Query         gi|254780758|ref|YP_003065171.1| hypothetical protein CLIBASIA_03225 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 216
No_of_seqs    176 out of 7460
Neff          8.5 
Searched_HMMs 39220
Date          Sun May 29 19:56:34 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780758.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 TIGR03413 GSH_gloB hydroxyacyl 100.0       0       0  334.5  16.0  182    8-215     1-219 (248)
  2 PRK10241 hydroxyacylglutathion 100.0       0       0  327.5  16.8  183    7-215     2-220 (251)
  3 KOG0813 consensus              100.0 1.4E-38 3.5E-43  244.0  13.0  175   15-214    12-232 (265)
  4 KOG0814 consensus              100.0 8.5E-34 2.2E-38  216.1  10.1  177   15-213    20-202 (237)
  5 smart00849 Lactamase_B Metallo 100.0 8.1E-30 2.1E-34  193.0  15.9  177   13-196     3-183 (183)
  6 COG0491 GloB Zn-dependent hydr 100.0 3.8E-28 9.8E-33  183.3  15.7  197    3-200     9-214 (252)
  7 PRK11921 metallo-beta-lactamas  99.8 5.7E-20 1.5E-24  135.8  13.1  168   13-200    28-227 (395)
  8 COG0426 FpaA Uncharacterized f  99.8 1.1E-19 2.8E-24  134.1  12.6  170   13-201    33-227 (388)
  9 pfam00753 Lactamase_B Metallo-  99.8 7.5E-20 1.9E-24  135.1  10.7  141   13-158     3-146 (148)
 10 PRK05452 anaerobic nitric oxid  99.8 3.6E-19 9.1E-24  131.2  11.2  166   16-200    35-231 (479)
 11 COG0595 mRNA degradation ribon  99.8 4.6E-18 1.2E-22  124.7  11.0  192    3-206     6-217 (555)
 12 TIGR00649 MG423 conserved hypo  99.7 3.9E-17   1E-21  119.3   9.5  194    6-212     1-234 (593)
 13 PRK11539 hypothetical protein;  99.7 2.9E-15 7.3E-20  108.5  14.6  167    3-210   498-680 (754)
 14 TIGR03675 arCOG00543 arCOG0178  99.6 4.4E-16 1.1E-20  113.2   7.3  149    5-156   174-347 (630)
 15 COG2333 ComEC Predicted hydrol  99.6 7.1E-14 1.8E-18  100.4  11.6  175    5-210    45-232 (293)
 16 PRK00055 ribonuclease Z; Revie  99.5 9.4E-14 2.4E-18   99.7   8.6  145    4-158     2-165 (259)
 17 COG1236 YSH1 Predicted exonucl  99.5 1.3E-13 3.3E-18   98.9   6.2  137   16-156    14-164 (427)
 18 PRK02113 putative hydrolase; P  99.3 3.7E-11 9.4E-16   84.6  10.1  133   15-156    33-170 (252)
 19 COG1237 Metal-dependent hydrol  99.2 1.4E-10 3.7E-15   81.2  11.4   66   17-84     23-93  (259)
 20 COG1782 Predicted metal-depend  99.2 4.4E-11 1.1E-15   84.2   6.7  150    5-157   180-354 (637)
 21 TIGR02651 RNase_Z ribonuclease  99.2   6E-11 1.5E-15   83.4   7.0  128   16-147    18-169 (327)
 22 COG2015 Alkyl sulfatase and re  99.2 5.2E-10 1.3E-14   77.9  11.6  196    7-206   116-356 (655)
 23 PRK11244 phnP carbon-phosphoru  99.1 1.1E-10 2.8E-15   81.9   6.6  124   17-157    37-164 (250)
 24 PRK05184 pyrroloquinoline quin  99.1 5.6E-10 1.4E-14   77.7   8.3   76   18-93     40-122 (302)
 25 TIGR03307 PhnP phosphonate met  99.1 4.4E-10 1.1E-14   78.4   6.5  122   18-156    38-163 (249)
 26 PRK02126 ribonuclease Z; Provi  99.0 3.1E-09 7.9E-14   73.5   9.6   85    1-89      1-90  (334)
 27 KOG1136 consensus               98.9 2.7E-09 6.8E-14   73.8   6.1  150    4-158     2-181 (501)
 28 KOG4736 consensus               98.9 1.7E-09 4.4E-14   74.9   5.0  153   15-203    94-261 (302)
 29 PRK00685 metal-dependent hydro  98.9 5.2E-09 1.3E-13   72.2   6.6  163   11-198     3-194 (228)
 30 COG1234 ElaC Metal-dependent h  98.8 3.8E-08 9.6E-13   67.2   8.6   76    4-84      2-93  (292)
 31 KOG1137 consensus               98.8 1.8E-09 4.5E-14   74.9   1.5  149    5-156    13-182 (668)
 32 COG1235 PhnP Metal-dependent h  98.8 3.7E-07 9.3E-12   61.4  13.3   81    1-84      1-95  (269)
 33 PRK04286 hypothetical protein;  98.7 5.1E-07 1.3E-11   60.6  13.2  147    4-156     1-186 (294)
 34 KOG1135 consensus               98.6 7.7E-08   2E-12   65.3   6.3  138   15-155    14-171 (764)
 35 pfam02112 PDEase_II cAMP phosp  98.6 3.3E-07 8.3E-12   61.7   8.6  151    6-156     1-204 (323)
 36 COG2220 Predicted Zn-dependent  98.5 5.1E-07 1.3E-11   60.6   7.5  172    9-197     7-212 (258)
 37 COG2248 Predicted hydrolase (m  98.2 2.2E-05 5.7E-10   51.0  10.9  145    7-156     2-185 (304)
 38 KOG1361 consensus               97.5 7.7E-05   2E-09   47.9   3.4  110   29-156    91-205 (481)
 39 PRK11709 putative L-ascorbate   97.4 0.00082 2.1E-08   41.9   7.4  134   51-198   109-284 (355)
 40 KOG2121 consensus               97.2 8.2E-05 2.1E-09   47.8   0.1   56   18-74    463-524 (746)
 41 COG5212 PDE1 Low-affinity cAMP  97.0 0.00076   2E-08   42.1   3.7  106   51-156   112-232 (356)
 42 TIGR00361 ComEC_Rec2 DNA inter  96.9  0.0078   2E-07   36.3   8.0  172    5-205   482-686 (731)
 43 TIGR02649 true_RNase_BN ribonu  96.6  0.0052 1.3E-07   37.3   5.5  108   29-145    33-149 (304)
 44 TIGR02650 RNase_Z_T_toga ribon  96.3  0.0014 3.5E-08   40.6   1.1   55   28-85     19-82  (277)
 45 TIGR02108 PQQ_syn_pqqB coenzym  94.3    0.19 4.9E-06   28.2   6.4   74   15-91     36-121 (314)
 46 TIGR01393 lepA GTP-binding pro  93.5     0.3 7.6E-06   27.1   6.3   22  169-192   306-327 (598)
 47 COG0462 PrsA Phosphoribosylpyr  84.7     1.7 4.3E-05   22.7   4.3   31   26-56     51-90  (314)
 48 PTZ00145 phosphoribosylpyropho  83.7     3.2 8.2E-05   21.1   5.4   31  181-211   360-391 (443)
 49 COG0481 LepA Membrane GTPase L  83.7     3.4 8.6E-05   20.9   7.0   52  137-190   256-328 (603)
 50 TIGR02884 spore_pdaA delta-lac  82.8       2 5.1E-05   22.3   4.0   56   15-74     25-84  (225)
 51 PRK04923 ribose-phosphate pyro  77.7     5.5 0.00014   19.7   4.9   32  181-212   238-270 (319)
 52 PRK02458 ribose-phosphate pyro  77.4     4.4 0.00011   20.3   4.3   38  174-212   233-271 (323)
 53 PRK02269 ribose-phosphate pyro  77.3       4  0.0001   20.5   4.1   30  181-210   238-268 (321)
 54 PRK06827 phosphoribosylpyropho  77.3     5.4 0.00014   19.8   4.8   31  175-207   281-312 (381)
 55 PRK07199 phosphoribosylpyropho  76.5     5.6 0.00014   19.7   4.7   37  174-211   226-263 (301)
 56 PRK01999 consensus              76.2     4.7 0.00012   20.1   4.2   30  181-210   233-263 (311)
 57 PRK04554 consensus              76.1       4  0.0001   20.5   3.8   35  175-210   231-266 (327)
 58 PRK02270 consensus              76.0     3.9  0.0001   20.6   3.7   37  175-212   230-267 (327)
 59 PRK01506 consensus              75.5     5.8 0.00015   19.6   4.5   29  182-210   239-268 (317)
 60 PRK00553 ribose-phosphate pyro  75.2     5.5 0.00014   19.7   4.3   30  181-210   247-277 (340)
 61 TIGR02168 SMC_prok_B chromosom  74.9     3.7 9.4E-05   20.7   3.4   22  128-149  1085-1107(1191)
 62 PRK02039 consensus              74.7     4.5 0.00012   20.2   3.8   30  181-210   235-265 (316)
 63 PRK05259 consensus              74.0     4.2 0.00011   20.4   3.5   34  175-209   225-259 (310)
 64 PRK10966 exonuclease subunit S  73.9     3.9 9.9E-05   20.6   3.3   10  170-179   290-299 (402)
 65 PRK03675 consensus              73.6     6.8 0.00017   19.2   4.5   36  174-210   216-252 (279)
 66 PRK01259 ribose-phosphate pyro  73.6     5.9 0.00015   19.5   4.2   30  181-210   229-259 (309)
 67 PRK02812 ribose-phosphate pyro  73.6     4.5 0.00011   20.3   3.5   27  182-208   252-279 (331)
 68 PRK05038 consensus              72.7     5.3 0.00014   19.8   3.7   35  175-210   229-264 (315)
 69 PRK03092 ribose-phosphate pyro  72.6     7.5 0.00019   19.0   4.6   29  182-210   223-252 (304)
 70 TIGR01011 rpsB_bact ribosomal   71.1     7.6 0.00019   18.9   4.2   17   47-63    178-194 (227)
 71 PRK01132 consensus              70.7       6 0.00015   19.5   3.6   33  174-207   218-251 (286)
 72 TIGR01978 sufC FeS assembly AT  70.0     5.4 0.00014   19.8   3.3   14   55-68     79-92  (248)
 73 PRK00934 ribose-phosphate pyro  68.0     9.4 0.00024   18.4   4.4   36  174-210   219-255 (286)
 74 PRK04117 consensus              67.3     7.5 0.00019   18.9   3.5   36  174-210   226-262 (309)
 75 KOG3592 consensus               67.0       4  0.0001   20.5   2.1   24   51-74     81-104 (934)
 76 KOG3798 consensus               66.2     6.2 0.00016   19.4   2.9   93   51-158   132-241 (343)
 77 TIGR01821 5aminolev_synth 5-am  64.0       4  0.0001   20.5   1.7   19  123-141   390-408 (427)
 78 PRK09382 ispDF bifunctional 2-  62.7     7.5 0.00019   18.9   2.8   70  114-187   232-309 (382)
 79 TIGR01501 MthylAspMutase methy  61.5     5.7 0.00014   19.6   2.0   45  150-207    85-130 (134)
 80 PRK02277 orotate phosphoribosy  60.5      13 0.00033   17.5   5.1   14  145-158   139-152 (201)
 81 COG4566 TtrR Response regulato  57.9      15 0.00037   17.3   4.3   44   28-72     50-96  (202)
 82 PRK11624 cdsA CDP-diglyceride   57.8       5 0.00013   20.0   1.2   26  173-198   234-259 (285)
 83 TIGR03348 VI_IcmF type VI secr  57.1      15 0.00038   17.2   4.1   44   16-63    153-213 (1169)
 84 TIGR01344 malate_syn_A malate   55.9     6.1 0.00016   19.5   1.4   40  161-215   257-296 (522)
 85 TIGR00475 selB selenocysteine-  55.4     7.6 0.00019   18.9   1.9   20   42-61    101-120 (627)
 86 TIGR00619 sbcd nuclease SbcCD,  55.0      13 0.00033   17.6   2.9   43   42-84     76-120 (275)
 87 cd04170 EF-G_bact Elongation f  54.0      14 0.00035   17.4   3.0   50   29-79     92-148 (268)
 88 TIGR02427 protocat_pcaD 3-oxoa  53.5      11 0.00028   18.0   2.4   33   35-67     24-61  (256)
 89 PRK01215 competence damage-ind  52.9      18 0.00045   16.8   5.8   82    1-84      1-97  (264)
 90 pfam01148 CTP_transf_1 Cytidyl  52.4     7.6 0.00019   18.9   1.5   27  173-199   212-238 (259)
 91 TIGR01090 apt adenine phosphor  51.7      19 0.00047   16.7   3.7   32  146-190   113-144 (175)
 92 PRK10161 transcriptional regul  51.1      19 0.00048   16.6   5.1   57  144-200   166-225 (229)
 93 COG0575 CdsA CDP-diglyceride s  50.6     9.5 0.00024   18.3   1.7   27  173-199   217-243 (265)
 94 TIGR02362 dhaK1b probable dihy  49.7      13 0.00034   17.5   2.3   16   41-56    114-129 (328)
 95 TIGR00972 3a0107s01c2 phosphat  49.3      19 0.00049   16.6   3.1   30   25-54     26-61  (248)
 96 PRK09836 DNA-binding transcrip  47.7      21 0.00055   16.3   3.7   56  144-199   162-220 (226)
 97 PRK05433 GTP-binding protein L  45.1      23 0.00059   16.1   3.0   55  137-193   254-329 (601)
 98 KOG1448 consensus               43.3      25 0.00064   15.9   5.8   34  175-209   230-264 (316)
 99 COG0104 PurA Adenylosuccinate   43.1      25 0.00065   15.9   3.8   50    3-57     49-100 (430)
100 TIGR01307 pgm_bpd_ind 2,3-bisp  42.7     9.1 0.00023   18.4   0.6   45   39-83    100-152 (529)
101 PRK01117 adenylosuccinate synt  41.6      22 0.00057   16.2   2.5   45    3-52     49-93  (431)
102 TIGR02515 IV_pilus_PilQ type I  39.2      29 0.00074   15.5   4.3   39   19-57    159-197 (464)
103 pfam00709 Adenylsucc_synt Aden  37.8      28 0.00073   15.6   2.5   45    3-52     47-91  (420)
104 pfam10070 DUF2309 Uncharacteri  37.1      26 0.00065   15.8   2.2   20  186-212   494-513 (783)
105 TIGR00151 ispF 2C-methyl-D-ery  36.9      32 0.00081   15.3   3.2   68  113-186     9-90  (159)
106 pfam08747 DUF1788 Domain of un  35.5      15 0.00038   17.2   0.8   58  155-214    62-121 (125)
107 TIGR02199 rfaE_dom_II rfaE bif  34.8      20 0.00052   16.4   1.4   30   42-74      3-34  (144)
108 pfam06415 iPGM_N BPG-independe  34.7      35 0.00088   15.1   3.8   40   41-80     19-63  (223)
109 PRK10816 DNA-binding transcrip  34.4      35 0.00089   15.1   6.7   57  143-199   160-219 (223)
110 TIGR00968 3a0106s01 sulfate AB  34.3      35  0.0009   15.0   3.5   28  173-200   167-197 (241)
111 PRK05434 phosphoglyceromutase;  33.3      37 0.00093   14.9   3.7   40   42-81    102-147 (511)
112 TIGR00644 recJ single-stranded  32.4      38 0.00096   14.9   4.2   31   28-60    116-147 (705)
113 PRK13784 adenylosuccinate synt  31.3      39   0.001   14.8   2.4   45    3-52     49-93  (428)
114 PRK13811 orotate phosphoribosy  30.0      42  0.0011   14.6   5.5   10   61-70     56-65  (170)
115 TIGR02998 RraA_entero regulato  29.3      25 0.00065   15.9   1.1   33    7-39     35-70  (161)
116 smart00788 Adenylsucc_synt Ade  28.7      44  0.0011   14.5   2.7   45    3-52     47-91  (421)
117 TIGR01369 CPSaseII_lrg carbamo  28.5      44  0.0011   14.5   6.4   48  105-158   761-809 (1089)
118 PRK11148 cyclic 3',5'-adenosin  28.5      44  0.0011   14.5   3.9   50   32-82     36-91  (275)
119 PRK13787 adenylosuccinate synt  28.3      43  0.0011   14.5   2.1   45    3-52     49-93  (423)
120 TIGR02439 catechol_proteo cate  27.9      45  0.0012   14.4   2.7   74  123-201   144-235 (288)
121 TIGR00505 ribA GTP cyclohydrol  27.9      45  0.0012   14.4   3.0   18   33-50     76-93  (227)
122 TIGR01738 bioH putative pimelo  27.6      46  0.0012   14.4   2.5   29  172-202   204-236 (248)
123 TIGR01394 TypA_BipA GTP-bindin  27.3      30 0.00078   15.4   1.2   36   29-65     98-142 (609)
124 PRK00143 trmU tRNA (5-methylam  27.2      47  0.0012   14.3   4.4  101   35-136    14-126 (355)
125 TIGR01935 NOT-MenG RraA family  27.2      24 0.00062   16.0   0.7   44    8-51     37-89  (155)
126 cd04168 TetM_like Tet(M)-like   26.6      48  0.0012   14.3   4.0   10  172-181   193-202 (237)
127 COG0075 Serine-pyruvate aminot  25.6      38 0.00098   14.8   1.5   34   28-62    105-142 (383)
128 TIGR01452 PGP_euk phosphoglyco  25.3      51  0.0013   14.1   3.5   19   38-58     23-41  (288)
129 COG0856 Orotate phosphoribosyl  25.0      51  0.0013   14.1   5.3   10  148-157   142-151 (203)
130 COG1107 Archaea-specific RecJ-  24.8      52  0.0013   14.1   2.8   10   55-64    447-456 (715)
131 PRK00090 bioD dithiobiotin syn  24.3      53  0.0013   14.0   4.2   22   39-60     18-41  (223)
132 pfam03054 tRNA_Me_trans tRNA m  23.2      56  0.0014   13.9   4.1  101   35-136    10-124 (354)
133 COG0311 PDX2 Predicted glutami  23.2      35 0.00089   15.1   0.9   20   31-50     42-61  (194)
134 TIGR02191 RNaseIII ribonucleas  22.8      34 0.00087   15.1   0.8   12  195-206    98-109 (228)
135 TIGR02855 spore_yabG sporulati  22.8      57  0.0014   13.8   2.2   27  173-199   148-174 (292)
136 PRK13783 adenylosuccinate synt  22.5      58  0.0015   13.8   2.7   44    3-51     48-91  (404)
137 cd01449 TST_Repeat_2 Thiosulfa  22.4      58  0.0015   13.8   3.7   55  133-201    38-92  (118)
138 COG4822 CbiK Cobalamin biosynt  22.1      59  0.0015   13.8   4.0   10   41-50     65-74  (265)
139 COG2241 CobL Precorrin-6B meth  21.9      59  0.0015   13.7   2.3   46   30-77     48-94  (210)
140 pfam08759 DUF1792 Domain of un  21.7      60  0.0015   13.7   3.8   53  151-203   128-182 (225)
141 pfam02542 YgbB YgbB family. Th  21.3      54  0.0014   13.9   1.6   31  115-145    12-43  (157)
142 TIGR02017 hutG_amidohyd N-form  20.5      63  0.0016   13.6   3.9   53  134-197    82-148 (269)
143 PRK12312 infB translation init  20.5      44  0.0011   14.5   1.0   29   25-55    162-190 (610)
144 TIGR03597 GTPase_YqeH ribosome  20.4      64  0.0016   13.5   3.7   32   41-74    116-147 (360)
145 cd06315 PBP1_ABC_sugar_binding  20.1      65  0.0016   13.5   5.6   58   25-82     29-87  (280)

No 1  
>TIGR03413 GSH_gloB hydroxyacylglutathione hydrolase. Members of this protein family are hydroxyacylglutathione hydrolase, a detoxification enzyme known as glyoxalase II. It follows lactoylglutathione lyase, or glyoxalase I, and acts to remove the toxic metabolite methylglyoxal and related compounds. This protein belongs to the broader metallo-beta-lactamase family (pfam00753).
Probab=100.00  E-value=0  Score=334.46  Aligned_cols=182  Identities=35%  Similarity=0.618  Sum_probs=163.6

Q ss_pred             EEECCCCCCCE-EEEEECCCCEEEEECCCCCHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCHHHHHHHCCCEEECCHHH
Q ss_conf             99708765716-99998899849998389999999999997499752999869885210110567886079554058438
Q gi|254780758|r    8 IVQVTPFKQNC-TFLFDEESLEAVVVDPGGDLDIIKDVIQSRNFHVKQIWITHGHVDHVGGAAQLKEDLSLTIIGPHKDD   86 (216)
Q Consensus         8 ~i~v~~~~~N~-~li~~~~~~~~ilID~G~~~~~i~~~l~~~~~~i~~Ii~TH~H~DH~gg~~~l~~~~~~~i~~~~~~~   86 (216)
                      +++++.++.|. |+|.+++ ++|++|||| +.+.+++.+++.++++++|++||.|+||++|+..|++++++++|++..+.
T Consensus         1 i~~ip~l~DNy~YLi~d~~-~~a~vIDP~-d~~~i~~~l~~~~l~l~~IL~TH~H~DHi~G~~~L~~~~~~~Vyg~~~~~   78 (248)
T TIGR03413         1 IIPIPALSDNYIWLLHDPD-GQAAVVDPG-EAEPVLDALEARGLTLTAILLTHHHHDHVGGVAELLEAFPAPVYGPAEER   78 (248)
T ss_pred             CEEECEECCEEEEEEEECC-CCEEEECCC-CCHHHHHHHHHCCCEEEEEEECCCCCCCCCCHHHHHHHCCCCCCCCHHHC
T ss_conf             9533542565899999189-858998799-80999999998799678999489886001318999975146612011116


Q ss_pred             HHHHCCHHHHHHHHHCCCCCCCCCCEEEECCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCC
Q ss_conf             98840123444432002346666741896478399762012331012224721000001234321111000001356634
Q gi|254780758|r   87 AAMMGKVDEQARLLSIRMNARNASSDRWLQDGDTLLLGTHIFKVFHCPGHSPGHVIYVNFENNFAHLGDTLFRSSIGRTD  166 (216)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~gd~i~lg~~~~~vi~tPGHt~g~~~~~~~~~~~lftGD~lf~~~~G~~d  166 (216)
                                           ....++.+.+||++.+|+.++++++|||||+||+||+++++++|||||+||.+||||. 
T Consensus        79 ---------------------~~~~d~~l~dgd~i~ig~~~~~vi~TPGHT~ghv~f~~~~~~~lFtGDTLF~gGcGR~-  136 (248)
T TIGR03413        79 ---------------------IPGITHPVKDGDTVTLGGLEFEVLAVPGHTLGHIAYYLPDSPALFCGDTLFSAGCGRL-  136 (248)
T ss_pred             ---------------------CCCCEEEECCCCEEEECCEEEEEEECCCCCCCCEEEEECCCEEEEECCEEECCCCCCC-
T ss_conf             ---------------------8777078258988988998899996789973006899557407984463441650267-


Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCCEEEEECCCC------------------------------------CCCHHHHHHHCH
Q ss_conf             67989999999999998519997899848879------------------------------------888899988281
Q gi|254780758|r  167 ILHGDYQQLINSINNKILPLGDEISFVCGHGP------------------------------------NSTIGRERRLNP  210 (216)
Q Consensus       167 ~~~~d~~~~~~sl~~~l~~l~~~~~v~PgHG~------------------------------------~tt~~~e~~~n~  210 (216)
                       ++|++++|++|| +||.+||++|+|||||.+                                    |||++.||+.||
T Consensus       137 -feG~~~~m~~SL-~kl~~Lpd~T~vypGHeYt~~Nl~Fa~~v~p~n~~l~~~~~~~~~~~~~~~~tvPstl~~E~~~NP  214 (248)
T TIGR03413       137 -FEGTPEQMYDSL-QRLAALPDDTLVYCAHEYTLSNLRFALTVEPDNPALQERLKEVEALRAQGQPTLPSTLGLERATNP  214 (248)
T ss_pred             -CCCCHHHHHHHH-HHHHCCCCCEEEEECCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCCCEEHHHHHHHCC
T ss_conf             -898999999999-998648997289847550477899998748999999999999999987799816642999860494


Q ss_pred             HHHCC
Q ss_conf             45148
Q gi|254780758|r  211 FLKSN  215 (216)
Q Consensus       211 ~~~~~  215 (216)
                      |||++
T Consensus       215 FlR~~  219 (248)
T TIGR03413       215 FLRAD  219 (248)
T ss_pred             CCCCC
T ss_conf             40589


No 2  
>PRK10241 hydroxyacylglutathione hydrolase; Provisional
Probab=100.00  E-value=0  Score=327.49  Aligned_cols=183  Identities=30%  Similarity=0.608  Sum_probs=158.1

Q ss_pred             EEEECCCCCCCEEEEEECCCCEEEEECCCCCHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCHHHHHHHCCCEEECCHHH
Q ss_conf             99970876571699998899849998389999999999997499752999869885210110567886079554058438
Q gi|254780758|r    7 HIVQVTPFKQNCTFLFDEESLEAVVVDPGGDLDIIKDVIQSRNFHVKQIWITHGHVDHVGGAAQLKEDLSLTIIGPHKDD   86 (216)
Q Consensus         7 ~~i~v~~~~~N~~li~~~~~~~~ilID~G~~~~~i~~~l~~~~~~i~~Ii~TH~H~DH~gg~~~l~~~~~~~i~~~~~~~   86 (216)
                      ++++++.++.|+.||+.+++++|++|||| +++.+++.+++.++++++|++||+|+||++|+..|+++++...++...+.
T Consensus         2 ~i~~ip~~~DNy~yli~d~~~~a~vIDPg-d~~~i~~~l~~~~l~l~~IL~TH~H~DHi~G~~~L~~~~~~~~v~g~~~~   80 (251)
T PRK10241          2 NLNSIPAFDDNYIWVLNDEAGRCLIVDPG-EAEPVLNAIAANNWQPEAIFLTHHHHDHVGGVKELVEKFPQIVVYGPQET   80 (251)
T ss_pred             EEEEEEEECCEEEEEEECCCCCEEEECCC-CHHHHHHHHHHCCCEEEEEEECCCCHHHHHHHHHHHHHCCCCEEECHHHC
T ss_conf             67996125566899998599838999499-70999999997799178999458955766329999987689858670332


Q ss_pred             HHHHCCHHHHHHHHHCCCCCCCCCCEEEECCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCC
Q ss_conf             98840123444432002346666741896478399762012331012224721000001234321111000001356634
Q gi|254780758|r   87 AAMMGKVDEQARLLSIRMNARNASSDRWLQDGDTLLLGTHIFKVFHCPGHSPGHVIYVNFENNFAHLGDTLFRSSIGRTD  166 (216)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~gd~i~lg~~~~~vi~tPGHt~g~~~~~~~~~~~lftGD~lf~~~~G~~d  166 (216)
                                          .....++.+++||++.+|+.+++|++|||||+||+||+.  ++.|||||+||.+||||  
T Consensus        81 --------------------~~~~~~~~v~dgd~i~~g~~~~~vi~TPGHT~Ghi~y~~--~~~lFtGDTLF~gGcGR--  136 (251)
T PRK10241         81 --------------------QDKGTTQVVKDGETAFVLGHEFSVFATPGHTLGHICYFS--KPYLFCGDTLFSGGCGR--  136 (251)
T ss_pred             --------------------CCCCCCEEECCCCEEEECCEEEEEEECCCCCCCHHHHHC--CCCEEECCCCCCCCCCC--
T ss_conf             --------------------676898784899999989989999977999830001113--77067515300466147--


Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCCEEEEECCCC------------------------------------CCCHHHHHHHCH
Q ss_conf             67989999999999998519997899848879------------------------------------888899988281
Q gi|254780758|r  167 ILHGDYQQLINSINNKILPLGDEISFVCGHGP------------------------------------NSTIGRERRLNP  210 (216)
Q Consensus       167 ~~~~d~~~~~~sl~~~l~~l~~~~~v~PgHG~------------------------------------~tt~~~e~~~n~  210 (216)
                      +++|+++||++|| +||.+||++|+|||||.+                                    |||++.||+.||
T Consensus       137 ~feG~~~~m~~SL-~kl~~LP~~T~vy~GHeYt~~Nl~Fa~~vep~N~~l~~~~~~~~~~r~~~~~t~Pstl~~E~~~Np  215 (251)
T PRK10241        137 LFEGTPSQMYQSL-KKINALPDDTLICCAHEYTLSNMKFALSILPHDLSINDYYRKVKELRAKNQITLPVILKNERQINL  215 (251)
T ss_pred             CCCCCHHHHHHHH-HHHHCCCCCCEEEECCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHCC
T ss_conf             8998999999999-999678998789726332287899998858999999999999999997799958854899974494


Q ss_pred             HHHCC
Q ss_conf             45148
Q gi|254780758|r  211 FLKSN  215 (216)
Q Consensus       211 ~~~~~  215 (216)
                      |||++
T Consensus       216 FlR~~  220 (251)
T PRK10241        216 FLRTE  220 (251)
T ss_pred             CCCCC
T ss_conf             11589


No 3  
>KOG0813 consensus
Probab=100.00  E-value=1.4e-38  Score=243.95  Aligned_cols=175  Identities=32%  Similarity=0.579  Sum_probs=147.3

Q ss_pred             CCCEEEEEE-CCCCEEEEECCCCCHHHHHHHHHH---CCCCEEEEEECCCCCCCCCCCHHHHHHHC--CCEEECCHHHHH
Q ss_conf             571699998-899849998389999999999997---49975299986988521011056788607--955405843898
Q gi|254780758|r   15 KQNCTFLFD-EESLEAVVVDPGGDLDIIKDVIQS---RNFHVKQIWITHGHVDHVGGAAQLKEDLS--LTIIGPHKDDAA   88 (216)
Q Consensus        15 ~~N~~li~~-~~~~~~ilID~G~~~~~i~~~l~~---~~~~i~~Ii~TH~H~DH~gg~~~l~~~~~--~~i~~~~~~~~~   88 (216)
                      ++|+||+.+ +.++.+.++||. .++.+...+++   .+.++++|+.||.|+||+||+..|.+.++  +.+|...+.   
T Consensus        12 ~Ny~YLl~~~~~~~~a~~vDP~-~pe~v~~~~~~~~~~~~~l~~Il~THhH~DHsGGn~~i~~~~~~~~~v~g~~~~---   87 (265)
T KOG0813          12 DNYMYLLGDGDKTIDADLVDPA-EPEYVIPSLKKLDDENRRLTAILTTHHHYDHSGGNEDIKREIPYDIKVIGGADD---   87 (265)
T ss_pred             CCEEEEEECCCCEEEEEEECCC-CHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCHHHHHHHCCCCCEEECCCHH---
T ss_conf             7569997536411365322676-318888888765530476468995222421467678887413578279668700---


Q ss_pred             HHCCHHHHHHHHHCCCCCCCCCCEEEECCCCEEEEECCCCCCCCCCCCCCCCCCCCCCC---CCCCCCCCHHHHCCCCCC
Q ss_conf             84012344443200234666674189647839976201233101222472100000123---432111100000135663
Q gi|254780758|r   89 MMGKVDEQARLLSIRMNARNASSDRWLQDGDTLLLGTHIFKVFHCPGHSPGHVIYVNFE---NNFAHLGDTLFRSSIGRT  165 (216)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~gd~i~lg~~~~~vi~tPGHt~g~~~~~~~~---~~~lftGD~lf~~~~G~~  165 (216)
                                        ......+.++++|++.+|+.++++++|||||.||+|||+.+   ++++||||+||..+||| 
T Consensus        88 ------------------r~~~i~~~~~~~e~~~~~g~~v~~l~TPgHT~~hi~~~~~~~~~e~~iFtGDtlf~~GcG~-  148 (265)
T KOG0813          88 ------------------RIPGITRGLKDGETVTVGGLEVRCLHTPGHTAGHICYYVTESTGERAIFTGDTLFGAGCGR-  148 (265)
T ss_pred             ------------------CCCCCCCCCCCCCEEEECCEEEEEEECCCCCCCCEEEEEECCCCCCEEEECCCEEECCCCC-
T ss_conf             ------------------0755344678886799898889998389856880899951578997588578265358623-


Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCEEEEECCCC-------------------------------------CCCHHHHHHH
Q ss_conf             467989999999999998519997899848879-------------------------------------8888999882
Q gi|254780758|r  166 DILHGDYQQLINSINNKILPLGDEISFVCGHGP-------------------------------------NSTIGRERRL  208 (216)
Q Consensus       166 d~~~~d~~~~~~sl~~~l~~l~~~~~v~PgHG~-------------------------------------~tt~~~e~~~  208 (216)
                       +++|.+.+|..|+.+ +..|+++++|||||++                                     ++|+++||..
T Consensus       149 -~FEgt~~~M~~sl~~-l~~L~~~t~iypGHeYt~~n~kf~~~ve~~n~~~q~~l~~~~~~~~~~~~t~~p~tl~~e~~~  226 (265)
T KOG0813         149 -FFEGTAEQMDSSLNE-LIALPDDTRIYPGHEYTKSNLKFARYVEPRNEVEQEKLDWLVERRSKEKPTMVPSTLGEEKLY  226 (265)
T ss_pred             -HHCCCHHHHHHHHHH-HHCCCCCCEECCCCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHC
T ss_conf             -315778999985887-624798856846842330301045420555388999999999875326764670048899861


Q ss_pred             CHHHHC
Q ss_conf             814514
Q gi|254780758|r  209 NPFLKS  214 (216)
Q Consensus       209 n~~~~~  214 (216)
                      |||+|-
T Consensus       227 Npf~r~  232 (265)
T KOG0813         227 NPFMRL  232 (265)
T ss_pred             CCHHHC
T ss_conf             941112


No 4  
>KOG0814 consensus
Probab=100.00  E-value=8.5e-34  Score=216.12  Aligned_cols=177  Identities=31%  Similarity=0.412  Sum_probs=154.5

Q ss_pred             CCCEEEEEECCCCEEEEECCCCC-HHHHHHHHHHCCCCEEEEEECCCCCCCCCCCHHHHHHHC-CCEEECCHHHHHHHCC
Q ss_conf             57169999889984999838999-999999999749975299986988521011056788607-9554058438988401
Q gi|254780758|r   15 KQNCTFLFDEESLEAVVVDPGGD-LDIIKDVIQSRNFHVKQIWITHGHVDHVGGAAQLKEDLS-LTIIGPHKDDAAMMGK   92 (216)
Q Consensus        15 ~~N~~li~~~~~~~~ilID~G~~-~~~i~~~l~~~~~~i~~Ii~TH~H~DH~gg~~~l~~~~~-~~i~~~~~~~~~~~~~   92 (216)
                      .+-.|++.|..++++++|||-.+ .++=.+.+++.|+++.|-++||.|.||+-|...|+..+| ++-+.+          
T Consensus        20 sTytYll~d~~~~~AviIDPV~et~~RD~qlikdLgl~LiYa~NTH~HADHiTGtg~Lkt~~pg~kSVis----------   89 (237)
T KOG0814          20 STYTYLLGDHKTGKAVIIDPVLETVSRDAQLIKDLGLDLIYALNTHVHADHITGTGLLKTLLPGCKSVIS----------   89 (237)
T ss_pred             CEEEEEEEECCCCCEEEECCHHHCCCCHHHHHHHCCCEEEEEECCEEECCCCCCCCHHHHHCCCHHHHHH----------
T ss_conf             5178885507888558964056325305799986180014423040320330163337776421888865----------


Q ss_pred             HHHHHHHHHCCCCCCCCCCEEEECCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCH
Q ss_conf             23444432002346666741896478399762012331012224721000001234321111000001356634679899
Q gi|254780758|r   93 VDEQARLLSIRMNARNASSDRWLQDGDTLLLGTHIFKVFHCPGHSPGHVIYVNFENNFAHLGDTLFRSSIGRTDILHGDY  172 (216)
Q Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~l~~gd~i~lg~~~~~vi~tPGHt~g~~~~~~~~~~~lftGD~lf~~~~G~~d~~~~d~  172 (216)
                                  .......|..+++||.+++|+..+++..|||||+|++.|...+.+..||||+|+.++||||||.+|.+
T Consensus        90 ------------~~SGakAD~~l~~Gd~i~~G~~~le~ratPGHT~GC~TyV~~d~~~aFTGDalLIRgCGRTDFQqG~~  157 (237)
T KOG0814          90 ------------SASGAKADLHLEDGDIIEIGGLKLEVRATPGHTNGCVTYVEHDLRMAFTGDALLIRGCGRTDFQQGCP  157 (237)
T ss_pred             ------------HCCCCCCCCCCCCCCEEEECCEEEEEECCCCCCCCEEEEEECCCCEEEECCEEEEECCCCCCHHCCCH
T ss_conf             ------------40365312134889778774579998518998776379996575125624656785147630311685


Q ss_pred             HHHHHHHHHHHHCCCCCEEEEECCCC----CCCHHHHHHHCHHHH
Q ss_conf             99999999998519997899848879----888899988281451
Q gi|254780758|r  173 QQLINSINNKILPLGDEISFVCGHGP----NSTIGRERRLNPFLK  213 (216)
Q Consensus       173 ~~~~~sl~~~l~~l~~~~~v~PgHG~----~tt~~~e~~~n~~~~  213 (216)
                      +++++|+.++|..||.+++|||+|.+    .+|+.+||+.||-|.
T Consensus       158 ~~LyesVH~kIFTLP~d~~iYpaHdY~G~~~stV~EEk~~NPRLT  202 (237)
T KOG0814         158 ASLYESVHSKIFTLPEDYLIYPAHDYKGFLVSTVWEEKNLNPRLT  202 (237)
T ss_pred             HHHHHHHHHHHEECCCCEEEEECCCCCCEEEEEHHHHHCCCCCCC
T ss_conf             888998867752078751896535647558651344533396222


No 5  
>smart00849 Lactamase_B Metallo-beta-lactamase superfamily. Apart from the beta-lactamases a number of other proteins contain this domain PUBMED:7588620. These proteins include thiolesterases, members of the glyoxalase II family, that catalyse the hydrolysis of S-D-lactoyl-glutathione to form glutathione and D-lactic acid and a competence protein that is essential for natural transformation in Neisseria gonorrhoeae and could be a transporter involved in DNA uptake. Except for the competence protein these proteins bind two zinc ions per molecule as cofactor.
Probab=99.97  E-value=8.1e-30  Score=193.00  Aligned_cols=177  Identities=28%  Similarity=0.434  Sum_probs=132.6

Q ss_pred             CCCCCEEEEEECCCCEEEEECCCCC-HHHHHHHHHHCCC-CEEEEEECCCCCCCCCCCHHHHHHHCCCEEECCHHHHHHH
Q ss_conf             7657169999889984999838999-9999999997499-7529998698852101105678860795540584389884
Q gi|254780758|r   13 PFKQNCTFLFDEESLEAVVVDPGGD-LDIIKDVIQSRNF-HVKQIWITHGHVDHVGGAAQLKEDLSLTIIGPHKDDAAMM   90 (216)
Q Consensus        13 ~~~~N~~li~~~~~~~~ilID~G~~-~~~i~~~l~~~~~-~i~~Ii~TH~H~DH~gg~~~l~~~~~~~i~~~~~~~~~~~   90 (216)
                      ...+|||+|.+++  +++|||||.. .+.+++.+++.+. +|++|++||.|+||+||+..|++++++++|++..+...+ 
T Consensus         3 ~~~~n~~li~~~~--~~vliD~G~~~~~~~~~~l~~~~~~~i~~vv~TH~H~DH~gg~~~~~~~~~~~i~~~~~~~~~~-   79 (183)
T smart00849        3 GVGVNSYLVEGDG--GAILIDTGPGEAEDLLAELKKLGPKDIDAIILTHGHPDHIGGLPELLEAPGAPVYAPEGTAELL-   79 (183)
T ss_pred             CCCCEEEEEEECC--EEEEEECCCCHHHHHHHHHHHCCCCCCCEEEECCCCCCHHCHHHHHHHHCCCEEEECHHHHHHH-
T ss_conf             8641899999899--8999929898099999999965998874999899994003309999873299899879999998-


