.55  Aligned_cols=59  Identities=10%  Similarity=0.133  Sum_probs=32.1

Q ss_pred             CCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHH----HHHHHHHHHH
Q ss_conf             57533897068888778882799999999749998781111014665777----9999999762
Q gi|255764508|r  111 SMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQN----AQFSSSMIKN  170 (242)
Q Consensus       111 ~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~en----a~~~~~il~~  170 (242)
                      ++++.+|.-||.++......-....+.+.+.|+++ +|++|-.=-|+..+    ..-.+.++++
T Consensus       226 N~~~HiILRGG~~PNY~~~~v~~~~~~l~~~~l~~-~imIDcSHgNS~Kd~~~Q~~V~~~V~~Q  288 (349)
T PRK12756        226 NPYGHIIMRGGKKPNYHAEDIAAACDTLHEFDLPE-HLVVDFSHGNCQKQHRRQLEVAEDICQQ  288 (349)
T ss_pred             CCCCEEEEECCCCCCCCHHHHHHHHHHHHHCCCCC-CEEEECCCCCCCCCHHHHHHHHHHHHHH
T ss_conf             98724898569989999899999999999769997-3475356665567977858999999999


No 222
>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=24.38  E-value=48  Score=13.55  Aligned_cols=70  Identities=14%  Similarity=0.040  Sum_probs=43.2

Q ss_pred             HHHHCCCCHHHHHCCHHH---HHHHHHHHHHHHHHHHCCCCCE-EEECCHHHHHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             999749998781111014---6657779999999762368640-8853458899999999976981899842664
Q gi|255764508|r  137 KLLESGVERDDIKLETQS---LDTFQNAQFSSSMIKNMQGKNI-ILVSSAYHLKRSQLYFQHFGINTKASCSDYL  207 (242)
Q Consensus       137 ~l~~~Gv~~~~I~~e~~s---~nT~ena~~~~~il~~~~~~~v-ilVTsa~Hm~RA~~~f~~~gi~~~p~~~d~~  207 (242)
                      .+..+|-...-|.+|+-+   -++.+=....++.+...|.+++ |++|+.+...+- ..++++|++.+++.+.-.
T Consensus       204 ~~~~~~~~l~gVRlDs~~~~~G~~~~l~~~vR~~LD~~G~~~vkI~aSggl~e~~I-~~l~~~gID~~GVGt~l~  277 (302)
T cd01571         204 AAKALGDKLDGVRLDTPSSRRGVFRYLIREVRWALDIRGYKHVKIFVSGGLDEEDI-KELEDVGVDAFGVGTAIS  277 (302)
T ss_pred             HHHHHCCCCCEEEECCCCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEECCCCHHHH-HHHHHCCCCEEECCCCCC
T ss_conf             99974600389980799875877999999999999766988748999699999999-999857999998185437


No 223
>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.
Probab=24.32  E-value=48  Score=13.55  Aligned_cols=13  Identities=23%  Similarity=0.424  Sum_probs=5.1

Q ss_pred             HHHHHHHHHHHHH
Q ss_conf             8999999999982
Q gi|255764508|r   94 YSRIFETMRLYKS  106 (242)
Q Consensus        94 ~~Rl~~a~~L~~~  106 (242)
                      .+.+.+-.+-|++
T Consensus        70 fd~Le~~f~~y~e   82 (277)
T cd02029          70 FDLLEELFRTYGE   82 (277)
T ss_pred             HHHHHHHHHHHHC
T ss_conf             9999999999866


No 224
>PRK03220 consensus
Probab=24.31  E-value=48  Score=13.55  Aligned_cols=67  Identities=10%  Similarity=0.052  Sum_probs=24.7

Q ss_pred             HHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHH-HHHHCCCEEEEEECCC
Q ss_conf             99999999749998781111014665777999999976236864088534588999999-9997698189984266
Q gi|255764508|r  132 IVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQL-YFQHFGINTKASCSDY  206 (242)
Q Consensus       132 ~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa~Hm~RA~~-~f~~~gi~~~p~~~d~  206 (242)
                      +..++...+..+|    +.-.-+-.|.|.+.   +++ +.|.+++++=|.++.-|--.. +.+..|-..+-...|+
T Consensus        65 ~~I~~i~~~~~~p----i~vGGGIrs~e~~~---~ll-~~GadkVvigs~a~~~p~~~~~~~~~fG~q~Iv~siD~  132 (257)
T PRK03220         65 DVVRRTAEQVFIP----LTVGGGVRTVEDVD---SLL-RAGADKVSVNTAAIARPELLAELARRFGSQCIVLSVDA  132 (257)
T ss_pred             HHHHHHHHCCCCC----EEEECCCCCHHHHH---HHH-HCCCCEEECHHHHHHCCHHHHHHHHHCCCEEEEEEEEE
T ss_conf             9999998506964----89847858799999---999-81975087206677594777899987098669999998


No 225
>PRK04452 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional
Probab=24.28  E-value=48  Score=13.54  Aligned_cols=63  Identities=14%  Similarity=0.131  Sum_probs=33.8

Q ss_pred             CCCHHHHHHHHHHHCCCCHHHHHCCHHHH-------HHHHHHHHHHHHHHHCCCC-----CEEEE-CCHHHHHHHHH
Q ss_conf             88827999999997499987811110146-------6577799999997623686-----40885-34588999999
Q gi|255764508|r  127 GLAESIVYNNKLLESGVERDDIKLETQSL-------DTFQNAQFSSSMIKNMQGK-----NIILV-SSAYHLKRSQL  190 (242)
Q Consensus       127 ~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~-------nT~ena~~~~~il~~~~~~-----~vilV-Tsa~Hm~RA~~  190 (242)
                      ++.-+..+...+.++|||.++|++++..-       -|+.+....+.-.- .|.+     -+.-+ |++++.+-|++
T Consensus       185 DiNlaKqLNi~l~e~Gv~~e~IVmDP~t~alGYGlEys~s~meRiR~aAL-~gD~~L~~Pii~~~g~e~W~~kEA~~  260 (322)
T PRK04452        185 DINLAKQLNILLMKLGLPRERIVMDPTTGALGYGLEYSYSVMERIRLAAL-KGDEELQMPMISGVGTEAWKAKEAWM  260 (322)
T ss_pred             CHHHHHHHHHHHHHCCCCHHHEEECCCCCCCCCCHHHHHHHHHHHHHHHH-CCCCCCCCCEECCCCHHHCCCHHCCC
T ss_conf             77889999999998499867677877754457646778999999999885-59842257624364054404412026


No 226
>cd06217 FNR_iron_sulfur_binding_3 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap between the two domains. Ferredoxin-NADP+ reductase first accepts one electron from reduced ferredoxin to form a flavin semiquinone intermediate. The enzyme then accepts a second electron to form 
Probab=24.24  E-value=48  Score=13.54  Aligned_cols=45  Identities=11%  Similarity=0.183  Sum_probs=21.4

Q ss_pred             EEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHH
Q ss_conf             897068888778882799999999749998781111014665777999999
Q gi|255764508|r  116 IIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSS  166 (242)
Q Consensus       116 ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~  166 (242)
                      +++.||.|    ++=-..|-+.+.+.+-+ .+|.+-.-+++ .+...+-.+
T Consensus       111 llIAgG~G----ItP~~s~l~~~~~~~~~-~~i~l~~g~r~-~~d~~~~~e  155 (235)
T cd06217         111 VLLAGGSG----IVPLMSMIRYRRDLGWP-VPFRLLYSART-AEDVIFRDE  155 (235)
T ss_pred             EEEECCCC----CCHHHHHHHHHHHHCCC-CCEEEEEECCC-HHHHHHHHH
T ss_conf             99945877----57699999999970999-73899972599-799666999


No 227
>PRK01215 competence damage-inducible protein A; Provisional
Probab=24.06  E-value=48  Score=13.51  Aligned_cols=30  Identities=17%  Similarity=0.184  Sum_probs=20.1

Q ss_pred             CHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCC
Q ss_conf             05899999999998252005753389706888877
Q gi|255764508|r   92 QSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKH  126 (242)
Q Consensus        92 ~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~  126 (242)
                      +..+|+.++++...+- .+    -+|+|||-|+.+
T Consensus        47 D~~~~I~~~l~~a~~r-~d----~Vi~tGGLGPT~   76 (264)
T PRK01215         47 DDEEEIVEAFREAIGR-AD----VVVSTGGLGPTY   76 (264)
T ss_pred             CCHHHHHHHHHHHHHC-CC----EEEEECCCCCCC
T ss_conf             9899999999999743-89----999948957998


No 228
>PRK02083 imidazole glycerol phosphate synthase subunit HisF; Provisional
Probab=24.02  E-value=48  Score=13.51  Aligned_cols=13  Identities=23%  Similarity=0.657  Sum_probs=4.6

