Query         gi|254780512|ref|YP_003064925.1| flagellar biosynthesis protein FlhA [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 692
No_of_seqs    160 out of 1034
Neff          5.9 
Searched_HMMs 39220
Date          Sun May 29 23:28:36 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780512.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 TIGR01398 FlhA flagellar biosy 100.0       0       0 2113.0  61.8  674   18-691     2-713 (713)
  2 PRK12792 flhA flagellar biosyn 100.0       0       0 1961.2  67.8  679   13-692    11-694 (694)
  3 PRK06012 flhA flagellar biosyn 100.0       0       0 1953.6  66.7  683    7-692     5-689 (691)
  4 pfam00771 FHIPEP FHIPEP family 100.0       0       0 1896.1  60.4  653   28-685     1-658 (658)
  5 PRK12720 secretion system appa 100.0       0       0 1869.9  63.8  660   11-692     8-670 (681)
  6 TIGR01399 hrcV type III secret 100.0       0       0 1847.3  53.5  666   16-691     1-709 (709)
  7 COG1298 FlhA Flagellar biosynt 100.0       0       0 1821.5  63.5  683    5-692     6-694 (696)
  8 COG4789 EscV Type III secretor 100.0       0       0 1619.9  42.6  668   13-692     8-687 (689)
  9 PRK05910 type III secretion sy 100.0       0       0 1586.3  59.4  573   14-692     3-577 (583)
 10 PRK10527 hypothetical protein;  92.9    0.16 4.1E-06   30.8   4.1   25  296-320    15-40  (125)
 11 PRK06012 flhA flagellar biosyn  92.9    0.82 2.1E-05   25.4  10.4   63  274-337   276-338 (691)
 12 pfam06277 EutA Ethanolamine ut  89.3     1.7 4.4E-05   23.0   6.5  239  403-680   146-444 (473)
 13 PRK10719 eutA reactivating fac  88.7     1.9 4.9E-05   22.7   6.9   58  623-680   383-441 (471)
 14 TIGR03142 cytochro_ccmI cytoch  85.3     2.9 7.3E-05   21.4   6.4   29  161-189    44-72  (117)
 15 COG2832 Uncharacterized protei  82.3     1.6 4.2E-05   23.2   3.4   29  292-320     8-40  (119)
 16 TIGR01990 bPGM beta-phosphoglu  81.8     2.9 7.3E-05   21.4   4.5   66  491-557    53-127 (190)
 17 PRK05858 hypothetical protein;  79.9     4.5 0.00011   19.9   6.1   37  228-264    51-96  (543)
 18 pfam11829 DUF3349 Protein of u  75.0       6 0.00015   18.9   7.7   75  504-580     4-87  (97)
 19 PRK06456 acetolactate synthase  74.5     6.2 0.00016   18.9   5.7   37  227-263    49-94  (572)
 20 PRK02463 OxaA-like protein pre  73.6     3.8 9.7E-05   20.4   3.2   44  106-150    46-97  (307)
 21 PRK06112 acetolactate synthase  72.1       7 0.00018   18.5   6.8   40  227-266    58-106 (581)
 22 TIGR02782 TrbB_P P-type conjug  70.2     7.6 0.00019   18.2   4.8   76  570-653     2-80  (315)
 23 PRK06048 acetolactate synthase  68.9     8.1 0.00021   18.0   4.9   38  227-264    51-97  (562)
 24 TIGR02871 spore_ylbJ sporulati  68.7     8.2 0.00021   17.9   7.4  132  167-313    98-236 (384)
 25 PRK08611 pyruvate oxidase; Pro  67.4     8.6 0.00022   17.8   4.7   38  227-264    49-95  (576)
 26 PRK09107 acetolactate synthase  67.2     8.7 0.00022   17.7   5.7   38  227-264    55-101 (594)
 27 pfam04282 DUF438 Family of unk  66.9     8.8 0.00022   17.7   5.2   43  509-556    15-57  (79)