Q ss_pred             CCHHHHHHHHHCCCCCCCCCCEEEECCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCC--C
Q ss_conf             01234444320023466667418964783997620123310122247210000012343211110000013566346--7
Q gi|254780758|r   91 GKVDEQARLLSIRMNARNASSDRWLQDGDTLLLGTHIFKVFHCPGHSPGHVIYVNFENNFAHLGDTLFRSSIGRTDI--L  168 (216)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~l~~gd~i~lg~~~~~vi~tPGHt~g~~~~~~~~~~~lftGD~lf~~~~G~~d~--~  168 (216)
                      ......  ............+...+++++++.+++..++++++||||+|+++++.++.++||+||++|....+....  +
T Consensus        80 ~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pGHt~g~~~~~~~~~~vl~~GD~~~~~~~~~~~~~~~  157 (183)
T smart00849       80 KDLLKL--GGALGAEAPPPPPDRTLKDGEELDLGGLELEVIHTPGHTPGSIVLYLPEGKILFTGDLLFSGGIGRTDDDGG  157 (183)
T ss_pred             HCCHHC--CCCCCCCCCCCCCCEECCCCCEEEECCEEEEEEECCCCCCCCEEEEECCCCEEEEEEEECCCCCCCCCCCCC
T ss_conf             610010--333333467776616728999999899869986468878898999989999999988989798777478999


Q ss_pred             CCCHHHHHHHHHHHHHCCCCCEEEEECC
Q ss_conf             9899999999999985199978998488
Q gi|254780758|r  169 HGDYQQLINSINNKILPLGDEISFVCGH  196 (216)
Q Consensus       169 ~~d~~~~~~sl~~~l~~l~~~~~v~PgH  196 (216)
                      ..+..++++++ +++..+.+++ ++|||
T Consensus       158 ~~~~~~~~~~l-~~~~~~~~~~-i~pgH  183 (183)
T smart00849      158 DASASDSLESL-LKLLALDPEL-VVPGH  183 (183)
T ss_pred             CHHHHHHHHHH-HHHHCCCCCE-EECCC
T ss_conf             56599999999-9987799999-97797


No 6  
>COG0491 GloB Zn-dependent hydrolases, including glyoxylases [General function prediction only]
Probab=99.96  E-value=3.8e-28  Score=183.28  Aligned_cols=197  Identities=30%  Similarity=0.493  Sum_probs=134.1

Q ss_pred             CCEEEEEECC--CCCCCEEEEEECCCCEEEEECCCCC---HHHHHHHHHHCCCCEEEEEECCCCCCCCCCCHHHHHHHC-
Q ss_conf             7359999708--7657169999889984999838999---999999999749975299986988521011056788607-
Q gi|254780758|r    3 KLSFHIVQVT--PFKQNCTFLFDEESLEAVVVDPGGD---LDIIKDVIQSRNFHVKQIWITHGHVDHVGGAAQLKEDLS-   76 (216)
Q Consensus         3 ~~~~~~i~v~--~~~~N~~li~~~~~~~~ilID~G~~---~~~i~~~l~~~~~~i~~Ii~TH~H~DH~gg~~~l~~~~~-   76 (216)
                      .+.+..++.+  .+..|++++........+|||+|..   ...+.+.+...+.++++|++||.|.||+||+..+.+..+ 
T Consensus         9 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtG~~~~~~~~~~~~l~~~~~di~~vilTH~H~DH~gg~~~~~~~~~~   88 (252)
T COG0491           9 LDGITAFPIGVGPLSGNSVYLLVDGEGGAVLIDTGLGDADAEALLEALAALGLDVDAILLTHGHFDHIGGAAVLKEAFGA   88 (252)
T ss_pred             CCCEEEEECCCCCCCCCEEEEEECCCCCEEEEECCCCCCHHHHHHHHHHHCCCCCCEEEECCCCHHHHHHHHHHHHHCCC
T ss_conf             34027872167656773399998489848999499984057999999886699877899198807878279999874587


Q ss_pred             CCEEECCHHHHHHHCCHHHHHHHH-HCCCCCCCCCCEEEECCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             955405843898840123444432-0023466667418964783997620123310122247210000012343211110
Q gi|254780758|r   77 LTIIGPHKDDAAMMGKVDEQARLL-SIRMNARNASSDRWLQDGDTLLLGTHIFKVFHCPGHSPGHVIYVNFENNFAHLGD  155 (216)
Q Consensus        77 ~~i~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~gd~i~lg~~~~~vi~tPGHt~g~~~~~~~~~~~lftGD  155 (216)
                      +++ ..+.....+........... ..............+.+++.+.+++..++++++|||||||+++++++++++|+||
T Consensus        89 ~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~pGHT~g~~~~~~~~~~~l~~gD  167 (252)
T COG0491          89 APV-IAPAEVPLLLREEILRKAGVTAEAYAAPGASPLRALEDGDELDLGGLELEVLHTPGHTPGHIVFLLEDGGVLFTGD  167 (252)
T ss_pred             CEE-EECCHHHHHHHCCCCCCCCCCHHHCCCCCCCCCCCCCCCCEEEECCCEEEEEECCCCCCCCEEEEECCCCEEEEEC
T ss_conf             349-8040255443012111221001211477333443357898899789269999899888558899989998999932


Q ss_pred             HHHHCC--CCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEECCCCCC
Q ss_conf             000013--566346798999999999999851999789984887988
Q gi|254780758|r  156 TLFRSS--IGRTDILHGDYQQLINSINNKILPLGDEISFVCGHGPNS  200 (216)
Q Consensus       156 ~lf~~~--~G~~d~~~~d~~~~~~sl~~~l~~l~~~~~v~PgHG~~t  200 (216)
                      ++|...  +++...+..+..++++|+++......+...|+||||+..
T Consensus       168 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~p~Hg~~~  214 (252)
T COG0491         168 TLFAGDTGVGRLDLPGGDAAQLLASLRRLLLLLLPDTLVLPGHGPDE  214 (252)
T ss_pred             CCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCEEEECCCCHH
T ss_conf             11678767775555777999999999999843589859996898544


No 7  
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=99.84  E-value=5.7e-20  Score=135.79  Aligned_cols=168  Identities=20%  Similarity=0.261  Sum_probs=115.4

Q ss_pred             CCCC--CEEEEEECCCCEEEEECCCCC--HHHHHHHHHHC-C-CCEEEEEECCCCCCCCCCCHHHHHHHC-CCEEECCHH
Q ss_conf             7657--169999889984999838999--99999999974-9-975299986988521011056788607-955405843
Q gi|254780758|r   13 PFKQ--NCTFLFDEESLEAVVVDPGGD--LDIIKDVIQSR-N-FHVKQIWITHGHVDHVGGAAQLKEDLS-LTIIGPHKD   85 (216)
Q Consensus        13 ~~~~--N~~li~~~~~~~~ilID~G~~--~~~i~~~l~~~-~-~~i~~Ii~TH~H~DH~gg~~~l~~~~~-~~i~~~~~~   85 (216)
                      +.++  |+|||.++   +.+|||+...  .+..++.|++. + .+|+||++.|.-+||+|+++.|.+.+| ++++++...
T Consensus        28 ~~GtTYNSYLI~~e---k~aLiDtv~~~f~~e~l~~l~~vi~~~~IdYiVvnH~EPDHsg~l~~ll~~~p~~~vv~s~~~  104 (395)
T PRK11921         28 HRGSSYNSYLIKDE---KTVLIDTVWAPFAKEFVENLKKEIDLDKIDYIVANHGEIDHSGALPELMKEIPDTPIYCTANG  104 (395)
T ss_pred             CCCEEEEEEEECCC---CEEEEECCCHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHCCCCEEEECHHH
T ss_conf             99645675799689---789992898438999999999645965699999389997578999999998899999987899


Q ss_pred             HHHHHCCHHHHHHHHHCCCCCCCCCCEEEECCCCEEEEECCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCHHHHCCCC-
Q ss_conf             8988401234444320023466667418964783997620123310122-24721000001234321111000001356-
Q gi|254780758|r   86 DAAMMGKVDEQARLLSIRMNARNASSDRWLQDGDTLLLGTHIFKVFHCP-GHSPGHVIYVNFENNFAHLGDTLFRSSIG-  163 (216)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~gd~i~lg~~~~~vi~tP-GHt~g~~~~~~~~~~~lftGD~lf~~~~G-  163 (216)
                      ...+....       .      .....+.+++||++.+|+.+++++.|| =|.|++++-|.+++++|||.|+ | ++.+ 
T Consensus       105 ~~~l~~~~-------~------~~~~~~~Vk~gd~L~LG~~tL~F~~tP~lHWPdtm~Ty~~edkiLFs~Da-F-G~h~a  169 (395)
T PRK11921        105 AKSLKGHY-------H------QDWNFVVVKTGDRLEIGSKELIFIEAPMLHWPDSMFCYLTGDNILFSNDA-F-GQHYA  169 (395)
T ss_pred             HHHHHHHH-------C------CCCCEEEECCCCEEECCCCEEEEEECCCCCCCCCEEEEECCCCEEECCCC-C-CCCCC
T ss_conf             99999872-------8------88773896789888428966999978988788843799757877860355-4-45433


Q ss_pred             ---CCCCCC--C----CHHHH------------HHHHHHHHHCCC--CCEEEEECCCCCC
Q ss_conf             ---634679--8----99999------------999999985199--9789984887988
Q gi|254780758|r  164 ---RTDILH--G----DYQQL------------INSINNKILPLG--DEISFVCGHGPNS  200 (216)
Q Consensus       164 ---~~d~~~--~----d~~~~------------~~sl~~~l~~l~--~~~~v~PgHG~~t  200 (216)
                         +.|-..  .    +...+            .+.| +++..|+  .+ .|+|+|||--
T Consensus       170 ~~~~fdd~~d~~~~~~ea~~YY~nI~~p~~~~V~~~l-~kl~~l~l~i~-~IaPsHGpi~  227 (395)
T PRK11921        170 SELMYNDLVDQGELYQEAIKYYANILTPFSPLVIKKI-EEILSLNLPVD-MICPSHGVIW  227 (395)
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHCCCCCC-EEECCCCCEE
T ss_conf             7100023354055699999999998663189999999-99984799976-9988985054


No 8  
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=99.83  E-value=1.1e-19  Score=134.14  Aligned_cols=170  Identities=22%  Similarity=0.238  Sum_probs=116.1

Q ss_pred             CCCCCEEEEEECCCCEEEEECCCCC--HHHHHHHHHHC-CC-CEEEEEECCCCCCCCCCCHHHHHHHC-CCEEECCHHHH
Q ss_conf             7657169999889984999838999--99999999974-99-75299986988521011056788607-95540584389
Q gi|254780758|r   13 PFKQNCTFLFDEESLEAVVVDPGGD--LDIIKDVIQSR-NF-HVKQIWITHGHVDHVGGAAQLKEDLS-LTIIGPHKDDA   87 (216)
Q Consensus        13 ~~~~N~~li~~~~~~~~ilID~G~~--~~~i~~~l~~~-~~-~i~~Ii~TH~H~DH~gg~~~l~~~~~-~~i~~~~~~~~   87 (216)
                      ....|+|||.+   ++.+||||+..  .+.+++.+++. +. +|+||+..|..+||+|+++.+.+.+| ++++++.....
T Consensus        33 GttyNSYLI~~---~k~aLID~~~~~f~~~~l~~l~~~id~k~iDYIi~~H~ePDhsg~l~~ll~~~p~a~ii~s~~~~~  109 (388)
T COG0426          33 GTTYNSYLIVG---DKTALIDTVGEKFFDEYLENLSKYIDPKEIDYIIVNHTEPDHSGSLPELLELAPNAKIICSKLAAR  109 (388)
T ss_pred             CCEEEEEEEEC---CCEEEECCCCCCHHHHHHHHHHHHCCHHCCEEEEECCCCCCHHHHHHHHHHHCCCCEEEEEHHHHH
T ss_conf             71445589967---967998899801699999999863480017199978889633546999998688978996389999


Q ss_pred             HHHCCHHHHHHHHHCCCCCCCCCCEEEECCCCEEEEECCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCHHHH-CCCCCC
Q ss_conf             88401234444320023466667418964783997620123310122-2472100000123432111100000-135663
Q gi|254780758|r   88 AMMGKVDEQARLLSIRMNARNASSDRWLQDGDTLLLGTHIFKVFHCP-GHSPGHVIYVNFENNFAHLGDTLFR-SSIGRT  165 (216)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~gd~i~lg~~~~~vi~tP-GHt~g~~~~~~~~~~~lftGD~lf~-~~~G~~  165 (216)
                      ++..-..            .+.. ...++.||++.+|+.+++++++| =|+||+++.|.+.+++|||+|+ |- .-|.. 
T Consensus       110 ~L~~~~~------------~~~~-~~ivk~Gd~ldlGg~tL~Fi~ap~LHWPd~m~TYd~~~kILFS~D~-fG~h~~~~-  174 (388)
T COG0426         110 FLKGFYH------------DPEW-FKIVKTGDTLDLGGHTLKFIPAPFLHWPDTMFTYDPEDKILFSCDA-FGAHVCDD-  174 (388)
T ss_pred             HHHHHCC------------CCCC-EEECCCCCEECCCCCEEEEEECCCCCCCCCEEEEECCCCEEECCCC-CCCCCCCH-
T ss_conf             9997448------------8541-3634788776448947999957877798733676247757771465-66424652-


Q ss_pred             CCCCCCHHHH------------------HHHHHHHHHCCCCCEEEEECCCCCCC
Q ss_conf             4679899999------------------99999998519997899848879888
Q gi|254780758|r  166 DILHGDYQQL------------------INSINNKILPLGDEISFVCGHGPNST  201 (216)
Q Consensus       166 d~~~~d~~~~------------------~~sl~~~l~~l~~~~~v~PgHG~~tt  201 (216)
                      ..+..+...+                  .....+++..++-+ .|.|+|||.-.
T Consensus       175 ~~fded~~~~~~~~~~Y~~~lm~p~~~~v~~~l~~~~~l~i~-~IaP~HG~i~~  227 (388)
T COG0426         175 YRFDEDIEELLPDMRKYYANLMAPNARLVLWALKKIKLLKIE-MIAPSHGPIWR  227 (388)
T ss_pred             HCCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCC-EEECCCCCEEE
T ss_conf             112467999879899999996052179999998540546741-89759985255


No 9  
>pfam00753 Lactamase_B Metallo-beta-lactamase superfamily.
Probab=99.82  E-value=7.5e-20  Score=135.10  Aligned_cols=141  Identities=28%  Similarity=0.369  Sum_probs=98.7

Q ss_pred             CCCCCEEEEEECCCCEEEEECCCCCHHHHHHH---HHHCCCCEEEEEECCCCCCCCCCCHHHHHHHCCCEEECCHHHHHH
Q ss_conf             76571699998899849998389999999999---997499752999869885210110567886079554058438988
Q gi|254780758|r   13 PFKQNCTFLFDEESLEAVVVDPGGDLDIIKDV---IQSRNFHVKQIWITHGHVDHVGGAAQLKEDLSLTIIGPHKDDAAM   89 (216)
Q Consensus        13 ~~~~N~~li~~~~~~~~ilID~G~~~~~i~~~---l~~~~~~i~~Ii~TH~H~DH~gg~~~l~~~~~~~i~~~~~~~~~~   89 (216)
                      ....|||+|.++  ++++|||||.........   .+....+|++|++||.|+||+||+..++++++...+.........
T Consensus         3 ~~~~~~~li~~~--~~~vLiD~G~~~~~~~~~~~~~~~~~~~v~~vi~TH~H~DH~gg~~~~~~~~~~~~~~~~~~~~~~   80 (148)
T pfam00753         3 GVGSNSYLVEGD--GGAILIDTGLGADDALLLLAALGLDPKDIDAIILTHAHADHIGGLPELKEATPAPVVAAPEDAAAL   80 (148)
T ss_pred             CCEEEEEEEEEC--CEEEEEECCCCHHHHHHHHHHHCCCCCCCCEEEECCCCHHHHCCHHHHHHHCCCCEEECCHHHHHH
T ss_conf             855589999989--989999598991589999998379976864999799985565568999987599899826888765


Q ss_pred             HCCHHHHHHHHHCCCCCCCCCCEEEECCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHH
Q ss_conf             401234444320023466667418964783997620123310122247210000012343211110000
Q gi|254780758|r   90 MGKVDEQARLLSIRMNARNASSDRWLQDGDTLLLGTHIFKVFHCPGHSPGHVIYVNFENNFAHLGDTLF  158 (216)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~gd~i~lg~~~~~vi~tPGHt~g~~~~~~~~~~~lftGD~lf  158 (216)
                      ...........   ...............+....+...+.+...+||++++++++.+++++||+||++|
T Consensus        81 ~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~~GD~~~  146 (148)
T pfam00753        81 LRLGLDDAELR---KLVDVLPPDVDLEGGDGILGGGTLLFVTPHPGHGPGHVVVYLPGGKVLFTGDLLF  146 (148)
T ss_pred             HHHHHCCCCCC---CCCCCCCCEEEECCCEEEECCCEEEEEEECCCCCCCCEEEEECCCCEEEECCCCC
T ss_conf             42100001002---4666666505405741992498899999789988985999999999999898267


No 10 
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=99.81  E-value=3.6e-19  Score=131.18  Aligned_cols=166  Identities=18%  Similarity=0.209  Sum_probs=112.3

Q ss_pred             CCEEEEEECCCCEEEEECCCCC--HHHHHHHHHHC-CC-CEEEEEECCCCCCCCCCCHHHHHHHC-CCEEECCHHHHHHH
Q ss_conf             7169999889984999838999--99999999974-99-75299986988521011056788607-95540584389884
Q gi|254780758|r   16 QNCTFLFDEESLEAVVVDPGGD--LDIIKDVIQSR-NF-HVKQIWITHGHVDHVGGAAQLKEDLS-LTIIGPHKDDAAMM   90 (216)
Q Consensus        16 ~N~~li~~~~~~~~ilID~G~~--~~~i~~~l~~~-~~-~i~~Ii~TH~H~DH~gg~~~l~~~~~-~~i~~~~~~~~~~~   90 (216)
                      -|+|||.++   +.+|||+...  .+.+++.|++. +. +|+||++-|.-+||+|+++.|.+.+| ++++++......+.
T Consensus        35 YNSYLI~de---K~aLIDtv~~~f~~e~l~~L~~~id~~~IDYIIvnH~EpDHSGsL~~Lle~~P~~~Iv~s~~a~~~l~  111 (479)
T PRK05452         35 YNSYLIREE---KNVLIDTVDHKFSREFVQNLRMEIDLADIDYIVINHAEEDHAGALTELMAQIPDTPIYCTANAIDSIN  111 (479)
T ss_pred             EEEEEECCC---CEEEEECCCHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHCCCCEEEECHHHHHHHH
T ss_conf             343698489---88999299762899999999974596679889968999754768999999889999998789999999


Q ss_pred             CCHHHHHHHHHCCCCCCCCCCEEEECCCCEEEEE-CCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCHHHHC-CCC--CC
Q ss_conf             0123444432002346666741896478399762-0123310122-24721000001234321111000001-356--63
Q gi|254780758|r   91 GKVDEQARLLSIRMNARNASSDRWLQDGDTLLLG-THIFKVFHCP-GHSPGHVIYVNFENNFAHLGDTLFRS-SIG--RT  165 (216)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~l~~gd~i~lg-~~~~~vi~tP-GHt~g~~~~~~~~~~~lftGD~lf~~-~~G--~~  165 (216)
                      ....            .+--..+.+++||++++| |.+++++.|| =|.|++++-|++++++|||.|++ -. -+.  +.
T Consensus       112 ~~~~------------~~~~~~~vVk~Gd~LdLG~GktL~Fi~tPmlHWPDsM~TY~~edkILFS~DaF-G~H~~~~~~f  178 (479)
T PRK05452        112 GHHH------------HPEWNFNVVKTGDTLDIGNGKQLIFVETPMLHWPDSMMTYLTGDAVLFSNDAF-GQHYCDEHLF  178 (479)
T ss_pred             HHHC------------CCCCCEEEECCCCEEECCCCCEEEEEECCCCCCCCCEEEEECCCCEEEECCCC-CCEECCCCCC
T ss_conf             8527------------87667378468985726998468996189877887326886267568612555-3212275444


Q ss_pred             CCCCCCH-------HHH------------HHHHHHHHHC--CCCCEEEEECCCCCC
Q ss_conf             4679899-------999------------9999999851--999789984887988
Q gi|254780758|r  166 DILHGDY-------QQL------------INSINNKILP--LGDEISFVCGHGPNS  200 (216)
Q Consensus       166 d~~~~d~-------~~~------------~~sl~~~l~~--l~~~~~v~PgHG~~t  200 (216)
                      |- +-|.       ..+            .+.| +++..  |+.+ .|.|+|||--
T Consensus       179 dd-evd~~~~~~ea~rYYanIl~Pf~~~V~~~l-~kl~~l~L~I~-~IaPsHGpI~  231 (479)
T PRK05452        179 ND-EVDQTELFEQCQRYYANILTPFSRLVTPKI-TEILGFNLPVD-MIATSHGVVW  231 (479)
T ss_pred             CC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHCCCCHH-EEECCCCCEE
T ss_conf             33-245687899999999998764079999999-99973799842-4875788233


No 11 
>COG0595 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]
Probab=99.77  E-value=4.6e-18  Score=124.71  Aligned_cols=192  Identities=22%  Similarity=0.264  Sum_probs=124.0

Q ss_pred             CCEEEEEECCCCC---CCEEEEEECCCCEEEEECCCCC---H-----HHH---HHHHHHCCCCEEEEEECCCCCCCCCCC
Q ss_conf             7359999708765---7169999889984999838999---9-----999---999997499752999869885210110
Q gi|254780758|r    3 KLSFHIVQVTPFK---QNCTFLFDEESLEAVVVDPGGD---L-----DII---KDVIQSRNFHVKQIWITHGHVDHVGGA   68 (216)
Q Consensus         3 ~~~~~~i~v~~~~---~N~~li~~~~~~~~ilID~G~~---~-----~~i---~~~l~~~~~~i~~Ii~TH~H~DH~gg~   68 (216)
                      ..++.++++|.++   -|||++..++  +.+++|+|.-   .     +.+   ..++++...++++|++||+|.||+|++
T Consensus         6 ~~~i~i~~lGG~~EiGkN~~vve~~~--~i~i~D~G~~fp~~~~~gvDliIPd~~yl~~n~~kvkgI~lTHgHeDHIGai   83 (555)
T COG0595           6 KAKIKIFALGGVGEIGKNMYVVEYGD--DIIILDAGLKFPEDDLLGVDLIIPDFSYLEENKDKVKGIFLTHGHEDHIGAL   83 (555)
T ss_pred             CCCEEEEEECCHHHHCCCEEEEEECC--CEEEEECCCCCCCCCCCCCCEEECCHHHHHHCCCCCEEEEECCCCHHHCCCH
T ss_conf             78558998058102226238999789--6899977656686435555588258277431500213999468744432346


Q ss_pred             HHHHHHHC-CCEEECCHHHHHHHCCHHHHHHHHHCCCCCCCCCCEEEECCCCEEEEECCCCCCCCCCCCC-CCCCCCC--
Q ss_conf             56788607-9554058438988401234444320023466667418964783997620123310122247-2100000--
Q gi|254780758|r   69 AQLKEDLS-LTIIGPHKDDAAMMGKVDEQARLLSIRMNARNASSDRWLQDGDTLLLGTHIFKVFHCPGHS-PGHVIYV--  144 (216)
Q Consensus        69 ~~l~~~~~-~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~gd~i~lg~~~~~vi~tPGHt-~g~~~~~--  144 (216)
                      +++..+.+ +|+|++......+..+....       ...........+..++.+++++..++++++ -|| |+++++.  
T Consensus        84 p~ll~~~~~~piy~s~lt~~Li~~k~~~~-------~~~~~~~~~~ev~~~~~i~~~~~~v~f~~v-tHSIPds~g~~i~  155 (555)
T COG0595          84 PYLLKQVLFAPIYASPLTAALIKEKLKEH-------GLFKNENELHEVKPGSEIKFGSFEVEFFPV-THSIPDSLGIVIK  155 (555)
T ss_pred             HHHHHCCCCCCEECCHHHHHHHHHHHHHH-------CCCCCCCCEEEECCCCEEEECCEEEEEEEE-CCCCCCCEEEEEE
T ss_conf             78985277684444776699999898873-------211356743994799857767679999960-3557451689998


Q ss_pred             CCCCCCCCCCCHHHHCCCCCCCCCCCCHHHHHHHHHH-HHHCCCCCEEEE-ECCCCCCCHHHHH
Q ss_conf             1234321111000001356634679899999999999-985199978998-4887988889998
Q gi|254780758|r  145 NFENNFAHLGDTLFRSSIGRTDILHGDYQQLINSINN-KILPLGDEISFV-CGHGPNSTIGRER  206 (216)
Q Consensus       145 ~~~~~~lftGD~lf~~~~G~~d~~~~d~~~~~~sl~~-~l~~l~~~~~v~-PgHG~~tt~~~e~  206 (216)
                      .+++.+++|||.-|-+...  +=+..|...+.+--++ ++.-+.+.|.+- ||..++...-.|.
T Consensus       156 Tp~G~Iv~TGDFk~d~~~~--~g~~~d~~r~~~~g~eGVl~LisdsTna~~pg~t~SE~~v~~~  217 (555)
T COG0595         156 TPEGNIVYTGDFKFDPTPV--DGEPTDLARLAEIGKEGVLALISDSTNAENPGFTPSESEVGEN  217 (555)
T ss_pred             CCCCCEEEECCEEECCCCC--CCCCCCHHHHHHHCCCCCEEEEECCCCCCCCCCCCCHHHHHHH
T ss_conf             7984389968778558867--7776788999974667847999578656899989788999999


No 12 
>TIGR00649 MG423 conserved hypothetical protein; InterPro: IPR004613 This is a family of conserved hypothetical proteins, the members of which contain an ATP-binding domain at the N-terminal end of the protein. It is possibly part of a superfamily of beta-lactmases..
Probab=99.72  E-value=3.9e-17  Score=119.33  Aligned_cols=194  Identities=22%  Similarity=0.281  Sum_probs=128.2

Q ss_pred             EEEEECCCCC---CCEEEEEECCCCEEEEECCCCCH-------H----HH-------------HHHHHHCCCCEEEEEEC
Q ss_conf             9999708765---71699998899849998389999-------9----99-------------99999749975299986
Q gi|254780758|r    6 FHIVQVTPFK---QNCTFLFDEESLEAVVVDPGGDL-------D----II-------------KDVIQSRNFHVKQIWIT   58 (216)
Q Consensus         6 ~~~i~v~~~~---~N~~li~~~~~~~~ilID~G~~~-------~----~i-------------~~~l~~~~~~i~~Ii~T   58 (216)
                      ++++++|.+.   -|||++.-+  +++++||.|...       +    .+             ..+|++..-+|++|++|
T Consensus         1 ~~i~alGG~~E~GKNm~vve~~--~ev~i~D~G~~~PRVlIHed~di~~~~G~dL~~~~vIPD~~~l~~~~~kvkgI~~t   78 (593)
T TIGR00649         1 IKIFALGGLEEIGKNMTVVEVD--DEVVIIDAGIRFPRVLIHEDTDIAEMLGVDLIEKGVIPDFTYLKENEDKVKGIVIT   78 (593)
T ss_pred             CEEECCCCCCCCCCCEEEEEEC--CEEEEEECCCCCCCEEEECCCCHHHHCCHHHHHCCCCCCCHHHHHHCCCEEEEEEC
T ss_conf             9672358865417623899877--85999823223796464155203544041143203168961675212506788970


Q ss_pred             CCCCCCCCCCHHHHHHHCCC-EEECCHHHHHHHCCHH-HHHHHHHCCCCCCCCCC-EEEECCCCEEEEE---CCCCCCCC
Q ss_conf             98852101105678860795-5405843898840123-44443200234666674-1896478399762---01233101
Q gi|254780758|r   59 HGHVDHVGGAAQLKEDLSLT-IIGPHKDDAAMMGKVD-EQARLLSIRMNARNASS-DRWLQDGDTLLLG---THIFKVFH  132 (216)
Q Consensus        59 H~H~DH~gg~~~l~~~~~~~-i~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~-~~~l~~gd~i~lg---~~~~~vi~  132 (216)
                      |+|.||+||.++|..+++.+ +|++.-.-..+..+.. +...        ..... -.++..++.++++   +..++++.
T Consensus        79 HGH~DHIGav~yL~~~~~~~PiYGt~lt~~L~~~ki~~E~~l--------~~~~~yl~~~~~~~~~~~~~i~~~~~eFir  150 (593)
T TIGR00649        79 HGHEDHIGAVPYLLHQYGFPPIYGTPLTIALIKSKIKAEHGL--------NVRTDYLQEINEGEPVQVGKIENFAIEFIR  150 (593)
T ss_pred             CCCCCCCCHHHHHHHHCCCCCEECCHHHHHHHHHHHHHHHCC--------CCCCCHHHEECCCCEEEEEECCCEEEEEEE
T ss_conf             871000122888986568882404378999999988654200--------225750210158960888750643884577


Q ss_pred             CCCCC-CCCCC--CCCCCCCCCCCCCHHHHCCCCCCCCCCCCHHHHHHHHH-HHHHCCCCCEEEE---ECCCCCCCHHHH
Q ss_conf             22247-21000--00123432111100000135663467989999999999-9985199978998---488798888999
Q gi|254780758|r  133 CPGHS-PGHVI--YVNFENNFAHLGDTLFRSSIGRTDILHGDYQQLINSIN-NKILPLGDEISFV---CGHGPNSTIGRE  205 (216)
Q Consensus       133 tPGHt-~g~~~--~~~~~~~~lftGD~lf~~~~G~~d~~~~d~~~~~~sl~-~~l~~l~~~~~v~---PgHG~~tt~~~e  205 (216)
                      + -|| |+|++  +..+.+.++++||.-|-..  +.+-+..|..++.+-.+ .+|+-|.+-|.+=   ||--||.....+
T Consensus       151 ~-tHSIPdS~~~a~hTp~G~IVy~~DFKfD~~--p~~~~~~Dl~~~~~~G~~GVL~LlsdsT~~~er~~g~TpSE~~~~~  227 (593)
T TIGR00649       151 V-THSIPDSVGLALHTPEGSIVYAGDFKFDNT--PVIGEPPDLNRIAELGKKGVLLLLSDSTNVEERNEGKTPSEAVVSE  227 (593)
T ss_pred             E-EECCCCCEEEEEECCCCEEEEECCEEEECC--CCCCCCCCHHHHHHHHCCCCEEEEECCEECCCCCCCCCCHHHHHHH
T ss_conf             1-432412218889769834998325455377--7889860079999973288489995020226757886871889989


Q ss_pred             HHHCHHH
Q ss_conf             8828145
Q gi|254780758|r  206 RRLNPFL  212 (216)
Q Consensus       206 ~~~n~~~  212 (216)
                      .-.+.|.
T Consensus       228 ~l~~~~~  234 (593)
T TIGR00649       228 LLDDIFK  234 (593)
T ss_pred             HHHHHHH
T ss_conf             9999862


No 13 
>PRK11539 hypothetical protein; Provisional
Probab=99.68  E-value=2.9e-15  Score=108.50  Aligned_cols=167  Identities=17%  Similarity=0.195  Sum_probs=109.7

Q ss_pred             CCEEEEEECCCCCCCEEEEEECCCCEEEEECCCCC-------HHHHHHHHHHCCCCEEEEEECCCCCCCCCCCHHHHHHH
Q ss_conf             73599997087657169999889984999838999-------99999999974997529998698852101105678860
Q gi|254780758|r    3 KLSFHIVQVTPFKQNCTFLFDEESLEAVVVDPGGD-------LDIIKDVIQSRNFHVKQIWITHGHVDHVGGAAQLKEDL   75 (216)
Q Consensus         3 ~~~~~~i~v~~~~~N~~li~~~~~~~~ilID~G~~-------~~~i~~~l~~~~~~i~~Ii~TH~H~DH~gg~~~l~~~~   75 (216)
                      .+++.++.||  |-.+.+|..  +++++|+|+|..       ...+.-+++.+|++++++++||.|.||+||++.+.+++
T Consensus       498 ~~~v~~LDVG--QG~avlI~~--~~~~~L~DtG~~~~~~~~g~~vi~P~L~~~Gi~lD~lvlSH~D~DH~GGl~~ll~~~  573 (754)
T PRK11539        498 EWRVDMLDVG--QGLAMVIER--NGKAILYDTGNAWPEGDSAQQVIIPWLRWHNLTPEGVILSHEHLDHRGGLASLLHAW  573 (754)
T ss_pred             CCEEEEEECC--CCEEEEEEE--CCEEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCEEEEECCCCCCCCCCHHHHHHHC
T ss_conf             6089999727--851899998--997899957998888872377889999967997208994588500126899999848


Q ss_pred             CCCEEECCHHHHHHHCCHHHHHHHHHCCCCCCCCCCEEEECCCCEEEEECCCCCCCCCCCC-----CCCCCCCCCC--CC
Q ss_conf             7955405843898840123444432002346666741896478399762012331012224-----7210000012--34
Q gi|254780758|r   76 SLTIIGPHKDDAAMMGKVDEQARLLSIRMNARNASSDRWLQDGDTLLLGTHIFKVFHCPGH-----SPGHVIYVNF--EN  148 (216)
Q Consensus        76 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~gd~i~lg~~~~~vi~tPGH-----t~g~~~~~~~--~~  148 (216)
                      +...+.+.....                       .......|+..+.++.++++++-|..     -..||++.+.  +.
T Consensus       574 p~~~i~~~~~~~-----------------------~~~~c~~G~~~~~~g~~~~vL~P~~~~~~~~N~~ScVl~i~~g~~  630 (754)
T PRK11539        574 PMAWIRSPLNWA-----------------------NHLPCVRGERWQWQGLTFSVHWPLQQSNDAGNNDSCVVKVDDGKH  630 (754)
T ss_pred             CCEEEECCCCCC-----------------------CCCCEECCCEEEECCEEEEEECCCCCCCCCCCCCCEEEEEEECCE
T ss_conf             830998656656-----------------------765511687899999899997799867899998848999998996


Q ss_pred             CCCCCCCHHHHCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEECCCCCC--CHHHHHHHCH
Q ss_conf             3211110000013566346798999999999999851999789984887988--8899988281
Q gi|254780758|r  149 NFAHLGDTLFRSSIGRTDILHGDYQQLINSINNKILPLGDEISFVCGHGPNS--TIGRERRLNP  210 (216)
Q Consensus       149 ~~lftGD~lf~~~~G~~d~~~~d~~~~~~sl~~~l~~l~~~~~v~PgHG~~t--t~~~e~~~n~  210 (216)
                      ++|||||.      +     ..-..++++   +.-..+..|+.+.|-||..|  |-.+-++.+|
T Consensus       631 s~LltGDi------e-----~~~E~~Ll~---~~~~~L~~dVLkvpHHGSktSSs~~Fl~~v~P  680 (754)
T PRK11539        631 SILLTGDI------E-----AQAEQKMLS---RYWQQLQATLLQVPHHGSNTSSSLPFIQRVNG  680 (754)
T ss_pred             EEEEECCC------C-----HHHHHHHHH---CCCCCCCCCEEECCCCCCCCCCHHHHHHHCCC
T ss_conf             89996279------9-----899999986---37668888689889989784665999985499


No 14 
>TIGR03675 arCOG00543 arCOG01782 universal archaeal KH-domain/beta-lactamase-domain protein. This family of proteins is universal in the archaea and consistsof an N-terminal type-1 KH-domain (pfam00013) a central beta-lactamase-domain (pfam00753) with a C-terminal motif associated with RNA metabolism (pfam07521). KH-domains are associated with RNA-binding, so taken together, this protein is a likely metal-dependent RNAase. This family was defined in as arCOG01782.
Probab=99.64  E-value=4.4e-16  Score=113.21  Aligned_cols=149  Identities=16%  Similarity=0.165  Sum_probs=96.0

Q ss_pred             EEEEEECCCCC---CCEEEEEECCCCEEEEECCCCCHH----HHHHHHH--HCCC-CEEEEEECCCCCCCCCCCHHHHH-
Q ss_conf             59999708765---716999988998499983899999----9999999--7499-75299986988521011056788-
Q gi|254780758|r    5 SFHIVQVTPFK---QNCTFLFDEESLEAVVVDPGGDLD----IIKDVIQ--SRNF-HVKQIWITHGHVDHVGGAAQLKE-   73 (216)
Q Consensus         5 ~~~~i~v~~~~---~N~~li~~~~~~~~ilID~G~~~~----~i~~~l~--~~~~-~i~~Ii~TH~H~DH~gg~~~l~~-   73 (216)
                      -+++.++|+++   --|.++...++  .+|+|||.++.    ...-++.  +.++ .|++|++||+|.||+|.++.|.+ 
T Consensus       174 ~vrit~LG~~~eVGRSc~l~~~~~~--~illDcG~~~~~~~~~~~P~~d~~e~~~~~IDAVvlTHAHLDH~G~LP~L~k~  251 (630)
T TIGR03675       174 WVRVTALGGFREVGRSALLLSTPES--RILLDCGVNVGANGDNAYPYLDVPEFQLDELDAVVITHAHLDHSGLVPLLFKY  251 (630)
T ss_pred             EEEEEECCCCCCCCCEEEEEECCCE--EEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCHHHHC
T ss_conf             4999834676702645899963981--79998888877777545886567779801185899833532125632188764


Q ss_pred             HHCCCEEECCHHHHHHHCCHHHHHHHHHCCCCCC---------CCCCEEEECCCCEEEEE-CCCCCCCCCCCCCCCCCCC
Q ss_conf             6079554058438988401234444320023466---------66741896478399762-0123310122247210000
Q gi|254780758|r   74 DLSLTIIGPHKDDAAMMGKVDEQARLLSIRMNAR---------NASSDRWLQDGDTLLLG-THIFKVFHCPGHSPGHVIY  143 (216)
Q Consensus        74 ~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~l~~gd~i~lg-~~~~~vi~tPGHt~g~~~~  143 (216)
                      -|..++|+.+++...+.-......+.........         .......+..++.++++ +.+++++.+ ||-.||.++
T Consensus       252 Gf~GpIy~T~pT~dL~~llL~D~~ki~~~e~~~plYt~~dv~~~l~~~~~l~y~~~~~i~~~ik~tf~~A-GHILGSAmv  330 (630)
T TIGR03675       252 GYDGPVYCTPPTRDLMTLLQLDYIDVAQREGKKPPYSSKDVREALKHTITLDYGEVTDIAPDIKLTFYNA-GHILGSAIA  330 (630)
T ss_pred             CCCCCEEECHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHCCEECCCCCEEECCCCEEEEEECC-CCCCEEEEE
T ss_conf             8889888654599999999998999987058999989999999984456248998597179849999768-861044799


Q ss_pred             CC--CCC--CCCCCCCH
Q ss_conf             01--234--32111100
Q gi|254780758|r  144 VN--FEN--NFAHLGDT  156 (216)
Q Consensus       144 ~~--~~~--~~lftGD~  156 (216)
                      ++  .++  +++||||.
T Consensus       331 ~l~i~~g~~~ilfTGD~  347 (630)
T TIGR03675       331 HLHIGDGLYNIVYTGDF  347 (630)
T ss_pred             EEEECCCCEEEEEECCC
T ss_conf             99976896799995998


No 15 
>COG2333 ComEC Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]
Probab=99.56  E-value=7.1e-14  Score=100.40  Aligned_cols=175  Identities=20%  Similarity=0.274  Sum_probs=110.9

Q ss_pred             EEEEEECCCCCCCEEEEEECCCCEEEEECCCC--CHHHHHHHHHHCCCC-EEEEEECCCCCCCCCCCHHHHHHHCCCEEE
Q ss_conf             59999708765716999988998499983899--999999999974997-529998698852101105678860795540
Q gi|254780758|r    5 SFHIVQVTPFKQNCTFLFDEESLEAVVVDPGG--DLDIIKDVIQSRNFH-VKQIWITHGHVDHVGGAAQLKEDLSLTIIG   81 (216)
Q Consensus         5 ~~~~i~v~~~~~N~~li~~~~~~~~ilID~G~--~~~~i~~~l~~~~~~-i~~Ii~TH~H~DH~gg~~~l~~~~~~~i~~   81 (216)
                      +++.+.+|  +--+.++..++ + .+++|+|.  .-..++.+|+++|++ |+.+++||.|.||+||+..+.+.+..+.++
T Consensus        45 ~~~~lDvG--qg~a~li~~~~-~-~~l~dtg~~~~~~~iip~Lk~~GV~~iD~lIlTH~d~DHiGg~~~vl~~~~v~~~~  120 (293)
T COG2333          45 KVHMLDVG--QGLATLIRSEG-K-TILYDTGNSMGQDVIIPYLKSLGVRKLDQLILTHPDADHIGGLDEVLKTIKVPELW  120 (293)
T ss_pred             EEEEEECC--CCEEEEEEECC-C-EEEEECCCCCCCEEEHHHHHHCCCCCCCEEEECCCCCCCCCCHHHHHHHCCCCCEE
T ss_conf             59999768--97278985189-1-18862575447243635576749860137893168744447899998528877179