Q ss_pred             HHCCCCHHHHHCCHH
Q ss_conf             974999878111101
Q gi|255764508|r  139 LESGVERDDIKLETQ  153 (242)
Q Consensus       139 ~~~Gv~~~~I~~e~~  153 (242)
                      .+.|+  ++|++.+.
T Consensus        93 l~~Ga--dkVvigs~  105 (253)
T PRK02083         93 LRAGA--DKVSINSA  105 (253)
T ss_pred             HHCCC--CEEEECCH
T ss_conf             87798--78999984


No 229
>TIGR02817 adh_fam_1 zinc-binding alcohol dehydrogenase family protein; InterPro: IPR014182   Members of this entry form a distinct subset of the larger family of oxidoreductases that includes zinc-binding alcohol dehydrogenases and NADPH:quinone reductases. Some current members of this entry carry designations as putative alginate lyase, however none have been characterised as such..
Probab=23.88  E-value=49  Score=13.49  Aligned_cols=116  Identities=13%  Similarity=0.129  Sum_probs=68.1

Q ss_pred             HHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEE
Q ss_conf             99999999999621245444645456875899962521377776555434682058999999999982520057533897
Q gi|255764508|r   39 GIIPTILLKHLQFSYQRPLLSPQWKKDGNIIVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIII  118 (242)
Q Consensus        39 ~~~~~~l~~~le~~~~~~~~~~~~~~~~d~IVVLGgG~~~~~~~~~~~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~  118 (242)
                      |.++...|.-|..+-.   ...+.......|.+-||+-       ..      .|     =.++|.|+    -+++++|-
T Consensus       127 PLT~ITAWElLFDRL~---~~~~~~~~~~~lLIiGgAG-------GV------GS-----I~iQLAR~----LT~ltVIa  181 (338)
T TIGR02817       127 PLTSITAWELLFDRLG---INDPVAGAKRALLIIGGAG-------GV------GS-----ILIQLARQ----LTGLTVIA  181 (338)
T ss_pred             CHHHHHHHHHHHHHHC---CCCCCCCCCCEEEEECCCC-------CH------HH-----HHHHHHHH----HCCCEEEE
T ss_conf             0248999999886615---8976888887478973885-------17------89-----99999998----54964999


Q ss_pred             CCCCCCC----------CCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHH
Q ss_conf             0688887----------7888279999999974999878111101466577799999997623686408853458
Q gi|255764508|r  119 SGGDPQK----------HGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAY  183 (242)
Q Consensus       119 SGg~~~~----------~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa~  183 (242)
                      |+.++..          .-+..+.=|+..+.++++++=+  .=-.-++|=+.+.+..++++++|  |.-||=++-
T Consensus       182 TASRpEs~~Wv~~LGAH~VIDHskPL~~ql~~L~l~~v~--~V~SlT~TDqH~~~ive~laPQG--rlaLIDDP~  252 (338)
T TIGR02817       182 TASRPESQEWVLELGAHHVIDHSKPLKAQLEKLGLEAVS--YVFSLTHTDQHFKEIVELLAPQG--RLALIDDPA  252 (338)
T ss_pred             ECCCHHHHHHHHHCCCCEEECCCCCHHHHHHHHCCCCCC--EEECCCHHHHHHHHHHHHHCCCC--CEECCCCCC
T ss_conf             728578999999739918865884368999982889985--57516607899999999856787--400002870


No 230
>cd04245 AAK_AKiii-YclM-BS AAK_AKiii-YclM-BS: Amino Acid Kinase Superfamily (AAK), AKiii-YclM-BS; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in Bacilli (Bacillus subtilis YclM) and Clostridia species. Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. In Bacillus subtilis (BS), YclM is reported to be a single polypeptide of 50 kD. The Bacillus subtilis 168 AKIII is induced by lysine and repressed by threonine, and it is synergistically inhibited by lysine and threonine.
Probab=23.85  E-value=49  Score=13.49  Aligned_cols=16  Identities=13%  Similarity=0.090  Sum_probs=7.6

Q ss_pred             HHHHHHHHHCCCCHHH
Q ss_conf             9999999974999878
Q gi|255764508|r  132 IVYNNKLLESGVERDD  147 (242)
Q Consensus       132 ~~m~~~l~~~Gv~~~~  147 (242)
                      .+|..+|.+.|++...
T Consensus       125 ~l~a~~L~~~Gi~a~~  140 (288)
T cd04245         125 QLMAAYLNYQGIDARY  140 (288)
T ss_pred             HHHHHHHHHCCCCCEE
T ss_conf             9999999968998399


No 231
>TIGR02009 PGMB-YQAB-SF beta-phosphoglucomutase family hydrolase; InterPro: IPR010976   Phosphoglucomutases interconvert D-glucose 1-phosphate and D-glucose 6-phosphate, a reaction which is important for energy metabolism in many organisms and for cell wall biosynthesis in bacteria , . Beta-phosphoglucomutases are monomeric enzymes which interconvert the beta anomers of these compounds using Mg2+ as a cofactor.   This entry groups together three clades: the characterised beta-phosphoglucomutases (bPGMs) (including those from Escherichia coli, Bacillus subtilus and Lactococcus lactis, a clade of putative bPGMs from mycobacteria and a clade including the uncharacterised Escherichia coli and Haemophilus influenzae yqaB genes which may prove to be beta-mutases of a related 1-phosphosugar. All of these are members of the larger Haloacid dehalogenase (HAD) subfamily IA and include the 'variant 3' Glu-Asp version of the third conserved HAD domain.   The Lactococcus enzyme has been crystallised and studied in detail . It is composed of two distinct regions, an alpha/beta core domain similar to that found in other HAD family members, and a helical cap domain. The core domain contains a central six-stranded parallel beta sheet surrounded by six alpha helices, while the cap domain consists of an antiparallel four alpha-helix bundle. Overall, the monomer forms a "kidney-bean" shape similar to that observed in other HAD family members such as phosphoserine phosphatase. The active site of the enzyme is located at the interface of the two domains..
Probab=23.68  E-value=49  Score=13.47  Aligned_cols=35  Identities=14%  Similarity=0.073  Sum_probs=21.6

Q ss_pred             HHHC-CHHHHHHHHHHHHHHHHHHHCCCCCEEEECCH
Q ss_conf             8111-10146657779999999762368640885345
Q gi|255764508|r  147 DIKL-ETQSLDTFQNAQFSSSMIKNMQGKNIILVSSA  182 (242)
Q Consensus       147 ~I~~-e~~s~nT~ena~~~~~il~~~~~~~vilVTsa  182 (242)
                      +.+- |.++..-.-+.....+.++++++ ++-++||.
T Consensus        98 ~ll~qE~~~~~~lp~~~~~l~~l~~~~i-~~a~gS~S  133 (211)
T TIGR02009        98 ELLRQELTGAEVLPGIENLLKELKKKGI-AVALGSSS  133 (211)
T ss_pred             HHHHHCCCCCHHCCCHHHHHHHHHHCCC-CEEEEECC
T ss_conf             9986226721003655899999986698-57884054


No 232
>PRK00208 thiG thiazole synthase; Reviewed
Probab=23.56  E-value=49  Score=13.45  Aligned_cols=71  Identities=17%  Similarity=0.176  Sum_probs=49.0

Q ss_pred             HHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEE----------EECCHHHHHHHHHHHHHCCCEEEEE
Q ss_conf             999999974999878111101466577799999997623686408----------8534588999999999769818998
Q gi|255764508|r  133 VYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNII----------LVSSAYHLKRSQLYFQHFGINTKAS  202 (242)
Q Consensus       133 ~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vi----------lVTsa~Hm~RA~~~f~~~gi~~~p~  202 (242)
                      ..-+++-..++   .++--+.+-.|.|+|+.++++.++-...+++          |--+.+-...|-...-+.|+.|-||
T Consensus        54 ~~l~~i~~~~~---~lLPNTAGc~ta~EAVr~A~laRE~~~tnwIKLEVi~D~~~LlPD~~etl~Aae~Lv~eGF~VlpY  130 (256)
T PRK00208         54 NLLDLLDPLGV---TLLPNTAGCRTAEEAVRTARLAREALGTDWIKLEVIGDDKTLLPDPIETLKAAEILVKEGFVVLPY  130 (256)
T ss_pred             HHHHHHCCCCC---EECCCCCCCCCHHHHHHHHHHHHHHHCCCEEEEEEECCCCCCCCCHHHHHHHHHHHHHCCCEEEEE
T ss_conf             58887431585---676664032679999999999999848986999981797677988689999999999889989786


Q ss_pred             ECCC
Q ss_conf             4266
Q gi|255764508|r  203 CSDY  206 (242)
Q Consensus       203 ~~d~  206 (242)
                      -+|.
T Consensus       131 ~~~D  134 (256)
T PRK00208        131 CTDD  134 (256)
T ss_pred             CCCC
T ss_conf             7889