 28 COG2089 SpsE Sialic acid synth  66.2     9.1 0.00023   17.6   7.1  114  528-664   157-292 (347)
 29 TIGR03254 oxalate_oxc oxalyl-C  64.2     9.8 0.00025   17.3   4.8   38  227-264    46-92  (554)
 30 PRK06725 acetolactate synthase  64.1     9.9 0.00025   17.3   5.5   93  162-264     3-104 (570)
 31 PRK11160 cysteine/glutathione   63.5      10 0.00026   17.2   6.4   43  571-616   480-526 (575)
 32 CHL00099 ilvB acetohydroxyacid  63.0      10 0.00026   17.2   5.2   37  228-264    57-102 (588)
 33 TIGR02451 anti_sig_ChrR anti-s  62.8     9.4 0.00024   17.5   3.4   47  483-540    23-85  (234)
 34 TIGR01113 mtrE tetrahydrometha  62.8     7.3 0.00019   18.3   2.8   10  273-282    18-27  (298)
 35 PRK01622 OxaA-like protein pre  61.1      11 0.00028   17.0   3.4   33  107-140    47-79  (266)
 36 TIGR02124 hypE hydrogenase exp  61.1       5 0.00013   19.5   1.7  126  522-669   197-342 (345)
 37 PRK07979 acetolactate synthase  58.5      12 0.00031   16.6   4.4   60  204-264    26-94  (574)
 38 PRK06882 acetolactate synthase  57.6      13 0.00032   16.5   6.3   38  227-264    48-94  (574)
 39 PRK11195 major facilitator fam  57.5      13 0.00032   16.5   6.3   72  256-328   316-396 (415)
 40 pfam01944 DUF95 Integral membr  56.2      13 0.00034   16.4   5.9   52  245-298    98-151 (164)
 41 PRK09259 putative oxalyl-CoA d  56.2      13 0.00034   16.4   6.2   37  227-263    56-101 (572)
 42 PRK08266 hypothetical protein;  55.8      13 0.00034   16.3   5.1   38  227-264    46-92  (531)
 43 COG3950 Predicted ATP-binding   55.7      13 0.00034   16.3   5.1  101  530-639   218-325 (440)
 44 PRK07282 acetolactate synthase  54.9      14 0.00035   16.2   5.6   38  227-264    54-100 (566)
 45 PRK08327 acetolactate synthase  54.7      14 0.00036   16.2   7.6   40  224-264    54-102 (568)
 46 PRK10923 glnG nitrogen regulat  54.1      14 0.00036   16.1   8.7   60  257-324    43-102 (469)
 47 COG4838 Uncharacterized protei  53.8      14 0.00037   16.1   3.1   32  158-189    50-81  (92)
 48 TIGR02535 hyp_Hser_kinase prop  51.5      11 0.00027   17.1   2.1   18  378-395   122-139 (431)
 49 COG2733 Predicted membrane pro  51.3      16  0.0004   15.8   8.2   63  513-576   178-247 (415)
 50 pfam08559 Cut8 Cut8. In Schizo  50.9      16 0.00041   15.8   3.8   46  495-541    51-99  (227)
 51 PRK06154 hypothetical protein;  50.7      16 0.00041   15.7   3.7   37  227-263    52-99  (556)
 52 pfam04278 Tic22 Tic22-like fam  50.1      12  0.0003   16.8   2.1  157  498-663    88-257 (259)
 53 TIGR02847 CyoD cytochrome o ub  49.8      16 0.00042   15.7   3.3   25  119-143     5-29  (99)
 54 KOG4715 consensus               49.3      17 0.00043   15.6   8.7   89  472-564   206-295 (410)
 55 PRK08979 acetolactate synthase  49.0      17 0.00043   15.6   5.0   38  227-264    48-94  (572)
 56 PRK08322 acetolactate synthase  48.7      17 0.00044   15.5   8.6   36  228-263    45-89  (547)
 57 COG1297 Predicted membrane pro  48.2      17 0.00044   15.5   5.4  104  213-323    15-120 (624)
 58 pfam04550 Phage_holin_2 Phage   48.2      17 0.00044   15.5   4.3   42  279-324    36-77  (90)