Q ss_pred             C-CHHHHHHHCCHHHHHHHHHCCCCCCCCCCEEEECCCCEEEEECCCCCCCCCCCCCC-----CCCCCCCC--CCCCCCC
Q ss_conf             5-84389884012344443200234666674189647839976201233101222472-----10000012--3432111
Q gi|254780758|r   82 P-HKDDAAMMGKVDEQARLLSIRMNARNASSDRWLQDGDTLLLGTHIFKVFHCPGHSP-----GHVIYVNF--ENNFAHL  153 (216)
Q Consensus        82 ~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~gd~i~lg~~~~~vi~tPGHt~-----g~~~~~~~--~~~~lft  153 (216)
                      . .......    ....     +   ....+.+...-|+.+++++..++++.-++.+.     .|+++++.  +..+|||
T Consensus       121 i~~~~~~~~----~~~~-----~---~~~~~~~~~~~G~~~~~~~~~f~vl~P~~~~~~~~N~~S~Vl~v~~g~~s~LlT  188 (293)
T COG2333         121 IYAGSDSTS----TFVL-----R---DAGIPVRSCKAGDSWQWGGVVFQVLSPVGGVSDDLNNDSCVLRVTFGGNSFLLT  188 (293)
T ss_pred             EECCCCCCC----HHHH-----H---HCCCCEECCCCCCEEEECCEEEEEECCCCCCCCCCCCCCEEEEEEECCEEEEEE
T ss_conf             827877651----4556-----5---337741200127547888857999768866665556762599999589169996


Q ss_pred             CCHHHHCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEECCCCCC--CHHHHHHHCH
Q ss_conf             10000013566346798999999999999851999789984887988--8899988281
Q gi|254780758|r  154 GDTLFRSSIGRTDILHGDYQQLINSINNKILPLGDEISFVCGHGPNS--TIGRERRLNP  210 (216)
Q Consensus       154 GD~lf~~~~G~~d~~~~d~~~~~~sl~~~l~~l~~~~~v~PgHG~~t--t~~~e~~~n~  210 (216)
                      ||.           +......|.    +.-..|..+++.+|.||..|  +..+-.+.+|
T Consensus       189 GD~-----------e~~~E~~l~----~~~~~l~~dVLkV~HHGS~tSss~~Fl~~v~P  232 (293)
T COG2333         189 GDL-----------EEKGEKLLK----KYGPDLRADVLKVGHHGSKTSSSLAFLEAVKP  232 (293)
T ss_pred             CCC-----------CHHHHHHHH----HHCCCCCCEEEEECCCCCCCCCCHHHHHHCCC
T ss_conf             578-----------705689998----43787442089816677665672889974398


No 16 
>PRK00055 ribonuclease Z; Reviewed
Probab=99.50  E-value=9.4e-14  Score=99.68  Aligned_cols=145  Identities=21%  Similarity=0.183  Sum_probs=85.9

Q ss_pred             CEEEEEECC-CC-----CCCEEEEEECCCCEEEEECCCCCHHHHHHHHHHCCC---CEEEEEECCCCCCCCCCCHHHHHH
Q ss_conf             359999708-76-----571699998899849998389999999999997499---752999869885210110567886
Q gi|254780758|r    4 LSFHIVQVT-PF-----KQNCTFLFDEESLEAVVVDPGGDLDIIKDVIQSRNF---HVKQIWITHGHVDHVGGAAQLKED   74 (216)
Q Consensus         4 ~~~~~i~v~-~~-----~~N~~li~~~~~~~~ilID~G~~~~~i~~~l~~~~~---~i~~Ii~TH~H~DH~gg~~~l~~~   74 (216)
                      |++.++=.| ++     .+.||+|..++  ..+|||||.+.   +..+.+.++   ++++|++||.|+||+.|++.|...
T Consensus         2 mkit~LGtg~~~p~~~R~~s~~li~~~~--~~iliD~G~G~---~~~l~~~~~~~~~l~~I~iTH~H~DH~~Gl~~ll~~   76 (259)
T PRK00055          2 MELTFLGTGSGVPTPTRNVSSILLRLGG--ELWLFDCGEGT---QRQMLRAGIGPRKIDRIFITHLHGDHIFGLPGLLST   76 (259)
T ss_pred             CEEEEEECCCCCCCCCCCCCEEEEEECC--EEEEEECCCHH---HHHHHHCCCCHHHCCEEEEECCCHHHHCHHHHHHHH
T ss_conf             4899990689988999964889999999--08999588159---999998199955765899964335766528999999


Q ss_pred             H-------CCCEEECCHHHHHHHCCHHHHHH-HHHCCCCCCCCCCEEEECCCCEEEEECCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             0-------79554058438988401234444-320023466667418964783997620123310122247210000012
Q gi|254780758|r   75 L-------SLTIIGPHKDDAAMMGKVDEQAR-LLSIRMNARNASSDRWLQDGDTLLLGTHIFKVFHCPGHSPGHVIYVNF  146 (216)
Q Consensus        75 ~-------~~~i~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~gd~i~lg~~~~~vi~tPGHt~g~~~~~~~  146 (216)
                      .       +..+|++......+ ........ .......   ........++..++.++.+++.+.++ |+..++.|.+.
T Consensus        77 ~~~~~~~~~l~i~gp~~~~~~l-~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~i~~~~~~-H~~~s~Gyri~  151 (259)
T PRK00055         77 RSLSGRTEPLTIYGPKGIKEFV-ETLLRASGSHLPYRIA---IHEIDEKTEGVVFDDDGFTVTAFPLD-HSIPCLGYRFE  151 (259)
T ss_pred             HHHCCCCCCEEEEECHHHHHHH-HHHHHHHCCCCCCCEE---EEECCCCCCCEEEECCCEEEEEEECC-CCCCEEEEEEE
T ss_conf             8745999716999177899999-9998850668897256---76325798732896499899999867-99862799999


Q ss_pred             C--CCCCCCCCHHH
Q ss_conf             3--43211110000
Q gi|254780758|r  147 E--NNFAHLGDTLF  158 (216)
Q Consensus       147 ~--~~~lftGD~lf  158 (216)
                      .  .+++|+||+-+
T Consensus       152 ~~g~~i~ysgDt~~  165 (259)
T PRK00055        152 EKGRKIAYVGDTRP  165 (259)
T ss_pred             ECCCEEEEECCCCC
T ss_conf             68816999527886


No 17 
>COG1236 YSH1 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]
Probab=99.45  E-value=1.3e-13  Score=98.87  Aligned_cols=137  Identities=18%  Similarity=0.207  Sum_probs=89.0

Q ss_pred             CCEEEEEECCCCEEEEECCCCCHHHHHHH--HH-HCCCCEEEEEECCCCCCCCCCCHHHHHH-HCCCEEECCHHHHHHHC
Q ss_conf             71699998899849998389999999999--99-7499752999869885210110567886-07955405843898840
Q gi|254780758|r   16 QNCTFLFDEESLEAVVVDPGGDLDIIKDV--IQ-SRNFHVKQIWITHGHVDHVGGAAQLKED-LSLTIIGPHKDDAAMMG   91 (216)
Q Consensus        16 ~N~~li~~~~~~~~ilID~G~~~~~i~~~--l~-~~~~~i~~Ii~TH~H~DH~gg~~~l~~~-~~~~i~~~~~~~~~~~~   91 (216)
                      .-|.++....  ..+++|||.....-...  +. ... +++++++||+|.||+|+++.+... +..++|+..++......
T Consensus        14 ~s~~~l~~~~--~~il~D~G~~~~~~~~~~p~~~~~~-~vDavllTHaHlDH~g~lp~l~~~~~~~~v~aT~~T~~l~~~   90 (427)
T COG1236          14 RSCVLLETGG--TRILLDCGLFPGDPSPERPLLPPFP-KVDAVLLTHAHLDHIGALPYLVRNGFEGPVYATPPTAALLKV   90 (427)
T ss_pred             CEEEEEEECC--CEEEECCCCCCCCCCCCCCCCCCCC-CCCEEEEECCCHHHHCCCHHHHHHCCCCCEEECHHHHHHHHH
T ss_conf             5468987479--7699658988576765576788888-767799600652432346788763127865753518999998


Q ss_pred             CHHHHHHHHHC--------CCCCCCCCCEEEECCCCEEEEECCCCCCCCCCCCCCCCCCCCCC--CCCCCCCCCH
Q ss_conf             12344443200--------23466667418964783997620123310122247210000012--3432111100
Q gi|254780758|r   92 KVDEQARLLSI--------RMNARNASSDRWLQDGDTLLLGTHIFKVFHCPGHSPGHVIYVNF--ENNFAHLGDT  156 (216)
Q Consensus        92 ~~~~~~~~~~~--------~~~~~~~~~~~~l~~gd~i~lg~~~~~vi~tPGHt~g~~~~~~~--~~~~lftGD~  156 (216)
                      ...+.......        ..-.......+.+..++.+++++.+++++.+ ||.+|+.++++.  .++++||||.
T Consensus        91 ~l~d~~~~~~~~~~~~~~~~d~~~~~~~~~~~~yg~~~~v~~~~v~~~~A-GHilGsa~~~le~~~~~ilytGD~  164 (427)
T COG1236          91 LLGDSLKLAEGPDKPPYSEEDVERVPDLIRPLPYGEPVEVGGVKVTFYNA-GHILGSAAILLEVDGGRILYTGDV  164 (427)
T ss_pred             HHHCCCCCCCCCCCCCCCHHHHHHHHHCEEEECCCCEEEECCEEEEEECC-CCCCCEEEEEEEECCCEEEEEECC
T ss_conf             73111010357777765434566555222770589817865289999717-974102799999689479998236


No 18 
>PRK02113 putative hydrolase; Provisional
Probab=99.28  E-value=3.7e-11  Score=84.63  Aligned_cols=133  Identities=17%  Similarity=0.229  Sum_probs=79.2

Q ss_pred             CCCEEEEEECCCCEEEEECCCCCHHHHHHHHHHCCC-CEEEEEECCCCCCCCCCCHHHHHH---HCCCEEECCHHHHHHH
Q ss_conf             571699998899849998389999999999997499-752999869885210110567886---0795540584389884
Q gi|254780758|r   15 KQNCTFLFDEESLEAVVVDPGGDLDIIKDVIQSRNF-HVKQIWITHGHVDHVGGAAQLKED---LSLTIIGPHKDDAAMM   90 (216)
Q Consensus        15 ~~N~~li~~~~~~~~ilID~G~~~~~i~~~l~~~~~-~i~~Ii~TH~H~DH~gg~~~l~~~---~~~~i~~~~~~~~~~~   90 (216)
                      +++|.+++..++ +.+|||+|++.   ..++-+.++ ++++|++||.|.||++|+..|+.-   -+.++|+.......+.
T Consensus        33 R~r~s~lv~~~~-~~iLID~gpD~---r~Q~lr~~i~~iDavllTH~H~DHi~GlddLR~f~~~~~ipvy~~~~t~~~l~  108 (252)
T PRK02113         33 RLRTSALVETEG-ARILIDCGPDF---REQMLRLPFGKIDAVLITHEHYDHVGGLDDLRPFCRFGEVPIYAEQYVAERLR  108 (252)
T ss_pred             EEEEEEEEEECC-CEEEEECCCCH---HHHHHHCCCCCCCEEEEECCCHHHHCCHHHHHHHHCCCCCCEEECHHHHHHHH
T ss_conf             246489999899-27999689138---99998779876148999745704426989999885458744665789999998


Q ss_pred             CCHHHHHHHHHCCCCCCCCCCEEEECCCCEEEEECCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCH
Q ss_conf             012344443200234666674189647839976201233101222472-100000123432111100
Q gi|254780758|r   91 GKVDEQARLLSIRMNARNASSDRWLQDGDTLLLGTHIFKVFHCPGHSP-GHVIYVNFENNFAHLGDT  156 (216)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~l~~gd~i~lg~~~~~vi~tPGHt~-g~~~~~~~~~~~lftGD~  156 (216)
                      ........  .......+....+.++.+..+.+++.+++.+.++ |.. ..+.|.+  +++.+..|+
T Consensus       109 ~~~~y~f~--~~~~~~~~~l~~~~i~~~~~f~i~~~~v~p~~v~-Hg~~~~~G~ri--g~~aY~tD~  170 (252)
T PRK02113        109 SRMPYCFV--EHSYPGVPNIPLREIEPDRPFLVNHTEVTPLRVM-HGKLPILGYRI--GKMAYITDM  170 (252)
T ss_pred             HHCHHHHC--CCCCCCCCCCEEEEECCCCCEEECEEEEEEEEEC-CCCCEECCEEC--CCEEEECCC
T ss_conf             63311214--6888886563157715999467420799878506-88821644750--446993787


No 19 
>COG1237 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]
Probab=99.24  E-value=1.4e-10  Score=81.19  Aligned_cols=66  Identities=23%  Similarity=0.402  Sum_probs=51.1

Q ss_pred             CEEEEEECCCCEEEEECCCCCHHHHHHHHHHCCCC---EEEEEECCCCCCCCCCCHHHHHHH--CCCEEECCH
Q ss_conf             16999988998499983899999999999974997---529998698852101105678860--795540584
Q gi|254780758|r   17 NCTFLFDEESLEAVVVDPGGDLDIIKDVIQSRNFH---VKQIWITHGHVDHVGGAAQLKEDL--SLTIIGPHK   84 (216)
Q Consensus        17 N~~li~~~~~~~~ilID~G~~~~~i~~~l~~~~~~---i~~Ii~TH~H~DH~gg~~~l~~~~--~~~i~~~~~   84 (216)
                      -+++|.++  +..+|+|+|.++..++..++..|+.   ++++++||.|+||+||+.++.+.-  +.++|+...
T Consensus        23 fS~LVE~~--~~riLFDtG~~~~~ll~Na~~lgvd~~did~vvlSHgH~DH~GGL~~~~~~~~~~i~v~ahp~   93 (259)
T COG1237          23 FSALVEDE--GTRILFDTGTDSDVLLHNARLLGVDLRDIDAVVLSHGHYDHTGGLPYLLEENNPGIPVYAHPD   93 (259)
T ss_pred             EEEEEECC--CEEEEEECCCCCHHHHHHHHHCCCCCCCCCEEEEECCCCCCCCCHHHHHHCCCCCCEEEECHH
T ss_conf             49999758--717999579985788877998199813474799857873134756768752677850786858


No 20 
>COG1782 Predicted metal-dependent RNase, consists of a metallo-beta-lactamase domain and an RNA-binding KH domain [General function prediction only]
Probab=99.19  E-value=4.4e-11  Score=84.16  Aligned_cols=150  Identities=17%  Similarity=0.142  Sum_probs=88.7

Q ss_pred             EEEEEECCCCC---CCEEEEEECCCCEEEEECCCCCHHH-------HHHHHHHCCCCEEEEEECCCCCCCCCCCHHHHH-
Q ss_conf             59999708765---7169999889984999838999999-------999999749975299986988521011056788-
Q gi|254780758|r    5 SFHIVQVTPFK---QNCTFLFDEESLEAVVVDPGGDLDI-------IKDVIQSRNFHVKQIWITHGHVDHVGGAAQLKE-   73 (216)
Q Consensus         5 ~~~~i~v~~~~---~N~~li~~~~~~~~ilID~G~~~~~-------i~~~l~~~~~~i~~Ii~TH~H~DH~gg~~~l~~-   73 (216)
                      -+++..+|.|+   --|+++-.++++  +|+|||.+...       .++.-+-.-..+++|++||+|.||+|-++.|-+ 
T Consensus       180 wvRvt~LGg~~EVGRSa~lv~T~eSr--VLlDcG~n~a~~~~~~~Pyl~vpE~~~~~lDAViiTHAHLDH~G~lP~LfkY  257 (637)
T COG1782         180 WVRVTALGGFREVGRSALLVSTPESR--VLLDCGVNVAGNGEDAFPYLDVPEFQPDELDAVIITHAHLDHCGFLPLLFKY  257 (637)
T ss_pred             EEEEEEECCCHHCCCEEEEEECCCCE--EEEECCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCHHHHHHC
T ss_conf             59999612411206256997368833--8996365677886435744556102512053699850234434521456651


Q ss_pred             HHCCCEEECCHHHHHHHCCHHHHHHHHHCCCCCCC---------CCCEEEECCCCEEEE-ECCCCCCCCCCCCCCCCCCC
Q ss_conf             60795540584389884012344443200234666---------674189647839976-20123310122247210000
Q gi|254780758|r   74 DLSLTIIGPHKDDAAMMGKVDEQARLLSIRMNARN---------ASSDRWLQDGDTLLL-GTHIFKVFHCPGHSPGHVIY  143 (216)
Q Consensus        74 ~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~l~~gd~i~l-g~~~~~vi~tPGHt~g~~~~  143 (216)
                      .|..|+|+..+....+.--...............+         ..-...+..|+.-++ .+.+++++-+ ||--||-+.
T Consensus       258 gy~GPVY~T~PTRDlm~LLq~Dyi~va~keg~~ppY~~k~v~~~lkhtItldYgevTDIaPDirLTf~NA-GHILGSA~~  336 (637)
T COG1782         258 GYDGPVYCTPPTRDLMVLLQLDYIEVAEKEGGEPPYESKDVRKVLKHTITLDYGEVTDIAPDIRLTFYNA-GHILGSAMA  336 (637)
T ss_pred             CCCCCEEECCCCHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHEEEEECCCCCCCCCCCCEEEEECC-CCHHCCEEE
T ss_conf             7888743179718899999887999999649999988789998875454102576244687617898416-410131015


Q ss_pred             CC--CCC--CCCCCCCHH
Q ss_conf             01--234--321111000
Q gi|254780758|r  144 VN--FEN--NFAHLGDTL  157 (216)
Q Consensus       144 ~~--~~~--~~lftGD~l  157 (216)
                      .+  .++  +++||||.=
T Consensus       337 HlHIGdGlyNi~yTGDfk  354 (637)
T COG1782         337 HLHIGDGLYNIVYTGDFK  354 (637)
T ss_pred             EEEECCCCEEEEEECCCC
T ss_conf             888648713579943444


No 21 
>TIGR02651 RNase_Z ribonuclease Z; InterPro: IPR013471    All tRNA molecules are synthesised as long precursors with extra sequence at both the 5' and 3' ends, which undergo several processing steps to form the mature tRNA molecule. In many bacteria the tRNA precursors do not contain the CCA sequence which forms the 3' end of the mature tRNA and is essential for aminoacylation. In these organisms ribonucleotide Z cleaves the precursor to form a 3' end to which CCA is added. Species where all tRNA sequences already have the CCA tail, such as E. coli, do not generally posses this form of ribonuclease Z. ; GO: 0016891 endoribonuclease activity producing 5'-phosphomonoesters, 0042779 removal of tRNA 3'-trailer sequence.
Probab=99.18  E-value=6e-11  Score=83.39  Aligned_cols=128  Identities=23%  Similarity=0.210  Sum_probs=78.7

Q ss_pred             CCEEEEEEC-CCCEEEEECCCCCHHHHHHHHHHCCC---CEEEEEECCCCCCCCCCCHHHHHHH---------CCCEEEC
Q ss_conf             716999988-99849998389999999999997499---7529998698852101105678860---------7955405
Q gi|254780758|r   16 QNCTFLFDE-ESLEAVVVDPGGDLDIIKDVIQSRNF---HVKQIWITHGHVDHVGGAAQLKEDL---------SLTIIGP   82 (216)
Q Consensus        16 ~N~~li~~~-~~~~~ilID~G~~~~~i~~~l~~~~~---~i~~Ii~TH~H~DH~gg~~~l~~~~---------~~~i~~~   82 (216)
                      ..+.+|... +.++.+|+|||   |....++.+.++   +|+.|++||.|.||+.|++=|.+..         +..||++
T Consensus        18 ~~si~l~~~~e~g~~~LFDCG---EGTQ~Q~~~~~~~~~~i~~IFITH~HGDHi~GLPGLl~t~sf~G~~r~~pL~IyGP   94 (327)
T TIGR02651        18 VSSIALKLEDERGELWLFDCG---EGTQRQMLRSGISPMKIDRIFITHLHGDHILGLPGLLSTMSFQGGGRKEPLTIYGP   94 (327)
T ss_pred             CCEEEEECHHHCCCEEEEECC---CHHHHHHHHCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHCCCCCCCCCCEEEECC
T ss_conf             758999602242874255477---18999999716886311136870663145542368888310378886445288687


Q ss_pred             CHHHHHHHCCHHHHHHHHHCCCCCCCCCCEEE-----------ECCCCEEEEECCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             84389884012344443200234666674189-----------647839976201233101222472100000123
Q gi|254780758|r   83 HKDDAAMMGKVDEQARLLSIRMNARNASSDRW-----------LQDGDTLLLGTHIFKVFHCPGHSPGHVIYVNFE  147 (216)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------l~~gd~i~lg~~~~~vi~tPGHt~g~~~~~~~~  147 (216)
                      .....+.............+.........+..           +.++..++-++.+|+.+.+ -|+-.|+.|.+.+
T Consensus        95 ~G~~e~~~~~l~~~~~~~~y~i~~~E~~~~~~~P~~~~~k~k~l~~~~~~~~~~f~v~~~~l-~H~~~~~GY~~~E  169 (327)
T TIGR02651        95 PGIKEFIETSLRVSYTYLNYPIKIHEIEEKGVLPEFVVYKEKLLEDGLVFEDDGFKVEAFPL-DHSIPSLGYRFEE  169 (327)
T ss_pred             HHHHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCHHHHHCCCEEECCEEEECCCEEEEEEEC-CCCCEEEEEEEEE
T ss_conf             44799999999862237884159997268997731231025612023267658448999950-5784146789986


No 22 
>COG2015 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=99.18  E-value=5.2e-10  Score=77.95  Aligned_cols=196  Identities=19%  Similarity=0.273  Sum_probs=112.0

Q ss_pred             EEEECCCCC-CCEEEEEECCCCEEEEECCCCCHHH---HHHHHHH-CC-CCEEEEEECCCCCCCCCCCHHHHHHH-----
Q ss_conf             999708765-7169999889984999838999999---9999997-49-97529998698852101105678860-----
Q gi|254780758|r    7 HIVQVTPFK-QNCTFLFDEESLEAVVVDPGGDLDI---IKDVIQS-RN-FHVKQIWITHGHVDHVGGAAQLKEDL-----   75 (216)
Q Consensus         7 ~~i~v~~~~-~N~~li~~~~~~~~ilID~G~~~~~---i~~~l~~-~~-~~i~~Ii~TH~H~DH~gg~~~l~~~~-----   75 (216)
                      .+.+|-.|+ .|..++.++.+.  ++|||--..+.   .++...+ ++ .+|++|+.||+|.||.||..-+..+-     
T Consensus       116 ~iYQVRG~DisNITfveGdtg~--IViDpL~t~~tA~aAldl~~~~~g~rPV~aVIYtHsH~DHfGGVkGiv~eadV~sG  193 (655)
T COG2015         116 GIYQVRGFDISNITFVEGDTGW--IVIDPLVTPETAKAALDLYNQHRGQRPVVAVIYTHSHSDHFGGVKGIVSEADVKSG  193 (655)
T ss_pred             CEEEEECCCCCCEEEECCCCCE--EEECCCCCCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCCCEEECCCHHHCCCC
T ss_conf             6357602013322798078526--99815678288999999999765889748999612542013771001578884667


Q ss_pred             CCCEEECCHH------HHHHHCCHHH--HHHHHHC-------------------CCCCCCCCCEEEE-CCCCEEEEECCC
Q ss_conf             7955405843------8988401234--4443200-------------------2346666741896-478399762012
Q gi|254780758|r   76 SLTIIGPHKD------DAAMMGKVDE--QARLLSI-------------------RMNARNASSDRWL-QDGDTLLLGTHI  127 (216)
Q Consensus        76 ~~~i~~~~~~------~~~~~~~~~~--~~~~~~~-------------------~~~~~~~~~~~~l-~~gd~i~lg~~~  127 (216)
                      .++++++..-      +..+..+...  ....++.                   ..+.....|.+.+ +.|+++.+.|.+
T Consensus       194 kV~iiAP~GFme~avaENvlAGnaM~RRa~YqyG~~Lp~g~~G~V~~giGk~la~G~vsLiaPT~~I~~~gE~~~iDGV~  273 (655)
T COG2015         194 KVQIIAPAGFMEEAVAENVLAGNAMSRRAQYQYGTLLPPGAQGQVGCGIGKTLATGEVSLIAPTKIIEETGETLTIDGVE  273 (655)
T ss_pred             CEEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCEEEECCEEEEECCCCEEEEECEE
T ss_conf             41376460578999987544105676666643123358886675040103322468525645567862367258870507


Q ss_pred             CCCCCCCC-CCCCCCCCCCCCCCCCCCCCHHHHCCCCC-CCCC---CCCHHHHHHHHHHHHHCCCCCE-EEEECCCCCCC
Q ss_conf             33101222-47210000012343211110000013566-3467---9899999999999985199978-99848879888
Q gi|254780758|r  128 FKVFHCPG-HSPGHVIYVNFENNFAHLGDTLFRSSIGR-TDIL---HGDYQQLINSINNKILPLGDEI-SFVCGHGPNST  201 (216)
Q Consensus       128 ~~vi~tPG-Ht~g~~~~~~~~~~~lftGD~lf~~~~G~-~d~~---~~d~~~~~~sl~~~l~~l~~~~-~v~PgHG~~tt  201 (216)
                      +++--||| .+|-..-+|+|..++|......- ++.-. .-+.   --|..+|-+-|.+-+..+.+++ .++-.|++|+ 
T Consensus       274 ~~Fq~tPgtEaPAEM~~y~P~~kaL~mAEnat-~~lHNlytlRGa~vRD~~~Ws~ylneal~~fg~~adVmfa~H~WP~-  351 (655)
T COG2015         274 FEFQMTPGTEAPAEMHFYFPRLKALCMAENAT-HTLHNLYTLRGAEVRDAKAWSKYLNEALDMFGDDADVMFASHTWPR-  351 (655)
T ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHHHHHHCC-CCCEEEEECCCCEECCHHHHHHHHHHHHHHHCCCCCEEEEECCCCC-
T ss_conf             89962889888377751226788888775221-2100001015510035677888899999984455537986068874-


Q ss_pred             HHHHH
Q ss_conf             89998
Q gi|254780758|r  202 IGRER  206 (216)
Q Consensus       202 ~~~e~  206 (216)
                      +|.++
T Consensus       352 wG~~~  356 (655)
T COG2015         352 WGNAH  356 (655)
T ss_pred             CCHHH
T ss_conf             22378


No 23 
>PRK11244 phnP carbon-phosphorus lyase complex accessory protein; Provisional
Probab=99.14  E-value=1.1e-10  Score=81.92  Aligned_cols=124  Identities=20%  Similarity=0.219  Sum_probs=72.5

Q ss_pred             CEEEEEECCCCEEEEECCCCCHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCHHHHH--HHCCCEEECCHHHHHHHCCHH
Q ss_conf             169999889984999838999999999999749975299986988521011056788--607955405843898840123
Q gi|254780758|r   17 NCTFLFDEESLEAVVVDPGGDLDIIKDVIQSRNFHVKQIWITHGHVDHVGGAAQLKE--DLSLTIIGPHKDDAAMMGKVD   94 (216)
Q Consensus        17 N~~li~~~~~~~~ilID~G~~~~~i~~~l~~~~~~i~~Ii~TH~H~DH~gg~~~l~~--~~~~~i~~~~~~~~~~~~~~~   94 (216)
                      .|.+++..+ +..+|||+|.  ..+.+.+..  -+|++|++||.|.||++|+..|+.  ..+.++|+..... .+.. . 
T Consensus        37 r~s~lv~~~-~~~iLID~g~--~dl~~~~~~--~~iDaVllTH~H~DHi~GlddlR~~~~~~ipvy~~~~~~-~~~~-l-  108 (250)
T PRK11244         37 PCSALLEFN-GARTLIDAGL--HDLAERFPP--GSLQAFLLTHYHMDHVQGLFPLRWGVGDVIPVYGPPDPE-GCDD-L-  108 (250)
T ss_pred             EEEEEEEEC-CEEEEEECCC--HHHHHHCCC--CCCCEEEEECCCHHHHCCHHHHHHCCCCCEEEEECCCHH-HHHH-H-
T ss_conf             348999989-9279998980--899975555--687789982575334337688871379835677377577-8999-8-


Q ss_pred             HHHHHHHCCCCCCCCCCEEEECCCCEEEEECCCCCCCCCCCCCCCCCCCCCCC--CCCCCCCCHH
Q ss_conf             44443200234666674189647839976201233101222472100000123--4321111000
Q gi|254780758|r   95 EQARLLSIRMNARNASSDRWLQDGDTLLLGTHIFKVFHCPGHSPGHVIYVNFE--NNFAHLGDTL  157 (216)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~l~~gd~i~lg~~~~~vi~tPGHt~g~~~~~~~~--~~~lftGD~l  157 (216)
                        .+..+      .......+..++.+.+++.+++.++.. |..-++.|.+..  .++++++|+-
T Consensus       109 --~~~~~------~~~~~~~~~~~~~~~i~g~~itp~~~~-Hg~~~~Gy~i~~~g~~~aY~tD~~  164 (250)
T PRK11244        109 --FKHPG------ILDFSHPLEAFEPFDLGGLQVTPLPLN-HSKLTFGYLLETAHSRFAYLTDTV  164 (250)
T ss_pred             --HHCCC------CCCCCCCCCCCCCEEECCEEEEEEEEC-CCCCCEEEEEECCCCEEEEECCCC
T ss_conf             --50788------434236658888668688389999977-889736999964893299966778


No 24 
>PRK05184 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional
Probab=99.09  E-value=5.6e-10  Score=77.75  Aligned_cols=76  Identities=16%  Similarity=0.251  Sum_probs=55.4

Q ss_pred             EEEEEECCCCEEEEECCCCCHHHHHHHHHH-------CCCCEEEEEECCCCCCCCCCCHHHHHHHCCCEEECCHHHHHHH
Q ss_conf             699998899849998389999999999997-------4997529998698852101105678860795540584389884
Q gi|254780758|r   18 CTFLFDEESLEAVVVDPGGDLDIIKDVIQS-------RNFHVKQIWITHGHVDHVGGAAQLKEDLSLTIIGPHKDDAAMM   90 (216)
Q Consensus        18 ~~li~~~~~~~~ilID~G~~~~~i~~~l~~-------~~~~i~~Ii~TH~H~DH~gg~~~l~~~~~~~i~~~~~~~~~~~   90 (216)
                      |.+.+..+++.-+|||+.+|...-+....+       ++.+|++|++||+|.||+.|+..|++..+.++|+.......+.
T Consensus        40 sSi~v~~dg~~~~LiDasPDlr~QL~~~~~l~p~~~~r~s~i~~V~lTHaH~dH~~GL~~LRe~~~i~vya~~~~~~~L~  119 (302)
T PRK05184         40 SSIAVSADGEDWVLVNASPDIRQQIRATPALQPARGLRDTPIAAVVLTDGQIDHVTGLLSLREGQPFPLYATPMVLEDLS  119 (302)
T ss_pred             EEEEEECCCCEEEEEECCCCHHHHHHHHHHHCCCCCCCCCCCCEEEEECCCCCHHCCHHHHHCCCCCCEEECHHHHHHHH
T ss_conf             48999828986999989938999986514417543445787348998657500331788871569720674689999998


Q ss_pred             CCH
Q ss_conf             012
Q gi|254780758|r   91 GKV   93 (216)
Q Consensus        91 ~~~   93 (216)
                      .+.
T Consensus       120 ~~~  122 (302)
T PRK05184        120 TGF  122 (302)
T ss_pred             HCC
T ss_conf             639


No 25 
>TIGR03307 PhnP phosphonate metabolism protein PhnP. This family of proteins found in operons encoding phosphonate C-P lyase systems as is observed in E. coli and is a member of the metallo-beta-lactamase superfamily (pfam00753). As defined by this model, all instances of this protein are associated with the C-P lyase, but not all genomes containing the C-P lyase system contain phnP.
Probab=99.05  E-value=4.4e-10  Score=78.40  Aligned_cols=122  Identities=20%  Similarity=0.244  Sum_probs=70.1

Q ss_pred             EEEEEECCCCEEEEECCCCCHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCHHHHH--HHCCCEEECCHHHHHHHCCHHH
Q ss_conf             69999889984999838999999999999749975299986988521011056788--6079554058438988401234
Q gi|254780758|r   18 CTFLFDEESLEAVVVDPGGDLDIIKDVIQSRNFHVKQIWITHGHVDHVGGAAQLKE--DLSLTIIGPHKDDAAMMGKVDE   95 (216)
Q Consensus        18 ~~li~~~~~~~~ilID~G~~~~~i~~~l~~~~~~i~~Ii~TH~H~DH~gg~~~l~~--~~~~~i~~~~~~~~~~~~~~~~   95 (216)
                      |.+++..++ +-+|||+|.  ..+.+.+...  +|++|++||.|.||+.|+..|+-  ..+.++|+...... +.    .
T Consensus        38 ~s~li~~~~-~~iLID~g~--pdlr~ql~~~--~IdaVllTH~H~DHi~GlddlR~~~~~~ipvy~~~~~~~-~~----~  107 (249)
T TIGR03307        38 CSAVIEVNG-VRTLIDAGL--TDLAERFPPG--SLQAILLTHYHMDHVQGLFPLRWGMGEPIPVYGPPDPEG-CD----D  107 (249)
T ss_pred             EEEEEEECC-CEEEEECCC--HHHHHHCCCC--CCCEEEEECCCHHHHCCCHHHHHCCCCCEEEEECCCHHH-HH----H
T ss_conf             189999899-289998997--7999860516--878899965334544662445521688657886887889-99----9


Q ss_pred             HHHHHHCCCCCCCCCCEEEECCCCEEEEECCCCCCCCCCCCCCCCCCCCCC--CCCCCCCCCH
Q ss_conf             444320023466667418964783997620123310122247210000012--3432111100
Q gi|254780758|r   96 QARLLSIRMNARNASSDRWLQDGDTLLLGTHIFKVFHCPGHSPGHVIYVNF--ENNFAHLGDT  156 (216)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~l~~gd~i~lg~~~~~vi~tPGHt~g~~~~~~~--~~~~lftGD~  156 (216)
                      ..+..+.      ......+...+.+.+++.++..+++. |..-.+.|.+.  ..+++++.|+
T Consensus       108 ~~~~~~~------~~~~~~~~~~~~~~i~g~~i~p~~~~-H~~~~~Gy~i~~~g~~~aY~tD~  163 (249)
T TIGR03307       108 LFKHPGI------LDFSKPLLAFEPFHLGGLRVTPVPLV-HSKLTFGYLLETDGQRLAYLTDT  163 (249)
T ss_pred             HHCCCCC------CCCCCCCCCCCCEEECCEEEEEEEEE-CCCCCEEEEEECCCCEEEEECCC
T ss_conf             8626984------24346547989677398189999996-07864699995189559996788


No 26 
>PRK02126 ribonuclease Z; Provisional
Probab=99.01  E-value=3.1e-09  Score=73.46  Aligned_cols=85  Identities=20%  Similarity=0.249  Sum_probs=59.2

Q ss_pred             CCCCEEEEEECCCCCCCEEEEEECCCCEEEEECCCCCHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCHHHHHHH-----
Q ss_conf             977359999708765716999988998499983899999999999974997529998698852101105678860-----
Q gi|254780758|r    1 MSKLSFHIVQVTPFKQNCTFLFDEESLEAVVVDPGGDLDIIKDVIQSRNFHVKQIWITHGHVDHVGGAAQLKEDL-----   75 (216)
Q Consensus         1 m~~~~~~~i~v~~~~~N~~li~~~~~~~~ilID~G~~~~~i~~~l~~~~~~i~~Ii~TH~H~DH~gg~~~l~~~~-----   75 (216)
                      |.+|---.+..++|+.++.+|.-...++++|+|||-..+.....+    .+|++|++||.|.||+.|++-|.+.+     
T Consensus         1 ~~~~~~~~~~n~~~~Dp~l~v~~~~~~~~lLfDcGe~~~l~~~~l----~~Id~IFITHlHgDH~~GL~gLLr~~~gr~~   76 (334)
T PRK02126          1 MFRLLEPRLVNGPFDDPGLYVDFLFERRALLFDLGDLHHLPPREL----LRISHIFVSHTHMDHFIGFDRLLRLCLGRPR   76 (334)
T ss_pred             CCCCCCCEEECCCCCCCEEEEEECCCCCEEEEECCCCCCCCHHHH----CCCCEEEEECCCCCHHCCCHHHHHHHCCCCC
T ss_conf             965454167568899987999716798189998998430064564----6547699826762212357999986279998


Q ss_pred             CCCEEECCHHHHHH
Q ss_conf             79554058438988
Q gi|254780758|r   76 SLTIIGPHKDDAAM   89 (216)
Q Consensus        76 ~~~i~~~~~~~~~~   89 (216)
                      +..+|++......+
T Consensus        77 ~L~IyGP~Gl~~~v   90 (334)
T PRK02126         77 RLRLFGPPGFADQV   90 (334)
T ss_pred             CEEEECCCCHHHHH
T ss_conf             62999982489999


No 27 
>KOG1136 consensus
Probab=98.91  E-value=2.7e-09  Score=73.83  Aligned_cols=150  Identities=13%  Similarity=0.154  Sum_probs=91.2

Q ss_pred             CEEEEEECCCCC---CCEEEEEECCCCEEEEECCCCCH-----HHH--HHHHHHCC---CCEEEEEECCCCCCCCCCCHH
Q ss_conf             359999708765---71699998899849998389999-----999--99999749---975299986988521011056
Q gi|254780758|r    4 LSFHIVQVTPFK---QNCTFLFDEESLEAVVVDPGGDL-----DII--KDVIQSRN---FHVKQIWITHGHVDHVGGAAQ   70 (216)
Q Consensus         4 ~~~~~i~v~~~~---~N~~li~~~~~~~~ilID~G~~~-----~~i--~~~l~~~~---~~i~~Ii~TH~H~DH~gg~~~   70 (216)
                      +.++++|+|+=|   ..|.++...+  +-+++|||...     .+.  ..++...|   .-++-|++||+|.||+|++++
T Consensus         2 p~i~v~pLGAGQdvGrSCilvsi~G--k~iM~DCGMHMG~nD~rRfPdFSyI~~~g~~~~~idCvIIsHFHlDHcGaLPy   79 (501)
T KOG1136           2 PEIKVTPLGAGQDVGRSCILVSIGG--KNIMFDCGMHMGFNDDRRFPDFSYISKSGRFTDAIDCVIISHFHLDHCGALPY   79 (501)
T ss_pred             CCCEEEECCCCCCCCCEEEEEEECC--CEEEEECCCCCCCCCCCCCCCCEEECCCCCCCCCEEEEEEEEECCCCCCCCCC
T ss_conf             8514775467762574279999779--07899545455557656688852366888745404589985321100466400


Q ss_pred             HHHH--HCCCEEECCHHHHH---HHCCHHHHHHHHHCCCCCCCC---------CCEEEECCCCEEEEE-CCCCCCCCCCC
Q ss_conf             7886--07955405843898---840123444432002346666---------741896478399762-01233101222
Q gi|254780758|r   71 LKED--LSLTIIGPHKDDAA---MMGKVDEQARLLSIRMNARNA---------SSDRWLQDGDTLLLG-THIFKVFHCPG  135 (216)
Q Consensus        71 l~~~--~~~~i~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~---------~~~~~l~~gd~i~lg-~~~~~vi~tPG  135 (216)
                      +.+.  |+.|+|+..+..+.   +++.......  ....+...+         .....+.-.+++++. ++.++.+.+ |
T Consensus        80 fsEv~GY~GPIYMt~PTkaicPvlLeDyRkv~v--d~kGe~n~FT~q~I~nCMKKVv~i~l~qt~~vD~dl~IrayYA-G  156 (501)
T KOG1136          80 FSEVVGYDGPIYMTYPTKAICPVLLEDYRKVAV--DRKGESNFFTTQDIKNCMKKVVAIDLHQTIQVDEDLQIRAYYA-G  156 (501)
T ss_pred             HHHHHCCCCCEEEECCHHHHCHHHHHHHHHHHC--CCCCCCCCEEHHHHHHHHHHEEEEEEHHEEEECCCCEEEEEEC-C
T ss_conf             576617788647855635305388988898761--6567533200898999876506733022077255413643312-3