No 233
>cd01391 Periplasmic_Binding_Protein_Type_1 Type 1 periplasmic binding fold superfamily. Type 1 periplasmic binding fold superfamily. This model and hierarchy represent the ligand binding domains of the LacI family of transcriptional regulators, periplasmic binding proteins of the ABC-type transport systems, the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases including the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein  (LIVBP)-like domains of the ionotropic glutamate receptors (iGluRs). In LacI-like transcriptional regulator and the bacterial periplasmic binding proteins the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions.  Periplasmic sugar binding proteins are one of the components of ABC transporters and are involved in the active transport of water-soluble ligands. The LacI family of proteins con
Probab=23.48  E-value=49  Score=13.44  Aligned_cols=82  Identities=17%  Similarity=0.154  Sum_probs=47.5

Q ss_pred             EEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHHH
Q ss_conf             38970688887788827999999997499987811110146657779999999762368640885345889999999997
Q gi|255764508|r  115 TIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILVSSAYHLKRSQLYFQH  194 (242)
Q Consensus       115 ~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilVTsa~Hm~RA~~~f~~  194 (242)
                      ++.+-++.....+..-.+.+++.+.+.|+...  ..+....++.+......+++++....++++..++....-++..++.
T Consensus       126 ~i~~i~~~~~~~~~~r~~g~~~~~~~~g~~~~--~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~a~~~  203 (269)
T cd01391         126 RVALIYGDDGAYGRERLEGFKAALKKAGIEVV--AIEYGDLDTEKGFQALLQLLKAAPKPDAIFACNDEMAAGALKAARE  203 (269)
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHHCCCCEE--EEEEECCCCCHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHH
T ss_conf             16997379857799999999999998699867--9997134321489999999861899739998888999999999998


Q ss_pred             CCCE
Q ss_conf             6981
Q gi|255764508|r  195 FGIN  198 (242)
Q Consensus       195 ~gi~  198 (242)
                      .|++
T Consensus       204 ~G~~  207 (269)
T cd01391         204 AGLT  207 (269)
T ss_pred             CCCC
T ss_conf             6989


No 234
>TIGR02151 IPP_isom_2 isopentenyl-diphosphate delta-isomerase, type 2; InterPro: IPR011179   This group represents the bacterial and archaeal isopentenyl-diphosphate delta-isomerase (IPP isomerase). IPP isomerase catalyses the interconversion of isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), and is a key enzyme in the biosynthesis of isoprenoids via the mevalonate pathway. The bacterial and archaeal IPP isomerase (type 2 enzyme) differs from that found in eukaryotes (type 1 enzyme), and requires NADPH, magnesium, and FMN for activity , .; GO: 0004452 isopentenyl-diphosphate delta-isomerase activity, 0010181 FMN binding, 0008299 isoprenoid biosynthetic process, 0005737 cytoplasm.
Probab=23.40  E-value=26  Score=15.25  Aligned_cols=54  Identities=15%  Similarity=0.263  Sum_probs=22.8

Q ss_pred             CCCEEEEC---CCCCC-CCCCCH--HHHHHHHHHHCCCCHHHHHCCHH-HHHHHHHHHHHH
Q ss_conf             75338970---68888-778882--79999999974999878111101-466577799999
Q gi|255764508|r  112 MHCTIIIS---GGDPQ-KHGLAE--SIVYNNKLLESGVERDDIKLETQ-SLDTFQNAQFSS  165 (242)
Q Consensus       112 ~~~~ii~S---Gg~~~-~~~~~E--a~~m~~~l~~~Gv~~~~I~~e~~-s~nT~ena~~~~  165 (242)
                      ...|++++   ||.+. ...+.+  |++.++.=+-+||=+.++.+++- -..||+..+..+
T Consensus        55 ~~~P~~I~aMTGG~~~~a~~IN~~LA~aA~e~gi~mgvGSqraal~~P~~~~tF~~vR~~a  115 (349)
T TIGR02151        55 LKAPFLINAMTGGSEEKAGKINRKLARAAEELGIPMGVGSQRAALKDPEVAETFEVVREEA  115 (349)
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCEEECHHHHHHCCCHHHHHHHHHHHHC
T ss_conf             1167676145577367888998999999998198154300222112712466699999767


No 235
>cd06215 FNR_iron_sulfur_binding_1 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal portion of the FAD/NAD binding domain contains most of the NADP(H) binding residues and the N-terminal sub-domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap betweed the two domains. In this ferredoxin like sub-group, the FAD/NAD sub-domains is typically fused to a C-terminal iron-sulfur binding domain. Iron-sulfur pr
Probab=23.10  E-value=50  Score=13.40  Aligned_cols=45  Identities=16%  Similarity=0.249  Sum_probs=20.4

Q ss_pred             EEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHH
Q ss_conf             897068888778882799999999749998781111014665777999999
Q gi|255764508|r  116 IIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSS  166 (242)
Q Consensus       116 ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~  166 (242)
                      +++.||.|-.    =--.|.+.+.+.+-+ .+|.+-.-++ |.+...+..+
T Consensus       107 vlIAgG~Git----P~~s~l~~~~~~~~~-~~v~l~~g~r-~~~dl~~~~e  151 (231)
T cd06215         107 LLLSAGSGIT----PMMSMARWLLDTRPD-ADIVFIHSAR-SPADIIFADE  151 (231)
T ss_pred             EEEECCCCCC----CHHHHHHHHHHHCCC-CCCEEEEECC-CHHHHHHHHH
T ss_conf             9998167778----479999999970999-9718997069-9799357999


No 236
>cd00885 cinA Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, where the domain is presumed to bind molybdopterin.
Probab=23.06  E-value=50  Score=13.39  Aligned_cols=58  Identities=19%  Similarity=0.277  Sum_probs=30.7

Q ss_pred             CHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHH
Q ss_conf             058999999999982520057533897068888778882799999999749998781111014665777
Q gi|255764508|r   92 QSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQN  160 (242)
Q Consensus        92 ~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~en  160 (242)
                      +..+++.++++....- .   + -+|+|||-|+.++--=.++.++++   |.+   +..+++...-.++
T Consensus        43 D~~~~I~~al~~~~~~-~---d-~vi~tGGlGPT~DDiT~eavA~a~---g~~---l~~~~~~~~~i~~  100 (170)
T cd00885          43 DDEDRIAEALRRASER-A---D-LVITTGGLGPTHDDLTREAVAKAF---GRP---LVLDEEALERIEA  100 (170)
T ss_pred             CCHHHHHHHHHHHHHC-C---C-EEEEECCCCCCCCCCHHHHHHHHH---CCC---CEECHHHHHHHHH
T ss_conf             8899999999999741-9---9-999947877899853899999994---898---2789999999999


No 237
>TIGR01404 FlhB_rel_III type III secretion protein, YscU/HrpY family; InterPro: IPR006307   This is one of several families of proteins related to bacterial flagellar biosynthesis proteins and involved in bacterial type III protein secretion systems. This family is homologous to, but distinguished from, the flagellar biosynthetic protein FlhB (IPR006136 from INTERPRO). This model may not identify all type III secretion system FlhB homologs. ; GO: 0006810 transport, 0016021 integral to membrane.
Probab=23.03  E-value=50  Score=13.39  Aligned_cols=15  Identities=13%  Similarity=0.209  Sum_probs=8.2

Q ss_pred             HHHHHHHHHHHCCCC
Q ss_conf             279999999974999
Q gi|255764508|r  130 ESIVYNNKLLESGVE  144 (242)
Q Consensus       130 Ea~~m~~~l~~~Gv~  144 (242)
                      +|..+.+++.+.|||
T Consensus       293 ~A~~~~~~A~~~giP  307 (346)
T TIGR01404       293 QALAVIAYAEEAGIP  307 (346)
T ss_pred             HHHHHHHHHHHCCCC
T ss_conf             999999999975898


No 238
>cd06198 FNR_like_3 NAD(P) binding domain of  ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P) binding domain. The N-terminal domain may contain a flavin prosthetic group (as in flavoenzymes) or use flavin as a substrate. Ferredoxin is reduced in the final stage of photosystem I. The flavoprotein Ferredoxin-NADP+ reductase transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) which then transfers a hydride ion to convert NADP+ to NADPH.
Probab=22.93  E-value=51  Score=13.37  Aligned_cols=31  Identities=23%  Similarity=0.206  Sum_probs=13.6

Q ss_pred             EEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCC
Q ss_conf             897068888778882799999999749998781111
Q gi|255764508|r  116 IIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLE  151 (242)
Q Consensus       116 ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e  151 (242)
                      ++++||.|-.    =--.|-+.+...+-. .+|.+-
T Consensus        99 vliAgGtGIa----P~~sml~~l~~~~~~-~~v~l~  129 (216)
T cd06198          99 IWIAGGIGIT----PFLALLEALAARGDA-RPVTLF  129 (216)
T ss_pred             EEEECCCCCC----CHHHHHHHHHHCCCC-CCEEEE
T ss_conf             9997576777----099999999975999-848999