 59 pfam05529 Bap31 B-cell recepto  48.1      17 0.00044   15.5  13.8  108   26-138    15-123 (192)
 60 pfam09851 DUF2078 Predicted me  48.0      17 0.00045   15.5   5.2   36  153-188    35-73  (73)
 61 PRK07418 acetolactate synthase  47.5      18 0.00045   15.4   5.0   59  205-264    42-112 (615)
 62 pfam06120 Phage_HK97_TLTM Tail  47.4      18 0.00046   15.4   4.0   39  485-523   143-181 (311)
 63 COG3462 Predicted membrane pro  47.0      15 0.00038   16.0   2.2   21  168-188    97-117 (117)
 64 PRK06466 acetolactate synthase  46.9      18 0.00046   15.3   6.1   38  227-264    48-94  (574)
 65 TIGR02002 PTS-II-BC-glcB PTS s  46.3      14 0.00035   16.2   2.0   30  298-327   382-413 (518)
 66 PRK07525 sulfoacetaldehyde ace  45.9      19 0.00048   15.2   5.8   38  227-264    49-95  (589)
 67 TIGR01474 ubiA_proteo 4-hydrox  45.8      18 0.00047   15.3   2.6   75  253-327    41-133 (291)
 68 PRK09390 fixJ response regulat  45.4      14 0.00034   16.3   1.8   20  560-579   101-120 (202)
 69 PRK07710 acetolactate synthase  45.2      19 0.00049   15.2   5.1   81  173-264    15-105 (571)
 70 PRK10046 dpiA two-component re  45.0      19 0.00049   15.1   3.6   67  506-574    40-118 (225)
 71 COG1067 LonB Predicted ATP-dep  44.2      20 0.00051   15.1   2.7   93  562-662   306-398 (647)
 72 pfam03530 SK_channel Calcium-a  43.3      20 0.00052   15.0   4.9   24   11-34      9-32  (120)
 73 pfam02341 RcbX RbcX protein. T  43.2      20 0.00052   14.9   8.2   57  487-544     4-63  (108)
 74 PRK07021 fliL flagellar basal   43.2      20 0.00052   14.9   3.5   13  317-329    28-40  (159)
 75 pfam06570 DUF1129 Protein of u  43.0      21 0.00053   14.9   6.4   28  304-331   176-203 (206)
 76 PRK07789 acetolactate synthase  42.8      21 0.00053   14.9   6.3  159  380-544   244-414 (612)
 77 TIGR03457 sulphoacet_xsc sulfo  42.3      21 0.00054   14.8   4.6   38  227-264    45-91  (579)
 78 PRK08199 acetolactate synthase  42.2      21 0.00054   14.8   8.5   37  228-264    47-92  (553)
 79 TIGR03545 conserved hypothetic  41.5      22 0.00055   14.8   7.5   63  503-568   167-229 (554)
 80 CHL00119 atpD ATP synthase CF1  40.4      22 0.00057   14.6  11.9  111  486-610     3-133 (184)
 81 TIGR03024 arch_pef_cterm PEF-C  40.3      23 0.00057   14.6   2.7   24  303-327     3-26  (28)
 82 pfam11491 DUF3213 Protein of u  40.0      22 0.00055   14.8   2.2   11  512-522    57-67  (90)
 83 COG4877 Uncharacterized protei  39.5      23 0.00058   14.6   2.2   35  543-577     7-47  (63)
 84 KOG0776 consensus               39.4      23 0.00059   14.5   3.0   19  568-586   264-283 (384)
 85 PRK10643 DNA-binding transcrip  39.3      12  0.0003   16.8   0.7  103  477-581     5-119 (222)
 86 PRK07586 hypothetical protein;  39.1      20 0.00051   15.0   1.9   20  526-545   335-354 (514)
 87 PRK11199 tyrA bifunctional cho  38.8      24  0.0006   14.5   7.4   65  506-584   289-356 (374)
 88 PRK10582 cytochrome o ubiquino  38.4      24 0.00061   14.4   3.2   25  119-143    16-40  (109)
 89 pfam07185 DUF1404 Protein of u  38.4      24 0.00061   14.4   2.6   35  218-252    86-120 (167)