Q ss_pred             CCCCCCCCCCC--CCCCCCCCCHHH
Q ss_conf             47210000012--343211110000
Q gi|254780758|r  136 HSPGHVIYVNF--ENNFAHLGDTLF  158 (216)
Q Consensus       136 Ht~g~~~~~~~--~~~~lftGD~lf  158 (216)
                      |.-|..+||..  ++.+++|||.=+
T Consensus       157 HVLGAaMf~ikvGd~svvYTGDYnm  181 (501)
T KOG1136         157 HVLGAAMFYIKVGDQSVVYTGDYNM  181 (501)
T ss_pred             CCCCEEEEEEEECCEEEEEECCCCC
T ss_conf             2000057999845535898467667


No 28 
>KOG4736 consensus
Probab=98.91  E-value=1.7e-09  Score=74.91  Aligned_cols=153  Identities=26%  Similarity=0.369  Sum_probs=86.8

Q ss_pred             CCCEEEEEECCCCEEEEECCCCCHHHHHHHHHHCCC---CEEEEEECCCCCCCCCCCHHHHHHHCCCEEECCHHHHHHHC
Q ss_conf             571699998899849998389999999999997499---75299986988521011056788607955405843898840
Q gi|254780758|r   15 KQNCTFLFDEESLEAVVVDPGGDLDIIKDVIQSRNF---HVKQIWITHGHVDHVGGAAQLKEDLSLTIIGPHKDDAAMMG   91 (216)
Q Consensus        15 ~~N~~li~~~~~~~~ilID~G~~~~~i~~~l~~~~~---~i~~Ii~TH~H~DH~gg~~~l~~~~~~~i~~~~~~~~~~~~   91 (216)
                      +.+..++.|  +...+++|+|..      .+.+.++   +++.+++||.+++|+|++..+...   +++ .+.  ..+  
T Consensus        94 ~~~~tl~~d--~~~v~v~~~gls------~lak~~vt~d~i~~vv~t~~~~~hlgn~~~f~~s---p~l-~~s--~e~--  157 (302)
T KOG4736          94 QGQITLVVD--GGDVVVVDTGLS------VLAKEGVTLDQIDSVVITHKSPGHLGNNNLFPQS---PIL-YHS--MEY--  157 (302)
T ss_pred             HCCCCEEEC--CCCEEEEECCCC------HHHHCCCCHHHCCEEEEECCCCCCCCCCCCCCCC---HHH-HHH--HHH--
T ss_conf             204540312--883499955872------2421476753455168732475542653346677---777-664--560--


Q ss_pred             CHHHHHHHHHCCCCCCCCCCEEEECCCCEEEEECCCCCCCCCCCCCCCCCCCCCC----CCCCCCCCCHHHHCCCCCCCC
Q ss_conf             1234444320023466667418964783997620123310122247210000012----343211110000013566346
Q gi|254780758|r   92 KVDEQARLLSIRMNARNASSDRWLQDGDTLLLGTHIFKVFHCPGHSPGHVIYVNF----ENNFAHLGDTLFRSSIGRTDI  167 (216)
Q Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~l~~gd~i~lg~~~~~vi~tPGHt~g~~~~~~~----~~~~lftGD~lf~~~~G~~d~  167 (216)
                                   ....+.+ ..|+++..+.++ -.+++..|||||+.+++..+.    -+.+.++|| ||++. +-.|-
T Consensus       158 -------------~gr~~~p-t~l~e~~~~~l~-~~~~V~~TpGht~~~isvlv~n~~~~GTv~itGD-Lf~~~-~dlde  220 (302)
T KOG4736         158 -------------IGRHVTP-TELDERPYLKLS-PNVEVWKTPGHTQHDISVLVHNVDLYGTVAITGD-LFPRE-EDLDE  220 (302)
T ss_pred             -------------CCCCCCH-HHHCCCCCCCCC-CCEEEEECCCCCCCCEEEEEEEECCCCEEEEEEE-CCCCC-CCCCC
T ss_conf             -------------3785674-240337740017-7546750799987635799985045524899853-24577-65443


Q ss_pred             C------CC--CHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHH
Q ss_conf             7------98--999999999999851999789984887988889
Q gi|254780758|r  168 L------HG--DYQQLINSINNKILPLGDEISFVCGHGPNSTIG  203 (216)
Q Consensus       168 ~------~~--d~~~~~~sl~~~l~~l~~~~~v~PgHG~~tt~~  203 (216)
                      +      ++  |...-+++ +++..-|++  ++.||||++..+.
T Consensus       221 ~d~i~~~e~s~d~~~kr~~-r~~~v~l~D--~ivpgHg~~f~v~  261 (302)
T KOG4736         221 KDDIMSQEGSEDNAAKRQS-RNRYVCLAD--WIVPGHGPPFRVL  261 (302)
T ss_pred             HHHHHHHCCCCCHHHHHHH-HHCEEEEEE--EEECCCCCCEEEC
T ss_conf             4556541368744454653-411798743--4533888722012


No 29 
>PRK00685 metal-dependent hydrolase; Provisional
Probab=98.88  E-value=5.2e-09  Score=72.16  Aligned_cols=163  Identities=21%  Similarity=0.218  Sum_probs=90.5

Q ss_pred             CCCCCCCEEEEEECCCCEEEEECCCCCHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCHHHHHHHCCCEEECCHHHHHHH
Q ss_conf             08765716999988998499983899999999999974997529998698852101105678860795540584389884
Q gi|254780758|r   11 VTPFKQNCTFLFDEESLEAVVVDPGGDLDIIKDVIQSRNFHVKQIWITHGHVDHVGGAAQLKEDLSLTIIGPHKDDAAMM   90 (216)
Q Consensus        11 v~~~~~N~~li~~~~~~~~ilID~G~~~~~i~~~l~~~~~~i~~Ii~TH~H~DH~gg~~~l~~~~~~~i~~~~~~~~~~~   90 (216)
                      +..++-.|++|...  +..+||||=..... ...++....+++.|++||.|.||..-...+.++.+++++++......+ 
T Consensus         3 i~wlGha~~li~~~--g~~iLiDP~~s~~~-~~~~~~~~~~~D~VliSH~H~DHl~d~~~~~~~~~~~~i~p~~~~~~~-   78 (228)
T PRK00685          3 ITWLGHSAFRIETG--GKKILIDPFLTGNP-KADLKPEDVKVDHILLTHGHGDHVGDTVEIAKRTGAVVVANFELATYL-   78 (228)
T ss_pred             EEEECCCEEEEEEC--CEEEEECCCCCCCC-CCCCCCCCCCCCEEEECCCCCCCCCCHHHHHHHCCCEEEECHHHHHHH-
T ss_conf             99940569999989--99999888668998-778885446799999668883435658888751599899636899999-


Q ss_pred             CCHHHHHHHHHCCCCCCCCCCEEEECCCCEEEEECCCCCCCCCCCCCC------------C---CCCCCCCCCCCCCCCC
Q ss_conf             012344443200234666674189647839976201233101222472------------1---0000012343211110
Q gi|254780758|r   91 GKVDEQARLLSIRMNARNASSDRWLQDGDTLLLGTHIFKVFHCPGHSP------------G---HVIYVNFENNFAHLGD  155 (216)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~l~~gd~i~lg~~~~~vi~tPGHt~------------g---~~~~~~~~~~~lftGD  155 (216)
                      ...       +        .....+..++++++++.+++.+++ =|.+            |   +.++-.++.++.|+||
T Consensus        79 ~~~-------g--------~~~~~~~~~~~~~~~gi~i~~vpa-~H~~~~~~~~~~~~~~g~~~g~vi~~~g~~iy~~GD  142 (228)
T PRK00685         79 GWQ-------G--------VKTHPMNIGGTVEFDGGKVKFTQA-LHSSSYITEDGVSIYLGNPAGIVFTFEGKTIYHAGD  142 (228)
T ss_pred             HHC-------C--------CCEEEECCCCEEEECCEEEEEEEC-CCCCCCCCCCCCCEECCCCEEEEEEECCEEEEEECC
T ss_conf             865-------9--------818993278749978889999966-546665577886268778779999979938998337


Q ss_pred             HHHHCC---CC---CCCC---CCC-----CHHHHHHHHHHHHHCCCCCEEEEECCCC
Q ss_conf             000013---56---6346---798-----9999999999998519997899848879
Q gi|254780758|r  156 TLFRSS---IG---RTDI---LHG-----DYQQLINSINNKILPLGDEISFVCGHGP  198 (216)
Q Consensus       156 ~lf~~~---~G---~~d~---~~~-----d~~~~~~sl~~~l~~l~~~~~v~PgHG~  198 (216)
                      +-+...   ++   ++|+   |-|     |+.+.   + +....+.+.+ ++|-|=.
T Consensus       143 T~~~~~~~~i~~~~~pDlallpiGg~~~m~p~eA---~-~~~~~l~~k~-~IP~H~g  194 (228)
T PRK00685        143 TDLFSDMKLIGELHQPDIALLPIGDRFTMGPADA---A-LAAEWLKPKT-VVPMHYN  194 (228)
T ss_pred             CCCCHHHHHHHHHCCCCEEEEECCCCCCCCHHHH---H-HHHHHHCCCE-EEECCCC
T ss_conf             6665579997765599699991899610599999---9-9999739999-9981888


No 30 
>COG1234 ElaC Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]
Probab=98.79  E-value=3.8e-08  Score=67.15  Aligned_cols=76  Identities=22%  Similarity=0.315  Sum_probs=46.1

Q ss_pred             CEEEEEECCCC-----C-CCEEEEEECCCCEEEEECCCCCHHHHHHHHHHCCC---CEEEEEECCCCCCCCCCCHHHHHH
Q ss_conf             35999970876-----5-71699998899849998389999999999997499---752999869885210110567886
Q gi|254780758|r    4 LSFHIVQVTPF-----K-QNCTFLFDEESLEAVVVDPGGDLDIIKDVIQSRNF---HVKQIWITHGHVDHVGGAAQLKED   74 (216)
Q Consensus         4 ~~~~~i~v~~~-----~-~N~~li~~~~~~~~ilID~G~~~~~i~~~l~~~~~---~i~~Ii~TH~H~DH~gg~~~l~~~   74 (216)
                      |++.++=.+.-     + ...+++..  .++..|+|||..   ....+.+.++   ++++|++||.|.||+.|++.|...
T Consensus         2 m~i~fLGtg~~~Pt~~r~~~s~ll~~--~~~~~L~DcGeG---t~~~l~~~~~~~~~i~~IfITH~H~DHi~gL~~ll~~   76 (292)
T COG1234           2 MEITFLGTGGAVPTKDRNVSSILLRL--EGEKFLFDCGEG---TQHQLLRAGLPPRKIDAIFITHLHGDHIAGLPGLLVS   76 (292)
T ss_pred             CEEEEEECCCCCCCCCCCCCEEEEEE--CCEEEEEECCHH---HHHHHHHHCCCCCCCCEEEEECCCCCCCCCHHHHHHH
T ss_conf             78999966998774767766799981--992799977867---9999998038820268899827863423777899996


Q ss_pred             H-------CCCEEECCH
Q ss_conf             0-------795540584
Q gi|254780758|r   75 L-------SLTIIGPHK   84 (216)
Q Consensus        75 ~-------~~~i~~~~~   84 (216)
                      .       +..+|++..
T Consensus        77 ~~~~~~~~~l~iygP~g   93 (292)
T COG1234          77 RSFRGRREPLKIYGPPG   93 (292)
T ss_pred             HHCCCCCCCCEEECCCC
T ss_conf             14018999824988853


No 31 
>KOG1137 consensus
Probab=98.78  E-value=1.8e-09  Score=74.85  Aligned_cols=149  Identities=15%  Similarity=0.176  Sum_probs=93.4

Q ss_pred             EEEEEECCC---CCCCEEEEEECCCCEEEEECCCCCHH----HHHHHHHHCCC-CEEEEEECCCCCCCCCCCHHHHHHHC
Q ss_conf             599997087---65716999988998499983899999----99999997499-75299986988521011056788607
Q gi|254780758|r    5 SFHIVQVTP---FKQNCTFLFDEESLEAVVVDPGGDLD----IIKDVIQSRNF-HVKQIWITHGHVDHVGGAAQLKEDLS   76 (216)
Q Consensus         5 ~~~~i~v~~---~~~N~~li~~~~~~~~ilID~G~~~~----~i~~~l~~~~~-~i~~Ii~TH~H~DH~gg~~~l~~~~~   76 (216)
                      .+.+.|+|+   .+.-|-++...+  +.++.|||-.+.    ..+-+....+. .++..++||+|.||++.++++.+++.
T Consensus        13 ~l~~~pLGag~EVGRSC~ile~kG--k~iMld~gvhpaysg~aslpf~d~vd~s~id~llIthFhldh~aslp~~~qkTs   90 (668)
T KOG1137          13 QLKFTPLGAGNEVGRSCHILEYKG--KTIMLDCGVHPAYSGMASLPFYDEVDLSAIDPLLITHFHLDHAASLPFTLQKTS   90 (668)
T ss_pred             CEEEEECCCCCCCCCEEEEEEECC--EEEEECCCCCCCCCCCCCCCCHHHCCCCCCCHHHHHHHHHHHCCCCCCEEEECC
T ss_conf             179987788762573379999668--379853666745344444642100460105478876653532266621000002


Q ss_pred             --CCEEECCHHHHHHHCCHHHHH---------HHHHCCCCCCCCCCEEEECCCCEEEEECCCCCCCCCCCCCCCCCCCCC
Q ss_conf             --955405843898840123444---------432002346666741896478399762012331012224721000001
Q gi|254780758|r   77 --LTIIGPHKDDAAMMGKVDEQA---------RLLSIRMNARNASSDRWLQDGDTLLLGTHIFKVFHCPGHSPGHVIYVN  145 (216)
Q Consensus        77 --~~i~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~l~~gd~i~lg~~~~~vi~tPGHt~g~~~~~~  145 (216)
                        ..+++.|.+.+.+........         ..+...........-..+...++.++.+.++..+++ ||--|.++|.+
T Consensus        91 f~grvfmth~TkAi~kwllsdyvrvs~~s~~~~Ly~e~dl~~s~dKie~idfhe~~ev~gIkf~p~~a-GhVlgacMf~v  169 (668)
T KOG1137          91 FIGRVFMTHPTKAIYKWLLSDYVRVSNRSGDDRLYTEGDLMESMDKIETIDFHETVEVNGIKFWPYHA-GHVLGACMFMV  169 (668)
T ss_pred             CCCEEEEECCHHHHHHHHHHCCEEEEECCCCCCCCCCHHHHHHHHHHEEEEECCCCCCCCEEEEEECC-CHHHHHEEEEE
T ss_conf             25616882441887876642336765135753343510477765532222200233348748996045-41233213666


Q ss_pred             CC--CCCCCCCCH
Q ss_conf             23--432111100
Q gi|254780758|r  146 FE--NNFAHLGDT  156 (216)
Q Consensus       146 ~~--~~~lftGD~  156 (216)
                      +-  -++|||||.
T Consensus       170 eiagv~lLyTGd~  182 (668)
T KOG1137         170 EIAGVRLLYTGDY  182 (668)
T ss_pred             EECEEEEEECCCC
T ss_conf             5240799962566


No 32 
>COG1235 PhnP Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]
Probab=98.78  E-value=3.7e-07  Score=61.41  Aligned_cols=81  Identities=19%  Similarity=0.309  Sum_probs=49.7

Q ss_pred             CCCCEEEEEECCCCCCCEEEEEECC--------------CCEEEEECCCCCHHHHHHHHHHCCCCEEEEEECCCCCCCCC
Q ss_conf             9773599997087657169999889--------------98499983899999999999974997529998698852101
Q gi|254780758|r    1 MSKLSFHIVQVTPFKQNCTFLFDEE--------------SLEAVVVDPGGDLDIIKDVIQSRNFHVKQIWITHGHVDHVG   66 (216)
Q Consensus         1 m~~~~~~~i~v~~~~~N~~li~~~~--------------~~~~ilID~G~~~~~i~~~l~~~~~~i~~Ii~TH~H~DH~g   66 (216)
                      |..|++.++-.|. +.|+.++.++.              +.+.++||+|.+.  ..+.++..-..+++|++||.|+||+.
T Consensus         1 ~~~~~f~~lgsG~-~gg~p~~~~~~~~c~~~~~~v~~~~~~~~~lid~g~~~--~~~~~~~~~~~idai~~TH~H~DHi~   77 (269)
T COG1235           1 TGGMRFTVLGSGS-SGGVPVIGCDCRACGGNRLRVDCGVGVKTLLIDAGPDL--RDQGLRLGVSDLDAILLTHEHSDHIQ   77 (269)
T ss_pred             CCCCEEEEEEEEC-CCCEEEECCCCCCCCCCEEEEEEECCCEEEEEECCHHH--HHHHHHHCCCCCCEEEEECCCHHHHC
T ss_conf             9852999999834-89803525886566687088702536047999428777--65423306764567999158567657


Q ss_pred             CCHHHHHHHCCCEEECCH
Q ss_conf             105678860795540584
Q gi|254780758|r   67 GAAQLKEDLSLTIIGPHK   84 (216)
Q Consensus        67 g~~~l~~~~~~~i~~~~~   84 (216)
                      |+..|+..+..+++....
T Consensus        78 Gl~~l~~~~~~~~~~~~~   95 (269)
T COG1235          78 GLDDLRRAYTLPIYVNPG   95 (269)
T ss_pred             CHHHHHHHHCCCCEEEEC
T ss_conf             888899885588457532


No 33 
>PRK04286 hypothetical protein; Provisional
Probab=98.75  E-value=5.1e-07  Score=60.56  Aligned_cols=147  Identities=16%  Similarity=0.208  Sum_probs=74.5

Q ss_pred             CEEEEEECCCCCC--CEEEEEECCCCEEEEECCCCC-----------H---HH---HHHHHHHCCCCEEEEEECCCCCCC
Q ss_conf             3599997087657--169999889984999838999-----------9---99---999999749975299986988521
Q gi|254780758|r    4 LSFHIVQVTPFKQ--NCTFLFDEESLEAVVVDPGGD-----------L---DI---IKDVIQSRNFHVKQIWITHGHVDH   64 (216)
Q Consensus         4 ~~~~~i~v~~~~~--N~~li~~~~~~~~ilID~G~~-----------~---~~---i~~~l~~~~~~i~~Ii~TH~H~DH   64 (216)
                      |++..+..-.++.  =|.++..  ++..+|||||-.           .   ++   +.+.+.+.-.+-+.|++||.|.||
T Consensus         1 Mki~pla~eSLGvRSma~~Vet--~d~~IlIDPgvaLap~RygLpPhp~E~~~l~~~r~kI~~~a~~advvvISHYHyDH   78 (294)
T PRK04286          1 MKIIPLASESLGVRSMATFVET--RDVRILIDPGVSLAPRRYGLPPHPIELERLEEVREKILELAKKADVVTISHYHYDH   78 (294)
T ss_pred             CEEEEEEECCCCCCEEEEEEEE--CCEEEEECCCHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCEEEEECCCCCC
T ss_conf             9569953056774325799983--88579977702118766798998099999999999999998429999991336667


Q ss_pred             CCC-C--H-------HHHHHHCCCEEEC-CHHHHHHHCCHHHHHHHHHCCCCCCCCCCEEEECCCCEEEEECCCCCCCCC
Q ss_conf             011-0--5-------6788607955405-843898840123444432002346666741896478399762012331012
Q gi|254780758|r   65 VGG-A--A-------QLKEDLSLTIIGP-HKDDAAMMGKVDEQARLLSIRMNARNASSDRWLQDGDTLLLGTHIFKVFHC  133 (216)
Q Consensus        65 ~gg-~--~-------~l~~~~~~~i~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~gd~i~lg~~~~~vi~t  133 (216)
                      .-= .  .       .-.+-|..++++. ++.+. . + ..+..+...+............+.||.++.+|+..+++-..
T Consensus        79 ~~p~~~~~Y~~~~~~~~~eiY~gK~~~~K~P~~~-I-N-~SQr~Ra~~flk~~~~~~~~i~~aDg~~f~~g~~~i~fS~p  155 (294)
T PRK04286         79 HTPFYESVYEATSEEEYKEIYGGKIVLIKDPTEN-I-N-WSQRRRAYGFLKAVKGIAKKIEYADGKEFRFGGTVIEFSPP  155 (294)
T ss_pred             CCCCCCCHHHCCCCCCHHHHHCCCEEEECCCHHH-C-C-HHHHHHHHHHHHHHHHHCCEEEECCCCEEEECCEEEEECCC
T ss_conf             7855343010244423588857858998194264-3-8-88999999999976520434897588668878888996688


Q ss_pred             -CCCCC-CC-C----CCCC--CCCCCCCCCCH
Q ss_conf             -22472-10-0----0001--23432111100
Q gi|254780758|r  134 -PGHSP-GH-V----IYVN--FENNFAHLGDT  156 (216)
Q Consensus       134 -PGHt~-g~-~----~~~~--~~~~~lftGD~  156 (216)
                       | |-+ |+ +    ++.+  .+.+++|+-|.
T Consensus       156 vp-HG~~gsklG~Vi~~~I~dg~~~~~~~SDv  186 (294)
T PRK04286        156 VP-HGAEGSKLGYVVMVRISDGDESFVFASDV  186 (294)
T ss_pred             CC-CCCCCCCCCEEEEEEEECCCEEEEECCCC
T ss_conf             77-89888855679999997497689980556


No 34 
>KOG1135 consensus
Probab=98.64  E-value=7.7e-08  Score=65.34  Aligned_cols=138  Identities=14%  Similarity=0.155  Sum_probs=80.6

Q ss_pred             CCCEEEEEECCCCEEEEECCCCCHHH---HHHHHHHCCCCEEEEEECCCCCCCCCCCHHHHHHH--CCCEEECCHHH---
Q ss_conf             57169999889984999838999999---99999974997529998698852101105678860--79554058438---
Q gi|254780758|r   15 KQNCTFLFDEESLEAVVVDPGGDLDI---IKDVIQSRNFHVKQIWITHGHVDHVGGAAQLKEDL--SLTIIGPHKDD---   86 (216)
Q Consensus        15 ~~N~~li~~~~~~~~ilID~G~~~~~---i~~~l~~~~~~i~~Ii~TH~H~DH~gg~~~l~~~~--~~~i~~~~~~~---   86 (216)
                      .+-||++.-++.  -+||||||+..-   .++.++..--.+++|++||...-|+||+++...++  ++++|+.-+.-   
T Consensus        14 ~~~cyllqiD~~--~iLiDcGwd~~f~~~~i~~l~~~i~~iDaILLShpd~~hlGaLpY~~~k~gl~~~VYAT~PV~~mG   91 (764)
T KOG1135          14 GPLCYLLQIDGV--RILIDCGWDESFDMSMIKELKPVIPTIDAILLSHPDILHLGALPYAVGKLGLNAPVYATLPVIKMG   91 (764)
T ss_pred             CCCEEEEEECCE--EEEEECCCCCHHCCCHHHHHHCCCCCCCEEEECCCCHHHHCCCHHHHHHCCCCCEEEEECCHHHHH
T ss_conf             864589997580--899727996010660100121146644379955898677365053686377252278843433431


Q ss_pred             -HHHHCCHHHHHH-----HHHCCCCCCCCCCEEEECCCCEEEEECC----CCCCCCCCCCCCCCCCCCC--CCCCCCCCC
Q ss_conf             -988401234444-----3200234666674189647839976201----2331012224721000001--234321111
Q gi|254780758|r   87 -AAMMGKVDEQAR-----LLSIRMNARNASSDRWLQDGDTLLLGTH----IFKVFHCPGHSPGHVIYVN--FENNFAHLG  154 (216)
Q Consensus        87 -~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~l~~gd~i~lg~~----~~~vi~tPGHt~g~~~~~~--~~~~~lftG  154 (216)
                       .++.........     .+....-...+..-..++..|...+-+.    ++..+.+ ||++|.+.+-+  ..++++++=
T Consensus        92 ~m~myD~~~S~~~~~df~l~sldDvd~aFd~I~~LKYsQ~v~L~gk~~Gl~itaynA-GhmiGGsIWkI~k~~E~ivYav  170 (764)
T KOG1135          92 QMFMYDLYRSHGNVGDFDLFSLDDVDAAFDKIIQLKYSQPVALKGKGSGLTITAYNA-GHMIGGSIWKISKVGEDIVYAV  170 (764)
T ss_pred             HHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHEEEEECCCEEEECCCCCCEEEEEECC-CCCCCCEEEEEEECCCEEEEEE
T ss_conf             441799876036643234443666677775413321155477426557248964047-7756745799873575389997


Q ss_pred             C
Q ss_conf             0
Q gi|254780758|r  155 D  155 (216)
Q Consensus       155 D  155 (216)
                      |
T Consensus       171 d  171 (764)
T KOG1135         171 D  171 (764)
T ss_pred             E
T ss_conf             0


No 35 
>pfam02112 PDEase_II cAMP phosphodiesterases class-II.
Probab=98.60  E-value=3.3e-07  Score=61.70  Aligned_cols=151  Identities=19%  Similarity=0.133  Sum_probs=79.6

Q ss_pred             EEEEECC----CCCCC--EEEEEECCCCEEEEECCCCCHHHHHHHHHHC---------------------------CCCE
Q ss_conf             9999708----76571--6999988998499983899999999999974---------------------------9975
Q gi|254780758|r    6 FHIVQVT----PFKQN--CTFLFDEESLEAVVVDPGGDLDIIKDVIQSR---------------------------NFHV   52 (216)
Q Consensus         6 ~~~i~v~----~~~~N--~~li~~~~~~~~ilID~G~~~~~i~~~l~~~---------------------------~~~i   52 (216)
                      +++|.+|    |...|  .|++.+...+..+.+|+|.-...+.+.+.+.                           .-.|
T Consensus         1 F~vivLG~~GGp~E~n~ts~Lvr~~~~~~~ialDAGt~l~gI~~~~~~~~~~~~~~~~~p~~~~~~~p~~~a~~i~~~~I   80 (323)
T pfam02112         1 FATNLLGQVGGIDEGNLSSFLIEDEAQETFIKLDAGSVLQGYPCLTVSKYLSPNVTITTPFSNFESGPYIKHTYLLFNRI   80 (323)
T ss_pred             CEEEEECCCCCCCCCCEEEEEEEECCCCCEEEEECCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHC
T ss_conf             94999589889788872489965469886899977655888999986410477542357765534571356789998522


Q ss_pred             EEEEECCCCCCCCCCCHHHHHH-----HCCCEEECCHHHHHHHCCHHHHHHHHHCCCCCCC----CCCEEEECCCCEEEE
Q ss_conf             2999869885210110567886-----0795540584389884012344443200234666----674189647839976
Q gi|254780758|r   53 KQIWITHGHVDHVGGAAQLKED-----LSLTIIGPHKDDAAMMGKVDEQARLLSIRMNARN----ASSDRWLQDGDTLLL  123 (216)
Q Consensus        53 ~~Ii~TH~H~DH~gg~~~l~~~-----~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~l~~gd~i~l  123 (216)
                      ...++||.|.||+.|+.--...     -+-.+|+....-..+........-|.........    ...-..+..++...+
T Consensus        81 ~~ylITH~HLDHIaGLvinsp~~~~~~~~K~i~gl~~ti~aLk~hiFN~~iWPNl~~~g~~~~~~~~~~~~l~~~~~~~~  160 (323)
T pfam02112        81 KNYLITHSHLDHVCGLVINSPGFYKQMSKKTIYGLPYTINALQKHLFNNLVWPNLPSFGIVNLIYKVKMFDLSPGEFNKL  160 (323)
T ss_pred             CEEEECCCCHHHHHHHHCCCCCCCCCCCCCEEEECHHHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCC
T ss_conf             13993265277664543058543346799518865899999987331674267886678877431699887387751024


Q ss_pred             ECCCCCCCCCC-CCCC------CCCCCCCCCC----CCCCCCCH
Q ss_conf             20123310122-2472------1000001234----32111100
Q gi|254780758|r  124 GTHIFKVFHCP-GHSP------GHVIYVNFEN----NFAHLGDT  156 (216)
Q Consensus       124 g~~~~~vi~tP-GHt~------g~~~~~~~~~----~~lftGD~  156 (216)
                      ....+.+.+-| -|..      .|.+|++.+.    .++|-||+
T Consensus       161 ~~~~~~v~~fp~sH~~~~~~~~~SsAflird~~t~~~il~fGD~  204 (323)
T pfam02112       161 TETTMSVVPFPVNHGGLIIKEALSTAFLFTDSVSGDSILVFGDV  204 (323)
T ss_pred             CCCCCEEEEECCCCCCCCCCCCCCEEEEEEECCCCCEEEEECCC
T ss_conf             67763156744537887677634407999955899789998288


No 36 
>COG2220 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]
Probab=98.50  E-value=5.1e-07  Score=60.56  Aligned_cols=172  Identities=19%  Similarity=0.184  Sum_probs=84.4

Q ss_pred             EECCCCCCCEEEEEECCCCEEEEECCCCCHHHHHHH----H-HHCCCCEEEEEECCCCCCCCCCCHHHHHHHC-CCEEEC
Q ss_conf             970876571699998899849998389999999999----9-9749975299986988521011056788607-955405
Q gi|254780758|r    9 VQVTPFKQNCTFLFDEESLEAVVVDPGGDLDIIKDV----I-QSRNFHVKQIWITHGHVDHVGGAAQLKEDLS-LTIIGP   82 (216)
Q Consensus         9 i~v~~~~~N~~li~~~~~~~~ilID~G~~~~~i~~~----l-~~~~~~i~~Ii~TH~H~DH~gg~~~l~~~~~-~~i~~~   82 (216)
                      ..+..++..|++|...+  ..+||||.......-..    . ...-.++++|++||.|.||++-........+ ++++..
T Consensus         7 m~itwlGha~~lie~~~--~~iliDP~~~~~~~~~~~~~~~~~~~~~~~D~ilitH~H~DHl~~~~~~~~~~~~~~~~~~   84 (258)
T COG2220           7 MKITWLGHAAFLIETGG--KRILIDPVLSGAPSPSNFPGGLFEDLLPPIDYILITHDHYDHLDDETLIALRTNKAPVVVV   84 (258)
T ss_pred             CEEEEEEEEEEEEEECC--EEEEECCCCCCCCCCCCCCCCCCHHHCCCCCEEEEECCCCHHCCCHHHHHHHCCCCCEEEC
T ss_conf             17999512689999588--6899899867887744225667643247888899736861105707665542488748964


Q ss_pred             CHHH-HHHHCCHHHHHHHHHCCCCCCCCCCEEEECCCCEEEEECCCCC---CCCCCC-CCCC--------CCCCCC--CC
Q ss_conf             8438-9884012344443200234666674189647839976201233---101222-4721--------000001--23
Q gi|254780758|r   83 HKDD-AAMMGKVDEQARLLSIRMNARNASSDRWLQDGDTLLLGTHIFK---VFHCPG-HSPG--------HVIYVN--FE  147 (216)
Q Consensus        83 ~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~gd~i~lg~~~~~---vi~tPG-Ht~g--------~~~~~~--~~  147 (216)
                      .+.. ..+.......             .....+..++++++++.++.   +.+.+. ++++        .++|.+  ++
T Consensus        85 p~~~~~~~~~~g~~~-------------~~~~~~~~g~~~~~~~~~i~~~~a~h~~~~~~~~~~~~~~~~~~~~vi~~~g  151 (258)
T COG2220          85 PLGAGDLLIRDGVEA-------------ERVHELGWGDVIELGDLEITAVPAYHVSARHLPGRGIRPTGLWVGYVIETPG  151 (258)
T ss_pred             CCHHHHHHHCCCCCC-------------CEEEECCCCCEEECCCCEEEEEEEEECCCCCCCCCCCCCCCCEEEEEEEECC
T ss_conf             603444442158772-------------0556147886397356469888626324333588774346761699996099


Q ss_pred             CCCCCCCCHHH--HC---CCCCCC---CCCCC--HHHH---HHHHHHHHHCCCCCEEEEECCC
Q ss_conf             43211110000--01---356634---67989--9999---9999999851999789984887
Q gi|254780758|r  148 NNFAHLGDTLF--RS---SIGRTD---ILHGD--YQQL---INSINNKILPLGDEISFVCGHG  197 (216)
Q Consensus       148 ~~~lftGD~lf--~~---~~G~~d---~~~~d--~~~~---~~sl~~~l~~l~~~~~v~PgHG  197 (216)
                      .++.+.||+=+  ..   ..|++|   +|-|.  ...+   .+.+ +....|.+. +++|.|=
T Consensus       152 ~~iyh~GDt~~~~~~~~~~~~~~DvallPig~~~~~~~~~~~~~~-~~~~~l~~~-~viP~Hy  212 (258)
T COG2220         152 GRVYHAGDTGYLFLIIEELDGPVDVALLPIGGYPNATMMPPEAAV-AAAEVLRPK-RVIPMHY  212 (258)
T ss_pred             EEEEECCCCHHHHHHHHHCCCCCCEEEECCCCCCCCCCCCHHHHH-HHHHHHCCC-EEEECCC
T ss_conf             279962567067665542057777899455456677657899999-999850856-4997543


No 37 
>COG2248 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]
Probab=98.25  E-value=2.2e-05  Score=51.02  Aligned_cols=145  Identities=17%  Similarity=0.243  Sum_probs=74.4

Q ss_pred             EEEECC--CC--CCCEEEEEECCCCEEEEECCCCC--------------HHHH---HHHHHHCCCCEEEEEECCCCCCCC
Q ss_conf             999708--76--57169999889984999838999--------------9999---999997499752999869885210
Q gi|254780758|r    7 HIVQVT--PF--KQNCTFLFDEESLEAVVVDPGGD--------------LDII---KDVIQSRNFHVKQIWITHGHVDHV   65 (216)
Q Consensus         7 ~~i~v~--~~--~~N~~li~~~~~~~~ilID~G~~--------------~~~i---~~~l~~~~~~i~~Ii~TH~H~DH~   65 (216)
                      +++|++  .+  +.-|.++...  .-.+|||||-.              .+++   .+.+++.-.+.+-|.+||.|.||.
T Consensus         2 kV~Pla~eSLGVRSmAt~vet~--dv~ILiDpGVsLaPkRy~LPPh~~E~erl~~~r~~i~~~ak~a~VitISHYHYDHh   79 (304)
T COG2248           2 KVIPLASESLGVRSMATFVETK--DVGILIDPGVSLAPKRYGLPPHQRELERLRQAREKIQRYAKKADVITISHYHYDHH   79 (304)
T ss_pred             CEEECCCCCCCHHHHHHEEECC--CEEEEECCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCEEEEEEECCCCC
T ss_conf             3253131232344243213217--73699778654485346899887999999999999999986488899864012457


Q ss_pred             CC---------CHHHHHHHCCCEEEC-CHHHHHHHCCHHHHHHHHHCCCCCCCCCCEEEECCCCEEEEECCCCCCCCCCC
Q ss_conf             11---------056788607955405-84389884012344443200234666674189647839976201233101222
Q gi|254780758|r   66 GG---------AAQLKEDLSLTIIGP-HKDDAAMMGKVDEQARLLSIRMNARNASSDRWLQDGDTLLLGTHIFKVFHCPG  135 (216)
Q Consensus        66 gg---------~~~l~~~~~~~i~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~gd~i~lg~~~~~vi~tPG  135 (216)
                      --         ...-++-|..+++.. ++.+.  +++.+. .+.+.+-........+..+.||.++++|+..+++=..=-
T Consensus        80 tPf~~~~y~~s~e~~~eiY~gK~lLlKhPte~--IN~SQ~-~Ra~~fl~~~~~~~~~ie~ADgk~f~fG~t~IefS~pvp  156 (304)
T COG2248          80 TPFFDGIYEASGETAKEIYKGKLLLLKHPTEN--INRSQR-RRAYRFLESLKDIAREIEYADGKTFEFGGTVIEFSPPVP  156 (304)
T ss_pred             CCCCCCHHHHCCCCHHHHHCCCEEEECCCHHH--HCHHHH-HHHHHHHHHHHHHCCEEEECCCCEEEECCEEEEECCCCC
T ss_conf             86655212310324677735837885195565--577878-789999987643111468337865875778999568888


Q ss_pred             CCCC-C-----CCCCC--CCCCCCCCCCH
Q ss_conf             4721-0-----00001--23432111100
Q gi|254780758|r  136 HSPG-H-----VIYVN--FENNFAHLGDT  156 (216)
Q Consensus       136 Ht~g-~-----~~~~~--~~~~~lftGD~  156 (216)
                      |-++ +     +++.+  .+..++|+.|+
T Consensus       157 HG~eGskLGyVl~v~V~dg~~~i~faSDv  185 (304)
T COG2248         157 HGREGSKLGYVLMVAVTDGKSSIVFASDV  185 (304)
T ss_pred             CCCCCCCCCEEEEEEEECCCEEEEECCCC
T ss_conf             88766622149999994397689971366


No 38 
>KOG1361 consensus
Probab=97.53  E-value=7.7e-05  Score=47.92  Aligned_cols=110  Identities=21%  Similarity=0.226  Sum_probs=65.7

Q ss_pred             EEEECCCCCHHHHHHHHHHC-CCCEEEEEECCCCCCCCCCCHHHHHHHCCC-EEECCHHHHHHHCCHHHHHHHHHCCCCC
Q ss_conf             99983899999999999974-997529998698852101105678860795-5405843898840123444432002346
Q gi|254780758|r   29 AVVVDPGGDLDIIKDVIQSR-NFHVKQIWITHGHVDHVGGAAQLKEDLSLT-IIGPHKDDAAMMGKVDEQARLLSIRMNA  106 (216)
Q Consensus        29 ~ilID~G~~~~~i~~~l~~~-~~~i~~Ii~TH~H~DH~gg~~~l~~~~~~~-i~~~~~~~~~~~~~~~~~~~~~~~~~~~  106 (216)
                      .+.++||...  ..++.+.. .....+-++||+|.||..|+   ...+..+ +|++......+.....            
T Consensus        91 ~~~~~p~~~f--~VD~f~~~~~~~~s~yFLsHFHSDHy~GL---~~sW~~p~lYCS~ita~Lv~~~~~------------  153 (481)
T KOG1361          91 VIKVLPGGEF--SVDAFRYGHIEGCSAYFLSHFHSDHYIGL---TKSWSHPPLYCSPITARLVPLKVS------------  153 (481)
T ss_pred             CEEECCCCCE--EEEHHHCCCCCCCCEEEEECCCCCCCCCC---CCCCCCCCCCCCCCCHHHHHHHCC------------
T ss_conf             2460699727--87432237766511012201455431435---444558861014122655544011------------


Q ss_pred             CCCCCEEEECCCCEEEEECCCCCCCCCCCCCCCCCCCCCCC---CCCCCCCCH
Q ss_conf             66674189647839976201233101222472100000123---432111100
Q gi|254780758|r  107 RNASSDRWLQDGDTLLLGTHIFKVFHCPGHSPGHVIYVNFE---NNFAHLGDT  156 (216)
Q Consensus       107 ~~~~~~~~l~~gd~i~lg~~~~~vi~tPGHt~g~~~~~~~~---~~~lftGD~  156 (216)
                      .....-+.+.-++.+.+.+..+.++.+ -|.||+++|+++.   ..+|.|||.
T Consensus       154 v~~~~i~~l~l~~~~~i~~~~vt~ldA-nHCPGa~mf~F~~~~~~~~lhtGDF  205 (481)
T KOG1361         154 VTKQSIQALDLNQPLEIPGIQVTLLDA-NHCPGAVMFLFELSFGPCILHTGDF  205 (481)
T ss_pred             CCHHHCEEECCCCCEEECCEEEEEECC-CCCCCCEEEEEECCCCCEEEECCCC
T ss_conf             474114131478836624568998516-6699855897534788627864773


No 39 
>PRK11709 putative L-ascorbate 6-phosphate lactonase; Provisional
Probab=97.41  E-value=0.00082  Score=41.94  Aligned_cols=134  Identities=19%  Similarity=0.290  Sum_probs=71.0