No 239
>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=22.60  E-value=24  Score=15.51  Aligned_cols=85  Identities=15%  Similarity=0.228  Sum_probs=44.7

Q ss_pred             HHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHH-------CCHHHHHHHHHHHHHHH
Q ss_conf             89999999999825200575338970688887788827999999997499987811-------11014665777999999
Q gi|255764508|r   94 YSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIK-------LETQSLDTFQNAQFSSS  166 (242)
Q Consensus        94 ~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~-------~e~~s~nT~ena~~~~~  166 (242)
                      .++-.+.+.||.+-|.+-.....=.|||+.+--      ++++-+   -+.++-++       +|+-|+-..|+....  
T Consensus       126 Ve~sLk~AaLWdEVKDrL~~sa~~LSGGQQQRL------cIARal---Av~PeVlLmDEPtSALDPIsT~kIEeLi~e--  194 (253)
T COG1117         126 VESSLKKAALWDEVKDRLHKSALGLSGGQQQRL------CIARAL---AVKPEVLLMDEPTSALDPISTLKIEELITE--  194 (253)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHH------HHHHHH---HCCCCEEEECCCCCCCCCHHHHHHHHHHHH--
T ss_conf             999987757677767776177557873467899------999987---269867874486422481358899999999--


Q ss_pred             HHHHCCCCCEEEECCHHHHHHHHHHHHH
Q ss_conf             9762368640885345889999999997
Q gi|255764508|r  167 MIKNMQGKNIILVSSAYHLKRSQLYFQH  194 (242)
Q Consensus       167 il~~~~~~~vilVTsa~Hm~RA~~~f~~  194 (242)
                       ++  ..-++++||..  |.-|..+...
T Consensus       195 -Lk--~~yTIviVTHn--mqQAaRvSD~  217 (253)
T COG1117         195 -LK--KKYTIVIVTHN--MQQAARVSDY  217 (253)
T ss_pred             -HH--HCCEEEEEECC--HHHHHHHHHH
T ss_conf             -87--46489999379--9998787775


No 240
>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=22.50  E-value=52  Score=13.32  Aligned_cols=78  Identities=13%  Similarity=0.185  Sum_probs=36.8

Q ss_pred             CCCEEEEECCCCCC-CCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCC
Q ss_conf             87589996252137-77765554346820589999999999825200575338970688887788827999999997499
Q gi|255764508|r   65 DGNIIVLLGNGTTI-IPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGV  143 (242)
Q Consensus        65 ~~d~IVVLGgG~~~-~~~~~~~~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv  143 (242)
                      ..++|.+=|||+.. +=..|-.......+-+.   .+=++-+.     .++|+||=.--|.++..+=+. +-+.+++.|+
T Consensus        33 GF~A~YLSGaa~aa~sLGlPDLG~~tL~Eva~---~~r~Itr~-----~~LPlLVD~DTGFGea~nvaR-TVreme~AGa  103 (287)
T TIGR02317        33 GFEAIYLSGAAVAAGSLGLPDLGITTLTEVAE---RARRITRV-----TDLPLLVDADTGFGEALNVAR-TVREMEDAGA  103 (287)
T ss_pred             CCCEEEEHHHHHHHHHHCCCCCCCCCHHHHHH---HHHHHHHH-----CCCCEEEEEECCCCCHHHHHH-HHHHHHHHHH
T ss_conf             75566101687741320677676678789999---98877753-----048727863328983544999-9999998445


Q ss_pred             CHHHHHCCHH
Q ss_conf             9878111101
Q gi|255764508|r  144 ERDDIKLETQ  153 (242)
Q Consensus       144 ~~~~I~~e~~  153 (242)
                      .  .|++||+
T Consensus       104 A--a~HiEDQ  111 (287)
T TIGR02317       104 A--AVHIEDQ  111 (287)
T ss_pred             H--HCCHHHH
T ss_conf             4--0046774


No 241
>PRK03670 competence damage-inducible protein A; Provisional
Probab=22.27  E-value=52  Score=13.29  Aligned_cols=30  Identities=27%  Similarity=0.249  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCC
Q ss_conf             5899999999998252005753389706888877
Q gi|255764508|r   93 SYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKH  126 (242)
Q Consensus        93 ~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~  126 (242)
                      ..+++.++++....-..+    -+|+|||-|+.+
T Consensus        45 d~~~I~~~l~~~~~~~~d----~Vi~tGGLGPT~   74 (252)
T PRK03670         45 DVEEIKSVILEALDRKPE----VLIISGGLGPTH   74 (252)
T ss_pred             CHHHHHHHHHHHHHCCCC----EEEECCCCCCCC
T ss_conf             899999999999853799----999838827997


No 242
>TIGR02522 pilus_cpaD pilus (Caulobacter type) biogenesis lipoprotein CpaD; InterPro: IPR013361    Proteins in this entry consist of a pilus biogenesis protein, CpaD, from Caulobacter, and homologues in other bacteria, including three in the root nodule bacterium Bradyrhizobium japonicum. The molecular function of the homologues is not known..
Probab=22.25  E-value=52  Score=13.29  Aligned_cols=68  Identities=12%  Similarity=0.164  Sum_probs=39.2

Q ss_pred             CCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCC-CCHHHHHHHHHHHCCCCHHHHH-CCHHHHHHHHH
Q ss_conf             2058999999999982520057533897068888778-8827999999997499987811-11014665777
Q gi|255764508|r   91 FQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHG-LAESIVYNNKLLESGVERDDIK-LETQSLDTFQN  160 (242)
Q Consensus        91 ~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~-~~Ea~~m~~~l~~~Gv~~~~I~-~e~~s~nT~en  160 (242)
                      ....+++..-++=|....++  .+.|.+++|...... ..-+.-+++.|...||++++|+ .-.++.++-+.
T Consensus        58 a~~~~~l~~~l~~~~~~~~~--~l~~~~p~GSaN~~aa~~~~~e~~~~l~~~Gv~a~~iV~~~~~~~~~~~~  127 (211)
T TIGR02522        58 ASQQDQLLGFLKDWSRASAQ--TLVVVIPSGSANEAAAEAMAAEIRRVLAASGVGARNIVKVVYRAEASGDE  127 (211)
T ss_pred             HHHHHHHHHHHHHHHHCCCC--EEEEECCCCCHHHHHHHHHHHHHHHHHHHCCCCCHHEEEECCCCCCCCCC
T ss_conf             88899999999998630585--37897588875468899999999999996599720417744557887766


No 243
>PRK03673 competence damage-inducible protein A; Provisional
Probab=22.19  E-value=52  Score=13.28  Aligned_cols=27  Identities=15%  Similarity=0.281  Sum_probs=13.6

Q ss_pred             HHHHHHHHHHHHHCCCCCCCCEEEECCCCCCC
Q ss_conf             89999999999825200575338970688887
Q gi|255764508|r   94 YSRIFETMRLYKSCKQHSMHCTIIISGGDPQK  125 (242)
Q Consensus        94 ~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~  125 (242)
                      .+|+.++++....- +   + -+|+|||-|+.
T Consensus        47 ~~~i~~~l~~a~~r-~---D-lVI~tGGLGPT   73 (396)
T PRK03673         47 LDALVAILRERSQH-A---D-VLIVNGGLGPT   73 (396)
T ss_pred             HHHHHHHHHHHHHC-C---C-EEEECCCCCCC
T ss_conf             99999999999614-9---9-99993884899


No 244
>COG1830 FbaB DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]
Probab=22.18  E-value=52  Score=13.28  Aligned_cols=16  Identities=38%  Similarity=0.551  Sum_probs=8.0

Q ss_pred             CCCEEEEECCCCCCCC
Q ss_conf             8758999625213777
Q gi|255764508|r   65 DGNIIVLLGNGTTIIP   80 (242)
Q Consensus        65 ~~d~IVVLGgG~~~~~   80 (242)
                      +...||=|.+..+..+
T Consensus        77 dvplivkl~~~t~l~~   92 (265)
T COG1830          77 DVPLIVKLNGSTSLSP   92 (265)
T ss_pred             CCCEEEEECCCCCCCC
T ss_conf             7677999646665677


No 245
>pfam06258 DUF1022 Protein of unknown function (DUF1022). This family consists of several hypothetical eukaryotic and prokaryotic proteins. The function of this family is unknown.
Probab=22.12  E-value=53  Score=13.27  Aligned_cols=108  Identities=12%  Similarity=0.031  Sum_probs=49.3

Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHH--H----HHHHHHHCCCCHHHHHCCHHHHHHHHHHH
Q ss_conf             68205899999999998252005753389706888877888279--9----99999974999878111101466577799
Q gi|255764508|r   89 PSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESI--V----YNNKLLESGVERDDIKLETQSLDTFQNAQ  162 (242)
Q Consensus        89 ~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~--~----m~~~l~~~Gv~~~~I~~e~~s~nT~ena~  162 (242)
                      ++.-+.+++.++...+.+.....-..-.++=||.......++.+  .    +++.+.+.|.    -++-..|+-|=+++.
T Consensus       120 l~~i~~~~l~~~~~~~~~~~~~~~p~i~vLIGG~sk~~~~~~~~~~~l~~~i~~l~~~~~~----~l~it~SRRTP~~~~  195 (308)
T pfam06258       120 LHRVTPQRLAEAAAAWPELAALPRPRVAVLVGGPSKHFRWDADAARRLLEQLQALLEAYGG----SLLITTSRRTPEAAE  195 (308)
T ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHCCC----EEEEEECCCCCHHHH
T ss_conf             5547877887777665540247787699996557878888999999999999999987797----299994688969999


Q ss_pred             HHH-HHHHHCC------------------CCCEEEECCHHHHHHHHHHHHH--CCCEEEEEEC
Q ss_conf             999-9976236------------------8640885345889999999997--6981899842
Q gi|255764508|r  163 FSS-SMIKNMQ------------------GKNIILVSSAYHLKRSQLYFQH--FGINTKASCS  204 (242)
Q Consensus       163 ~~~-~il~~~~------------------~~~vilVTsa~Hm~RA~~~f~~--~gi~~~p~~~  204 (242)
                      ..- +.+....                  ....++||++.-    .|+.+.  -|-.|.-++.
T Consensus       196 ~~l~~~~~~~~~~~~~~~~~~Npy~~~L~~Ad~iiVT~DSv----SMisEA~~tGkPV~i~~l  254 (308)
T pfam06258       196 AALRKLLGPRPGLYVWDGTGPNPYFGFLAWADAVVVTADSV----SMVSEAAATGAPVGVLPL  254 (308)
T ss_pred             HHHHHHHCCCCEEEECCCCCCCHHHHHHHHCCEEEEECCHH----HHHHHHHHCCCCEEEEEC
T ss_conf             99998608997289827988645899998588689906718----899999864997799967


No 246
>pfam08986 DUF1889 Domain of unknown function (DUF1889). This domain is found in a set of hypothetical bacterial proteins.
Probab=21.97  E-value=53  Score=13.25  Aligned_cols=65  Identities=15%  Similarity=0.127  Sum_probs=35.0

Q ss_pred             HHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHH
Q ss_conf             99999999998252005753389706888877888279999999974999878111101466577799999997
Q gi|255764508|r   95 SRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMI  168 (242)
Q Consensus        95 ~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il  168 (242)
                      .-+++|++..-.         .=+|...++.-.-|-|.-+-+||-++|||++.--+..++.---=|+-++.+..
T Consensus        23 avIdKALDFIg~---------M~~Sas~P~sMdESTAKGifKyLkelGVPAs~~dv~aRg~~egWn~gFT~K~~   87 (119)
T pfam08986        23 AVIDKALDFIGA---------MDVSAPTPSSMNESTAKGIFKYLKELGVPASAADITARADLEGWNPGFTEKMV   87 (119)
T ss_pred             HHHHHHHHHHCC---------CCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCCCCHHHHHHHH
T ss_conf             899999987403---------45678898763247888899999981899988999874023158813789999


No 247
>cd04592 CBS_pair_EriC_assoc_euk This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the EriC CIC-type chloride channels in eukaryotes. These ion channels are proteins with a seemingly simple task of allowing the passive flow of chloride ions across biological membranes. CIC-type chloride channels come from all kingdoms of life, have several gene families, and can be gated by voltage. The members of the CIC-type chloride channel are double-barreled: two proteins forming homodimers at a broad interface formed by four helices from each protein. The two pores are not found at this interface, but are completely contained within each subunit, as deduced from the mutational analyses, unlike many other channels, in which four or five identical or structurally related subunits jointly form one pore. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually 
Probab=21.84  E-value=53  Score=13.23  Aligned_cols=108  Identities=14%  Similarity=0.133  Sum_probs=57.9

Q ss_pred             HHHHHHHHHHHCCCCCCCCEEEECCCCCCCCC-CCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHH-HHHHHHHHHHHCCC
Q ss_conf             99999999982520057533897068888778-88279999999974999878111101466577-79999999762368
Q gi|255764508|r   96 RIFETMRLYKSCKQHSMHCTIIISGGDPQKHG-LAESIVYNNKLLESGVERDDIKLETQSLDTFQ-NAQFSSSMIKNMQG  173 (242)
Q Consensus        96 Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~-~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~e-na~~~~~il~~~~~  173 (242)
                      -+.+|+++..+.++..    +++--.++.-.| ++|+++.+ ++....-...+-..+....|+.. ....++.+.-.-..
T Consensus        11 tv~EA~~lM~~~~~~~----~~VVD~~~~L~GIvt~gDi~R-~~~~~~~~~~~~~~~~~~~~~~~vs~v~t~~~~~~~~~   85 (133)
T cd04592          11 TLKEALNLMLDEKQSC----VLVVDSDDFLEGILTLGDIQR-FLFTNKTTRVQPEDETKQTNTCLVSSVCTKGISYGGQE   85 (133)
T ss_pred             CHHHHHHHHHHHCCCE----EEEECCCCCEEEEEEHHHHHH-HHHHCCCCCCCCCCCCCCCCCCEEEEEEEEEEEECCCC
T ss_conf             5999999999818865----799838997899978799999-98762356456320001244432334564203625511


Q ss_pred             CCEEEECCHHHHHHHHHHHHHCCCEEEEEECCCCC
Q ss_conf             64088534588999999999769818998426644
Q gi|255764508|r  174 KNIILVSSAYHLKRSQLYFQHFGINTKASCSDYLN  208 (242)
Q Consensus       174 ~~vilVTsa~Hm~RA~~~f~~~gi~~~p~~~d~~~  208 (242)
                      ...+-||.+.-...|..+.++.|++-.|+-.+...
T Consensus        86 ~~~~tv~pd~~l~~a~~lM~~~~i~~LPVV~~~~~  120 (133)
T cd04592          86 CGLWTCTPDTDLTTAKKLMEAKGVKQLPVVKRGVD  120 (133)
T ss_pred             CCEEEECCCCCHHHHHHHHHHCCCCCCCEEECCCC
T ss_conf             00389789999999999999869885876707766


No 248
>COG3142 CutC Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]
Probab=21.80  E-value=43  Score=13.83  Aligned_cols=43  Identities=21%  Similarity=0.383  Sum_probs=20.5

Q ss_pred             HHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEEEE
Q ss_conf             999997499987811110146657779999999762368640885
Q gi|255764508|r  135 NNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNIILV  179 (242)
Q Consensus       135 ~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vilV  179 (242)
                      -+.++++||  ++|+.-....+-.|+....++++++-+.+-.|++
T Consensus       134 le~li~~Gv--~RILTsGg~~sa~eg~~~l~~li~~a~gri~Im~  176 (241)
T COG3142         134 LEQLIELGV--ERILTSGGKASALEGLDLLKRLIEQAKGRIIIMA  176 (241)
T ss_pred             HHHHHHCCC--CEEECCCCCCCHHHHHHHHHHHHHHHCCCEEEEE
T ss_conf             999997697--3786478867555607999999998369879986


No 249
>COG1603 RPP1 RNase P/RNase MRP subunit p30 [Translation, ribosomal structure and biogenesis]
Probab=21.65  E-value=54  Score=13.21  Aligned_cols=65  Identities=9%  Similarity=-0.007  Sum_probs=37.0

Q ss_pred             EEEEC---CCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHH--HHHHHHHHHHHHHHHCCCCCEEEECC
Q ss_conf             38970---688887788827999999997499987811110146--65777999999976236864088534
Q gi|255764508|r  115 TIIIS---GGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSL--DTFQNAQFSSSMIKNMQGKNIILVSS  181 (242)
Q Consensus       115 ~ii~S---Gg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~--nT~ena~~~~~il~~~~~~~vilVTs  181 (242)
                      -++.+   |-..++-+-..+..|++--+..+++-...+..+-++  ++.+++...-++..+.+.  -++|||
T Consensus       100 Dil~~p~~~r~~~gldh~~a~laa~~~valeisl~~ll~~~g~~Ra~~l~~lr~~lrl~rk~~v--~ivvtS  169 (229)
T COG1603         100 DILSHPETGRKDPGLDHVLARLAAEKGVALEISLRPLLRSSGYRRARLLSFLRSLLRLARKYDV--PIVVTS  169 (229)
T ss_pred             CEEECCCCCCCCCCCCHHHHHHHHHCCCEEEEEHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCC--CEEEEC
T ss_conf             5897433357775523799999996293699854776504306789999999999999874089--879867