 90 pfam00690 Cation_ATPase_N Cati  38.4      23 0.00059   14.5   2.1   17  168-185    16-32  (69)
 91 TIGR02044 CueR Cu(I)-responsiv  37.8      16  0.0004   15.8   1.2   24  384-416    15-38  (127)
 92 cd01678 PFL1 Pyruvate formate   37.3      25 0.00064   14.3   2.3   40  375-414   331-371 (738)
 93 COG2374 Predicted extracellula  37.0      25 0.00064   14.3   2.2   25  483-507   502-526 (798)
 94 PRK00972 tetrahydromethanopter  37.0      25 0.00064   14.3   3.5   18  304-321    82-99  (293)
 95 TIGR02262 benz_CoA_lig benzoat  36.9      25 0.00065   14.3   4.3  113  408-535   343-514 (520)
 96 KOG0023 consensus               36.8      23 0.00058   14.6   1.9   42  501-546   306-347 (360)
 97 PRK06276 acetolactate synthase  36.3      26 0.00066   14.2   5.1   38  227-264    44-90  (586)
 98 PRK06965 acetolactate synthase  36.3      26 0.00066   14.2   4.0   38  227-264    65-111 (587)
 99 KOG0495 consensus               36.2      17 0.00042   15.6   1.1  110  472-605   238-362 (913)
100 COG4800 Predicted transcriptio  36.0      26 0.00066   14.2   8.2  104  503-612    19-124 (170)
101 PRK06531 yajC preprotein trans  35.7      26 0.00067   14.1   2.6   28  305-335     2-29  (120)
102 COG3265 GntK Gluconate kinase   35.5      27 0.00068   14.1   6.1   80  542-627    39-121 (161)
103 TIGR03282 methan_mark_13 putat  35.4      27 0.00068   14.1   2.9   16  530-545   174-189 (352)
104 TIGR02457 TreS_Cterm trehalose  35.3      27 0.00068   14.1   2.7   62  375-451   378-439 (568)
105 TIGR03006 pepcterm_polyde poly  35.1      18 0.00046   15.3   1.2   17  508-524    54-70  (274)
106 COG4214 XylH ABC-type xylose t  34.8      27 0.00069   14.0   3.4   57  111-173    14-70  (394)
107 PRK08978 acetolactate synthase  34.8      27 0.00069   14.0   5.9   36  228-263    45-89  (548)
108 TIGR03499 FlhF flagellar biosy  34.7      27  0.0007   14.0  10.1   56  527-586   130-185 (282)
109 PRK09424 pntA NAD(P) transhydr  34.5      27 0.00068   14.1   2.0   23  479-501   314-336 (510)
110 smart00337 BCL BCL (B-Cell lym  33.9      28 0.00071   13.9   7.1   77  506-583     2-87  (100)
111 PRK09546 zntB zinc transporter  33.7      28 0.00072   13.9   5.6  100  466-580   130-229 (327)
112 PRK10034 fructuronate transpor  33.6      28 0.00072   13.9   9.3   84   47-150     8-91  (447)
113 pfam08302 tRNA_lig_CPD Fungal   33.6      17 0.00043   15.6   0.8   13  622-634   212-224 (255)
114 TIGR01931 cysJ sulfite reducta  33.6      15 0.00038   16.0   0.5   49  513-571   301-352 (628)
115 pfam02901 PFL Pyruvate formate  33.2      29 0.00073   13.8   2.3   41  375-415   344-384 (645)
116 PRK10365 transcriptional regul  32.9      29 0.00074   13.8   5.4   22  263-284    51-72  (441)
117 PTZ00210 UDP-GlcNAc-dependent   32.8      22 0.00057   14.7   1.3   24  384-407    94-117 (382)
118 pfam04352 ProQ ProQ/FINO famil  32.4      30 0.00075   13.8   2.6  100  502-640     3-104 (114)
119 PRK11269 glyoxylate carboligas  32.4      30 0.00075   13.8   9.3   38  227-264    48-95  (591)
120 TIGR01051 topA_bact DNA topois  32.0      19 0.00049   15.2   0.9   21  488-508   568-588 (688)