Q ss_pred             CEEEEEECCCCCCCCCCC--HHHHHHH--CCCEEECCHHHHHHHCCHHHHHHHHHCCCCCCCCCCEEEECCCCEEEEECC
Q ss_conf             752999869885210110--5678860--795540584389884012344443200234666674189647839976201
Q gi|254780758|r   51 HVKQIWITHGHVDHVGGA--AQLKEDL--SLTIIGPHKDDAAMMGKVDEQARLLSIRMNARNASSDRWLQDGDTLLLGTH  126 (216)
Q Consensus        51 ~i~~Ii~TH~H~DH~gg~--~~l~~~~--~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~gd~i~lg~~  126 (216)
                      ++++++.||.|.||+--+  +.+.+..  .++.+++......+...        +     .+...-..+++||++.+++.
T Consensus       109 ~lDavl~TH~H~DHiD~n~AAAv~~n~~~~v~FiGP~~~vd~W~~W--------G-----VP~eR~ivvkPGD~~kvkDi  175 (355)
T PRK11709        109 EIDAVLATHDHSDHIDVNVAAAVMQNCADHVKFIGPQTCVDLWIGW--------G-----VPKERCIVVKPGDVVKVKDI  175 (355)
T ss_pred             CCCEEEEEECCCCCHHHHHHHHHHHCCCCCCCEECCHHHHHHHHHC--------C-----CCHHHEEEECCCCEEEEEEE
T ss_conf             3207998511434300899999982685578531858999888862--------9-----96788799548987887126


Q ss_pred             CCCCCC--------C-C-------CCCCC-----CCCCCC--CCCCCCCCCCHHHHCC---CCC---CCC----CCCCH-
Q ss_conf             233101--------2-2-------24721-----000001--2343211110000013---566---346----79899-
Q gi|254780758|r  127 IFKVFH--------C-P-------GHSPG-----HVIYVN--FENNFAHLGDTLFRSS---IGR---TDI----LHGDY-  172 (216)
Q Consensus       127 ~~~vi~--------t-P-------GHt~g-----~~~~~~--~~~~~lftGD~lf~~~---~G~---~d~----~~~d~-  172 (216)
                      +++++.        | |       |-++.     .+.|++  +.+.+.++||.-|...   .|+   .|.    .+.++ 
T Consensus       176 ~i~alesfDRT~lvT~~~~~~~~~g~~~~~Md~~AVnYl~kT~gGnvYH~gDSHySn~fakhG~~~~IDVal~~yGeNP~  255 (355)
T PRK11709        176 EIHALDAFDRTALITLPADGKAAGGVLPDGMDRRAVNYLFKTPGGNLYHSGDSHYSNYYAKHGNEYQIDVALGSYGENPR  255 (355)
T ss_pred             EEEEECCCCCEEEEECCCCCCCCCCCCCCHHHHHHHHEEEECCCCCEEECCCCHHHHHHHHHCCCCCCEEEEECCCCCCC
T ss_conf             99985045624798517875446899972166763414897699767755761355678872761031178732566898


Q ss_pred             ---HHHHHH-HHHHHHCCCCCEEEEECCCC
Q ss_conf             ---999999-99998519997899848879
Q gi|254780758|r  173 ---QQLINS-INNKILPLGDEISFVCGHGP  198 (216)
Q Consensus       173 ---~~~~~s-l~~~l~~l~~~~~v~PgHG~  198 (216)
                         ..|..+ +..+-.+|..++ |+|=|=.
T Consensus       256 GitDKmts~DiLRmaE~L~aKV-vIP~H~D  284 (355)
T PRK11709        256 GITDKMTSIDILRMAESLNAKV-VIPVHHD  284 (355)
T ss_pred             CCCCCCCHHHHHHHHHHCCCCE-EEECHHH
T ss_conf             7616576999999998639858-9513065


No 40 
>KOG2121 consensus
Probab=97.17  E-value=8.2e-05  Score=47.76  Aligned_cols=56  Identities=20%  Similarity=0.270  Sum_probs=33.6

Q ss_pred             EEEEEECCCCEEEEECCCCC-HHHHHHHHH-----HCCCCEEEEEECCCCCCCCCCCHHHHHH
Q ss_conf             69999889984999838999-999999999-----7499752999869885210110567886
Q gi|254780758|r   18 CTFLFDEESLEAVVVDPGGD-LDIIKDVIQ-----SRNFHVKQIWITHGHVDHVGGAAQLKED   74 (216)
Q Consensus        18 ~~li~~~~~~~~ilID~G~~-~~~i~~~l~-----~~~~~i~~Ii~TH~H~DH~gg~~~l~~~   74 (216)
                      +|++... ....+|.|||-+ ...+...-.     ..-.++++|+++|.|.||..|+.-+.++
T Consensus       463 S~lv~i~-~~~~IlLDCGEgTlgql~R~YG~~~~~~~lr~LraI~ISHlHADHh~Gl~~vL~~  524 (746)
T KOG2121         463 SILVRID-SDDSILLDCGEGTLGQLVRHYGVENVDTALRKLRAIFISHLHADHHLGLISVLQA  524 (746)
T ss_pred             EEEEECC-CCCCEEEECCCCHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHH
T ss_conf             9997026-7753786448844878889861301678987589999986200001147899999


No 41 
>COG5212 PDE1 Low-affinity cAMP phosphodiesterase [Signal transduction mechanisms]
Probab=96.99  E-value=0.00076  Score=42.12  Aligned_cols=106  Identities=20%  Similarity=0.251  Sum_probs=53.1

Q ss_pred             CEEEEEECCCCCCCCCCC----HHHHHHHCCCEEECCHHHHHHHCCHHHHHHHHHCCCCCCCCCCEEEECCCCEEEEECC
Q ss_conf             752999869885210110----5678860795540584389884012344443200234666674189647839976201
Q gi|254780758|r   51 HVKQIWITHGHVDHVGGA----AQLKEDLSLTIIGPHKDDAAMMGKVDEQARLLSIRMNARNASSDRWLQDGDTLLLGTH  126 (216)
Q Consensus        51 ~i~~Ii~TH~H~DH~gg~----~~l~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~gd~i~lg~~  126 (216)
                      .|+.-++||+|.||+.|+    +.+.++.+-.+|+....-..+........-+..........-..+.+.+.+...++-.
T Consensus       112 ~I~~y~ITH~HLDHIsGlVinSp~~~~qkkkTI~gl~~tIDvL~khvFN~lvWP~lt~~gs~~~~~qvv~P~~~~slt~t  191 (356)
T COG5212         112 SINSYFITHAHLDHISGLVINSPDDSKQKKKTIYGLADTIDVLRKHVFNWLVWPNLTDSGSGTYRMQVVRPAQSLSLTLT  191 (356)
T ss_pred             HHHHEEECCCCCCCHHCEEECCCCCCCCCCCEEEECHHHHHHHHHHHHCCCCCCCCCCCCCCEEEEEEECHHHEEEEEEE
T ss_conf             12223752302000001363486434557733772402799999875100015774414585488898473471055334


Q ss_pred             CCCCCCCC---CCCCC----CCCCCCCCCC----CCCCCCH
Q ss_conf             23310122---24721----0000012343----2111100
Q gi|254780758|r  127 IFKVFHCP---GHSPG----HVIYVNFENN----FAHLGDT  156 (216)
Q Consensus       127 ~~~vi~tP---GHt~g----~~~~~~~~~~----~lftGD~  156 (216)
                      .+.+++-|   |-.-|    |.+|.+.+.+    ++..||+
T Consensus       192 ~l~~~pfpv~Hg~ktG~p~ySs~~lfr~nkS~~~f~~fGDv  232 (356)
T COG5212         192 RLTGEPFPVSHGKKTGSPSYSSMLLFRSNKSNEFFAYFGDV  232 (356)
T ss_pred             EECCEEEECCCCCCCCCCCCCEEEEEECCCCCCEEEEECCC
T ss_conf             40222564137866688442148998537876248994687


No 42 
>TIGR00361 ComEC_Rec2 DNA internalization-related competence protein ComEC/Rec2; InterPro: IPR004797   This is the DNA internalisation-related competence protein ComEC/Rec2 family. Apparent orthologs are found in 5 species so far (Haemophilus influenzae, Escherichia coli, Bacillus subtilis, Neisseria gonorrhoeae, Streptococcus pneumoniae), of which all but E. coli are model systems for the study of competence for natural transformation. This protein is a predicted multiple membrane-spanning protein likely to be involved in DNA internalisation.; GO: 0030420 establishment of competence for transformation, 0016021 integral to membrane.
Probab=96.87  E-value=0.0078  Score=36.26  Aligned_cols=172  Identities=14%  Similarity=0.223  Sum_probs=90.3

Q ss_pred             EEEEEECCCCCCCEEEEEECCCCEE-EEECCCCC------------------HHHHHHHHHHCCCC-EEEEEECCCCCCC
Q ss_conf             5999970876571699998899849-99838999------------------99999999974997-5299986988521
Q gi|254780758|r    5 SFHIVQVTPFKQNCTFLFDEESLEA-VVVDPGGD------------------LDIIKDVIQSRNFH-VKQIWITHGHVDH   64 (216)
Q Consensus         5 ~~~~i~v~~~~~N~~li~~~~~~~~-ilID~G~~------------------~~~i~~~l~~~~~~-i~~Ii~TH~H~DH   64 (216)
                      .+..+.+|  +....++. ..+.+. +++|+|+.                  ...++.++...++. ++.++++|.|.||
T Consensus       482 ~~~~~d~g--~g~~~~~~-~~~~~~~~l~d~gg~~~~~~~~w~~~~~p~~~~~~~~~p~l~~~~~~~~~~~~l~~~~~d~  558 (731)
T TIGR00361       482 EVDLLDVG--QGLALLIG-KNGQKGRILYDTGGTLSYSSLPWREGQHPFSLGELLLLPWLTWEGLKQLEGLILSHDDLDH  558 (731)
T ss_pred             CEEEEECC--CCCEEEEE-CCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHCCCCCCC
T ss_conf             13454226--76213344-4786531686347621125434666667521002455434543021012344200232111


Q ss_pred             CCCCHHHHHHHCCCEEECC------HHHHHHHCCHHHHHHHHHCCCCCCCCCCEEEECCCCEEEEECCCCCCCCC--C--
Q ss_conf             0110567886079554058------43898840123444432002346666741896478399762012331012--2--
Q gi|254780758|r   65 VGGAAQLKEDLSLTIIGPH------KDDAAMMGKVDEQARLLSIRMNARNASSDRWLQDGDTLLLGTHIFKVFHC--P--  134 (216)
Q Consensus        65 ~gg~~~l~~~~~~~i~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~gd~i~lg~~~~~vi~t--P--  134 (216)
                      .||+..+.+.++..-+...      +.+...+....         ..   .........|+...+-+..+.++.-  |  
T Consensus       559 ~g~~~~~l~~~~~~~~~~p~~~~~~p~d~~~~~~~~---------~~---~~~~~~~~~g~~~~~~~l~~~~~~p~~~~~  626 (731)
T TIGR00361       559 AGGADTLLKHWPVLWLVTPKGFNSEPKDEKVLQAAR---------LG---GEYHEPCKRGDDWQWQGLRFHVLSPLAPDP  626 (731)
T ss_pred             CCHHHHHHHHHHHHEEECCCCCCCCCCHHHHHHHHH---------HC---CCHHHHHHCCCCEEECCCEEEEECCCCCCC
T ss_conf             240567776420010321544456640356776654---------04---401112213541011141135415545666


Q ss_pred             CC-CCCCCCCCCCCC--CCCCCCCHHHHCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHH
Q ss_conf             24-721000001234--321111000001356634679899999999999985199978998488798888999
Q gi|254780758|r  135 GH-SPGHVIYVNFEN--NFAHLGDTLFRSSIGRTDILHGDYQQLINSINNKILPLGDEISFVCGHGPNSTIGRE  205 (216)
Q Consensus       135 GH-t~g~~~~~~~~~--~~lftGD~lf~~~~G~~d~~~~d~~~~~~sl~~~l~~l~~~~~v~PgHG~~tt~~~e  205 (216)
                      .- ...++.++.+++  .++.+||.--+           .......   +....+..+..-+|.||..++-+.+
T Consensus       627 ~~~~~~~~~~~~~~g~~~~~l~gd~~~~-----------~~~~~~~---~~~~~~~~~~l~~~~~g~~~~~~~~  686 (731)
T TIGR00361       627 DSGNNHSCVLWVDDGGNSWLLTGDLEAP-----------GEQKELA---RTWPKIDADVLQVGHHGSKTSTGEP  686 (731)
T ss_pred             CCCCCCEEEEEEECCCCEEEEECCCCCC-----------HHHHHHH---HHHCCHHHHHEECCCCCCCCCCHHH
T ss_conf             6677631689971687137872253451-----------2578898---7630000121013666766541257


No 43 
>TIGR02649 true_RNase_BN ribonuclease BN; InterPro: IPR013469    Proteins in this entry include ribonuclease BN of Escherichia coli (strain K-12) and closely related proteins believed to be equivalent in function. E. coli appears to lack RNase Z, and this ribonuclease appears to be orthologous to (but not functionally equivalent to) RNase Z of Bacillus subtilis and various other species. ; GO: 0016891 endoribonuclease activity producing 5'-phosphomonoesters, 0042779 removal of tRNA 3'-trailer sequence.
Probab=96.61  E-value=0.0052  Score=37.31  Aligned_cols=108  Identities=18%  Similarity=0.196  Sum_probs=60.3

Q ss_pred             EEEECCCCCHHHHHHHHHHC--CCCEEEEEECCCCCCCCCCCHHHHHH-------HCCCEEECCHHHHHHHCCHHHHHHH
Q ss_conf             99983899999999999974--99752999869885210110567886-------0795540584389884012344443
Q gi|254780758|r   29 AVVVDPGGDLDIIKDVIQSR--NFHVKQIWITHGHVDHVGGAAQLKED-------LSLTIIGPHKDDAAMMGKVDEQARL   99 (216)
Q Consensus        29 ~ilID~G~~~~~i~~~l~~~--~~~i~~Ii~TH~H~DH~gg~~~l~~~-------~~~~i~~~~~~~~~~~~~~~~~~~~   99 (216)
                      .-|+|||-..+  .+.+...  --+++.|+++|.|.||..|++-|.-.       .|..+|.+..-..+..........+
T Consensus        33 ~WlfdCGeGtq--hq~l~taf~PGkl~~ifishlhGdhlfGlPGllCsrsm~G~~~Plt~yGPqG~ref~~t~lr~sGsW  110 (304)
T TIGR02649        33 LWLFDCGEGTQ--HQLLNTAFNPGKLEKIFISHLHGDHLFGLPGLLCSRSMAGIIQPLTVYGPQGVREFVETALRLSGSW  110 (304)
T ss_pred             EEEEECCCCHH--HHHHHHHCCCCCCEEEEEEEECCCCCCCCCHHHHHHHHCCCCCCEEEECCCHHHHHHHHHHHHCCCC
T ss_conf             06887687526--7888741488750035754223650015531344333137776406756621688987664211110


Q ss_pred             HHCCCCCCCCCCEEEECCCCEEEEECCCCCCCCCCCCCCCCCCCCC
Q ss_conf             2002346666741896478399762012331012224721000001
Q gi|254780758|r  100 LSIRMNARNASSDRWLQDGDTLLLGTHIFKVFHCPGHSPGHVIYVN  145 (216)
Q Consensus       100 ~~~~~~~~~~~~~~~l~~gd~i~lg~~~~~vi~tPGHt~g~~~~~~  145 (216)
                      ..+.....      .+.-|+.++-|=.++..+.. -|--.+..|.+
T Consensus       111 td~Pl~i~------ei~aG~ilddGlrkvta~~l-ehPleCyGyr~  149 (304)
T TIGR02649       111 TDYPLEIV------EISAGEILDDGLRKVTAYRL-EHPLECYGYRV  149 (304)
T ss_pred             CCCCEEEE------EECCCCHHHHCCHHEEEECC-CCCCEECCEEE
T ss_conf             13651578------62254112200010012014-68610011067


No 44 
>TIGR02650 RNase_Z_T_toga ribonuclease Z, Thermotoga type; InterPro: IPR013470    All tRNA molecules are synthesised as long precursors with extra sequence at both the 5' and 3' ends, which undergo several processing steps to form the mature tRNA molecule. In many bacteria the tRNA precursors do not contain the CCA sequence which forms the 3' end of the mature tRNA and is essential for aminoacylation. In these organisms ribonucleotide Z cleaves the precursor to form a 3' end to which CCA is added. Proteins in this entry, by contrast are ribonuclease Z enzymes with unusual activity. Organisms containing these proteins include the CCA sequence in the tRNA precursor and ribonuclease Z cleaves the molecule immediately after this sequence producing a mature 3' end. The sequence of these proteins differs considerably from the majority of ribonuclease Z sequences..
Probab=96.31  E-value=0.0014  Score=40.63  Aligned_cols=55  Identities=27%  Similarity=0.593  Sum_probs=35.6

Q ss_pred             EEEEECCCCCHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCHHH---------HHHHCCCEEECCHH
Q ss_conf             49998389999999999997499752999869885210110567---------88607955405843
Q gi|254780758|r   28 EAVVVDPGGDLDIIKDVIQSRNFHVKQIWITHGHVDHVGGAAQL---------KEDLSLTIIGPHKD   85 (216)
Q Consensus        28 ~~ilID~G~~~~~i~~~l~~~~~~i~~Ii~TH~H~DH~gg~~~l---------~~~~~~~i~~~~~~   85 (216)
                      +.+|+|+|-...   ..|...-.--++|++||+|.||+.|+=-+         -+..|..++++...
T Consensus        19 erilfdaGeGvs---ttlGskvyafkyvflthGhvdhiaGlWGvvnirnnGmGdrekPldvfyP~Gn   82 (277)
T TIGR02650        19 ERILFDAGEGVS---TTLGSKVYAFKYVFLTHGHVDHIAGLWGVVNIRNNGMGDREKPLDVFYPKGN   82 (277)
T ss_pred             CEEEEECCCCCC---HHHCCEEEEEEEEEEECCCHHHHCCEEEEEEEECCCCCCCCCCCEEECCCCC
T ss_conf             312543578500---1111101223455432362122100023677521788864575222358865


No 45 
>TIGR02108 PQQ_syn_pqqB coenzyme PQQ biosynthesis protein B; InterPro: IPR011842    This entry describes coenzyme PQQ biosynthesis protein B, a gene required for the biosynthesis of pyrrolo-quinoline-quinone (coenzyme PQQ). PQQ is required for some glucose dehydrogenases and alcohol dehydrogenases. Note that this gene appears to be required for PQQ in biosynthesis in Methylobacterium extorquens (under the name pqqG) and in Klebsiella pneumoniae but that the equivalent pqqV in Acinetobacter calcoaceticus is not necessary for heterologous expression of PQQ biosynthesis in Escherichia coli. Based on this latter finding, it is suggested  that PqqB might be a transporter or a PQQ-dependent enzyme rather than a PQQ biosynthesis enzyme .; GO: 0006810 transport, 0018189 pyrroloquinoline quinone biosynthetic process.
Probab=94.27  E-value=0.19  Score=28.20  Aligned_cols=74  Identities=20%  Similarity=0.370  Sum_probs=55.5

Q ss_pred             CCCEEEEEECCCCEEEEECCCCCHHHHHHHHHH-------CC-C---CEEEEEECCCCCCCCCCCHHHHHH-HCCCEEEC
Q ss_conf             571699998899849998389999999999997-------49-9---752999869885210110567886-07955405
Q gi|254780758|r   15 KQNCTFLFDEESLEAVVVDPGGDLDIIKDVIQS-------RN-F---HVKQIWITHGHVDHVGGAAQLKED-LSLTIIGP   82 (216)
Q Consensus        15 ~~N~~li~~~~~~~~ilID~G~~~~~i~~~l~~-------~~-~---~i~~Ii~TH~H~DH~gg~~~l~~~-~~~~i~~~   82 (216)
                      +|=+++-++++|.+=+|+-+-+|   |++.+.+       .+ +   +|..||+|-+-.||+.|+--|++. -|..+|++
T Consensus        36 RTQsSiAvS~DG~rW~L~NASPD---iRQQi~a~paL~P~~~aLR~TpI~~V~Lt~g~iDH~tGLL~LREgq~pf~~yat  112 (314)
T TIGR02108        36 RTQSSIAVSADGERWVLLNASPD---IRQQIQAFPALHPQRGALRDTPIEGVVLTDGEIDHVTGLLSLREGQQPFTLYAT  112 (314)
T ss_pred             CCCEEEEECCCCCCEEEECCCHH---HHHHHHHHHHHCCCCCCCCCCCEEEEEECCCCHHHHHHHHHHCCCCCCCEEEEC
T ss_conf             54116888678873586707964---888886203215777888657604788206622456412333037885148627


Q ss_pred             CHHHHHHHC
Q ss_conf             843898840
Q gi|254780758|r   83 HKDDAAMMG   91 (216)
Q Consensus        83 ~~~~~~~~~   91 (216)
                      +.--..+..
T Consensus       113 ~~Vlq~L~~  121 (314)
T TIGR02108       113 EMVLQDLSD  121 (314)
T ss_pred             CHHHHHHHC
T ss_conf             157888754


No 46 
>TIGR01393 lepA GTP-binding protein LepA; InterPro: IPR006297   LepA (GUF1 in Saccaromyces) is a GTP-binding membrane protein related to EF-G and EF-Tu. Two types of phylogenetic tree, rooted by other GTP-binding proteins, suggest that eukaryotic homologs (including GUF1 of yeast) originated within the bacterial LepA family. The function of the proteins in this family are unknown. ; GO: 0005525 GTP binding.
Probab=93.55  E-value=0.3  Score=27.08  Aligned_cols=22  Identities=27%  Similarity=0.471  Sum_probs=14.6

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCEEE
Q ss_conf             989999999999998519997899
Q gi|254780758|r  169 HGDYQQLINSINNKILPLGDEISF  192 (216)
Q Consensus       169 ~~d~~~~~~sl~~~l~~l~~~~~v  192 (216)
                      ..++.+|+++| +|| +|+|.-+.
T Consensus       306 ~~~Ye~LrdAL-eKL-~LNDAsL~  327 (598)
T TIGR01393       306 TEDYEDLRDAL-EKL-KLNDASLT  327 (598)
T ss_pred             CHHHHHHHHHH-HHH-HHHHHHHH
T ss_conf             03468999997-555-44025421


No 47 
>COG0462 PrsA Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]
Probab=84.74  E-value=1.7  Score=22.72  Aligned_cols=31  Identities=3%  Similarity=0.300  Sum_probs=13.8

Q ss_pred             CCEEEEECCCCC------HHH--HHHHHHHCCC-CEEEEE
Q ss_conf             984999838999------999--9999997499-752999
Q gi|254780758|r   26 SLEAVVVDPGGD------LDI--IKDVIQSRNF-HVKQIW   56 (216)
Q Consensus        26 ~~~~ilID~G~~------~~~--i~~~l~~~~~-~i~~Ii   56 (216)
                      +.+++++.++..      .+.  +.+++++.+- +|+.|+
T Consensus        51 g~dVfI~qs~~~pvnd~lmELLi~idA~k~asA~~It~Vi   90 (314)
T COG0462          51 GKDVFIIQSTSPPVNDNLMELLIMIDALKRASAKRITAVI   90 (314)
T ss_pred             CCEEEEEECCCCCCCHHHHHHHHHHHHHHHCCCCEEEEEE
T ss_conf             8769999089998688999999999998865886589993


No 48 
>PTZ00145 phosphoribosylpyrophosphate synthetase; Provisional
Probab=83.73  E-value=3.2  Score=21.07  Aligned_cols=31  Identities=16%  Similarity=0.089  Sum_probs=15.4

Q ss_pred             HHHHCCCC-CEEEEECCCCCCCHHHHHHHCHH
Q ss_conf             99851999-78998488798888999882814
Q gi|254780758|r  181 NKILPLGD-EISFVCGHGPNSTIGRERRLNPF  211 (216)
Q Consensus       181 ~~l~~l~~-~~~v~PgHG~~tt~~~e~~~n~~  211 (216)
                      +.|..... ++..+.-||=.+--+-||..|.-
T Consensus       360 ~~Lke~GAk~VyA~aTHGVfSg~AierI~~S~  391 (443)
T PTZ00145        360 KQLKKHGARRVFAFATHGLFSGPAIDRIEKSP  391 (443)
T ss_pred             HHHHHCCCCEEEEEEECCCCCHHHHHHHHCCC
T ss_conf             99996799879999977307854898975489


No 49 
>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]
Probab=83.68  E-value=3.4  Score=20.94  Aligned_cols=52  Identities=29%  Similarity=0.358  Sum_probs=23.6

Q ss_pred             CCCCCCCCCCC---CCCCCCCCHHHHCCC-------CC----C-----CCC--CCCHHHHHHHHHHHHHCCCCCE
Q ss_conf             72100000123---432111100000135-------66----3-----467--9899999999999985199978
Q gi|254780758|r  137 SPGHVIYVNFE---NNFAHLGDTLFRSSI-------GR----T-----DIL--HGDYQQLINSINNKILPLGDEI  190 (216)
Q Consensus       137 t~g~~~~~~~~---~~~lftGD~lf~~~~-------G~----~-----d~~--~~d~~~~~~sl~~~l~~l~~~~  190 (216)
                      ..|.+.|+...   -+-.-.||++-..+.       |.    +     -+|  ..++..+++++ +|| .|+|..
T Consensus       256 ~aGeVG~~~a~iK~v~d~~VGDTiT~~~~p~~e~LpGfk~~~P~Vf~GlyPid~~dye~LrdAl-eKL-~LNDas  328 (603)
T COG0481         256 KAGEVGYIIAGIKDVRDARVGDTITLASNPATEPLPGFKEVKPMVFAGLYPVDSDDYEDLRDAL-EKL-QLNDAS  328 (603)
T ss_pred             CCCCEEEEEEEEEECCCCCCCCEEECCCCCCCCCCCCCCCCCCEEEEEECCCCHHHHHHHHHHH-HHC-CCCCCE
T ss_conf             5773448998511115686555675067877666888776785599841116666789999999-744-335301


No 50 
>TIGR02884 spore_pdaA delta-lactam-biosynthetic de-N-acetylase; InterPro: IPR014235    Muramic delta-lactam is an unusual constituent of peptidoglycan, found only in bacterial spores, in the peptidoglycan wall or spore cortex. This entry represents a subset of the larger polysaccharide deacetylase family that is specifically involved in delta-lactam biosynthesis. PdaA from Bacillus subtilis acts immediately after CwlD, an N-acetylmuramoyl-L-alanine amidase and performs a de-N-acetylation. PdaA may also perform the subsequent transpeptidation that leads to lactam ring formation, as heterologous expression in Escherichia coli of CwlD and PdaA together is sufficient for delta-lactam production..
Probab=82.84  E-value=2  Score=22.26  Aligned_cols=56  Identities=23%  Similarity=0.306  Sum_probs=37.3

Q ss_pred             CCCEEEEEECCCCEEEE-ECCCCC---HHHHHHHHHHCCCCEEEEEECCCCCCCCCCCHHHHHH
Q ss_conf             57169999889984999-838999---9999999997499752999869885210110567886
Q gi|254780758|r   15 KQNCTFLFDEESLEAVV-VDPGGD---LDIIKDVIQSRNFHVKQIWITHGHVDHVGGAAQLKED   74 (216)
Q Consensus        15 ~~N~~li~~~~~~~~il-ID~G~~---~~~i~~~l~~~~~~i~~Ii~TH~H~DH~gg~~~l~~~   74 (216)
                      .-|||+|.|...+...| +|=|++   -++|++-||+..++=.. |+| .|.  +--.+.|..+
T Consensus        25 Ky~~~y~GDt~~K~iYLTFDnGYEnGYT~kILDVLKe~~V~AaF-FVT-ghY--~K~~pdLvKR   84 (225)
T TIGR02884        25 KYNAYYLGDTSKKVIYLTFDNGYENGYTPKILDVLKENKVPAAF-FVT-GHY--IKTQPDLVKR   84 (225)
T ss_pred             HCCEEEEECCCCEEEEEECCCCCCCCCCHHHHHHHHCCCCCEEE-EEE-CCC--CCCCHHHHHH
T ss_conf             26748863387204885143553357703342332037883114-640-773--1476676665


No 51 
>PRK04923 ribose-phosphate pyrophosphokinase; Provisional
Probab=77.65  E-value=5.5  Score=19.73  Aligned_cols=32  Identities=16%  Similarity=-0.024  Sum_probs=17.4

Q ss_pred             HHHHCCCCC-EEEEECCCCCCCHHHHHHHCHHH
Q ss_conf             998519997-89984887988889998828145
Q gi|254780758|r  181 NKILPLGDE-ISFVCGHGPNSTIGRERRLNPFL  212 (216)
Q Consensus       181 ~~l~~l~~~-~~v~PgHG~~tt~~~e~~~n~~~  212 (216)
                      +.|...+.. +.++--||=.+.-+.||-.|..+
T Consensus       238 ~~Lk~~GA~~V~~~~THglfs~~A~~rl~~s~i  270 (319)
T PRK04923        238 AALKQRGALKVVAYITHPVLSGPAVDNINNSQL  270 (319)
T ss_pred             HHHHHCCCCEEEEEEECCCCCHHHHHHHHHCCC
T ss_conf             999875998689999797688679999970899


No 52 
>PRK02458 ribose-phosphate pyrophosphokinase; Provisional
Probab=77.41  E-value=4.4  Score=20.27  Aligned_cols=38  Identities=16%  Similarity=0.067  Sum_probs=21.5

Q ss_pred             HHHHHHHHHHHCCCCC-EEEEECCCCCCCHHHHHHHCHHH
Q ss_conf             9999999998519997-89984887988889998828145
Q gi|254780758|r  174 QLINSINNKILPLGDE-ISFVCGHGPNSTIGRERRLNPFL  212 (216)
Q Consensus       174 ~~~~sl~~~l~~l~~~-~~v~PgHG~~tt~~~e~~~n~~~  212 (216)
                      .+.++. +.|...... +.++--||=.+--+.||..|..+
T Consensus       233 Tl~~aa-~~Lk~~GA~~V~~~~THglfs~~A~~rl~~s~i  271 (323)
T PRK02458        233 TFAEAA-KILERSGATEIYAVASHGLFAGGAAEVLETAPI  271 (323)
T ss_pred             HHHHHH-HHHHHCCCCEEEEEEECCCCCHHHHHHHHCCCC
T ss_conf             899999-999964997689999764257079999864998


No 53 
>PRK02269 ribose-phosphate pyrophosphokinase; Provisional
Probab=77.35  E-value=4  Score=20.51  Aligned_cols=30  Identities=13%  Similarity=0.144  Sum_probs=14.7

Q ss_pred             HHHHCCCCC-EEEEECCCCCCCHHHHHHHCH
Q ss_conf             998519997-899848879888899988281
Q gi|254780758|r  181 NKILPLGDE-ISFVCGHGPNSTIGRERRLNP  210 (216)
Q Consensus       181 ~~l~~l~~~-~~v~PgHG~~tt~~~e~~~n~  210 (216)
                      +.|...... +.++--||=.+.-+.||-.+.
T Consensus       238 ~~Lk~~GA~~V~~~~THgvfs~~A~~rl~~s  268 (321)
T PRK02269        238 DALAEAGATAVYASCTHPVLSGPALDNIQKS  268 (321)
T ss_pred             HHHHHCCCCEEEEEEECCCCCHHHHHHHHCC
T ss_conf             9998489982799997802784799998608


No 54 
>PRK06827 phosphoribosylpyrophosphate synthetase; Provisional
Probab=77.34  E-value=5.4  Score=19.77  Aligned_cols=31  Identities=13%  Similarity=0.192  Sum_probs=13.8

Q ss_pred             HHHHHHHHHHCCCCC-EEEEECCCCCCCHHHHHH
Q ss_conf             999999998519997-899848879888899988
Q gi|254780758|r  175 LINSINNKILPLGDE-ISFVCGHGPNSTIGRERR  207 (216)
Q Consensus       175 ~~~sl~~~l~~l~~~-~~v~PgHG~~tt~~~e~~  207 (216)
                      +.+.. +.|...... +.++--||=.|- +-||-
T Consensus       281 l~~aA-~~Lk~~GA~~V~a~aTHgvfS~-a~e~~  312 (381)
T PRK06827        281 VLDAA-KELKSRGAKKIICAVSFPFFTE-GLEKF  312 (381)
T ss_pred             HHHHH-HHHHHCCCCEEEEEEECHHCCC-HHHHH
T ss_conf             99999-9999879988999997366047-69999


No 55 
>PRK07199 phosphoribosylpyrophosphate synthetase; Provisional
Probab=76.52  E-value=5.6  Score=19.67  Aligned_cols=37  Identities=19%  Similarity=0.095  Sum_probs=20.3

Q ss_pred             HHHHHHHHHHHCCCCC-EEEEECCCCCCCHHHHHHHCHH
Q ss_conf             9999999998519997-8998488798888999882814
Q gi|254780758|r  174 QLINSINNKILPLGDE-ISFVCGHGPNSTIGRERRLNPF  211 (216)
Q Consensus       174 ~~~~sl~~~l~~l~~~-~~v~PgHG~~tt~~~e~~~n~~  211 (216)
                      .+.++. +.+...+.. +.++--||=.+.-+.||-.|..
T Consensus       226 Tl~~aa-~~Lk~~GA~~V~~~aTHgvfs~~A~~~i~~s~  263 (301)
T PRK07199        226 TLIEAA-RQLLAAGAASPVCVGVHALFAPDAYSALLAAG  263 (301)
T ss_pred             HHHHHH-HHHHHCCCCEEEEEEECCCCCHHHHHHHHHCC
T ss_conf             799999-99998699858999978647856999998489


No 56 
>PRK01999 consensus
Probab=76.23  E-value=4.7  Score=20.13  Aligned_cols=30  Identities=20%  Similarity=0.267  Sum_probs=15.1

Q ss_pred             HHHHCCCCC-EEEEECCCCCCCHHHHHHHCH
Q ss_conf             998519997-899848879888899988281
Q gi|254780758|r  181 NKILPLGDE-ISFVCGHGPNSTIGRERRLNP  210 (216)
Q Consensus       181 ~~l~~l~~~-~~v~PgHG~~tt~~~e~~~n~  210 (216)
                      +.+...... +.++--||=.+--+.||-.|.
T Consensus       233 ~~L~~~GA~~V~~~~THglfs~~A~~rl~~s  263 (311)
T PRK01999        233 DLMMEKGAKSVRAIASHAVMSGPASERVENS  263 (311)
T ss_pred             HHHHHCCCCEEEEEEECCCCCCHHHHHHHHC
T ss_conf             9998559973899994554585599999748


No 57 
>PRK04554 consensus
Probab=76.07  E-value=4  Score=20.52  Aligned_cols=35  Identities=17%  Similarity=0.087  Sum_probs=17.1

Q ss_pred             HHHHHHHHHHCCCCC-EEEEECCCCCCCHHHHHHHCH
Q ss_conf             999999998519997-899848879888899988281
Q gi|254780758|r  175 LINSINNKILPLGDE-ISFVCGHGPNSTIGRERRLNP  210 (216)
Q Consensus       175 ~~~sl~~~l~~l~~~-~~v~PgHG~~tt~~~e~~~n~  210 (216)
                      +.+.. +.|...... +.++--||=.+--+.||-.|.
T Consensus       231 l~~aa-~~Lk~~GA~~V~~~aTHglfs~~A~~rl~~s  266 (327)
T PRK04554        231 LCKAA-VALKERGAERVLAYASHAVFSGEAVSRIASS  266 (327)
T ss_pred             HHHHH-HHHHHCCCCEEEEEEECCCCCCHHHHHHHHC
T ss_conf             99999-9999769987899987916063399999718


No 58 
>PRK02270 consensus
Probab=75.99  E-value=3.9  Score=20.56  Aligned_cols=37  Identities=24%  Similarity=0.211  Sum_probs=17.7

Q ss_pred             HHHHHHHHHHCCCCC-EEEEECCCCCCCHHHHHHHCHHH
Q ss_conf             999999998519997-89984887988889998828145
Q gi|254780758|r  175 LINSINNKILPLGDE-ISFVCGHGPNSTIGRERRLNPFL  212 (216)
Q Consensus       175 ~~~sl~~~l~~l~~~-~~v~PgHG~~tt~~~e~~~n~~~  212 (216)
                      +.+.. +.|...+.. +.++--||=.+--..++..++.+
T Consensus       230 l~~aa-~~Lk~~GA~~V~~~aTHgvfs~~a~~~~~~s~i  267 (327)
T PRK02270        230 IINAA-EVLKEKGAKKIVLAATHGLFSKGFEIFEENPNI  267 (327)
T ss_pred             HHHHH-HHHHHCCCCEEEEEEECHHCCCHHHHHHHCCCC
T ss_conf             99999-999987998799999774438049999658998


No 59 
>PRK01506 consensus
Probab=75.47  E-value=5.8  Score=19.60  Aligned_cols=29  Identities=24%  Similarity=0.245  Sum_probs=13.6

Q ss_pred             HHHCCCCC-EEEEECCCCCCCHHHHHHHCH
Q ss_conf             98519997-899848879888899988281
Q gi|254780758|r  182 KILPLGDE-ISFVCGHGPNSTIGRERRLNP  210 (216)
Q Consensus       182 ~l~~l~~~-~~v~PgHG~~tt~~~e~~~n~  210 (216)
                      .+...... +.++--||=.+.-+.||-.+.
T Consensus       239 ~Lk~~GA~~V~~~~THglfs~~A~~rl~~s  268 (317)
T PRK01506        239 ALVENGASEVYACCTHPVLSGPAIERIQNS  268 (317)
T ss_pred             HHHHCCCCEEEEEEECCCCCCHHHHHHHCC
T ss_conf             998659975899997700681799998618


No 60 
>PRK00553 ribose-phosphate pyrophosphokinase; Provisional
Probab=75.20  E-value=5.5  Score=19.74  Aligned_cols=30  Identities=7%  Similarity=-0.016  Sum_probs=15.0

Q ss_pred             HHHHCCCCC-EEEEECCCCCCCHHHHHHHCH
Q ss_conf             998519997-899848879888899988281
Q gi|254780758|r  181 NKILPLGDE-ISFVCGHGPNSTIGRERRLNP  210 (216)
Q Consensus       181 ~~l~~l~~~-~~v~PgHG~~tt~~~e~~~n~  210 (216)
                      +.|..-+.. +.++--||=.+--+-||..+.
T Consensus       247 ~~Lk~~GA~~V~a~aTHgvfsg~A~eri~~~  277 (340)
T PRK00553        247 KLLKKQKAKKVCVMATHGLFNKNAIQLFDEA  277 (340)
T ss_pred             HHHHHCCCCEEEEEEECCCCCHHHHHHHHHC
T ss_conf             9999879987999997951485799999852


No 61 
>TIGR02168 SMC_prok_B chromosome segregation protein SMC; InterPro: IPR011890   The SMC (structural maintenance of chromosomes) family of proteins, exist in virtually all organisms including both bacteria and archaea. The SMC proteins are essential for successful chromosome transmission during replication and segregation of the genome in all organisms and form three types of heterodimer (SMC1SMC3, SMC2SMC4, SMC5SMC6), which are core components of large multiprotein complexes. The best known complexes are cohesin, which is responsible for sister-chromatid cohesion, and condensin, which is required for full chromosome condensation in mitosis.     SMCs are generally present as single proteins in bacteria, and as at least six distinct proteins in eukaryotes. The proteins range in size from approximately 110 to 170 kDa, and share a five-domain structure, with globular N- and C-terminal (IPR003395 from INTERPRO) domains separated by a long (circa 100 nm or 900 residues) coiled coil segment in the centre of which is a globular ''hinge'' domain, characterised by a set of four highly conserved glycine residues that are typical of flexible regions in a protein. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif (XXXXD, where X is any hydrophobic residue), and a LSGG motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases .    All SMC proteins appear to form dimers, either forming homodimers with themselves, as in the case of prokaryotic SMC proteins, or heterodimers between different but related SMC proteins. The dimers are arranged in an antiparallel alignment. This orientation brings the N- and C-terminal globular domains (from either different or identical protamers) together, which unites an ATP binding site (Walker A motif) within the N-terminal domain with a Walker B motif (DA box) within the C-terminal domain, to form a potentially functional ATPase. Protein interaction and microscopy data suggest that SMC dimers form a ring-like structure which might embrace DNA molecules. Non-SMC subunits associate with the SMC amino- and carboxy-terminal domains. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences.   SMCs share not only sequence similarity but also structural similarity with ABC proteins. SMC proteins function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair and epigenetic silencing of gene expression . The smc gene is often associated with scpB (IPR005234 from INTERPRO) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle , , .; GO: 0005515 protein binding, 0005524 ATP binding, 0005694 chromosome.
Probab=74.94  E-value=3.7  Score=20.73  Aligned_cols=22  Identities=9%  Similarity=0.249  Sum_probs=11.6