No 250
>pfam09419 DUF2010 Protein of unknown function. This is a family of proteins which show sequence similarity to the HAD superfamily of hydrolases.
Probab=21.61  E-value=54  Score=13.20  Aligned_cols=10  Identities=10%  Similarity=0.152  Sum_probs=4.2

Q ss_pred             HHHHHHCCCC
Q ss_conf             9999974999
Q gi|255764508|r  135 NNKLLESGVE  144 (242)
Q Consensus       135 ~~~l~~~Gv~  144 (242)
                      +.+...+|+|
T Consensus        97 ~~~~~~lgip  106 (166)
T pfam09419        97 EALEKSTGIP  106 (166)
T ss_pred             HHHHHHCCCC
T ss_conf             9999864995


No 251
>PRK12342 putative electron transfer flavoprotein YdiQ; Provisional
Probab=21.49  E-value=54  Score=13.19  Aligned_cols=106  Identities=13%  Similarity=0.113  Sum_probs=66.7

Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHH---HHHHHHHHHHH
Q ss_conf             682058999999999982520057533897068888778882799999999749998781111014---66577799999
Q gi|255764508|r   89 PSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQS---LDTFQNAQFSS  165 (242)
Q Consensus        89 ~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s---~nT~ena~~~~  165 (242)
                      .+.....-+.+|++|-..|    ....++..|+.     ..+++.+.+.+..+|.++ .+++.+.+   .+|+..|...+
T Consensus        33 iNp~D~~AlE~Al~lk~~g----g~v~vvs~G~~-----~~~~~~~~r~alAmGaD~-a~li~d~~~~g~D~~~tA~~La  102 (254)
T PRK12342         33 ISQFDLNAIEAASQLATDG----DEIAALTVGGS-----LLQNSKVRKDVLSRGPHS-LYLVQDAQLEHALPLDTAKALA  102 (254)
T ss_pred             CCCCCHHHHHHHHHHHHCC----CCEEEEEECCC-----CHHHHHHHHHHHHHCCCE-EEEEECCCCCCCCHHHHHHHHH
T ss_conf             6865699999999988619----96999995688-----025599999999737988-9998457656668899999999


Q ss_pred             HHHHHCCCCCEEEE----CCHHHHHHHHHHHHHCCCEEEEEECC
Q ss_conf             99762368640885----34588999999999769818998426
Q gi|255764508|r  166 SMIKNMQGKNIILV----SSAYHLKRSQLYFQHFGINTKASCSD  205 (242)
Q Consensus       166 ~il~~~~~~~vilV----Tsa~Hm~RA~~~f~~~gi~~~p~~~d  205 (242)
                      +.+++.+.+ ++|-    ++.....=.-++++.+|+..+.+..+
T Consensus       103 ~~i~~~~~D-LVl~G~~s~D~~tgqvg~~lAe~Lg~P~vt~v~~  145 (254)
T PRK12342        103 AAIEKIGFD-LLLFGEGSGDLYAQQVGLLLGELLQLPVINAVSK  145 (254)
T ss_pred             HHHHHHCCC-EEEEECCCCCCCCCCHHHHHHHHCCCCCEEEEEE
T ss_conf             999983969-9999362124898857899998709971667999


No 252
>COG0621 MiaB 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]
Probab=21.49  E-value=54  Score=13.19  Aligned_cols=49  Identities=12%  Similarity=0.152  Sum_probs=29.6

Q ss_pred             CCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCC
Q ss_conf             45456875899962521377776555434682058999999999982520057533897068888
Q gi|255764508|r   60 PQWKKDGNIIVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQ  124 (242)
Q Consensus        60 ~~~~~~~d~IVVLGgG~~~~~~~~~~~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~  124 (242)
                      .+...++|+||+=.|++....             .+++..++.-++.-+   ++.+|+++|=.++
T Consensus        35 ~~~~~eADvviiNTC~V~~~a-------------~~k~~~~i~~~~~~~---p~~~iiVtGC~aq   83 (437)
T COG0621          35 VEDPEEADVVIINTCAVREKA-------------EQKVRSAIGELKKLK---PDAKIIVTGCLAQ   83 (437)
T ss_pred             CCCCCCCCEEEEECCEEEEHH-------------HHHHHHHHHHHHHHC---CCCEEEEECCCCC
T ss_conf             698556888999667655359-------------999999999999729---9978999687123


No 253
>pfam11996 DUF3491 Protein of unknown function (DUF3491). This family of proteins is functionally uncharacterized. This protein is found in bacteria. Proteins in this family are typically between 286 to 3225 amino acids in length. This protein is found associated with pfam04488. This protein is found associated with pfam04488.
Probab=21.29  E-value=55  Score=13.16  Aligned_cols=25  Identities=36%  Similarity=0.488  Sum_probs=12.8

Q ss_pred             CCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCC
Q ss_conf             205899999999998252005753389706888
Q gi|255764508|r   91 FQSYSRIFETMRLYKSCKQHSMHCTIIISGGDP  123 (242)
Q Consensus        91 ~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~  123 (242)
                      .++.+|+..|+. ||.+       ++.++||+|
T Consensus        40 e~t~eri~~a~s-yKdY-------ki~i~GG~G   64 (934)
T pfam11996        40 EDTPERIDQAAS-YKDY-------KIIIKGGKG   64 (934)
T ss_pred             CCCHHHHHHHHH-HCCE-------EEEEECCCC
T ss_conf             657677888886-2470-------699962787


No 254
>cd06214 PA_degradation_oxidoreductase_like NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like domain with an iron-sulfur binding cluster domain. Ferredoxins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which vary in orientation with respect to the NAD(P) binding domain. The N-terminal portion may contain a flavin prosthetic group, as in flavoenzymes, or use flavin as a substrate. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and
Probab=21.24  E-value=55  Score=13.16  Aligned_cols=46  Identities=11%  Similarity=0.125  Sum_probs=21.7

Q ss_pred             EEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHH
Q ss_conf             8970688887788827999999997499987811110146657779999999
Q gi|255764508|r  116 IIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSM  167 (242)
Q Consensus       116 ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~i  167 (242)
                      ++++||.|-    +=-..|-+.+.+.|-+ .+|.+-.- ..|.+...+..++
T Consensus       112 vliAgG~Gi----tP~~sml~~~l~~~~~-~~v~l~~g-~r~~~d~~~~~el  157 (241)
T cd06214         112 VLFAAGSGI----TPVLSILKTALAREPA-SRVTLVYG-NRTEASVIFREEL  157 (241)
T ss_pred             EEEECCCCC----CHHHHHHHHHHHCCCC-CCEEEEEE-CCCHHHHHHHHHH
T ss_conf             999568751----8499999999974999-83899980-7997997889999


No 255
>PRK04635 histidinol-phosphate aminotransferase; Provisional
Probab=21.22  E-value=55  Score=13.15  Aligned_cols=11  Identities=18%  Similarity=0.507  Sum_probs=4.0

Q ss_pred             CCEEEEEECCC
Q ss_conf             98189984266
Q gi|255764508|r  196 GINTKASCSDY  206 (242)
Q Consensus       196 gi~~~p~~~d~  206 (242)
                      |+++.|..++|
T Consensus       283 g~~~~~s~aNF  293 (346)
T PRK04635        283 GVTVFEGWGNY  293 (346)
T ss_pred             CCEECCCCCCE
T ss_conf             90778998808


No 256
>TIGR00114 lumazine-synth 6,7-dimethyl-8-ribityllumazine synthase; InterPro: IPR002180 This family includes the beta chain of 6,7-dimethyl-8-ribityllumazine synthase 2.5.1.9 from EC, an enzyme involved in riboflavin biosynthesis. The family also includes a subfamily of distant archaebacterial proteins that may also have the same function for example O28856 from SWISSPROT.; GO: 0004746 riboflavin synthase activity, 0009231 riboflavin biosynthetic process, 0009349 riboflavin synthase complex.
Probab=21.07  E-value=46  Score=13.66  Aligned_cols=82  Identities=11%  Similarity=0.102  Sum_probs=39.5

Q ss_pred             CCCCCEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCC
Q ss_conf             56875899962521377776555434682058999999999982520057533897068888778882799999999749
Q gi|255764508|r   63 KKDGNIIVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKHGLAESIVYNNKLLESG  142 (242)
Q Consensus        63 ~~~~d~IVVLGgG~~~~~~~~~~~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~G  142 (242)
                      -++.|+||.||+=+.+...  +.++.  .+.+.|=...+.+       +.+.|+++  |--    .+  +.+++.+.+-|
T Consensus        63 GkP~DAVi~LG~VIrG~T~--HfeyV--~~~A~~gia~~a~-------~~~~PV~f--Gil----Tt--~~~eqA~~raG  123 (148)
T TIGR00114        63 GKPYDAVIALGAVIRGGTP--HFEYV--ADEAAKGIADLAL-------DYDVPVIF--GIL----TT--ETIEQAIERAG  123 (148)
T ss_pred             CCCCCEEEECCEEEECCCC--CHHHH--HHHHHHHHHHHHH-------HCCCCEEE--CCC----CC--CHHHHHHHHHH
T ss_conf             7963358851147737966--55777--7789999999998-------65987760--332----88--67999999601