121 TIGR00801 ncs2 uracil-xanthine  31.8      30 0.00077   13.7   4.0   71  245-325   325-398 (480)
122 pfam09552 RE_BstXI BstXI restr  31.7      22 0.00055   14.8   1.1   30  391-424   104-133 (287)
123 PRK13435 response regulator; P  31.6      11 0.00027   17.1  -0.5   66  476-543     5-72  (141)
124 pfam00262 Calreticulin Calreti  31.6      30 0.00078   13.7   3.3   50  410-467   165-214 (359)
125 COG3965 Predicted Co/Zn/Cd cat  31.4      31 0.00078   13.6   8.1  170  209-397    24-249 (314)
126 pfam01008 IF-2B Initiation fac  30.9      31 0.00079   13.6  11.7  148  505-662    28-175 (281)
127 PRK10472 low affinity gluconat  30.6      31  0.0008   13.5   9.5   86   45-150     7-92  (445)
128 PRK07064 hypothetical protein;  30.5      32 0.00081   13.5  10.2   38  227-264    47-93  (544)
129 COG1184 GCD2 Translation initi  30.4      32 0.00081   13.5  14.5  170  477-663    17-188 (301)
130 PRK08527 acetolactate synthase  30.4      32 0.00081   13.5   5.9   38  227-264    48-94  (560)
131 TIGR02797 exbB tonB-system ene  30.3      27 0.00068   14.1   1.4   35  462-496   161-197 (213)
132 TIGR02025 BchH magnesium chela  30.3      14 0.00036   16.2  -0.1   15  503-517   727-741 (1384)
133 PRK05703 flhF flagellar biosyn  29.9      32 0.00082   13.5   8.6   76  502-583   125-200 (412)
134 PRK04040 adenylate kinase; Pro  29.9      22 0.00056   14.7   0.9  117  526-655    56-173 (189)
135 TIGR00786 dctM TRAP transporte  29.8      32 0.00083   13.5   2.1  219   11-318   115-342 (421)
136 TIGR02434 CobF precorrin-6A sy  29.8      32 0.00083   13.5   2.6   10  577-586    44-53  (259)
137 pfam00681 Plectin Plectin repe  29.4      33 0.00084   13.4   3.3   32  153-184    12-43  (45)
138 pfam07680 DoxA TQO small subun  28.4      33 0.00085   13.4   1.6   30  393-422    89-123 (133)
139 pfam02447 GntP_permease GntP f  28.4      34 0.00087   13.3   9.3   84   47-150     5-88  (441)
140 pfam11630 DUF3254 Protein of u  28.3      34 0.00087   13.3   1.7   13  497-509    84-96  (97)
141 PRK10921 twin-arginine protein  28.0      35 0.00088   13.2  12.4   68  227-307   145-212 (255)
142 COG4714 Uncharacterized membra  27.8      22 0.00056   14.7   0.6   24  304-327     3-27  (303)
143 cd04889 ACT_PDH-BS-like C-term  27.7      22 0.00056   14.7   0.6   27  529-556     8-34  (56)
144 PRK11083 DNA-binding response   27.6      29 0.00074   13.8   1.2  105  475-581     6-122 (229)
145 pfam05977 DUF894 Bacterial pro  27.4      35  0.0009   13.2  10.6   30  101-133   155-184 (524)
146 PRK01636 ccrB camphor resistan  27.3      36 0.00091   13.2   6.7   40  211-251    19-58  (118)
147 PRK13460 F0F1 ATP synthase sub  27.2      35 0.00089   13.2   1.5   36  292-327     4-39  (173)
148 PRK09174 F0F1 ATP synthase sub  27.2      36 0.00091   13.1   3.3   20  567-586   132-151 (204)
149 pfam05628 Borrelia_P13 Borreli  27.1      18 0.00046   15.3   0.0   23  202-224    61-83  (165)
150 PRK10161 transcriptional regul  26.8      19 0.00047   15.3   0.1  105  475-581     5-123 (229)
151 PRK09552 mtnX 2-hydroxy-3-keto  26.7      36 0.00093   13.1   5.6   28  648-675    91-118 (219)