Q ss_pred             CCCCCC-CCCCCCCCCCCCCCCC
Q ss_conf             331012-2247210000012343
Q gi|254780758|r  128 FKVFHC-PGHSPGHVIYVNFENN  149 (216)
Q Consensus       128 ~~vi~t-PGHt~g~~~~~~~~~~  149 (216)
                      |+++.- ||=-+-.+.++-.++|
T Consensus      1085 ieI~A~PPGKk~~~l~LLSGGEK 1107 (1191)
T TIGR02168      1085 IEIMAQPPGKKNQNLSLLSGGEK 1107 (1191)
T ss_pred             CEEEEECCCCCCCCCCCCCCHHH
T ss_conf             56785276398766430201579


No 62 
>PRK02039 consensus
Probab=74.74  E-value=4.5  Score=20.21  Aligned_cols=30  Identities=17%  Similarity=0.021  Sum_probs=15.3

Q ss_pred             HHHHCCCCC-EEEEECCCCCCCHHHHHHHCH
Q ss_conf             998519997-899848879888899988281
Q gi|254780758|r  181 NKILPLGDE-ISFVCGHGPNSTIGRERRLNP  210 (216)
Q Consensus       181 ~~l~~l~~~-~~v~PgHG~~tt~~~e~~~n~  210 (216)
                      +.|...... +.++--||=.+--+.||-.+.
T Consensus       235 ~~Lk~~GA~~V~~~~THgvfs~~A~~rl~~s  265 (316)
T PRK02039        235 QVLKERGAKQVFAYATHPVLSGGAAERIAAS  265 (316)
T ss_pred             HHHHHCCCCEEEEEEECCCCCCHHHHHHHCC
T ss_conf             9999769985799997842573499998608


No 63 
>PRK05259 consensus
Probab=74.01  E-value=4.2  Score=20.43  Aligned_cols=34  Identities=24%  Similarity=0.224  Sum_probs=15.7

Q ss_pred             HHHHHHHHHHCCCCC-EEEEECCCCCCCHHHHHHHC
Q ss_conf             999999998519997-89984887988889998828
Q gi|254780758|r  175 LINSINNKILPLGDE-ISFVCGHGPNSTIGRERRLN  209 (216)
Q Consensus       175 ~~~sl~~~l~~l~~~-~~v~PgHG~~tt~~~e~~~n  209 (216)
                      +.+.. +.+...... +.++--||=.+--+.||-.+
T Consensus       225 l~~aa-~~Lk~~GA~~V~~~~THgvfs~~A~~ri~~  259 (310)
T PRK05259        225 LCNAA-EALLANGANSVTAYITHGVLSGGAVARIAS  259 (310)
T ss_pred             HHHHH-HHHHHCCCCEEEEEEECCCCCCHHHHHHHC
T ss_conf             99999-999877998699999785368569999862


No 64 
>PRK10966 exonuclease subunit SbcD; Provisional
Probab=73.91  E-value=3.9  Score=20.59  Aligned_cols=10  Identities=20%  Similarity=0.511  Sum_probs=4.0

Q ss_pred             CCHHHHHHHH
Q ss_conf             8999999999
Q gi|254780758|r  170 GDYQQLINSI  179 (216)
Q Consensus       170 ~d~~~~~~sl  179 (216)
                      |+...+.+.+
T Consensus       290 G~l~el~~~l  299 (402)
T PRK10966        290 GDLASIEEQL  299 (402)
T ss_pred             CCHHHHHHHH
T ss_conf             8999999999


No 65 
>PRK03675 consensus
Probab=73.64  E-value=6.8  Score=19.20  Aligned_cols=36  Identities=25%  Similarity=0.274  Sum_probs=20.5

Q ss_pred             HHHHHHHHHHHCCCCC-EEEEECCCCCCCHHHHHHHCH
Q ss_conf             9999999998519997-899848879888899988281
Q gi|254780758|r  174 QLINSINNKILPLGDE-ISFVCGHGPNSTIGRERRLNP  210 (216)
Q Consensus       174 ~~~~sl~~~l~~l~~~-~~v~PgHG~~tt~~~e~~~n~  210 (216)
                      .+.+.. +.|...+.. +.++--||=.+.-+.||-.|.
T Consensus       216 Tl~~aa-~~Lk~~GA~~V~~~aTHglfs~~A~~~l~~~  252 (279)
T PRK03675        216 TMIRAA-EILRKLGAKKIFVVATHGVFAEGAIERVSKA  252 (279)
T ss_pred             HHHHHH-HHHHHCCCCEEEEEEECCCCCCHHHHHHHHH
T ss_conf             899999-9999769986999997810680699999974


No 66 
>PRK01259 ribose-phosphate pyrophosphokinase; Provisional
Probab=73.60  E-value=5.9  Score=19.54  Aligned_cols=30  Identities=20%  Similarity=0.083  Sum_probs=14.3

Q ss_pred             HHHHCCCCC-EEEEECCCCCCCHHHHHHHCH
Q ss_conf             998519997-899848879888899988281
Q gi|254780758|r  181 NKILPLGDE-ISFVCGHGPNSTIGRERRLNP  210 (216)
Q Consensus       181 ~~l~~l~~~-~~v~PgHG~~tt~~~e~~~n~  210 (216)
                      +.+...... +.++--||=.+.-+.||-.+.
T Consensus       229 ~~Lk~~GA~~V~~~~THglfs~~A~~rl~~s  259 (309)
T PRK01259        229 EALKERGAKSVFAYATHPVLSGGAAERIANS  259 (309)
T ss_pred             HHHHHCCCCEEEEEEECHHCCHHHHHHHHHC
T ss_conf             9997569966999987631394599998708


No 67 
>PRK02812 ribose-phosphate pyrophosphokinase; Provisional
Probab=73.59  E-value=4.5  Score=20.25  Aligned_cols=27  Identities=19%  Similarity=0.055  Sum_probs=11.6

Q ss_pred             HHHCCCCC-EEEEECCCCCCCHHHHHHH
Q ss_conf             98519997-8998488798888999882
Q gi|254780758|r  182 KILPLGDE-ISFVCGHGPNSTIGRERRL  208 (216)
Q Consensus       182 ~l~~l~~~-~~v~PgHG~~tt~~~e~~~  208 (216)
                      .|..-... +.++--||=.+--+.||..
T Consensus       252 ~Lk~~GA~~V~a~aTHgvfsg~A~~rl~  279 (331)
T PRK02812        252 LLRKEGAKRVYACATHAVFSPPAIERLS  279 (331)
T ss_pred             HHHHCCCCEEEEEEECCCCCHHHHHHHH
T ss_conf             9985799878999989655877999997


No 68 
>PRK05038 consensus
Probab=72.69  E-value=5.3  Score=19.80  Aligned_cols=35  Identities=17%  Similarity=0.074  Sum_probs=16.2

Q ss_pred             HHHHHHHHHHCCCCC-EEEEECCCCCCCHHHHHHHCH
Q ss_conf             999999998519997-899848879888899988281
Q gi|254780758|r  175 LINSINNKILPLGDE-ISFVCGHGPNSTIGRERRLNP  210 (216)
Q Consensus       175 ~~~sl~~~l~~l~~~-~~v~PgHG~~tt~~~e~~~n~  210 (216)
                      +.+.. +.|...+.. +.++--||=.+--+.||-.+.
T Consensus       229 l~~aa-~~Lk~~GA~~V~~~~THglfs~~A~~~l~~s  264 (315)
T PRK05038        229 LCKAA-EALKERGAKRVFAYATHPVFSGNAAENIRNS  264 (315)
T ss_pred             HHHHH-HHHHHCCCCCCEEEEECCCCCCHHHHHHHCC
T ss_conf             99999-9999659986359986535583699998608


No 69 
>PRK03092 ribose-phosphate pyrophosphokinase; Provisional
Probab=72.61  E-value=7.5  Score=18.95  Aligned_cols=29  Identities=24%  Similarity=0.231  Sum_probs=13.9

Q ss_pred             HHHCCCCC-EEEEECCCCCCCHHHHHHHCH
Q ss_conf             98519997-899848879888899988281
Q gi|254780758|r  182 KILPLGDE-ISFVCGHGPNSTIGRERRLNP  210 (216)
Q Consensus       182 ~l~~l~~~-~~v~PgHG~~tt~~~e~~~n~  210 (216)
                      .+...... +.++--||=.+--+.||..|.
T Consensus       223 ~Lk~~GA~~V~~~~THglfs~~A~~rl~~s  252 (304)
T PRK03092        223 ALKEAGAKDVIIAATHGVLSDPAAERLKNC  252 (304)
T ss_pred             HHHHCCCCEEEEEEECCCCCHHHHHHHHHC
T ss_conf             998669983999997934596799999738


No 70 
>TIGR01011 rpsB_bact ribosomal protein S2; InterPro: IPR005706   Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites , . About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits.    Many of ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome , .    This family describes the bacterial, mitochondrial and chloroplast forms of ribosomal protein S2.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0015935 small ribosomal subunit.
Probab=71.07  E-value=7.6  Score=18.92  Aligned_cols=17  Identities=24%  Similarity=0.048  Sum_probs=6.1

Q ss_pred             HCCCCEEEEEECCCCCC
Q ss_conf             74997529998698852
Q gi|254780758|r   47 SRNFHVKQIWITHGHVD   63 (216)
Q Consensus        47 ~~~~~i~~Ii~TH~H~D   63 (216)
                      ++|+||-+|+-|-+.||
T Consensus       178 kLgIPvvA~vDTNCdPd  194 (227)
T TIGR01011       178 KLGIPVVAIVDTNCDPD  194 (227)
T ss_pred             HCCCCEEEEECCCCCCC
T ss_conf             37997898704788888


No 71 
>PRK01132 consensus
Probab=70.65  E-value=6  Score=19.49  Aligned_cols=33  Identities=15%  Similarity=0.094  Sum_probs=16.9

Q ss_pred             HHHHHHHHHHHCCCCC-EEEEECCCCCCCHHHHHH
Q ss_conf             9999999998519997-899848879888899988
Q gi|254780758|r  174 QLINSINNKILPLGDE-ISFVCGHGPNSTIGRERR  207 (216)
Q Consensus       174 ~~~~sl~~~l~~l~~~-~~v~PgHG~~tt~~~e~~  207 (216)
                      .+.+.. +.|...... +.++--||=.+--+.||.
T Consensus       218 Tl~~aa-~~Lk~~GA~~V~a~~THglfs~~A~~ri  251 (286)
T PRK01132        218 TIAKSS-RILRDKGASKIYVSAVHGLFVNNSEAKI  251 (286)
T ss_pred             HHHHHH-HHHHHCCCCEEEEEEECCCCCHHHHHHH
T ss_conf             999999-9999879984999996820671699998


No 72 
>TIGR01978 sufC FeS assembly ATPase SufC; InterPro: IPR010230   Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron. These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] . FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems.   The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins , . It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly .   The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA . SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA , acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets.   In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins . Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen .   This entry represents SufC, which acts as an ATPase in the SUF system. SufC belongs to the ATP-binding cassette transporter family (IPR003439 from INTERPRO) but is no longer thought to be part of a transporter. The complex is reported as cytosolic or associated with the membrane.; GO: 0005524 ATP binding, 0006810 transport.
Probab=70.01  E-value=5.4  Score=19.78  Aligned_cols=14  Identities=7%  Similarity=0.382  Sum_probs=6.3

Q ss_pred             EEECCCCCCCCCCC
Q ss_conf             99869885210110
Q gi|254780758|r   55 IWITHGHVDHVGGA   68 (216)
Q Consensus        55 Ii~TH~H~DH~gg~   68 (216)
                      ||+.=-+|-=|-|.
T Consensus        79 lFLaFQ~P~EIPGV   92 (248)
T TIGR01978        79 LFLAFQYPEEIPGV   92 (248)
T ss_pred             CEECCCCCCCCCCC
T ss_conf             51015888556885


No 73 
>PRK00934 ribose-phosphate pyrophosphokinase; Provisional
Probab=67.98  E-value=9.4  Score=18.36  Aligned_cols=36  Identities=14%  Similarity=0.146  Sum_probs=20.2

Q ss_pred             HHHHHHHHHHHCCCCC-EEEEECCCCCCCHHHHHHHCH
Q ss_conf             9999999998519997-899848879888899988281
Q gi|254780758|r  174 QLINSINNKILPLGDE-ISFVCGHGPNSTIGRERRLNP  210 (216)
Q Consensus       174 ~~~~sl~~~l~~l~~~-~~v~PgHG~~tt~~~e~~~n~  210 (216)
                      .+.++. +.|...... +.++--||=.+.-+.||..+.
T Consensus       219 Tl~~aa-~~Lk~~GA~~V~~~~THglfs~~A~~rl~~s  255 (286)
T PRK00934        219 TMAKAI-SILKEQGAKKIYVSCVHPVLVEDAINKIHSA  255 (286)
T ss_pred             HHHHHH-HHHHHCCCCEEEEEEECCCCCHHHHHHHHHC
T ss_conf             899999-9999869986999997900780599999748


No 74 
>PRK04117 consensus
Probab=67.29  E-value=7.5  Score=18.95  Aligned_cols=36  Identities=17%  Similarity=0.228  Sum_probs=17.8

Q ss_pred             HHHHHHHHHHHCCCCC-EEEEECCCCCCCHHHHHHHCH
Q ss_conf             9999999998519997-899848879888899988281
Q gi|254780758|r  174 QLINSINNKILPLGDE-ISFVCGHGPNSTIGRERRLNP  210 (216)
Q Consensus       174 ~~~~sl~~~l~~l~~~-~~v~PgHG~~tt~~~e~~~n~  210 (216)
                      .+.+.. +.+...... +.++--||=.+--+.||-.|.
T Consensus       226 Ti~~aa-~~L~~~GA~~V~~~~THglfs~~A~~rl~~s  262 (309)
T PRK04117        226 TIVKAA-EALKEKGATSVMACCTHAVLSGPAYERIAKG  262 (309)
T ss_pred             HHHHHH-HHHHHCCCCEEEEEEECCCCCCHHHHHHHHC
T ss_conf             999999-9998669974899994554583699999838


No 75 
>KOG3592 consensus
Probab=66.99  E-value=4  Score=20.51  Aligned_cols=24  Identities=25%  Similarity=0.421  Sum_probs=20.2

Q ss_pred             CEEEEEECCCCCCCCCCCHHHHHH
Q ss_conf             752999869885210110567886
Q gi|254780758|r   51 HVKQIWITHGHVDHVGGAAQLKED   74 (216)
Q Consensus        51 ~i~~Ii~TH~H~DH~gg~~~l~~~   74 (216)
                      +|++|++||--.|..+|+.-|.++
T Consensus        81 rVdaVLLthpg~dNLpginsllqr  104 (934)
T KOG3592          81 RVDAVLLTHPGADNLPGINSLLQR  104 (934)
T ss_pred             HHHHHHHCCCCCCCCCCCHHHHHH
T ss_conf             434654016666766550278899


No 76 
>KOG3798 consensus
Probab=66.23  E-value=6.2  Score=19.44  Aligned_cols=93  Identities=19%  Similarity=0.218  Sum_probs=42.9

Q ss_pred             CEEEEEECCCCCCCCCCCHHHHHHHC--CCEEECCHHHHHHHCCHHHHHHHHHCCCCCCCCCCEEEECCCCE--EEEECC
Q ss_conf             75299986988521011056788607--95540584389884012344443200234666674189647839--976201
Q gi|254780758|r   51 HVKQIWITHGHVDHVGGAAQLKEDLS--LTIIGPHKDDAAMMGKVDEQARLLSIRMNARNASSDRWLQDGDT--LLLGTH  126 (216)
Q Consensus        51 ~i~~Ii~TH~H~DH~gg~~~l~~~~~--~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~gd~--i~lg~~  126 (216)
                      +++.++.+|.|+||.-.-+ +++-.+  .++....+-...++..              ........+..+++  +.-++.
T Consensus       132 ~~d~~~vsh~h~dhld~~~-~~~~~~~~~~~wfvp~g~k~~m~~--------------~gc~~v~el~wwe~~~~vkn~~  196 (343)
T KOG3798         132 DLDFAVVSHDHYDHLDADA-VKKITDRNPQIWFVPLGMKKWMEG--------------DGSSTVTELNWGESSEFVKNGK  196 (343)
T ss_pred             CCCEECCCCCCCCCCCHHH-HHHHHCCCCCCEECHHHHHHEECC--------------CCCCCEEEEECCHHHCEECCCC
T ss_conf             9663034366523236688-876505685210303222012437--------------8877036750100220511895


Q ss_pred             CCCCCCCCC-CCCC------------CCCCCCCCCCCCCCCCHHH
Q ss_conf             233101222-4721------------0000012343211110000
Q gi|254780758|r  127 IFKVFHCPG-HSPG------------HVIYVNFENNFAHLGDTLF  158 (216)
Q Consensus       127 ~~~vi~tPG-Ht~g------------~~~~~~~~~~~lftGD~lf  158 (216)
                      ++.+..+|. |..+            |-++.-+..++.|+||+=|
T Consensus       197 ~~ti~~tPaqHw~~R~L~D~Nk~LW~sw~v~g~~nrfffaGDTGy  241 (343)
T KOG3798         197 TYTIWCLPAQHWGQRGLFDRNKRLWSSWAVIGENNRFFFAGDTGY  241 (343)
T ss_pred             EEEEEECCHHHHCCCCCCCCCCCEEEEEEEECCCCEEEECCCCCC
T ss_conf             799997532431245433478621775578637845874687776


No 77 
>TIGR01821 5aminolev_synth 5-aminolevulinic acid synthase; InterPro: IPR010961   Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway . The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin .   The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA.   The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III.   Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) .   This entry represents 5-aminoaevulinic acid (ALA) synthase (2.3.1.37 from EC), which catalyses the first stage of tetrapyrrole biosynthesis by the C4 pathway, namely the condensation of succinyl CoA and glycine. ALA synthase is a pyridoxal-phosphate-dependent enzyme. During catalysis, glycine initially binds to the enzyme cofactor, and after condensation with succinyl CoA, CoA, carbon dioxide and 5-aminolevulinic acid are produced .; GO: 0003870 5-aminolevulinate synthase activity, 0030170 pyridoxal phosphate binding, 0033014 tetrapyrrole biosynthetic process.
Probab=64.04  E-value=4  Score=20.50  Aligned_cols=19  Identities=21%  Similarity=0.354  Sum_probs=11.9

Q ss_pred             EECCCCCCCCCCCCCCCCC
Q ss_conf             6201233101222472100
Q gi|254780758|r  123 LGTHIFKVFHCPGHSPGHV  141 (216)
Q Consensus       123 lg~~~~~vi~tPGHt~g~~  141 (216)
                      -|...+++.+||.||+..+
T Consensus       390 RG~ERLRitPtP~H~~~~i  408 (427)
T TIGR01821       390 RGTERLRITPTPVHTDKLI  408 (427)
T ss_pred             CCCCCCCCCCCCCCCHHHH
T ss_conf             8750244268889887789


No 78 
>PRK09382 ispDF bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional
Probab=62.65  E-value=7.5  Score=18.92  Aligned_cols=70  Identities=19%  Similarity=0.249  Sum_probs=38.1

Q ss_pred             EECCCCEEEEECCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCC-------HHHHHHHHHHHHHC
Q ss_conf             9647839976201233101-222472100000123432111100000135663467989-------99999999999851
Q gi|254780758|r  114 WLQDGDTLLLGTHIFKVFH-CPGHSPGHVIYVNFENNFAHLGDTLFRSSIGRTDILHGD-------YQQLINSINNKILP  185 (216)
Q Consensus       114 ~l~~gd~i~lg~~~~~vi~-tPGHt~g~~~~~~~~~~~lftGD~lf~~~~G~~d~~~~d-------~~~~~~sl~~~l~~  185 (216)
                      -+.+|..+.+||.++..-. .-|||+|++.+.---+.+|  | ++=.+.+| ..||.+|       ...+++...+++..
T Consensus       232 ~~~~~~~l~LgGv~i~~~~~l~gHSDgDV~lHAl~DAiL--G-A~~~gDIG-~~Fp~sd~k~k~~~S~~~L~~~~~~~~~  307 (382)
T PRK09382        232 AFEEGDPVTLCGVKIPHEFGLKGHSDADVALHALTDALL--G-AIGAGDIG-EHFPDSDPQWKGAASKILLEHAVDLVRE  307 (382)
T ss_pred             CCCCCCCEEEEEEEECCCCCCEEECCCCHHHHHHHHHHH--H-HHCCCCCH-HCCCCCCHHHCCCCHHHHHHHHHHHHHH
T ss_conf             147898479987898898735057687168999999998--8-74299702-0089987565147799999999999998


Q ss_pred             CC
Q ss_conf             99
Q gi|254780758|r  186 LG  187 (216)
Q Consensus       186 l~  187 (216)
                      ..
T Consensus       308 ~g  309 (382)
T PRK09382        308 AG  309 (382)
T ss_pred             CC
T ss_conf             69


No 79 
>TIGR01501 MthylAspMutase methylaspartate mutase, S subunit; InterPro: IPR006394   These sequences represent the S (sigma) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation. ; GO: 0016866 intramolecular transferase activity, 0019670 anaerobic glutamate catabolic process.
Probab=61.53  E-value=5.7  Score=19.65  Aligned_cols=45  Identities=13%  Similarity=0.320  Sum_probs=29.2

Q ss_pred             CCCCCCHHHHCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEE-ECCCCCCCHHHHHH
Q ss_conf             21111000001356634679899999999999985199978998-48879888899988
Q gi|254780758|r  150 FAHLGDTLFRSSIGRTDILHGDYQQLINSINNKILPLGDEISFV-CGHGPNSTIGRERR  207 (216)
Q Consensus       150 ~lftGD~lf~~~~G~~d~~~~d~~~~~~sl~~~l~~l~~~~~v~-PgHG~~tt~~~e~~  207 (216)
                      .|+.|=.|   -+|+.||+         .+++|...+.-| +|| |+|++..-+..-|+
T Consensus        85 llYVGGNl---vVGk~df~---------dV~~rFkeMGfD-RVfap~t~~E~v~~~~k~  130 (134)
T TIGR01501        85 LLYVGGNL---VVGKTDFE---------DVEKRFKEMGFD-RVFAPQTDLEAVVDALKK  130 (134)
T ss_pred             EEEECCEE---EECCCCHH---------HHHHHHHHCCCC-EEECCCCCHHHHHHHHHH
T ss_conf             99876766---55776736---------788887645873-323698582278999987


No 80 
>PRK02277 orotate phosphoribosyltransferase-like protein; Provisional
Probab=60.51  E-value=13  Score=17.53  Aligned_cols=14  Identities=7%  Similarity=0.005  Sum_probs=8.9

Q ss_pred             CCCCCCCCCCCHHH
Q ss_conf             12343211110000
Q gi|254780758|r  145 NFENNFAHLGDTLF  158 (216)
Q Consensus       145 ~~~~~~lftGD~lf  158 (216)
                      +...++++.=|.+-
T Consensus       139 V~Gk~VlIVDDViT  152 (201)
T PRK02277        139 VAGKRCVIVDDVIT  152 (201)
T ss_pred             CCCCEEEEEEECCC
T ss_conf             37878999970237


No 81 
>COG4566 TtrR Response regulator [Signal transduction mechanisms]
Probab=57.85  E-value=15  Score=17.25  Aligned_cols=44  Identities=25%  Similarity=0.393  Sum_probs=31.8

Q ss_pred             EEEEEC---CCCCHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCHHHH
Q ss_conf             499983---899999999999974997529998698852101105678
Q gi|254780758|r   28 EAVVVD---PGGDLDIIKDVIQSRNFHVKQIWITHGHVDHVGGAAQLK   72 (216)
Q Consensus        28 ~~ilID---~G~~~~~i~~~l~~~~~~i~~Ii~TH~H~DH~gg~~~l~   72 (216)
                      -|+|.|   ||.+.-.+.+.|.+.|.+.--|++| +|.|=-.....++
T Consensus        50 GclllDvrMPg~sGlelq~~L~~~~~~~PVIfiT-GhgDIpmaV~AmK   96 (202)
T COG4566          50 GCLLLDVRMPGMSGLELQDRLAERGIRLPVIFLT-GHGDIPMAVQAMK   96 (202)
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHCCCCCCEEEEE-CCCCHHHHHHHHH
T ss_conf             7699855788885089999999539998879982-7887289999997


No 82 
>PRK11624 cdsA CDP-diglyceride synthase; Provisional
Probab=57.79  E-value=5  Score=19.99  Aligned_cols=26  Identities=23%  Similarity=0.326  Sum_probs=19.9

Q ss_pred             HHHHHHHHHHHHCCCCCEEEEECCCC
Q ss_conf             99999999998519997899848879
Q gi|254780758|r  173 QQLINSINNKILPLGDEISFVCGHGP  198 (216)
Q Consensus       173 ~~~~~sl~~~l~~l~~~~~v~PgHG~  198 (216)
                      .++.+|.-||-....|.=.++||||-
T Consensus       234 GDL~eS~~KR~~~VKDSG~llPGHGG  259 (285)
T PRK11624        234 GDLTESMFKREAGIKDSGHLIPGHGG  259 (285)
T ss_pred             HHHHHHHHHHCCCCCCCCCCCCCCCC
T ss_conf             08999999775799978887887552


No 83 
>TIGR03348 VI_IcmF type VI secretion protein IcmF. Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.
Probab=57.13  E-value=15  Score=17.18  Aligned_cols=44  Identities=20%  Similarity=0.339  Sum_probs=24.6

Q ss_pred             CCE-EEEEECCCCEEEEECCCCC--------------HHHHHHHHHHC--CCCEEEEEECCCCCC
Q ss_conf             716-9999889984999838999--------------99999999974--997529998698852
Q gi|254780758|r   16 QNC-TFLFDEESLEAVVVDPGGD--------------LDIIKDVIQSR--NFHVKQIWITHGHVD   63 (216)
Q Consensus        16 ~N~-~li~~~~~~~~ilID~G~~--------------~~~i~~~l~~~--~~~i~~Ii~TH~H~D   63 (216)
                      .|| +++    +++++|||+.+-              ...+++.|++.  .-+|..|++|=.=.|
T Consensus       153 ~~cdwwf----t~~AVliDtaGry~~Q~~~~~~d~~~W~~fL~lLkk~R~r~piNGvil~is~~~  213 (1169)
T TIGR03348       153 RNCDWWF----TDEAVLIDTAGRYTTQDSDPEEDAAAWLGFLGLLRKHRRRQPLNGVVVTVSLAD  213 (1169)
T ss_pred             CCCCEEE----ECCEEEEECCCCEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEHHH
T ss_conf             5557165----278799947976026888640018999999999986489899876899978999


No 84 
>TIGR01344 malate_syn_A malate synthase A; InterPro: IPR006252   These sequences represent plant malate synthase and one of two bacterial forms, designated malate synthase A. This enzyme and isocitrate lyase are the two characteristic enzymes of the glyoxylate shunt. The shunt enables the cell to use acetyl-CoA to generate increased levels of TCA cycle intermediates for biosynthetic pathways such as gluconeogenesis.; GO: 0004474 malate synthase activity, 0006097 glyoxylate cycle.
Probab=55.88  E-value=6.1  Score=19.46  Aligned_cols=40  Identities=25%  Similarity=0.280  Sum_probs=27.3

Q ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHCHHHHCC
Q ss_conf             3566346798999999999999851999789984887988889998828145148
Q gi|254780758|r  161 SIGRTDILHGDYQQLINSINNKILPLGDEISFVCGHGPNSTIGRERRLNPFLKSN  215 (216)
Q Consensus       161 ~~G~~d~~~~d~~~~~~sl~~~l~~l~~~~~v~PgHG~~tt~~~e~~~n~~~~~~  215 (216)
                      .|||+|        |+=|.-|+|.+..++ .|+|--+-.|      .+-|||++|
T Consensus       257 NCGRWD--------YIFS~IK~L~~~G~~-~VLPDR~~vT------M~kpFl~AY  296 (522)
T TIGR01344       257 NCGRWD--------YIFSFIKTLRKAGPE-FVLPDRDAVT------MDKPFLNAY  296 (522)
T ss_pred             CCCHHH--------HHHHHHHHHHHCCCC-CCCCCCCEEE------CCCHHHHHH
T ss_conf             662467--------888898876416885-1468897035------484768899


No 85 
>TIGR00475 selB selenocysteine-specific translation elongation factor; InterPro: IPR004535   In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3' or 5' non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation .   This family describes the elongation factor SelB, a close homologue of EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This family should not include an equivalent protein for eukaryotes. ; GO: 0003723 RNA binding, 0003746 translation elongation factor activity, 0005525 GTP binding, 0001514 selenocysteine incorporation, 0005737 cytoplasm.
Probab=55.41  E-value=7.6  Score=18.89  Aligned_cols=20  Identities=10%  Similarity=0.047  Sum_probs=11.2

Q ss_pred             HHHHHHCCCCEEEEEECCCC
Q ss_conf             99999749975299986988
Q gi|254780758|r   42 KDVIQSRNFHVKQIWITHGH   61 (216)
Q Consensus        42 ~~~l~~~~~~i~~Ii~TH~H   61 (216)
                      +.-++..+.+-.-|++|=..
T Consensus       101 L~vl~~l~~~~~ivvltK~D  120 (627)
T TIGR00475       101 LAVLKLLGIPELIVVLTKAD  120 (627)
T ss_pred             HHHHHHHCCCEEEEEEECCC
T ss_conf             99999708961999973467


No 86 
>TIGR00619 sbcd nuclease SbcCD, D subunit; InterPro: IPR004593 All proteins in this family for which functions are known are double-stranded DNA exonuclease (as part of a complex with SbcC homologs). This complex functions in the initiation of recombination and recombinational repair and is particularly important in regulating the stability of DNA sections that can form secondary structures. This family is likely to be homologous to the MRE11 family.; GO: 0004527 exonuclease activity, 0006259 DNA metabolic process.
Probab=54.96  E-value=13  Score=17.58  Aligned_cols=43  Identities=19%  Similarity=0.312  Sum_probs=24.0

Q ss_pred             HHHHHHCCCCEEEEEEC--CCCCCCCCCCHHHHHHHCCCEEECCH
Q ss_conf             99999749975299986--98852101105678860795540584
Q gi|254780758|r   42 KDVIQSRNFHVKQIWIT--HGHVDHVGGAAQLKEDLSLTIIGPHK   84 (216)
Q Consensus        42 ~~~l~~~~~~i~~Ii~T--H~H~DH~gg~~~l~~~~~~~i~~~~~   84 (216)
                      +..|.+.+.++--|++.  |=-.|-.-....|.+..+.-++....
T Consensus        76 l~~L~~~~~R~p~Vvi~GNHD~~~~Ls~~~~Ll~~~~~~v~~~~~  120 (275)
T TIGR00619        76 LLNLSDANPRLPIVVISGNHDSADRLSAAKKLLKELGVFVVGKPE  120 (275)
T ss_pred             HHHHHHCCCCEEEEEECCCCCCHHHHCHHHHHHHHCCCEEEECCC
T ss_conf             999985389612787047888778611167789770954420247


No 87 
>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily.  Translocation is mediated by EF-G (also called translocase).  The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA.  This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule.  EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit.  The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G.  On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit.  To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it.  The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well.  The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site.  This group
Probab=53.99  E-value=14  Score=17.40  Aligned_cols=50  Identities=16%  Similarity=0.205  Sum_probs=22.0

Q ss_pred             EEEECCCCC----HHHHHHHHHHCCCCEEEEEECCCCCCC---CCCCHHHHHHHCCCE
Q ss_conf             999838999----999999999749975299986988521---011056788607955
Q gi|254780758|r   29 AVVVDPGGD----LDIIKDVIQSRNFHVKQIWITHGHVDH---VGGAAQLKEDLSLTI   79 (216)
Q Consensus        29 ~ilID~G~~----~~~i~~~l~~~~~~i~~Ii~TH~H~DH---~gg~~~l~~~~~~~i   79 (216)
                      .++||+...    .+.+.+.+++.+++ ..++++....+.   ---+..++++++.++
T Consensus        92 v~Vida~~GVe~~T~~~w~~~~~~~iP-~i~fINKmDr~~ad~~~~l~~i~~~lg~~~  148 (268)
T cd04170          92 LVVVSAQSGVEVGTEKLWEFADEAGIP-RIIFINKMDRERADFDKTLAALQEAFGRPV  148 (268)
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHCCCC-EEEEEECCCCCCCCHHHHHHHHHHHHCCCE
T ss_conf             999418754768799999999985999-899997878789964779999999868984


No 88 
>TIGR02427 protocat_pcaD 3-oxoadipate enol-lactonase; InterPro: IPR012790    These proteins are 3-oxoadipate enol-lactonases (also called beta-ketoadipate enol-lactone hydrolase), which catalyse the fourth step in the protocatechuate degradation to beta-ketoadipate and then to succinyl-CoA and acetyl-CoA. 4-hydroxybenzoate, 3-hydroxybenzoate, and vanillate can all be converted in one step to protocatechuate. This enzyme also acts in catechol degradation. In genomes that catabolize both catechol and protocatechuate, two forms of this enzyme may be found. All members of the seed alignment for this entry were chosen from within protocatechuate degradation operons of at least three genes of the pathway, and from genomes with the complete pathway through beta-ketoadipate.; GO: 0047570 3-oxoadipate enol-lactonase activity, 0019614 catechol catabolic process.
Probab=53.46  E-value=11  Score=18.00  Aligned_cols=33  Identities=24%  Similarity=0.355  Sum_probs=13.3

Q ss_pred             CCCHHHHHHHHHHCCCCEEEEEE---CCCCC--CCCCC
Q ss_conf             99999999999974997529998---69885--21011
Q gi|254780758|r   35 GGDLDIIKDVIQSRNFHVKQIWI---THGHV--DHVGG   67 (216)
Q Consensus        35 G~~~~~i~~~l~~~~~~i~~Ii~---TH~H~--DH~gg   67 (216)
                      |-|...+-..+..+.....-|.+   =|++.  |=..+
T Consensus        24 GTDl~~Wd~v~~~L~~~f~~lryD~RGHG~Srad~~~~   61 (256)
T TIGR02427        24 GTDLRMWDPVLPALTADFRVLRYDKRGHGLSRADVPEG   61 (256)
T ss_pred             HCCHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCC
T ss_conf             04465568998620279179988508898755778888


No 89 
>PRK01215 competence damage-inducible protein A; Provisional
Probab=52.88  E-value=18  Score=16.77  Aligned_cols=82  Identities=15%  Similarity=0.103  Sum_probs=44.9

Q ss_pred             CCCCEEEEEECCC-------CCCCEEEEEEC---CCCEEE-EECCCCCHHHHHHHHHHCCCCEEEEEECCC----CCCCC
Q ss_conf             9773599997087-------65716999988---998499-983899999999999974997529998698----85210
Q gi|254780758|r    1 MSKLSFHIVQVTP-------FKQNCTFLFDE---ESLEAV-VVDPGGDLDIIKDVIQSRNFHVKQIWITHG----HVDHV   65 (216)
Q Consensus         1 m~~~~~~~i~v~~-------~~~N~~li~~~---~~~~~i-lID~G~~~~~i~~~l~~~~~~i~~Ii~TH~----H~DH~   65 (216)
                      |.+|+-.+|.+|-       .++|+.++...   -|-++. ..=-|.+.+.+.+.++..-.+-+.|+.|=+    |-|..
T Consensus         1 ~~~~kA~II~IG~ElL~G~i~dtNs~~la~~L~~~G~~v~~~~~V~D~~~~I~~~l~~a~~r~d~Vi~tGGLGPT~DDlT   80 (264)
T PRK01215          1 MEKGRAWIITVGNELLIGRTVNTNASWIARRLTYLGYSVRRIVVVPDDEEEIVEAFREAIGRADVVVSTGGLGPTYDDMT   80 (264)
T ss_pred             CCCCEEEEEEECCCCCCCCEECHHHHHHHHHHHHCCCCEEEEEEECCCHHHHHHHHHHHHHCCCEEEEECCCCCCCCHHH
T ss_conf             99855999998243106610516799999999977993889999289899999999999743899999489579985679


Q ss_pred             CCCHHHHHHHCCCEEECCH
Q ss_conf             1105678860795540584
Q gi|254780758|r   66 GGAAQLKEDLSLTIIGPHK   84 (216)
Q Consensus        66 gg~~~l~~~~~~~i~~~~~   84 (216)
                      -  ..+.+.++.+.....+
T Consensus        81 ~--eavA~a~g~~L~~~~e   97 (264)
T PRK01215         81 N--EGFAKALGVELELNED   97 (264)
T ss_pred             H--HHHHHHHCCCEEECHH
T ss_conf             9--9999984998498499


No 90 
>pfam01148 CTP_transf_1 Cytidylyltransferase family. The members of this family are integral membrane protein cytidylyltransferases. The family includes phosphatidate cytidylyltransferase EC:2.7.7.41 as well as Sec59 from yeast. Sec59 is a dolichol kinase EC:2.7.1.108.
Probab=52.44  E-value=7.6  Score=18.90  Aligned_cols=27  Identities=22%  Similarity=0.268  Sum_probs=20.1

Q ss_pred             HHHHHHHHHHHHCCCCCEEEEECCCCC
Q ss_conf             999999999985199978998488798
Q gi|254780758|r  173 QQLINSINNKILPLGDEISFVCGHGPN  199 (216)
Q Consensus       173 ~~~~~sl~~~l~~l~~~~~v~PgHG~~  199 (216)
                      .++.+|.-||-....|.=.++||||--
T Consensus       212 GDL~eS~~KR~~~vKDsg~llPGHGG~  238 (259)
T pfam01148       212 GDLVESGFKRDFGIKDSGKLIPGHGGI  238 (259)
T ss_pred             HHHHHHHHHHCCCCCCCCCCCCCCCCH
T ss_conf             099999998805999777877875407


No 91 
>TIGR01090 apt adenine phosphoribosyltransferase; InterPro: IPR005764    Adenine phosphoribosyltransferase (APRTase, 2.4.2.7 from EC) is a widely distributed enzyme, and its deficiency in humans causes the accumulation of 2,8-dihydroxyadenine. It is the sole catalyst for adenine recycling in most eukaryotes.  AMP + diphosphate = adenine + 5-phospho-alpha-D-ribose 1-diphosphate  ; GO: 0003999 adenine phosphoribosyltransferase activity, 0006168 adenine salvage.
Probab=51.69  E-value=19  Score=16.66  Aligned_cols=32  Identities=22%  Similarity=0.252  Sum_probs=17.1

Q ss_pred             CCCCCCCCCCHHHHCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCE
Q ss_conf             234321111000001356634679899999999999985199978
Q gi|254780758|r  146 FENNFAHLGDTLFRSSIGRTDILHGDYQQLINSINNKILPLGDEI  190 (216)
Q Consensus       146 ~~~~~lftGD~lf~~~~G~~d~~~~d~~~~~~sl~~~l~~l~~~~  190 (216)
                      +..++|++=|.| .  .      +|.   +.+++ +.+..|..++
T Consensus       113 ~g~RVliVDDLl-A--T------GGT---~~A~~-eLi~~Lggev  144 (175)
T TIGR01090       113 PGQRVLIVDDLL-A--T------GGT---AEATL-ELIKKLGGEV  144 (175)
T ss_pred             CCCEEEEEECCC-C--C------HHH---HHHHH-HHHHHHCCEE
T ss_conf             789089983220-1--2------678---99999-9999859616


No 92 
>PRK10161 transcriptional regulator PhoB; Provisional
Probab=51.13  E-value=19  Score=16.61  Aligned_cols=57  Identities=14%  Similarity=0.143  Sum_probs=30.3

Q ss_pred             CCCCCCCCCCCCHHHHCCCCCCCCCC-CCHHHHHHHHHHHHHCCCCC-E-EEEECCCCCC
Q ss_conf             01234321111000001356634679-89999999999998519997-8-9984887988
Q gi|254780758|r  144 VNFENNFAHLGDTLFRSSIGRTDILH-GDYQQLINSINNKILPLGDE-I-SFVCGHGPNS  200 (216)
Q Consensus       144 ~~~~~~~lftGD~lf~~~~G~~d~~~-~d~~~~~~sl~~~l~~l~~~-~-~v~PgHG~~t  200 (216)
                      +....+-+++=|.|+..-.|.-...+ -+....+..||+||..-+.. . .-+.|.|+-.
T Consensus       166 L~~~~g~vvsr~~L~~~vwg~~~~~~~rtldv~I~rLRkKl~~~~~~~~I~TvrG~GYr~  225 (229)
T PRK10161        166 FMTHPERVYSREQLLNHVWGTNVYVEDRTVDVHIRRLRKALEPGGHDRMVQTVRGTGYRF  225 (229)
T ss_pred             HHHCCCCCCCHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEECCCCEEE
T ss_conf             997799879799999986399989884739999999999745679998199865847405