Q ss_pred             CCHHHHHCCHHHHHHHHHHHHH
Q ss_conf             9987811110146657779999
Q gi|255764508|r  143 VERDDIKLETQSLDTFQNAQFS  164 (242)
Q Consensus       143 v~~~~I~~e~~s~nT~ena~~~  164 (242)
                      .. .-.-+++++..---+|.+.
T Consensus       124 ~~-ag~sm~nkG~eaa~~a~e~  144 (148)
T TIGR00114       124 DK-AGVSMENKGVEAAVKALEM  144 (148)
T ss_pred             HH-HCCCHHHHHHHHHHHHHHH
T ss_conf             12-0121356679999999999


No 257
>TIGR01668 YqeG_hyp_ppase HAD superfamily (subfamily IIIA) phosphatase, TIGR01668; InterPro: IPR010021   This group of hypothetical proteins is a part of the IIIA subfamily of the haloacid dehalogenase (HAD) superfamily of hydrolases. All characterised members of this subfamily and most characterised members of the HAD superfamily are phosphatases. HAD superfamily phosphatases contain active site residues in several conserved catalytic motifs , all of which are found conserved here. This family consists of sequences from fungi, plants, cyanobacteria, Gram-positive bacteria and Deinococcus. There is presently no characterisation of any sequence in this family. .
Probab=20.93  E-value=55  Score=13.11  Aligned_cols=98  Identities=12%  Similarity=0.049  Sum_probs=39.2

Q ss_pred             HHHHHHHHHHHHHC-CCCCCCCEEEECCCCCCCCCCCHHHHHHHH-HHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHC
Q ss_conf             89999999999825-200575338970688887788827999999-9974999878111101466577799999997623
Q gi|255764508|r   94 YSRIFETMRLYKSC-KQHSMHCTIIISGGDPQKHGLAESIVYNNK-LLESGVERDDIKLETQSLDTFQNAQFSSSMIKNM  171 (242)
Q Consensus        94 ~~Rl~~a~~L~~~~-~~~~~~~~ii~SGg~~~~~~~~Ea~~m~~~-l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~  171 (242)
                      ..++.+-++-.|+. |-..  + .|+|=+.+- ..+..-+.+.++ -...||+.  |.--.|..-.-++.....+-.++.
T Consensus        54 ~P~l~~w~E~~k~~yPG~~--l-~ivSN~~~~-~~yD~D~~r~k~~~~~lgI~~--~~~a~Kp~~~Gdeim~~~~A~~~~  127 (196)
T TIGR01668        54 APELREWIEELKAAYPGLK--L-LIVSNNAGL-LEYDKDESRVKALEKELGIPV--LLHAVKPPGKGDEIMAFRRALKEM  127 (196)
T ss_pred             CHHHHHHHHHHHHHCCCCE--E-EEEECCCCC-CCCCHHHHHHHHHHHHCCCCC--CCCCCCCCCCCHHHHHHHHHHHHC
T ss_conf             6366788999985379957--9-998768765-431201478888887518851--147788788833789999998751


Q ss_pred             C---CCCEEEECCHHHHHHHHHHHHHCCCEE
Q ss_conf             6---864088534588999999999769818
Q gi|255764508|r  172 Q---GKNIILVSSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       172 ~---~~~vilVTsa~Hm~RA~~~f~~~gi~~  199 (242)
                      +   .+.+++|=+..|.  -++..+..|+-+
T Consensus       128 ~l~s~~~~~vvGDrL~T--Dv~~gNr~G~~t  156 (196)
T TIGR01668       128 GLTSSEQVVVVGDRLFT--DVLGGNRNGFYT  156 (196)
T ss_pred             CCCCCCCEEEECCCCHH--HHHHHHHCCCEE
T ss_conf             79873237887895146--788653247234


No 258
>PRK05442 malate dehydrogenase; Provisional
Probab=20.92  E-value=56  Score=13.11  Aligned_cols=12  Identities=33%  Similarity=0.653  Sum_probs=5.7

Q ss_pred             CCCCCEEEEECC
Q ss_conf             568758999625
Q gi|255764508|r   63 KKDGNIIVLLGN   74 (242)
Q Consensus        63 ~~~~d~IVVLGg   74 (242)
                      .+++|++|+.+|
T Consensus        78 ~~~aDvviitag   89 (325)
T PRK05442         78 FKDADVALLVGA   89 (325)
T ss_pred             HCCCCEEEECCC
T ss_conf             379988998078


No 259
>TIGR03350 type_VI_ompA type VI secretion system OmpA/MotB family protein. The flagellar motor protein MotB and the Gram-negative bacterial outer membrane protein OmpA share a region of sequence homology. This model describes a domain found fused to type VI secretion system homologs of the type IV system protein DotU (see model TIGR03349), with OmpA/MotB homology.
Probab=20.91  E-value=56  Score=13.11  Aligned_cols=78  Identities=14%  Similarity=0.157  Sum_probs=46.8

Q ss_pred             CEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCC----C-------CCH--HHH
Q ss_conf             589996252137777655543468205899999999998252005753389706888877----8-------882--799
Q gi|255764508|r   67 NIIVLLGNGTTIIPTIPAIRIEPSFQSYSRIFETMRLYKSCKQHSMHCTIIISGGDPQKH----G-------LAE--SIV  133 (242)
Q Consensus        67 d~IVVLGgG~~~~~~~~~~~~~~~~~~~~Rl~~a~~L~~~~~~~~~~~~ii~SGg~~~~~----~-------~~E--a~~  133 (242)
                      ..+|.+.+..-....    ...+...+...+.+-+.+.+..+.     +|.+.| .....    +       .|.  |..
T Consensus        23 ~v~l~l~~~~lF~~g----sa~L~~~~~~~L~~va~~L~~~~~-----~I~I~G-HTD~~~~~~~~~~~N~~LS~~RA~a   92 (137)
T TIGR03350        23 RSVVRLRGDELFASG----SAEVRADFEPLLDRIAKALAAVPG-----RITVVG-HTDNVPIRTSRFPSNWHLSEARAKA   92 (137)
T ss_pred             EEEEEECCCCCCCCC----CCCCCHHHHHHHHHHHHHHHCCCC-----EEEEEE-ECCCCCCCCCCCCHHHHHHHHHHHH
T ss_conf             999995798718899----632098799999999999970998-----599999-8389877787751046799999999


Q ss_pred             HHHHHHHCCCCHHHHHCCHHH
Q ss_conf             999999749998781111014
Q gi|255764508|r  134 YNNKLLESGVERDDIKLETQS  154 (242)
Q Consensus       134 m~~~l~~~Gv~~~~I~~e~~s  154 (242)
                      ..++|.+.|+|++++.....+
T Consensus        93 V~~~L~~~Gi~~~rl~~~g~G  113 (137)
T TIGR03350        93 VADVLAQGGVPAGRVRAEGRG  113 (137)
T ss_pred             HHHHHHHCCCCHHEEEEEECC
T ss_conf             999999729972408997012


No 260
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=20.87  E-value=56  Score=13.11  Aligned_cols=14  Identities=29%  Similarity=0.617  Sum_probs=9.7

Q ss_pred             CCCCEEEEECCCCC
Q ss_conf             68758999625213
Q gi|255764508|r   64 KDGNIIVLLGNGTT   77 (242)
Q Consensus        64 ~~~d~IVVLGgG~~   77 (242)
                      .+.|.||-+|||..
T Consensus        83 ~~~D~IiavGGGS~   96 (366)
T PRK09423         83 NGCDVIIGIGGGKT   96 (366)
T ss_pred             CCCCEEEEECCHHH
T ss_conf             49998999378388


No 261
>pfam06057 VirJ Bacterial virulence protein (VirJ). This family consists of several bacterial VirJ virulence proteins. VirJ is thought to be involved in the type IV secretion system. It is thought that the substrate proteins localized to the periplasm may associate with the pilus in a manner that is mediated by VirJ, and suggest a two-step process for type IV secretion in Agrobacterium.
Probab=20.75  E-value=56  Score=13.09  Aligned_cols=11  Identities=27%  Similarity=0.398  Sum_probs=4.4

Q ss_pred             HHHHHHHCCCC
Q ss_conf             99999974999
Q gi|255764508|r  134 YNNKLLESGVE  144 (242)
Q Consensus       134 m~~~l~~~Gv~  144 (242)
                      +.+.|.+.|||
T Consensus        21 va~~L~~~Gvp   31 (192)
T pfam06057        21 VGSALQKQGVP   31 (192)
T ss_pred             HHHHHHHCCCC
T ss_conf             99999977983