152 PRK06995 flhF flagellar biosyn  26.7      36 0.00093   13.1   9.0   47  533-583   118-164 (404)
153 pfam07514 TraI_2 Putative heli  26.5      37 0.00094   13.0   5.1   21  385-405   107-127 (326)
154 PRK02944 OxaA-like protein pre  26.4      37 0.00094   13.0   7.9   88  106-218    45-139 (255)
155 PRK11361 acetoacetate metaboli  26.2      37 0.00095   13.0   9.3   24  261-284    48-71  (457)
156 pfam05313 Pox_P21 Poxvirus P21  26.0      37 0.00096   13.0   7.6   74  252-334    94-170 (190)
157 TIGR01389 recQ ATP-dependent D  25.9      38 0.00096   13.0   1.9  111  543-665   454-573 (607)
158 COG1536 FliG Flagellar motor s  25.8      38 0.00096   13.0   4.7   45  500-544   214-262 (339)
159 TIGR01522 ATPase-IIA2_Ca calci  25.8      24 0.00061   14.4   0.5  143  485-653   364-525 (856)
160 TIGR00175 mito_nad_idh isocitr  25.7      37 0.00094   13.0   1.4   24  477-500   143-166 (348)
161 COG5592 Uncharacterized conser  25.7      38 0.00096   12.9   4.4   88  509-604    37-128 (171)
162 COG4171 SapC ABC-type antimicr  25.6      38 0.00097   12.9   5.8   48  209-260   101-148 (296)
163 COG3167 PilO Tfp pilus assembl  25.6      38 0.00097   12.9   3.3   35  303-337    19-54  (211)
164 PRK03612 spermidine synthase;   25.5      38 0.00097   12.9  11.0   48  265-313   130-182 (516)
165 pfam09922 DUF2154 Predicted me  25.4      38 0.00098   12.9   4.3   66  244-325    21-86  (233)
166 COG3827 Uncharacterized protei  25.4      38 0.00098   12.9   2.0   18  508-525   202-219 (231)
167 TIGR03085 conserved hypothetic  25.4      38 0.00098   12.9   3.3   16  621-636   116-131 (199)
168 PRK11056 hypothetical protein;  25.3      38 0.00098   12.9   4.4   65   40-114    12-79  (120)
169 TIGR02418 acolac_catab acetola  25.2      39 0.00098   12.9   5.6   46  263-316    43-88  (553)
170 TIGR00739 yajC preprotein tran  25.0      39 0.00099   12.9   3.1   27  310-336     5-31  (86)
171 TIGR00151 ispF 2C-methyl-D-ery  24.9      39   0.001   12.8   2.5   46  360-405    86-134 (159)
172 PRK12360 4-hydroxy-3-methylbut  24.8      39   0.001   12.8   4.6   57  458-514    75-139 (281)
173 TIGR00992 3a0901s03IAP75 chlor  24.8      39   0.001   12.8   3.6   95  503-607   213-309 (768)
174 pfam01638 HxlR HxlR-like helix  24.7      39   0.001   12.8   4.1   53  513-567    18-89  (90)
175 COG2019 AdkA Archaeal adenylat  24.3      29 0.00074   13.8   0.7   30  516-548    49-78  (189)
176 TIGR02249 integrase_gron integ  24.0      40   0.001   12.7   2.6   49  458-506   243-297 (320)
177 TIGR02812 fadR_gamma fatty aci  24.0      41   0.001   12.7   1.5  168  457-645    24-242 (275)
178 PRK09428 pssA phosphatidylseri  24.0      41   0.001   12.7   3.7   13  389-401   105-117 (444)
179 COG2966 Uncharacterized conser  23.9      41   0.001   12.7   8.2   27  168-194    98-124 (250)
180 COG0761 lytB 4-Hydroxy-3-methy  23.9      41   0.001   12.7   3.0   40  459-498    74-113 (294)
181 PTZ00134 40S ribosomal protein  23.9      40   0.001   12.8   1.3   75  577-666    41-115 (154)