No 93 
>COG0575 CdsA CDP-diglyceride synthetase [Lipid metabolism]
Probab=50.60  E-value=9.5  Score=18.34  Aligned_cols=27  Identities=26%  Similarity=0.357  Sum_probs=20.3

Q ss_pred             HHHHHHHHHHHHCCCCCEEEEECCCCC
Q ss_conf             999999999985199978998488798
Q gi|254780758|r  173 QQLINSINNKILPLGDEISFVCGHGPN  199 (216)
Q Consensus       173 ~~~~~sl~~~l~~l~~~~~v~PgHG~~  199 (216)
                      .++.+|.-++.....|.-.++||||--
T Consensus       217 GDL~eS~iKR~~giKDsg~liPGHGGi  243 (265)
T COG0575         217 GDLFESYIKRLLGIKDSGWLIPGHGGI  243 (265)
T ss_pred             HHHHHHHHHHHCCCCCCCCCCCCCCCC
T ss_conf             789999999971999787778876631


No 94 
>TIGR02362 dhaK1b probable dihydroxyacetone kinase DhaK1b subunit; InterPro: IPR012735    Two types of dihydroxyacetone kinase (glycerone kinase) are described. In yeast and a few bacteria, e.g. Citrobacter freundii, the enzyme is a single chain that uses ATP as phosphoryl donor and is designated 2.7.1.29 from EC. By contract, Escherichia coli and many other bacterial species have a multisubunit form with a phosphoprotein donor related to PTS transport proteins. This family represents a protein, unique to the firmicutes (low GC Gram-positives), that appears to be a divergent second copy of the K subunit of that complex; its gene is always found in operons with the other three proteins of the complex..
Probab=49.67  E-value=13  Score=17.48  Aligned_cols=16  Identities=13%  Similarity=0.086  Sum_probs=9.1

Q ss_pred             HHHHHHHCCCCEEEEE
Q ss_conf             9999997499752999
Q gi|254780758|r   41 IKDVIQSRNFHVKQIW   56 (216)
Q Consensus        41 i~~~l~~~~~~i~~Ii   56 (216)
                      ..+.+++.|.++.+|+
T Consensus       114 A~~qar~EG~~~~~~i  129 (328)
T TIGR02362       114 AIEQARQEGRDIKYII  129 (328)
T ss_pred             HHHHHHHCCCCEEEEE
T ss_conf             9999986389503799


No 95 
>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein; InterPro: IPR005670   This is a family of phosphate transport system permease proteins.; GO: 0005315 inorganic phosphate transmembrane transporter activity, 0015114 phosphate transmembrane transporter activity, 0006817 phosphate transport, 0016020 membrane.
Probab=49.35  E-value=19  Score=16.58  Aligned_cols=30  Identities=7%  Similarity=0.248  Sum_probs=15.5

Q ss_pred             CCCEEEEECCCC-CHHHHHHHHHHC-----CCCEEE
Q ss_conf             998499983899-999999999974-----997529
Q gi|254780758|r   25 ESLEAVVVDPGG-DLDIIKDVIQSR-----NFHVKQ   54 (216)
Q Consensus        25 ~~~~~ilID~G~-~~~~i~~~l~~~-----~~~i~~   54 (216)
                      .+.-.+||=|-+ .=+.++..|++.     +.+++.
T Consensus        26 ~n~vTAlIGPSGCGKSTlLR~lNRMnDl~~~~r~~G   61 (248)
T TIGR00972        26 KNQVTALIGPSGCGKSTLLRSLNRMNDLVPGVRIEG   61 (248)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEE
T ss_conf             770589877889867899999887764078816888


No 96 
>PRK09836 DNA-binding transcriptional activator CusR; Provisional
Probab=47.68  E-value=21  Score=16.29  Aligned_cols=56  Identities=9%  Similarity=-0.141  Sum_probs=28.7

Q ss_pred             CCCCCCCCCCCCHHHHCCCCCCCCC-CCCHHHHHHHHHHHHHCCC-CCEE-EEECCCCC
Q ss_conf             0123432111100000135663467-9899999999999985199-9789-98488798
Q gi|254780758|r  144 VNFENNFAHLGDTLFRSSIGRTDIL-HGDYQQLINSINNKILPLG-DEIS-FVCGHGPN  199 (216)
Q Consensus       144 ~~~~~~~lftGD~lf~~~~G~~d~~-~~d~~~~~~sl~~~l~~l~-~~~~-v~PgHG~~  199 (216)
                      +....+.+++=|.|+..-.|..... .-.....+..||+||..-. +..+ =+.|-|+-
T Consensus       162 L~~~~g~vvsre~l~~~vw~~~~~~~~~~vdv~I~rLR~Kl~~~~~~~~I~TvrG~GY~  220 (226)
T PRK09836        162 FLRHQGEVLPRSLIASQVWDMNFDSDTNAIDVAVKRLRGKIDNDFEPKLIQTVRGVGYM  220 (226)
T ss_pred             HHHCCCCCCCHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEEECCCCEE
T ss_conf             98689964879999999628887888588999999999985788999839996681569


No 97 
>PRK05433 GTP-binding protein LepA; Provisional
Probab=45.14  E-value=23  Score=16.08  Aligned_cols=55  Identities=27%  Similarity=0.306  Sum_probs=27.4

Q ss_pred             CCCCCCCCCCC---CCCCCCCCHHHHCCC-------CC----C-----CCC--CCCHHHHHHHHHHHHHCCCCCEEEE
Q ss_conf             72100000123---432111100000135-------66----3-----467--9899999999999985199978998
Q gi|254780758|r  137 SPGHVIYVNFE---NNFAHLGDTLFRSSI-------GR----T-----DIL--HGDYQQLINSINNKILPLGDEISFV  193 (216)
Q Consensus       137 t~g~~~~~~~~---~~~lftGD~lf~~~~-------G~----~-----d~~--~~d~~~~~~sl~~~l~~l~~~~~v~  193 (216)
                      .+|.+.|.+..   -+-+.+||||-...-       |.    +     -+|  ..|...+.++| +|| .|+|-...+
T Consensus       254 ~aGeVGyiiagiK~~~d~~vGDTit~~~~~~~~pLpGf~~~kP~Vfagi~P~~~~d~~~Lr~AL-~KL-~LnD~Sl~~  329 (601)
T PRK05433        254 SAGEVGYIIAGIKDVRDARVGDTITLAKNPAEEPLPGFKEVKPMVFAGLYPVDSDDYEDLRDAL-EKL-QLNDASLTY  329 (601)
T ss_pred             CCCCEEEEEECCCCHHHCCCCCEEECCCCCCCCCCCCCCCCCCEEEECCCCCCHHHHHHHHHHH-HHH-HHCCCCEEE
T ss_conf             3784479982454443233476055477777534677889998699723427700689999999-988-635775376


No 98 
>KOG1448 consensus
Probab=43.27  E-value=25  Score=15.88  Aligned_cols=34  Identities=29%  Similarity=0.358  Sum_probs=13.0

Q ss_pred             HHHHHHHHHHCCC-CCEEEEECCCCCCCHHHHHHHC
Q ss_conf             9999999985199-9789984887988889998828
Q gi|254780758|r  175 LINSINNKILPLG-DEISFVCGHGPNSTIGRERRLN  209 (216)
Q Consensus       175 ~~~sl~~~l~~l~-~~~~v~PgHG~~tt~~~e~~~n  209 (216)
                      +.++- ++|..-. .++..+--||=.+-=.-||..|
T Consensus       230 l~~aa-~~L~~~GA~kV~a~~THgVfs~~a~er~~~  264 (316)
T KOG1448         230 LIKAA-DKLLEHGAKKVYAIVTHGVFSGPAIERLNE  264 (316)
T ss_pred             HHHHH-HHHHHCCCCEEEEEECCEECCCCHHHHHHH
T ss_conf             99999-999865874599997132226318877344


No 99 
>COG0104 PurA Adenylosuccinate synthase [Nucleotide transport and metabolism]
Probab=43.08  E-value=25  Score=15.86  Aligned_cols=50  Identities=24%  Similarity=0.369  Sum_probs=31.2

Q ss_pred             CCEEEEEECCCCCCCEEEEEECCCCEEEEECCCCCHHHHHHHHHHCCCCEE--EEEE
Q ss_conf             735999970876571699998899849998389999999999997499752--9998
Q gi|254780758|r    3 KLSFHIVQVTPFKQNCTFLFDEESLEAVVVDPGGDLDIIKDVIQSRNFHVK--QIWI   57 (216)
Q Consensus         3 ~~~~~~i~v~~~~~N~~li~~~~~~~~ilID~G~~~~~i~~~l~~~~~~i~--~Ii~   57 (216)
                      +-.+|.||.|-+..|+..++..  +  ++|||-.-.+. ++.|+++|+...  .+++
T Consensus        49 ~~~LhLiPSGil~~~~~~vIGn--G--vVvdP~~L~~E-i~~L~~~g~~~~~~rL~I  100 (430)
T COG0104          49 KYKLHLIPSGILRPGATLVIGN--G--VVVDPEVLLKE-IEELEERGVDVVRDRLRI  100 (430)
T ss_pred             EEEEEECCCCCCCCCCEEEECC--C--EEECHHHHHHH-HHHHHHCCCCCCCCEEEE
T ss_conf             9999966644567996588638--6--78879999999-999986488666010787


No 100
>TIGR01307 pgm_bpd_ind 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; InterPro: IPR005995   This 2,3-bisphosphoglycerate-independent phosphoglycerate mutase (iPGAM) is a metalloenzyme found particularly in eubacteria and higher plants. It is distantly related to archaeal iPGAM (IPR004456 from INTERPRO) and distinct from the unrelated cofactor-dependent PGAM (PIRSF001490 from PIRSF). Activity has been demonstrated for proteins from a variety of organisms, including Pseudomonas syringae pv. tomato , Bacillus subtilis , Bacillus stearothermophilus , maize , castor bean , and Trypanosoma brucei . The structure of the B. stearothermophilus enzyme (PDB:1EJJ) has two domains . Residues 1-76 and 311-511 form the phosphatase domain, containing the active site residue and two metal-binding sites. This domain is similar to alkaline phosphatase (PDB:1ALK) and arylsulphatase (PDB:1AUK), which are members of the SCOP alkaline phosphatase-like superfamily, but there is meagre sequence similarity outside of the metal-binding segments. Residues 77-310 form the phosphotransferase domain, which is poorly conserved (or perhaps unrelated) in the archaeal enzymes.; GO: 0004619 phosphoglycerate mutase activity, 0006007 glucose catabolic process.
Probab=42.65  E-value=9.1  Score=18.44  Aligned_cols=45  Identities=18%  Similarity=0.324  Sum_probs=29.1

Q ss_pred             HHHHHHHHH---CCCCEEEE-EEC----CCCCCCCCCCHHHHHHHCCCEEECC
Q ss_conf             999999997---49975299-986----9885210110567886079554058
Q gi|254780758|r   39 DIIKDVIQS---RNFHVKQI-WIT----HGHVDHVGGAAQLKEDLSLTIIGPH   83 (216)
Q Consensus        39 ~~i~~~l~~---~~~~i~~I-i~T----H~H~DH~gg~~~l~~~~~~~i~~~~   83 (216)
                      +.+++.+++   .+.+|--+ |++    |+|.||+-|+..+.+.-++..++.|
T Consensus       100 ~a~~~a~~~a~~~~~~lHl~GL~S~GGVHSh~~Hl~AL~~~A~~~G~~k~~lH  152 (529)
T TIGR01307       100 PALLGAIDRAKDANGKLHLMGLVSDGGVHSHIDHLIALIELAAERGIEKVCLH  152 (529)
T ss_pred             HHHHHHHHHHHHCCCCEEEEEECCCCCCCCCHHHHHHHHHHHHHCCCEEEEEE
T ss_conf             27999999998468917999733889503608899999999966893179998


No 101
>PRK01117 adenylosuccinate synthetase; Provisional
Probab=41.59  E-value=22  Score=16.18  Aligned_cols=45  Identities=22%  Similarity=0.341  Sum_probs=28.4

Q ss_pred             CCEEEEEECCCCCCCEEEEEECCCCEEEEECCCCCHHHHHHHHHHCCCCE
Q ss_conf             73599997087657169999889984999838999999999999749975
Q gi|254780758|r    3 KLSFHIVQVTPFKQNCTFLFDEESLEAVVVDPGGDLDIIKDVIQSRNFHV   52 (216)
Q Consensus         3 ~~~~~~i~v~~~~~N~~li~~~~~~~~ilID~G~~~~~i~~~l~~~~~~i   52 (216)
                      +..+|++|.|-|..|+..++..  +  ++|||-.-.+. ++.|++.|+++
T Consensus        49 k~~lhllPSGil~~~~~~vIG~--G--vVidp~~L~~E-i~~L~~~Gi~~   93 (431)
T PRK01117         49 KYKLHLIPSGILRPGKTCVIGN--G--VVLDPEALLKE-IDELEARGVDT   93 (431)
T ss_pred             EEEEEECCCEECCCCCCEEECC--C--EEECHHHHHHH-HHHHHHCCCCC
T ss_conf             9999607827516997178579--7--89869999999-99999769998


No 102
>TIGR02515 IV_pilus_PilQ type IV pilus secretin PilQ; InterPro: IPR013355    A number of proteins homologous to PilQ are involved in type IV pilus formation, competence for transformation, type III secretion, and type II secretion (also referred to as the main terminal branch of the general secretion pathway). Members of this family include PilQ itself, which is a component of the type IV pilus structure, from a number of species. In Haemophilus influenzae, the member of this family is associated with the uptake of exogenous DNA, rather than with formation of a type IV pilus - the surface structure required for this may be considered an unusual, incomplete type IV pilus structure.; GO: 0009297 pilus biogenesis, 0009306 protein secretion.
Probab=39.25  E-value=29  Score=15.51  Aligned_cols=39  Identities=26%  Similarity=0.352  Sum_probs=29.9

Q ss_pred             EEEEECCCCEEEEECCCCCHHHHHHHHHHCCCCEEEEEE
Q ss_conf             999988998499983899999999999974997529998
Q gi|254780758|r   19 TFLFDEESLEAVVVDPGGDLDIIKDVIQSRNFHVKQIWI   57 (216)
Q Consensus        19 ~li~~~~~~~~ilID~G~~~~~i~~~l~~~~~~i~~Ii~   57 (216)
                      .+.+|+-++..++=|.....+++.+.+++.+.+++.|++
T Consensus       159 Svt~D~RTN~Liv~D~~~~l~~~r~li~~lD~Pv~QV~I  197 (464)
T TIGR02515       159 SVTVDPRTNTLIVTDIPEKLARIRELIAELDIPVKQVLI  197 (464)
T ss_pred             CEEEECCCCEEEEEECHHHHHHHHHHHHHCCCCCCCEEE
T ss_conf             089742425387862157899999999961898433899


No 103
>pfam00709 Adenylsucc_synt Adenylosuccinate synthetase.
Probab=37.79  E-value=28  Score=15.57  Aligned_cols=45  Identities=20%  Similarity=0.350  Sum_probs=28.1

Q ss_pred             CCEEEEEECCCCCCCEEEEEECCCCEEEEECCCCCHHHHHHHHHHCCCCE
Q ss_conf             73599997087657169999889984999838999999999999749975
Q gi|254780758|r    3 KLSFHIVQVTPFKQNCTFLFDEESLEAVVVDPGGDLDIIKDVIQSRNFHV   52 (216)
Q Consensus         3 ~~~~~~i~v~~~~~N~~li~~~~~~~~ilID~G~~~~~i~~~l~~~~~~i   52 (216)
                      +..+|++|.|-|..|+-.++.  +  .++|||-.-.+. ++.|++.|+.+
T Consensus        47 k~~lhliPSGil~~~~~~vIG--~--GvVidp~~L~~E-i~~L~~~Gi~~   91 (420)
T pfam00709        47 KYKLHLLPSGILNPGVINVIG--N--GVVVDPEALLEE-IEELEKKGVDV   91 (420)
T ss_pred             EEEEECCCCEECCCCCEEEEC--C--CEEECHHHHHHH-HHHHHHCCCCC
T ss_conf             999951783632799718989--9--789859999999-99999759897


No 104
>pfam10070 DUF2309 Uncharacterized protein conserved in bacteria (DUF2309). Members of this family of hypothetical bacterial proteins have no known function.
Probab=37.14  E-value=26  Score=15.83  Aligned_cols=20  Identities=35%  Similarity=0.627  Sum_probs=13.9

Q ss_pred             CCCCEEEEECCCCCCCHHHHHHHCHHH
Q ss_conf             999789984887988889998828145
Q gi|254780758|r  186 LGDEISFVCGHGPNSTIGRERRLNPFL  212 (216)
Q Consensus       186 l~~~~~v~PgHG~~tt~~~e~~~n~~~  212 (216)
                      +.+ ..++-|||..|+      ||||-
T Consensus       494 FA~-lV~l~GHGS~s~------NNP~~  513 (783)
T pfam10070       494 FAP-LVVLVGHGSQST------NNPHA  513 (783)
T ss_pred             CCC-EEEEECCCCCCC------CCCHH
T ss_conf             777-589951676767------88046


No 105
>TIGR00151 ispF 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; InterPro: IPR003526   This entry represents MECDP (2-C-methyl-D-erythritol 2,4-cyclodiphosphate) synthetase, an enzyme in the non-mevalonate pathway of isoprenoid synthesis, isoprenoids being essential in all organisms. Isoprenoids can also be synthesized through the mevalonate pathway. The non-mevolante route is used by many bacteria and human pathogens, including Mycobacterium tuberculosis and Plasmodium falciparum. This route appears to involve seven enzymes. MECDP synthetase catalyses the intramolecular attack by a phosphate group on a diphosphate, with cytidine monophosphate (CMP) acting as the leaving group to give the cyclic diphosphate product MEDCP. The enzyme is a trimer with three active sites shared between adjacent copies of the protein. The enzyme also has two metal binding sites, the metals playing key roles in catalysis.   A number of proteins from eukaryotes and prokaryotes share this common N-terminal signature and appear to be involved in terpenoid biosynthesis. The ygbB protein is a putative enzyme of this type .; GO: 0008685 2-C-methyl-D-erythritol 24-cyclodiphosphate synthase activity, 0016114 terpenoid biosynthetic process.
Probab=36.85  E-value=32  Score=15.29  Aligned_cols=68  Identities=28%  Similarity=0.342  Sum_probs=38.9

Q ss_pred             EEECCC---CEEEEECCCCCCCC-C-CCCCCCCCCCCCCCC---CCCCCCCHHHHCCCCC----CC--CCCCCHHHHHHH
Q ss_conf             896478---39976201233101-2-224721000001234---3211110000013566----34--679899999999
Q gi|254780758|r  113 RWLQDG---DTLLLGTHIFKVFH-C-PGHSPGHVIYVNFEN---NFAHLGDTLFRSSIGR----TD--ILHGDYQQLINS  178 (216)
Q Consensus       113 ~~l~~g---d~i~lg~~~~~vi~-t-PGHt~g~~~~~~~~~---~~lftGD~lf~~~~G~----~d--~~~~d~~~~~~s  178 (216)
                      ..|.+|   ..+.+||..+.--. . -|||.|++.+.---+   +.+--||      +|.    +|  |-+.|..+|++-
T Consensus         9 H~~~~g~~P~~liLGGV~ip~~~~Gl~gHSDGDvllHAl~DAlLGA~glGD------IG~~FPdtd~~wKgaDS~~lL~~   82 (159)
T TIGR00151         9 HRLVPGDDPRPLILGGVEIPHEKLGLLGHSDGDVLLHALTDALLGALGLGD------IGKHFPDTDPRWKGADSRVLLRK   82 (159)
T ss_pred             EECCCCCCCCEEEEEEEEEECCCCCEEEECHHHHHHHHHHHHHHHHHHHCC------CCCCCCCCCHHHCCCCHHHHHHH
T ss_conf             103878788817880067405455512416278899999988887752000------22437862334568877899999


Q ss_pred             HHHHHHCC
Q ss_conf             99998519
Q gi|254780758|r  179 INNKILPL  186 (216)
Q Consensus       179 l~~~l~~l  186 (216)
                      +.+.+...
T Consensus        83 ~~~~~~~~   90 (159)
T TIGR00151        83 AVELVKEK   90 (159)
T ss_pred             HHHHHHHC
T ss_conf             99999855


No 106
>pfam08747 DUF1788 Domain of unknown function (DUF1788). Putative uncharacterized domain in proteins of length around 200 amino acids.
Probab=35.45  E-value=15  Score=17.22  Aligned_cols=58  Identities=12%  Similarity=0.191  Sum_probs=27.8

Q ss_pred             CHHHHCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCH--HHHHHHCHHHHC
Q ss_conf             000001356634679899999999999985199978998488798888--999882814514
Q gi|254780758|r  155 DTLFRSSIGRTDILHGDYQQLINSINNKILPLGDEISFVCGHGPNSTI--GRERRLNPFLKS  214 (216)
Q Consensus       155 D~lf~~~~G~~d~~~~d~~~~~~sl~~~l~~l~~~~~v~PgHG~~tt~--~~e~~~n~~~~~  214 (216)
                      |.+|.-++|..+ |---...+++.+..+....| -+..|||+=.-+++  ..+.+.+.|+|+
T Consensus        62 dvvfltGvG~vy-P~iR~h~lLn~L~~~~~~~P-~v~FyPG~y~g~~L~lFg~l~d~~YYRA  121 (125)
T pfam08747        62 DIVFLTGVGEVY-PLIRSHNLLNNLHSVMGDVP-LVMFYPGEYDGQSLRLFGRLKDDNYYRA  121 (125)
T ss_pred             CEEEEECCCCCC-HHHHHHHHHHHHHHHHCCCC-EEEECCCCCCCCEEEECCCCCCCCCCCH
T ss_conf             489993774215-06868999998888754881-8997587426865553356688774231


No 107
>TIGR02199 rfaE_dom_II rfaE bifunctional protein, domain II; InterPro: IPR011914    RfaE is a protein involved in the biosynthesis of ADP-L-glycero-D-manno-heptose, a precursor for LPS inner core biosynthesis. RfaE is a bifunctional protein in Escherichia coli, and separate proteins in some other genome. Domain I (IPR011913 from INTERPRO) is suggested to act in D-glycero-D-manno-heptose 1-phosphate biosynthesis, while domain II (this family) adds ADP to yield ADP-D-glycero-D-manno-heptose .; GO: 0016773 phosphotransferase activity alcohol group as acceptor, 0016779 nucleotidyltransferase activity, 0005975 carbohydrate metabolic process.
Probab=34.78  E-value=20  Score=16.41  Aligned_cols=30  Identities=23%  Similarity=0.371  Sum_probs=19.2

Q ss_pred             HHHHHHCCCCEEEEEECCCCCC--CCCCCHHHHHH
Q ss_conf             9999974997529998698852--10110567886
Q gi|254780758|r   42 KDVIQSRNFHVKQIWITHGHVD--HVGGAAQLKED   74 (216)
Q Consensus        42 ~~~l~~~~~~i~~Ii~TH~H~D--H~gg~~~l~~~   74 (216)
                      .+.+++++.+   |+.|-+=+|  |.|-..+|.++
T Consensus         3 ~~~~r~~g~k---vVFTNGCFDiLH~GHV~YL~~A   34 (144)
T TIGR02199         3 VAEARARGKK---VVFTNGCFDILHAGHVSYLQQA   34 (144)
T ss_pred             CHHHHHCCCC---EEECCCCCCCCCCCHHHHHHHH
T ss_conf             0378837897---7851773101021137689999


No 108
>pfam06415 iPGM_N BPG-independent PGAM N-terminus (iPGM_N). This family represents the N-terminal region of the 2,3-bisphosphoglycerate-independent phosphoglycerate mutase (or phosphoglyceromutase or BPG-independent PGAM) protein (EC:5.4.2.1). The family is found in conjunction with pfam01676 (located in the C-terminal region of the protein).
Probab=34.67  E-value=35  Score=15.08  Aligned_cols=40  Identities=20%  Similarity=0.339  Sum_probs=27.1

Q ss_pred             HHHHHHHCCCCEEEE-EE----CCCCCCCCCCCHHHHHHHCCCEE
Q ss_conf             999999749975299-98----69885210110567886079554
Q gi|254780758|r   41 IKDVIQSRNFHVKQI-WI----THGHVDHVGGAAQLKEDLSLTII   80 (216)
Q Consensus        41 i~~~l~~~~~~i~~I-i~----TH~H~DH~gg~~~l~~~~~~~i~   80 (216)
                      +++.+++.+.++.-+ ++    -|+|.||+-++-.+..+.+++.+
T Consensus        19 ~~~~~k~~~~~lHL~GL~SdGGVHShidHl~al~~~a~~~gv~~v   63 (223)
T pfam06415        19 AIDHVKKNNGALHLIGLLSDGGVHSHIDHLFALLKLAKERGVKKV   63 (223)
T ss_pred             HHHHHHHCCCEEEEEEEECCCCCCCCHHHHHHHHHHHHHHCCCEE
T ss_conf             999999739859999941499763247999999999997188708


No 109
>PRK10816 DNA-binding transcriptional regulator PhoP; Provisional
Probab=34.41  E-value=35  Score=15.05  Aligned_cols=57  Identities=18%  Similarity=0.147  Sum_probs=30.5

Q ss_pred             CCCCCCCCCCCCCHHHHCCCCCCCCCCC-CHHHHHHHHHHHHHCCCC-CE-EEEECCCCC
Q ss_conf             0012343211110000013566346798-999999999999851999-78-998488798
Q gi|254780758|r  143 YVNFENNFAHLGDTLFRSSIGRTDILHG-DYQQLINSINNKILPLGD-EI-SFVCGHGPN  199 (216)
Q Consensus       143 ~~~~~~~~lftGD~lf~~~~G~~d~~~~-d~~~~~~sl~~~l~~l~~-~~-~v~PgHG~~  199 (216)
                      ++....+-+++-|.|+..-.|..+.+.. +...+...||+|+....+ +. .=+.|-|+-
T Consensus       160 ~L~~~~~~vvsre~l~~~vw~~~~~~~~~sld~~I~rLRkKl~~~~~~~~I~tvrG~GY~  219 (223)
T PRK10816        160 TLIRNNGKVVSKDSLMLQLYPDAELRESHTIDVLMGRLRKKIQAQYPQEVITTVRGQGYL  219 (223)
T ss_pred             HHHHCCCEEECHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEECCCCEE
T ss_conf             999879923839999998549987888677999999999974335899818997895679


No 110
>TIGR00968 3a0106s01 sulfate ABC transporter, ATP-binding protein; InterPro: IPR005666   ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs.   ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain .    The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyze ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarize the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site , , .   The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis , , , , , .   Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1).     These proteins are involved in the transmembrane transport of sulphate and thiosulphate.; GO: 0042626 ATPase activity coupled to transmembrane movement of substances, 0006810 transport, 0016020 membrane.
Probab=34.29  E-value=35  Score=15.04  Aligned_cols=28  Identities=14%  Similarity=0.271  Sum_probs=18.1

Q ss_pred             HHHHHHHHHHHHCCCCCE---EEEECCCCCC
Q ss_conf             999999999985199978---9984887988
Q gi|254780758|r  173 QQLINSINNKILPLGDEI---SFVCGHGPNS  200 (216)
Q Consensus       173 ~~~~~sl~~~l~~l~~~~---~v~PgHG~~t  200 (216)
                      ++.++.||..|+.|.+++   .|+--|+...
T Consensus       167 AkvRk~LR~WLR~LH~e~~~T~VfVTHD~~E  197 (241)
T TIGR00968       167 AKVRKELRAWLRKLHDEVHVTTVFVTHDQEE  197 (241)
T ss_pred             HHHHHHHHHHHHHHCCEEEEEEEEEECCHHH
T ss_conf             8999999999987403056779998628589


No 111
>PRK05434 phosphoglyceromutase; Provisional
Probab=33.28  E-value=37  Score=14.94  Aligned_cols=40  Identities=15%  Similarity=0.218  Sum_probs=25.8

Q ss_pred             HHHHHHCCCCEEEE-EE----CCCCCCCCCCCHHHHHHHCCC-EEE
Q ss_conf             99999749975299-98----698852101105678860795-540
Q gi|254780758|r   42 KDVIQSRNFHVKQI-WI----THGHVDHVGGAAQLKEDLSLT-IIG   81 (216)
Q Consensus        42 ~~~l~~~~~~i~~I-i~----TH~H~DH~gg~~~l~~~~~~~-i~~   81 (216)
                      ++.+++.+.++.-+ ++    -|+|.||+.++-.+..+.+++ ++.
T Consensus       102 i~~~k~~~~~lHl~GLlSdGGVHSH~~Hl~al~~~a~~~gv~~v~v  147 (511)
T PRK05434        102 IDKAKKNGGALHLMGLLSDGGVHSHIDHLFALLELAAKEGVKKVYL  147 (511)
T ss_pred             HHHHHHCCCCEEEEEEECCCCCCCCHHHHHHHHHHHHHCCCCCEEE
T ss_conf             9999973981699985238843133789999999999708884899


No 112
>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=32.40  E-value=38  Score=14.86  Aligned_cols=31  Identities=19%  Similarity=0.191  Sum_probs=20.0

Q ss_pred             EEEE-ECCCCCHHHHHHHHHHCCCCEEEEEECCC
Q ss_conf             4999-83899999999999974997529998698
Q gi|254780758|r   28 EAVV-VDPGGDLDIIKDVIQSRNFHVKQIWITHG   60 (216)
Q Consensus        28 ~~il-ID~G~~~~~i~~~l~~~~~~i~~Ii~TH~   60 (216)
                      +.++ ||||-..-.-.+++++.|+.|  |++=|+
T Consensus       116 ~LiiTVD~Gi~a~~e~~~a~~~G~dV--IVtDHH  147 (705)
T TIGR00644       116 SLIITVDNGISAHEEIEYAKELGIDV--IVTDHH  147 (705)
T ss_pred             EEEEECCCCHHHHHHHHHHHHCCCEE--EEECCC
T ss_conf             39998268742699999998669819--997256


No 113
>PRK13784 adenylosuccinate synthetase; Provisional
Probab=31.33  E-value=39  Score=14.75  Aligned_cols=45  Identities=18%  Similarity=0.271  Sum_probs=27.7

Q ss_pred             CCEEEEEECCCCCCCEEEEEECCCCEEEEECCCCCHHHHHHHHHHCCCCE
Q ss_conf             73599997087657169999889984999838999999999999749975
Q gi|254780758|r    3 KLSFHIVQVTPFKQNCTFLFDEESLEAVVVDPGGDLDIIKDVIQSRNFHV   52 (216)
Q Consensus         3 ~~~~~~i~v~~~~~N~~li~~~~~~~~ilID~G~~~~~i~~~l~~~~~~i   52 (216)
                      +..+|++|.|-+..|+..++.  .  .++|||..-.+. ++.|++.|+++
T Consensus        49 k~~lhliPSGvl~~~~~~~ig--~--GvVidp~~L~~E-i~~l~~~gv~~   93 (428)
T PRK13784         49 KTFLHLIPSGVLHQHTKCVIG--H--GVVLDPVALDEE-ITRLQAKGIAI   93 (428)
T ss_pred             EEEEEECCCEECCCCCEEEEC--C--CEEECHHHHHHH-HHHHHHCCCCC
T ss_conf             999970682763899738889--9--499979999999-99999619998


No 114
>PRK13811 orotate phosphoribosyltransferase; Provisional
Probab=29.97  E-value=42  Score=14.61  Aligned_cols=10  Identities=40%  Similarity=0.531  Sum_probs=5.2

Q ss_pred             CCCCCCCCHH
Q ss_conf             8521011056
Q gi|254780758|r   61 HVDHVGGAAQ   70 (216)
Q Consensus        61 H~DH~gg~~~   70 (216)
                      ..|.++|.+.
T Consensus        56 ~~d~I~G~a~   65 (170)
T PRK13811         56 DFDAVAGVAV   65 (170)
T ss_pred             CCCEEECCCH
T ss_conf             9889971410


No 115
>TIGR02998 RraA_entero regulator of ribonuclease activity A; InterPro: IPR014339   This entry includes a number of closely related sequences from the gammaproteobacteria. The Escherichia coli member of this family, RraA, has been characterised as a regulator of RNase E  (see IPR004659 from INTERPRO), and its crystal structure has been analysed . E. coli RraA acts as a trans-acting modulator of RNA turnover, binding essential endonuclease RNase E and inhibiting RNA processing . RNase E forms the core of a large RNA-catalysis machine termed the degradosomes. RraA (and RraB) causes remodelling of degradosome composition, which is associated with alterations in RNA decay and global transcript abundance and as such is a bacterial mechanism for the regulation of RNA cleavage .; GO: 0008428 ribonuclease inhibitor activity, 0051252 regulation of RNA metabolic process.
Probab=29.25  E-value=25  Score=15.85  Aligned_cols=33  Identities=24%  Similarity=0.433  Sum_probs=20.8

Q ss_pred             EEEECCCCCCCEE---EEEECCCCEEEEECCCCCHH
Q ss_conf             9997087657169---99988998499983899999
Q gi|254780758|r    7 HIVQVTPFKQNCT---FLFDEESLEAVVVDPGGDLD   39 (216)
Q Consensus         7 ~~i~v~~~~~N~~---li~~~~~~~~ilID~G~~~~   39 (216)
                      ++++|.+|..|--   |+....+++++|||-|+...
T Consensus        35 ~v~TvKCFE~ngLi~ell~~~G~g~VL~iDGGGs~R   70 (161)
T TIGR02998        35 KVVTVKCFEDNGLIAELLEQNGTGRVLLIDGGGSVR   70 (161)
T ss_pred             EEEEEEEECCHHHHHHHHHHCCCCEEEEEECCCCHH
T ss_conf             689998606714789999725893389996895155


No 116
>smart00788 Adenylsucc_synt Adenylosuccinate synthetase. Adenylosuccinate synthetase plays an important role in purine biosynthesis, by catalyzing the GTP-dependent conversion of IMP and aspartic acid to AMP. Adenylosuccinate synthetase has been characterized from various sources ranging from Escherichia coli (gene purA) to vertebrate tissues. In vertebrates, two isozymes are present - one involved in purine biosynthesis and the other in the purine nucleotide cycle. The crystal structure of adenylosuccinate synthetase from E. coli reveals that the dominant structural element of each monomer of the homodimer is a central beta-sheet of 10 strands. The first nine strands of the sheet are mutually parallel with right-handed crossover connections between the strands. The 10th strand is antiparallel with respect to the first nine strands. In addition, the enzyme has two antiparallel beta-sheets, comprised of two strands and three strands each, 11 alpha-helices and two short 3/10-helices. Furt
Probab=28.66  E-value=44  Score=14.48  Aligned_cols=45  Identities=20%  Similarity=0.369  Sum_probs=27.9

Q ss_pred             CCEEEEEECCCCCCCEEEEEECCCCEEEEECCCCCHHHHHHHHHHCCCCE
Q ss_conf             73599997087657169999889984999838999999999999749975
Q gi|254780758|r    3 KLSFHIVQVTPFKQNCTFLFDEESLEAVVVDPGGDLDIIKDVIQSRNFHV   52 (216)
Q Consensus         3 ~~~~~~i~v~~~~~N~~li~~~~~~~~ilID~G~~~~~i~~~l~~~~~~i   52 (216)
                      +..+|++|.|-|..|+..++..    .++|||-.-.+. ++.|++.|+.+
T Consensus        47 k~~lhllPSGi~~~~~~~vIG~----GvVidp~~L~~E-i~~L~~~gi~~   91 (421)
T smart00788       47 KYKLHLLPSGILNPNKKCVIGN----GVVIDPEALFKE-IDQLEAKGVDV   91 (421)
T ss_pred             EEEEEECCCEECCCCCEEEECC----CEEECHHHHHHH-HHHHHHCCCCC
T ss_conf             9999717835137996078779----689859999999-99999628998


No 117
>TIGR01369 CPSaseII_lrg carbamoyl-phosphate synthase, large subunit; InterPro: IPR006275   Carbamoyl phosphate synthase (CPSase) is a heterodimeric enzyme composed of a small and a large subunit (with the exception of CPSase III, see below). CPSase catalyses the synthesis of carbamoyl phosphate from biocarbonate, ATP and glutamine (6.3.5.5 from EC) or ammonia (6.3.4.16 from EC), and represents the first committed step in pyrimidine and arginine biosynthesis in prokaryotes and eukaryotes, and in the urea cycle in most terrestrial vertebrates , . CPSase has three active sites, one in the small subunit and two in the large subunit. The small subunit contains the glutamine binding site and catalyses the hydrolysis of glutamine to glutamate and ammonia. The large subunit has two homologous carboxy phosphate domains, both of which have ATP-binding sites; however, the N-terminal carboxy phosphate domain catalyses the phosphorylation of biocarbonate, while the C-terminal domain catalyses the phosphorylation of the carbamate intermediate . The carboxy phosphate domain found duplicated in the large subunit of CPSase is also present as a single copy in the biotin-dependent enzymes acetyl-CoA carboxylase (6.4.1.2 from EC) (ACC), propionyl-CoA carboxylase (6.4.1.3 from EC) (PCCase), pyruvate carboxylase (6.4.1.1 from EC) (PC) and urea carboxylase (6.3.4.6 from EC).   Most prokaryotes carry one form of CPSase that participates in both arginine and pyrimidine biosynthesis, however certain bacteria can have separate forms. The large subunit in bacterial CPSase has four structural domains: the carboxy phosphate domain 1, the oligomerisation domain, the carbamoyl phosphate domain 2 and the allosteric domain . CPSase heterodimers from Escherichia coli contain two molecular tunnels: an ammonia tunnel and a carbamate tunnel. These inter-domain tunnels connect the three distinct active sites, and function as conduits for the transport of unstable reaction intermediates (ammonia and carbamate) between successive active sites . The catalytic mechanism of CPSase involves the diffusion of carbamate through the interior of the enzyme from the site of synthesis within the N-terminal domain of the large subunit to the site of phosphorylation within the C-terminal domain.   Eukaryotes have two distinct forms of CPSase: a mitochondrial enzyme (CPSase I) that participates in both arginine biosynthesis and the urea cycle; and a cytosolic enzyme (CPSase II) involved in pyrimidine biosynthesis. CPSase II occurs as part of a multi-enzyme complex along with aspartate transcarbamoylase and dihydroorotase; this complex is referred to as the CAD protein . The hepatic expression of CPSase is transcriptionally regulated by glucocorticoids and/or cAMP . There is a third form of the enzyme, CPSase III, found in fish, which uses glutamine as a nitrogen source instead of ammonia . CPSase III is closely related to CPSase I, and is composed of a single polypeptide that may have arisen from gene fusion of the glutaminase and synthetase domains .    This entry represents glutamine-dependent CPSase (6.3.5.5 from EC) from prokaryotes and eukaryotes (CPSase II). ; GO: 0004086 carbamoyl-phosphate synthase activity, 0006807 nitrogen compound metabolic process.
Probab=28.53  E-value=44  Score=14.47  Aligned_cols=48  Identities=17%  Similarity=0.154  Sum_probs=26.1

Q ss_pred             CCCCCCCEEEECCCCEEEEECCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCHHH
Q ss_conf             46666741896478399762012-3310122247210000012343211110000
Q gi|254780758|r  105 NARNASSDRWLQDGDTLLLGTHI-FKVFHCPGHSPGHVIYVNFENNFAHLGDTLF  158 (216)
Q Consensus       105 ~~~~~~~~~~l~~gd~i~lg~~~-~~vi~tPGHt~g~~~~~~~~~~~lftGD~lf  158 (216)
                      ...|+-.+++++++.+++++-.. -+-+..|     .++=+++..+ +++||+..
T Consensus       761 ~~~PVlidky~e~A~E~dVD~v~Dg~~v~i~-----gI~EHiE~AG-VHSGDs~~  809 (1089)
T TIGR01369       761 PEHPVLIDKYLEDAVEIDVDAVSDGEEVLIP-----GIMEHIEEAG-VHSGDSTC  809 (1089)
T ss_pred             CCCCEEEEEECCCCEEEEEEEEEECCEEEEE-----EHHHHHHHCC-CCCCCHHH
T ss_conf             8997698885288889999899728848996-----2312342136-76130531