No 262
>PRK05211 consensus
Probab=20.75  E-value=56  Score=13.09  Aligned_cols=53  Identities=15%  Similarity=0.293  Sum_probs=23.3

Q ss_pred             CCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCEE
Q ss_conf             53389706888877888279999999974999878111101466577799999997623686408
Q gi|255764508|r  113 HCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQGKNII  177 (242)
Q Consensus       113 ~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~~~vi  177 (242)
                      ..|+-+.||-      ..-+.++ .+.+.|+  ++|++-+.+.   +|-...+++.+..|.++++
T Consensus        65 ~~Pl~vGGGI------rs~~~i~-~ll~~Ga--dkViigs~a~---~np~li~~~~~~fG~q~Iv  117 (248)
T PRK05211         65 DIPFCVAGGI------KSVEDAR-EILSFGA--DKISINSPAL---ADPTLITRLADRFGVQCIV  117 (248)
T ss_pred             CCCEEEECCC------CCHHHHH-HHHHCCC--CEEEECCHHH---HCCHHHHHHHHHCCCCEEE
T ss_conf             9858962780------1389999-9998799--8899897676---1961899999857993699


No 263
>PRK10684 HCP oxidoreductase, NADH-dependent; Provisional
Probab=20.63  E-value=56  Score=13.07  Aligned_cols=22  Identities=18%  Similarity=0.052  Sum_probs=12.9

Q ss_pred             HHHHHHHHHCCCCHHHHHCCHH
Q ss_conf             9999999974999878111101
Q gi|255764508|r  132 IVYNNKLLESGVERDDIKLETQ  153 (242)
Q Consensus       132 ~~m~~~l~~~Gv~~~~I~~e~~  153 (242)
                      +.+++.|.++|+|+++|..|.-
T Consensus       217 ~a~~~~l~~~Gv~~~~ih~E~F  238 (335)
T PRK10684        217 DWVEQEVKALGVTADRFFKEKF  238 (335)
T ss_pred             HHHHHHHHHCCCCHHHEEEEEC
T ss_conf             9999999984998899797556


No 264
>pfam02887 PK_C Pyruvate kinase, alpha/beta domain. As well as being found in pyruvate kinase this family is found as an isolated domain in some bacterial proteins.
Probab=20.41  E-value=57  Score=13.04  Aligned_cols=63  Identities=14%  Similarity=0.064  Sum_probs=36.1

Q ss_pred             CCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCC---CCEEEECCHHH
Q ss_conf             75338970688887788827999999997499987811110146657779999999762368---64088534588
Q gi|255764508|r  112 MHCTIIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSMIKNMQG---KNIILVSSAYH  184 (242)
Q Consensus       112 ~~~~ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~il~~~~~---~~vilVTsa~H  184 (242)
                      +.+||+.--        ++....++....+||-+  +..++...|+.|...+..+.+.+++.   ...++||+..+
T Consensus        38 P~~pI~a~T--------~~~~~~r~l~l~~GV~p--~~~~~~~~~~~~~i~~a~~~l~~~g~~~~GD~vVvv~G~p  103 (117)
T pfam02887        38 PGAPIIAVT--------PNEGTARRLALYWGVHP--VLGDERSISTDEIIAEALRVAKDAGLIKKGDLVVVTAGVP  103 (117)
T ss_pred             CCCCEEEEC--------CCHHHHHHHHHHCCCEE--EEECCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEEEECCC
T ss_conf             998689965--------99899998887659705--9825777999999999999999869999999899984635


No 265
>PRK07609 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated
Probab=20.35  E-value=57  Score=13.04  Aligned_cols=59  Identities=14%  Similarity=0.205  Sum_probs=28.8

Q ss_pred             EEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCHHHHHHHHHHHHHHHH----HHHCCCCCEEEECC
Q ss_conf             8970688887788827999999997499987811110146657779999999----76236864088534
Q gi|255764508|r  116 IIISGGDPQKHGLAESIVYNNKLLESGVERDDIKLETQSLDTFQNAQFSSSM----IKNMQGKNIILVSS  181 (242)
Q Consensus       116 ii~SGg~~~~~~~~Ea~~m~~~l~~~Gv~~~~I~~e~~s~nT~ena~~~~~i----l~~~~~~~vilVTs  181 (242)
                      ++++||.|    ++=-..|-+.+...+-+ ..|.+-.-++| .+.. +..+.    .+.+..-+++.|.|
T Consensus       208 vlIAgGtG----iaPi~Sml~~~~~~~~~-~~i~L~~G~R~-~~dl-y~~e~l~~l~~~~~~~~~~~vls  270 (337)
T PRK07609        208 VLLASGTG----FAPIKSIVEHLRAKGIQ-RPVHLYWGVRR-PKDL-YLSALAEQWAEELPNFRYVPVVS  270 (337)
T ss_pred             EEEECCCC----HHHHHHHHHHHHHCCCC-CCEEEEEECCC-HHHH-HHHHHHHHHHHHCCCCEEEEEEC
T ss_conf             99965615----67899999999973999-81899983598-7986-43999999986489848999977


No 266
>PRK10760 murein hydrolase B; Provisional
Probab=20.33  E-value=42  Score=13.91  Aligned_cols=92  Identities=7%  Similarity=0.094  Sum_probs=41.7

Q ss_pred             HHHHHHHHHHHCCCCCCCCEEEECC----CCCCCCCCCHHHHHHHHHHHC-CCCHHHHHCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999999998252005753389706----888877888279999999974-99987811110146657779999999762
Q gi|255764508|r   96 RIFETMRLYKSCKQHSMHCTIIISG----GDPQKHGLAESIVYNNKLLES-GVERDDIKLETQSLDTFQNAQFSSSMIKN  170 (242)
Q Consensus        96 Rl~~a~~L~~~~~~~~~~~~ii~SG----g~~~~~~~~Ea~~m~~~l~~~-Gv~~~~I~~e~~s~nT~ena~~~~~il~~  170 (242)
                      -+.+++.+.+++..+-    .=+.|    ..|...-++.  ...+|+++. |=-..+|+  + +.|..   -.++..|++
T Consensus       191 eL~~~L~i~~~~~~dp----~~l~GSwAGAMG~~QFMPS--Sy~~YAVDfDgDG~~DIw--n-~~DAi---aSvANYL~~  258 (357)
T PRK10760        191 ELETFLLMARDEQDDP----LNLKGSFAGAMGYGQFMPS--SFKQYAVDFDGDGHINLW--D-PVDAI---GSVANYFKA  258 (357)
T ss_pred             HHHHHHHHHHHCCCCH----HHCCCCCCCCCCCCCCCCH--HHHHHCCCCCCCCCCCCC--C-CHHHH---HHHHHHHHH
T ss_conf             9999999998579986----6546765412477650868--899728187899867767--5-15899---999999997


Q ss_pred             CCCCC---EEEE--------CCHHHHHHHHHHHHHCCCEE
Q ss_conf             36864---0885--------34588999999999769818
Q gi|255764508|r  171 MQGKN---IILV--------SSAYHLKRSQLYFQHFGINT  199 (242)
Q Consensus       171 ~~~~~---vilV--------Tsa~Hm~RA~~~f~~~gi~~  199 (242)
                      +||++   +.+-        ...+.-.+.....++.|+..
T Consensus       259 ~GW~~G~pv~v~a~~~~~~l~~g~~~~~~~~~w~~~Gv~~  298 (357)
T PRK10760        259 HGWVKGDQVAVPANGQAPGLENGFKTRYSISQLAAAGLTP  298 (357)
T ss_pred             CCCCCCCEEEEECCCCCHHHHCCCCCCCCHHHHHHCCCCC
T ss_conf             3998998168836875011103665676699999869965


No 267
>COG1611 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]
Probab=20.31  E-value=57  Score=13.03  Aligned_cols=27  Identities=0%  Similarity=-0.052  Sum_probs=15.5

Q ss_pred             CEEEECCHHHHHHHHHHHHHCCCEEEE
Q ss_conf             408853458899999999976981899
Q gi|255764508|r  175 NIILVSSAYHLKRSQLYFQHFGINTKA  201 (242)
Q Consensus       175 ~vilVTsa~Hm~RA~~~f~~~gi~~~p  201 (242)
                      ..+++...+|.+-..+.....++-+.|
T Consensus        92 ~~l~~~~~~~~Rk~~~~~~ada~I~~p  118 (205)
T COG1611          92 IELITGMDFAERKRAMVRSADAFIVLP  118 (205)
T ss_pred             CEEEECCCHHHHHHHHHHHCCEEEEEC
T ss_conf             145532889999999998679899918


Done!