No 118
>PRK11148 cyclic 3',5'-adenosine monophosphate phosphodiesterase; Provisional
Probab=28.50  E-value=44  Score=14.46  Aligned_cols=50  Identities=14%  Similarity=0.091  Sum_probs=29.1

Q ss_pred             ECCCCCHHHHHHHHHHCCCCEEEEEECCCCCCCCCC------CHHHHHHHCCCEEEC
Q ss_conf             838999999999999749975299986988521011------056788607955405
Q gi|254780758|r   32 VDPGGDLDIIKDVIQSRNFHVKQIWITHGHVDHVGG------AAQLKEDLSLTIIGP   82 (216)
Q Consensus        32 ID~G~~~~~i~~~l~~~~~~i~~Ii~TH~H~DH~gg------~~~l~~~~~~~i~~~   82 (216)
                      +||-...+.+++.+++...+++.|++| +..=+-|.      +..+.+.+++|+++.
T Consensus        36 ~dt~~~l~~vl~~i~~~~~~~D~viiT-GDLs~dgs~esY~~l~~~L~~l~~P~~~l   91 (275)
T PRK11148         36 VNTWESYQAVLEAIRAEQHEFDLIVAT-GDLAQDHSAEAYQHFAEGIAPLRKPCVWL   91 (275)
T ss_pred             CCHHHHHHHHHHHHHHCCCCCCEEEEC-CCCCCCCCHHHHHHHHHHHHHCCCCEEEE
T ss_conf             698999999999998459998899976-40258999999999999997269998995


No 119
>PRK13787 adenylosuccinate synthetase; Provisional
Probab=28.28  E-value=43  Score=14.55  Aligned_cols=45  Identities=27%  Similarity=0.302  Sum_probs=27.4

Q ss_pred             CCEEEEEECCCCCCCEEEEEECCCCEEEEECCCCCHHHHHHHHHHCCCCE
Q ss_conf             73599997087657169999889984999838999999999999749975
Q gi|254780758|r    3 KLSFHIVQVTPFKQNCTFLFDEESLEAVVVDPGGDLDIIKDVIQSRNFHV   52 (216)
Q Consensus         3 ~~~~~~i~v~~~~~N~~li~~~~~~~~ilID~G~~~~~i~~~l~~~~~~i   52 (216)
                      +..+|++|.|.+..++.-++..  +  ++|||..-.+. ++.|++.|+++
T Consensus        49 k~~lhllPSGil~~~~~~vIG~--G--vVvdp~~L~~E-i~~L~~~g~~~   93 (423)
T PRK13787         49 KYVFHLVPSGVIYDQTICVIGN--G--VVLDPLFFIEE-CDRLQKEGFPV   93 (423)
T ss_pred             EEEEECCCCEECCCCCEEEECC--C--EEECHHHHHHH-HHHHHHCCCCC
T ss_conf             9999527717607996489899--8--99969999999-99986365056


No 120
>TIGR02439 catechol_proteo catechol 1,2-dioxygenase; InterPro: IPR012801    Members of this family known so far are catechol 1,2-dioxygenases of the proteobacteria. They are distinct from catechol 1,2-dioxygenases and chlorocatechol 1,2-dioxygenases of the actinobacteria, which are quite similar to each other and resolved by separate entries. This enzyme catalyses intradiol cleavage in which catechol + O2 becomes cis,cis-muconate. Catechol is an intermediate in the catabolism of many different aromatic compounds, as is the alternative intermediate protocatechuate. In Acinetobacter lwoffii, two isozymes are present with abilities, differing somewhat, to act on catechol analogues 3-methylcatechol, 4-methylcatechol, 4-methoxycatechol, and 4-chlorocatechol.; GO: 0005506 iron ion binding, 0018576 catechol 12-dioxygenase activity, 0019614 catechol catabolic process.
Probab=27.90  E-value=45  Score=14.40  Aligned_cols=74  Identities=19%  Similarity=0.192  Sum_probs=49.2

Q ss_pred             EECCCCCCCCCCCCCCCCCCCCCCC--C------CCCCCCC-------HHHHCCCCCCCCCCCCHHHHHHHHHHHHHCCC
Q ss_conf             6201233101222472100000123--4------3211110-------00001356634679899999999999985199
Q gi|254780758|r  123 LGTHIFKVFHCPGHSPGHVIYVNFE--N------NFAHLGD-------TLFRSSIGRTDILHGDYQQLINSINNKILPLG  187 (216)
Q Consensus       123 lg~~~~~vi~tPGHt~g~~~~~~~~--~------~~lftGD-------~lf~~~~G~~d~~~~d~~~~~~sl~~~l~~l~  187 (216)
                      +.+-.|+++|+-  |.|..|||.+.  +      +.+.|++       +|++-++| + -|.|-.+|+++.| -|=-..|
T Consensus       144 i~gA~VE~WHAN--~~G~YS~FDksG~Qs~fNLRR~I~TD~~G~Y~ars~~P~GYG-c-pP~G~TQqlLn~L-GRHG~RP  218 (288)
T TIGR02439       144 IAGAKVEVWHAN--SKGNYSHFDKSGEQSEFNLRRTIITDANGKYRARSIVPSGYG-C-PPQGPTQQLLNLL-GRHGNRP  218 (288)
T ss_pred             CCCCEEEEEECC--CCCCCCCCCCCCCCCCCCCCCCEECCCCCEEEEEEEECCCCC-C-CCCCCHHHHHHHC-CCCCCCC
T ss_conf             478766577517--888711227888879745653055179971799987001356-7-9687079998541-7888898


Q ss_pred             CCEEE---EECCCCCCC
Q ss_conf             97899---848879888
Q gi|254780758|r  188 DEISF---VCGHGPNST  201 (216)
Q Consensus       188 ~~~~v---~PgHG~~tt  201 (216)
                      .-+-.   -|||-.-||
T Consensus       219 AHvHFFvSAPG~rkLTT  235 (288)
T TIGR02439       219 AHVHFFVSAPGYRKLTT  235 (288)
T ss_pred             CCEEEEECCCCCCCCCC
T ss_conf             60687565874331100


No 121
>TIGR00505 ribA GTP cyclohydrolase II; InterPro: IPR000926   GTP cyclohydrolase II catalyses the first committed step in the biosynthesis of riboflavin. The enzyme converts GTP and water to formate, 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)- pyrimidine and pyrophosphate, and requires magnesium as a cofactor. It is sometimes found as a bifunctional enzyme with 3,4-dihydroxy-2-butanone 4-phosphate synthase (DHBP_synthase) IPR000422 from INTERPRO. ; GO: 0003935 GTP cyclohydrolase II activity, 0009231 riboflavin biosynthetic process.
Probab=27.86  E-value=45  Score=14.40  Aligned_cols=18  Identities=22%  Similarity=0.193  Sum_probs=9.6

Q ss_pred             CCCCCHHHHHHHHHHCCC
Q ss_conf             389999999999997499
Q gi|254780758|r   33 DPGGDLDIIKDVIQSRNF   50 (216)
Q Consensus        33 D~G~~~~~i~~~l~~~~~   50 (216)
                      |||...+..++.|.+.|.
T Consensus        76 DCG~qL~~AL~~I~~eG~   93 (227)
T TIGR00505        76 DCGEQLERALKQIAEEGR   93 (227)
T ss_pred             CHHHHHHHHHHHHHHCCC
T ss_conf             716899999999875288


No 122
>TIGR01738 bioH putative pimeloyl-BioC--CoA transferase BioH; InterPro: IPR010076   This CoA-binding enzyme is required for the production of pimeloyl-coenzyme A, the substrate of the BioF protein early in the biosynthesis of biotin. Its exact function is unknown. This enzyme belongs to the alpha/beta hydrolase fold family (IPR000073 from INTERPRO). Members of this family are restricted to the proteobacteria.; GO: 0009102 biotin biosynthetic process.
Probab=27.64  E-value=46  Score=14.37  Aligned_cols=29  Identities=14%  Similarity=0.398  Sum_probs=12.8

Q ss_pred             HHHHHHHHHHHHHC--CCCCEEEE--ECCCCCCCH
Q ss_conf             99999999999851--99978998--488798888
Q gi|254780758|r  172 YQQLINSINNKILP--LGDEISFV--CGHGPNSTI  202 (216)
Q Consensus       172 ~~~~~~sl~~~l~~--l~~~~~v~--PgHG~~tt~  202 (216)
                      |..+.+.+ +++.+  -.. ..++  .+|=|.-|=
T Consensus       204 P~~~~~~l-~~l~psG~se-~~~~~~aaHAPFlSh  236 (248)
T TIGR01738       204 PAKVIEAL-DRLAPSGQSE-LLVFEKAAHAPFLSH  236 (248)
T ss_pred             CHHHHHHH-HHHCCCCCCE-EEEEECCCCCCCCCC
T ss_conf             17899999-9746789831-212406688860100


No 123
>TIGR01394 TypA_BipA GTP-binding protein TypA; InterPro: IPR006298   This bacterial (and Arabidopsis) protein, termed TypA or BipA, is a GTP-binding protein. It is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown.; GO: 0005525 GTP binding, 0005622 intracellular.
Probab=27.34  E-value=30  Score=15.40  Aligned_cols=36  Identities=14%  Similarity=0.182  Sum_probs=16.9

Q ss_pred             EEEECCC--CCHH---HHHHHHHHCCCCEEEEEE----CCCCCCCC
Q ss_conf             9998389--9999---999999974997529998----69885210
Q gi|254780758|r   29 AVVVDPG--GDLD---IIKDVIQSRNFHVKQIWI----THGHVDHV   65 (216)
Q Consensus        29 ~ilID~G--~~~~---~i~~~l~~~~~~i~~Ii~----TH~H~DH~   65 (216)
                      .+|||+.  +=++   .+.++| +.|++|-=|++    =++-++-+
T Consensus        98 lLlVDA~EGPMPQTrFVL~KAL-~~gLkPIVViNKiDrp~ARP~eV  142 (609)
T TIGR01394        98 LLLVDASEGPMPQTRFVLKKAL-ELGLKPIVVINKIDRPSARPDEV  142 (609)
T ss_pred             EEEEECCCCCCCCCHHHHHHHH-HCCCCEEEEECCCCCCCCCHHHH
T ss_conf             9998578889885347899999-56893699971347887883788


No 124
>PRK00143 trmU tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Reviewed
Probab=27.19  E-value=47  Score=14.33  Aligned_cols=101  Identities=10%  Similarity=0.049  Sum_probs=55.5

Q ss_pred             CCCHHHHHHHHHHCCCCEEEEEECCCCCCC----------CCCCHHHHHHHCCCEEECCHHHHHHHCCHHHHHHHHHCC-
Q ss_conf             999999999999749975299986988521----------011056788607955405843898840123444432002-
Q gi|254780758|r   35 GGDLDIIKDVIQSRNFHVKQIWITHGHVDH----------VGGAAQLKEDLSLTIIGPHKDDAAMMGKVDEQARLLSIR-  103 (216)
Q Consensus        35 G~~~~~i~~~l~~~~~~i~~Ii~TH~H~DH----------~gg~~~l~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~-  103 (216)
                      |-|+......|++.|..+..|.+--+..+.          +.-+..+.+..+.+.+...-.+.++..-.+.+...+... 
T Consensus        14 GVDSsVaA~LL~~~Gy~V~Gv~m~~w~~~~~~~~C~~~~d~~dA~~va~~LgIp~~v~d~~~~f~~~Vi~~f~~~Y~~G~   93 (355)
T PRK00143         14 GVDSSVAAALLKEQGYDVIGLFMKLWDDDDGSGGCCAEEDIADARAVADKLGIPLYVVDFAKEFWDNVFDYFLDEYKAGR   93 (355)
T ss_pred             CHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEECHHHHHHHHHHHHHHHHHHCCC
T ss_conf             89999999999977995899999887688777899857889999999998698579968699876788999999997699


Q ss_pred             CCCCCCCCEEEECCCCEEEE-ECCCCCCCCCCCC
Q ss_conf             34666674189647839976-2012331012224
Q gi|254780758|r  104 MNARNASSDRWLQDGDTLLL-GTHIFKVFHCPGH  136 (216)
Q Consensus       104 ~~~~~~~~~~~l~~gd~i~l-g~~~~~vi~tPGH  136 (216)
                      .+.+.+..++.++-+.-++. -......+.| ||
T Consensus        94 TPNPcv~CN~~IKFg~l~~~A~~lgad~iAT-GH  126 (355)
T PRK00143         94 TPNPCVLCNKEIKFKAFLDYALELGADYIAT-GH  126 (355)
T ss_pred             CCCCCHHCCCCCCHHHHHHHHHHCCCCEECC-CC
T ss_conf             9997334087233999999998739984233-52


No 125
>TIGR01935 NOT-MenG RraA family; InterPro: IPR010203   This entry includes a number of closely related sequences bacteria and plants. The Escherichia coli member of this family has been characterised as a regulator of RNase E  (see IPR004659 from INTERPRO), and its crystal structure has been analysed . E. coli RraA acts as a trans-acting modulator of RNA turnover, binding essential endonuclease RNase E and inhibiting RNA processing . RNase E forms the core of a large RNA-catalysis machine termed the degradosomes. RraA (and RraB) causes remodelling of degradosome composition, which is associated with alterations in RNA decay and global transcript abundance and as such is a bacterial mechanism for the regulation of RNA cleavage .; GO: 0008428 ribonuclease inhibitor activity, 0051252 regulation of RNA metabolic process.
Probab=27.18  E-value=24  Score=15.97  Aligned_cols=44  Identities=27%  Similarity=0.422  Sum_probs=26.0

Q ss_pred             EEECCCCCCCEE---EEEECCCCEEEEECCCCCHH------HHHHHHHHCCCC
Q ss_conf             997087657169---99988998499983899999------999999974997
Q gi|254780758|r    8 IVQVTPFKQNCT---FLFDEESLEAVVVDPGGDLD------IIKDVIQSRNFH   51 (216)
Q Consensus         8 ~i~v~~~~~N~~---li~~~~~~~~ilID~G~~~~------~i~~~l~~~~~~   51 (216)
                      +++|..|..|+=   ++..+..+++++||-|+...      .+-+...++|+.
T Consensus        37 ivTvkcFEDNslvr~~L~qpG~GrVLVVDGgGSlr~ALlGd~lA~~A~~NGWe   89 (155)
T TIGR01935        37 IVTVKCFEDNSLVREVLEQPGAGRVLVVDGGGSLRRALLGDNLAELAEENGWE   89 (155)
T ss_pred             CEEEEEEECCHHHHHHHHCCCCCCEEEEECCCHHHHHCCCCHHHHHHHHCCCC
T ss_conf             03899970473688998259997279995885010210167567886505951


No 126
>cd04168 TetM_like Tet(M)-like subfamily.  Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria.  Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site.  This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative.  Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G.  EF-G and Tet(M) compete for binding on the ribosomes.  Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind.  Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity.  These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.
Probab=26.60  E-value=48  Score=14.26  Aligned_cols=10  Identities=20%  Similarity=0.169  Sum_probs=3.9

Q ss_pred             HHHHHHHHHH
Q ss_conf             9999999999
Q gi|254780758|r  172 YQQLINSINN  181 (216)
Q Consensus       172 ~~~~~~sl~~  181 (216)
                      ..++.+.|++
T Consensus       193 ~eel~~~L~~  202 (237)
T cd04168         193 ELELDNELSA  202 (237)
T ss_pred             HHHHHHHHHH
T ss_conf             8899999999


No 127
>COG0075 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]
Probab=25.58  E-value=38  Score=14.82  Aligned_cols=34  Identities=18%  Similarity=0.354  Sum_probs=18.5

Q ss_pred             EEEEECCCC----CHHHHHHHHHHCCCCEEEEEECCCCC
Q ss_conf             499983899----99999999997499752999869885
Q gi|254780758|r   28 EAVVVDPGG----DLDIIKDVIQSRNFHVKQIWITHGHV   62 (216)
Q Consensus        28 ~~ilID~G~----~~~~i~~~l~~~~~~i~~Ii~TH~H~   62 (216)
                      ++.++++.|    +++.+.+.|++ +-+++.|.+||..-
T Consensus       105 ~v~~~~~~wg~~v~p~~v~~~L~~-~~~~~~V~~vH~ET  142 (383)
T COG0075         105 EVVVLEVEWGEAVDPEEVEEALDK-DPDIKAVAVVHNET  142 (383)
T ss_pred             CEEEEECCCCCCCCHHHHHHHHHC-CCCCCEEEEEECCC
T ss_conf             669984788887999999999852-89950899981157


No 128
>TIGR01452 PGP_euk phosphoglycolate/pyridoxal phosphate phosphatase family; InterPro: IPR006349   This family of sequences represent 2-phosphoglycolate phosphatase which is limited to the eukaryotic lineage. PGP is an essential enzyme in the glycolate salvage pathway in higher organisms (photorespiration in plants). Phosphoglycolate results from the oxidase activity of RubisCO in the Calvin cycle when concentrations of carbon dioxide are low relative to oxygen. In mammals, PGP is found in many tissues, notably in red blood cells where P-glycolate is and important activator of the hydrolysis of 2,3-bisphosphoglycerate, a major modifier of the oxygen affinity of hemoglobin. The PGPase enzyme described here is a member of the Haloacid dehalogenase superfamily of hydrolase enzymes. Unlike the bacterial PGP equivalog (IPR006346 from INTERPRO), which is a member of class (subfamily) I, this enzyme is a member of class (subfamily) II . These two enzymes have almost certainly arisen from convergent evolution (although these two ancestors may themselves have diverged from a more distant HAD superfamily progenitor). One of the sequences in the group comes from Chlamydomonas reinhardtii, a photosynthetic alga. The enzyme has been purified and characterised and these data are fully consistent with the assignment of function as a PGPase involved in photorespiration . Another, from Homo sapiens, is supported as a member of the family indirectly. Biochemical characterization of partially purified PGP's from various tissues including red blood cells  have been performed while one gene for PGP has been localized to chromosome 16p13.3 . The Homo sapiens sequence maps to chromosome 22. There is indeed a related gene on chromosome 16 (and it is expressed, since EST's are found) which shows 46 0dentity and 59603b08ositives by BLAST2 (E=1e-66). Presumably, these two genes are isoforms and have the same catalytic function while being expressed in different tissues and may be differently regulated. The sequence from Caenorhabditis elegans, is only supported by sequence similarity. This family is closely related to a family of bacterial sequences including the Escherichia coli NagD and Bacillus subtilus AraL genes which are characterised by the ability to hydrolyze para-nitrophenylphosphate (pNPPases or NPPases). The Chlamydomonas reinhardtii PGPase does not catalyze this reaction and so presumably these two groups have different functions and substrate specificities. Many of the genes in this family have been annotated as pNPPases due to this association.; GO: 0016791 phosphoric monoester hydrolase activity, 0008152 metabolic process.
Probab=25.31  E-value=51  Score=14.12  Aligned_cols=19  Identities=16%  Similarity=0.247  Sum_probs=14.9

Q ss_pred             HHHHHHHHHHCCCCEEEEEEC
Q ss_conf             999999999749975299986
Q gi|254780758|r   38 LDIIKDVIQSRNFHVKQIWIT   58 (216)
Q Consensus        38 ~~~i~~~l~~~~~~i~~Ii~T   58 (216)
                      .+++++.|.+.|+++  +++|
T Consensus        23 ~Pelld~L~~~gK~~--~fvt   41 (288)
T TIGR01452        23 APELLDRLAKAGKKV--LFVT   41 (288)
T ss_pred             CHHHHHHHHHCCCEE--EEEE
T ss_conf             727899997459879--9981


No 129
>COG0856 Orotate phosphoribosyltransferase homologs [Nucleotide transport and metabolism]
Probab=24.99  E-value=51  Score=14.09  Aligned_cols=10  Identities=10%  Similarity=0.255  Sum_probs=4.2

Q ss_pred             CCCCCCCCHH
Q ss_conf             4321111000
Q gi|254780758|r  148 NNFAHLGDTL  157 (216)
Q Consensus       148 ~~~lftGD~l  157 (216)
                      .++++.-|.+
T Consensus       142 K~cvIVDDvi  151 (203)
T COG0856         142 KRCVIVDDVI  151 (203)
T ss_pred             CEEEEEECCC
T ss_conf             5489983222


No 130
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=24.83  E-value=52  Score=14.07  Aligned_cols=10  Identities=20%  Similarity=0.311  Sum_probs=4.6

Q ss_pred             EEECCCCCCC
Q ss_conf             9986988521
Q gi|254780758|r   55 IWITHGHVDH   64 (216)
Q Consensus        55 Ii~TH~H~DH   64 (216)
                      |++-|+|+|-
T Consensus       447 vVVDHH~Pde  456 (715)
T COG1107         447 VVVDHHYPDE  456 (715)
T ss_pred             EEECCCCCCC
T ss_conf             9971788960


No 131
>PRK00090 bioD dithiobiotin synthetase; Reviewed
Probab=24.33  E-value=53  Score=14.01  Aligned_cols=22  Identities=5%  Similarity=0.143  Sum_probs=13.4

Q ss_pred             HHHHHHHHHCCCCEEEE--EECCC
Q ss_conf             99999999749975299--98698
Q gi|254780758|r   39 DIIKDVIQSRNFHVKQI--WITHG   60 (216)
Q Consensus        39 ~~i~~~l~~~~~~i~~I--i~TH~   60 (216)
                      -.+.+.++++|.++.+.  +.|..
T Consensus        18 ~~L~~~l~~~G~~v~~~KPv~tG~   41 (223)
T PRK00090         18 AALAQALREQGYRVAGYKPVQSGC   41 (223)
T ss_pred             HHHHHHHHHCCCCEEEECEEEECC
T ss_conf             999999997899489975120489


No 132
>pfam03054 tRNA_Me_trans tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs.
Probab=23.23  E-value=56  Score=13.89  Aligned_cols=101  Identities=11%  Similarity=0.105  Sum_probs=53.9

Q ss_pred             CCCHHHHHHHHHHCCCCEEEEEECCCCCCCC-----------CCCHHHHHHHCCCEEECCHHHHHHHCCHHHHHHHHHCC
Q ss_conf             9999999999997499752999869885210-----------11056788607955405843898840123444432002
Q gi|254780758|r   35 GGDLDIIKDVIQSRNFHVKQIWITHGHVDHV-----------GGAAQLKEDLSLTIIGPHKDDAAMMGKVDEQARLLSIR  103 (216)
Q Consensus        35 G~~~~~i~~~l~~~~~~i~~Ii~TH~H~DH~-----------gg~~~l~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~  103 (216)
                      |-|+......|++.|..+..+.+-....+-.           --+..+.++.+.+.+...-.+.++..-.+.....+...
T Consensus        10 GVDSsVaA~LL~~~Gy~V~Gv~m~~w~~~~~~~~~C~~~~d~~dA~~va~~LgIp~~v~d~~~~f~~~Vi~~fv~~Y~~G   89 (354)
T pfam03054        10 GVDSSVAAYLLKEQGYEVIGVFMKNWDEEDEFGHGCCSEEDLADAQRVCEQLGIPLYVVNFEKEYWEKVFEPFLDEYKNG   89 (354)
T ss_pred             CHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEECHHHHHHHHHHHHHHHHHHCC
T ss_conf             89999999999977996399999956688766788998899999999999869978997879987589999999999769


Q ss_pred             -CCCCCCCCEEEECCCCEEEEE--CCCCCCCCCCCC
Q ss_conf             -346666741896478399762--012331012224
Q gi|254780758|r  104 -MNARNASSDRWLQDGDTLLLG--THIFKVFHCPGH  136 (216)
Q Consensus       104 -~~~~~~~~~~~l~~gd~i~lg--~~~~~vi~tPGH  136 (216)
                       .+.+.+..++.++-+.-++..  ......+.| ||
T Consensus        90 ~TPNPcv~CN~~IKFg~l~~~A~~~lGad~iAT-GH  124 (354)
T pfam03054        90 RTPNPDILCNREIKFGALLDYAKQVLGADYLAT-GH  124 (354)
T ss_pred             CCCCCCHHHCCCCCHHHHHHHHHHHCCCCCCCC-CC
T ss_conf             999841441896438999999998669981044-74


No 133
>COG0311 PDX2 Predicted glutamine amidotransferase involved in pyridoxine biosynthesis [Coenzyme metabolism]
Probab=23.18  E-value=35  Score=15.07  Aligned_cols=20  Identities=20%  Similarity=0.517  Sum_probs=11.4

Q ss_pred             EECCCCCHHHHHHHHHHCCC
Q ss_conf             98389999999999997499
Q gi|254780758|r   31 VVDPGGDLDIIKDVIQSRNF   50 (216)
Q Consensus        31 lID~G~~~~~i~~~l~~~~~   50 (216)
                      ||=||+++..+-..+++.|+
T Consensus        42 LIiPGGESTTi~rL~~~~gl   61 (194)
T COG0311          42 LIIPGGESTTIGRLLKRYGL   61 (194)
T ss_pred             EEECCCCHHHHHHHHHHCCC
T ss_conf             89549507899999987384


No 134
>TIGR02191 RNaseIII ribonuclease III; InterPro: IPR011907   This family consists almost exclusively of bacterial examples of ribonuclease III (RNase III). This ubiquitous enzyme specifically cleaves double-stranded rRNA and is found in all bacteria and eukaryotes . In bacteria its main role is the processing of pre-rRNAs, where the large precursor ribosomal RNA molecules are at cleaved at specific sites to produce the immediate precursors of the functional molecules. RNase III also functions in the maturation and degradation of mRNAs, and the maturaton of tRNAs. In some organisms (eg. E. coli) cells are viable without this enzyme, though they are impeded in growth, but in others (eg. B. subtilis and M. genitalium) this enzyme is essential.   The bacterial RNase III enzymes so far characterised are homodimers with a molecular mass of ~50 kDa , . The endonuclease domain is located within the N-terminal two-thirds of the protein, containing several alpha helices, but no beta strands. The double-stranded RNA binding domain is found at the C-terminal third of the protein, forming the alpha-beta(3)-alpha fold common to dsRNA-binding proteins. A signature box of 11 conserved amino acids found in the N-terminal region of RNase III may contain the active site, though this has not been proven.; GO: 0003723 RNA binding, 0004525 ribonuclease III activity, 0016075 rRNA catabolic process.
Probab=22.83  E-value=34  Score=15.11  Aligned_cols=12  Identities=42%  Similarity=0.770  Sum_probs=5.1

Q ss_pred             CCCCCCCHHHHH
Q ss_conf             887988889998
Q gi|254780758|r  195 GHGPNSTIGRER  206 (216)
Q Consensus       195 gHG~~tt~~~e~  206 (216)
                      |+|..-|-|.+|
T Consensus        98 G~GE~~~gGr~r  109 (228)
T TIGR02191        98 GKGEEKSGGRRR  109 (228)
T ss_pred             CHHHHHCCCCCC
T ss_conf             502543265442


No 135
>TIGR02855 spore_yabG sporulation peptidase YabG; InterPro: IPR008764   Peptidases are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry. Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins.   Families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule.     The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported.   This is a group of peptidases belong to MEROPS peptidase family U57 (clan U-). The type example is the YabG protein of Bacillus subtilis. This is a protease involved in the synthesis and maturation of the spore coat proteins SpoIVA and YrbA of Bacillus subtilis ..
Probab=22.81  E-value=57  Score=13.84  Aligned_cols=27  Identities=15%  Similarity=0.302  Sum_probs=18.2

Q ss_pred             HHHHHHHHHHHHCCCCCEEEEECCCCC
Q ss_conf             999999999985199978998488798
Q gi|254780758|r  173 QQLINSINNKILPLGDEISFVCGHGPN  199 (216)
Q Consensus       173 ~~~~~sl~~~l~~l~~~~~v~PgHG~~  199 (216)
                      .+|=+.+.+.+....||.+|+.||+.-
T Consensus       148 ~emPe~v~~L~~~~~PDIlViTGHDa~  174 (292)
T TIGR02855       148 KEMPEKVLDLIEEVRPDILVITGHDAY  174 (292)
T ss_pred             CCCCHHHHHHHHHHCCCEEEEECCCCE
T ss_conf             218088999997309978999466630


No 136
>PRK13783 adenylosuccinate synthetase; Provisional
Probab=22.47  E-value=58  Score=13.80  Aligned_cols=44  Identities=18%  Similarity=0.257  Sum_probs=26.9

Q ss_pred             CCEEEEEECCCCCCCEEEEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
Q ss_conf             7359999708765716999988998499983899999999999974997
Q gi|254780758|r    3 KLSFHIVQVTPFKQNCTFLFDEESLEAVVVDPGGDLDIIKDVIQSRNFH   51 (216)
Q Consensus         3 ~~~~~~i~v~~~~~N~~li~~~~~~~~ilID~G~~~~~i~~~l~~~~~~   51 (216)
                      +..+|++|.|-+..++..++..  +  ++|||-.-.+.+ +.|++.+..
T Consensus        48 k~~lhliPSGi~~~~~~~vIG~--G--vVidp~~L~~Ei-~~L~~~g~~   91 (404)
T PRK13783         48 KVVHHLLPSIDFKKNSGAFIGN--G--VVLDLEVLVEEL-EELKAKFPD   91 (404)
T ss_pred             EEEEEECCCCCCCCCCEEEECC--C--EEECHHHHHHHH-HHHHHHCCC
T ss_conf             9999607855358995079889--7--899699999999-999973899


No 137
>cd01449 TST_Repeat_2 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue.
Probab=22.36  E-value=58  Score=13.78  Aligned_cols=55  Identities=20%  Similarity=0.230  Sum_probs=24.7

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCC
Q ss_conf             222472100000123432111100000135663467989999999999998519997899848879888
Q gi|254780758|r  133 CPGHSPGHVIYVNFENNFAHLGDTLFRSSIGRTDILHGDYQQLINSINNKILPLGDEISFVCGHGPNST  201 (216)
Q Consensus       133 tPGHt~g~~~~~~~~~~~lftGD~lf~~~~G~~d~~~~d~~~~~~sl~~~l~~l~~~~~v~PgHG~~tt  201 (216)
                      -+||-||++.+-..+   ++..|..|+           +..++.+-+.+.-......+++|.+-|-.++
T Consensus        38 r~GhIpgAinip~~~---~~~~~~~~~-----------~~~~l~~~~~~~gi~~~~~iV~yC~sG~rA~   92 (118)
T cd01449          38 RSGHIPGAVNIPWTS---LLDEDGTFK-----------SPEELRALFAALGITPDKPVIVYCGSGVTAC   92 (118)
T ss_pred             CCCCCCCCEECCCCC---CCCCCCCCC-----------CHHHHHHHHHHHCCCCCCCEEEECCCCHHHH
T ss_conf             188989953547425---313577658-----------9999999987608998886777479988999


No 138
>COG4822 CbiK Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]
Probab=22.12  E-value=59  Score=13.75  Aligned_cols=10  Identities=0%  Similarity=0.315  Sum_probs=3.7

Q ss_pred             HHHHHHHCCC
Q ss_conf             9999997499
Q gi|254780758|r   41 IKDVIQSRNF   50 (216)
Q Consensus        41 i~~~l~~~~~   50 (216)
                      .++.+++.|.
T Consensus        65 aL~klk~~gy   74 (265)
T COG4822          65 ALNKLKDQGY   74 (265)
T ss_pred             HHHHHHHCCC
T ss_conf             9999997151


No 139
>COG2241 CobL Precorrin-6B methylase 1 [Coenzyme metabolism]
Probab=21.92  E-value=59  Score=13.73  Aligned_cols=46  Identities=15%  Similarity=0.229  Sum_probs=24.6

Q ss_pred             EEECCCCCHHHHHHHHHHC-CCCEEEEEECCCCCCCCCCCHHHHHHHCC
Q ss_conf             9983899999999999974-99752999869885210110567886079
Q gi|254780758|r   30 VVVDPGGDLDIIKDVIQSR-NFHVKQIWITHGHVDHVGGAAQLKEDLSL   77 (216)
Q Consensus        30 ilID~G~~~~~i~~~l~~~-~~~i~~Ii~TH~H~DH~gg~~~l~~~~~~   77 (216)
                      .......+.+.+.+.+++. +.++  +++.++.+=..|--..++..+.+
T Consensus        48 ~~~~~~~~~~~l~~i~~~~~g~~v--~VLasGDP~f~G~g~~l~~~~~~   94 (210)
T COG2241          48 IIWPYPFDAESLEEILAERKGRDV--VVLASGDPLFSGVGRLLRRKFSC   94 (210)
T ss_pred             EEECCCCCHHHHHHHHHHHCCCCE--EEEECCCCCHHHHHHHHHHHCCC
T ss_conf             982465416899999987379976--99963896035368999986476


No 140
>pfam08759 DUF1792 Domain of unknown function (DUF1792). This putative domain is probably missannotated as a glycosyl transferase 8 family member. This domain is found at the C-terminus of proteins that also contain the glycosyl transferase domain at the N-terminus.
Probab=21.73  E-value=60  Score=13.71  Aligned_cols=53  Identities=19%  Similarity=0.241  Sum_probs=33.6

Q ss_pred             CCCCCHHHHC--CCCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHH
Q ss_conf             1111000001--3566346798999999999999851999789984887988889
Q gi|254780758|r  151 AHLGDTLFRS--SIGRTDILHGDYQQLINSINNKILPLGDEISFVCGHGPNSTIG  203 (216)
Q Consensus       151 lftGD~lf~~--~~G~~d~~~~d~~~~~~sl~~~l~~l~~~~~v~PgHG~~tt~~  203 (216)
                      +-.|--||.+  |+-|.--|..|+-+-++.|.+.+.....+.+|+=.=||+.||-
T Consensus       128 ~GvGNdLF~naksI~rIicPsknAy~~yd~I~e~i~~~~k~~LiLlaLGPTAkVL  182 (225)
T pfam08759       128 SGVGNDLFDNAKSIKRIICPSKNAYSKYDEIEEAIRKNAKDRLILLALGPTAKVL  182 (225)
T ss_pred             CCCCHHHHHCCCEEEEEECCCHHHHHHHHHHHHHHHHHCCCEEEEEECCCCHHHH
T ss_conf             4677155636640788957877479999999999998467879998608613654


No 141
>pfam02542 YgbB YgbB family. The ygbB protein is a putative enzyme of deoxy-xylulose pathway (terpenoid biosynthesis).
Probab=21.30  E-value=54  Score=13.94  Aligned_cols=31  Identities=29%  Similarity=0.383  Sum_probs=22.2

Q ss_pred             ECCCCEEEEECCCCCCC-CCCCCCCCCCCCCC
Q ss_conf             64783997620123310-12224721000001
Q gi|254780758|r  115 LQDGDTLLLGTHIFKVF-HCPGHSPGHVIYVN  145 (216)
Q Consensus       115 l~~gd~i~lg~~~~~vi-~tPGHt~g~~~~~~  145 (216)
                      +.++..+.+||..++-- ..-|||.|++.+.-
T Consensus        12 ~~~~~~l~LgGv~i~~~~~l~gHSDGDv~~HA   43 (157)
T pfam02542        12 FVEGRPLILGGVEIPHEKGLLGHSDGDVLLHA   43 (157)
T ss_pred             ECCCCCEEEEEEEECCCCCCCCCCHHHHHHHH
T ss_conf             65999789976970798886626728999999


No 142
>TIGR02017 hutG_amidohyd N-formylglutamate amidohydrolase; InterPro: IPR010247   In some species, histidine is converted to via urocanate and then formimino-L-glutamate to glutamate in four steps, where the fourth step is conversion of N-formimino-L-glutamate to L-glutamate and formamide. In others, that pathway from formimino-L-glutamate may differ, with the next enzyme being formiminoglutamate hydrolase (HutF) yielding N-formyl-L-glutamate. This entry represents the enzyme N-formylglutamate deformylase, also called N-formylglutamate amidohydrolase, which then produces glutamate..
Probab=20.54  E-value=63  Score=13.56  Aligned_cols=53  Identities=19%  Similarity=0.256  Sum_probs=26.2

Q ss_pred             CC-CCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCC-------------HHHHHHHHHHHHHCCCCCEEEEECCC
Q ss_conf             22-472100000123432111100000135663467989-------------99999999999851999789984887
Q gi|254780758|r  134 PG-HSPGHVIYVNFENNFAHLGDTLFRSSIGRTDILHGD-------------YQQLINSINNKILPLGDEISFVCGHG  197 (216)
Q Consensus       134 PG-Ht~g~~~~~~~~~~~lftGD~lf~~~~G~~d~~~~d-------------~~~~~~sl~~~l~~l~~~~~v~PgHG  197 (216)
                      || +|-+    ++|..  .|=|+.||+.|-+    |.++             ++++.+-| +||+++-...++|=+|-
T Consensus        82 pGQ~TT~----L~P~T--~FDG~ply~dG~~----P~~~ei~~r~~~~f~PYH~aL~~Ei-~RLra~hg~~vLyDaHS  148 (269)
T TIGR02017        82 PGQATTG----LCPET--TFDGEPLYRDGEA----PSPAEIDSRLTQYFRPYHAALRAEI-ERLRAQHGYAVLYDAHS  148 (269)
T ss_pred             CCCCCCC----CCCCC--CCCCCHHHHCCCC----CCHHHHHHHHHHHCCCHHHHHHHHH-HHHHHHCCCEEEECCCC
T ss_conf             9766665----67675--6777667644789----7988999998862422689999999-99884358079871642


No 143
>PRK12312 infB translation initiation factor IF-2; Provisional
Probab=20.50  E-value=44  Score=14.48  Aligned_cols=29  Identities=17%  Similarity=0.316  Sum_probs=15.3

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHCCCCEEEE
Q ss_conf             9984999838999999999999749975299
Q gi|254780758|r   25 ESLEAVVVDPGGDLDIIKDVIQSRNFHVKQI   55 (216)
Q Consensus        25 ~~~~~ilID~G~~~~~i~~~l~~~~~~i~~I   55 (216)
                      +++....||+++. + ....++++|..++.|
T Consensus       162 ~~~~itFiDTPGH-e-AFt~mR~RGa~vtDI  190 (610)
T PRK12312        162 QGKKITFIDTPGH-E-AFTEMRARGAKVTDI  190 (610)
T ss_pred             CCCEEEEECCCCH-H-HHHHHHHCCCCCCCE
T ss_conf             7976899728967-9-899999707765457


No 144
>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH. This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.
Probab=20.41  E-value=64  Score=13.54  Aligned_cols=32  Identities=13%  Similarity=0.213  Sum_probs=20.6

Q ss_pred             HHHHHHHCCCCEEEEEECCCCCCCCCCCHHHHHH
Q ss_conf             9999997499752999869885210110567886
Q gi|254780758|r   41 IKDVIQSRNFHVKQIWITHGHVDHVGGAAQLKED   74 (216)
Q Consensus        41 i~~~l~~~~~~i~~Ii~TH~H~DH~gg~~~l~~~   74 (216)
                      +.+.+++.|+++..|+++-++-.  +|...|.+.
T Consensus       116 v~~~~~~~gl~~~~V~lvSa~~g--~gi~~l~~~  147 (360)
T TIGR03597       116 MKKRAKELGLKPVDIILVSAKKG--NGIDELLDK  147 (360)
T ss_pred             HHHHHHHCCCCCCCEEEEECCCC--CCHHHHHHH
T ss_conf             99999985998366899968889--899999999


No 145
>cd06315 PBP1_ABC_sugar_binding_like_6 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=20.08  E-value=65  Score=13.50  Aligned_cols=58  Identities=9%  Similarity=0.107  Sum_probs=39.1

Q ss_pred             CCCEEEEECCCCCHHHHHHHHHHC-CCCEEEEEECCCCCCCCCCCHHHHHHHCCCEEEC
Q ss_conf             998499983899999999999974-9975299986988521011056788607955405
Q gi|254780758|r   25 ESLEAVVVDPGGDLDIIKDVIQSR-NFHVKQIWITHGHVDHVGGAAQLKEDLSLTIIGP   82 (216)
Q Consensus        25 ~~~~~ilID~G~~~~~i~~~l~~~-~~~i~~Ii~TH~H~DH~gg~~~l~~~~~~~i~~~   82 (216)
                      -|++..++|+..++....+.+++. ..+++.|++.-...+-+...-...++-+.|++.-
T Consensus        29 lGw~v~v~D~~g~~~~~~~~i~~ai~~k~D~Iii~~~D~~~~~~~l~~A~~agIPvv~~   87 (280)
T cd06315          29 IGWNLRILDGRGSEAGQAAALNQAIALKPDGIVLGGVDAAELQAELELAQKAGIPVVGW   87 (280)
T ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHCCCCEEEE
T ss_conf             59879998899999999999999996399999999829788789999999879978962


Done!