182 COG0745 OmpR Response regulato  23.6      41  0.0011   12.7   1.6  103  477-582     5-120 (229)
183 pfam10143 PhosphMutase 2,3-bis  23.5      41  0.0011   12.7   1.9   15  381-395    83-97  (174)
184 TIGR03333 salvage_mtnX 2-hydro  23.5      41  0.0011   12.7   5.7   28  648-675    88-115 (214)
185 cd04909 ACT_PDH-BS C-terminal   23.4      32 0.00083   13.5   0.8   23  530-552    12-34  (69)
186 KOG1814 consensus               23.2      42  0.0011   12.6   5.4   73  452-549    91-163 (445)
187 TIGR02611 TIGR02611 conserved   23.1      42  0.0011   12.6   2.6   15  289-303    32-46  (126)
188 PRK09821 inner membrane permea  23.0      42  0.0011   12.6   9.5   89   45-153     7-95  (454)
189 cd07039 TPP_PYR_POX Pyrimidine  22.8      43  0.0011   12.6   3.5   35  549-583   113-147 (164)
190 PRK13952 mscL large-conductanc  22.7      43  0.0011   12.5   2.2   40  196-235    17-56  (143)
191 KOG3120 consensus               22.5      43  0.0011   12.5   3.9   30  530-559    56-85  (256)
192 COG0598 CorA Mg2+ and Co2+ tra  22.4      43  0.0011   12.5   6.9   91  462-561   119-210 (322)
193 KOG0233 consensus               22.1      38 0.00096   12.9   0.9   30  209-238   131-160 (196)
194 COG0239 CrcB Integral membrane  22.1      44  0.0011   12.5   1.7   39  213-251    38-76  (126)
195 KOG2714 consensus               21.8      28 0.00073   13.9   0.2   28  169-197    72-99  (465)
196 pfam02776 TPP_enzyme_N Thiamin  21.6      38 0.00098   12.9   0.8   36  549-584   115-150 (172)
197 TIGR00423 TIGR00423 conserved   21.5      30 0.00076   13.7   0.3   46  578-636   264-315 (331)
198 pfam07427 consensus             21.4      45  0.0012   12.4   2.0   23  411-433    36-58  (126)
199 KOG2716 consensus               21.3      44  0.0011   12.4   1.1   23  560-582   143-165 (230)
200 pfam01749 IBB Importin beta bi  21.3      45  0.0012   12.4   1.8   10  175-184    19-28  (97)
201 COG5212 PDE1 Low-affinity cAMP  21.1      28 0.00073   13.9   0.1  178  378-575   146-332 (356)
202 cd06868 PX_HS1BP3 The phosphoi  21.1      46  0.0012   12.3   2.1   18  503-520    54-71  (120)
203 TIGR02088 LEU3_arch isopropylm  21.0      39   0.001   12.8   0.8   21  530-550   193-215 (350)
204 PRK09468 ompR osmolarity respo  21.0      39   0.001   12.8   0.8  105  477-583    10-126 (239)
205 PRK08733 lipid A biosynthesis   20.8      47  0.0012   12.3   5.4   43  284-329    13-57  (306)
206 pfam06942 GlpM GlpM protein. T  20.7      47  0.0012   12.3   2.2   25  281-312    13-37  (107)
207 COG4769 Predicted membrane pro  20.5      47  0.0012   12.2   6.3   92  224-315    45-148 (181)
208 COG0556 UvrB Helicase subunit   20.4      47  0.0012   12.2   4.6  260  385-665   355-657 (663)
209 PHA01633 putative glycosyl tra  20.2      28 0.00071   13.9  -0.1   22  265-286     6-27  (335)
210 TIGR00631 uvrb excinuclease AB  20.2      27 0.00068   14.1  -0.2  238  385-643   356-649 (667)
211 PRK10429 melibiose:sodium symp  20.2      48  0.0012   12.2  11.4   37  500-536   435-471 (473)
212 COG2322 Predicted membrane pro  20.2      48  0.0012   12.2   4.8   17  310-326    51-67  (177)
213 TIGR01980 sufB FeS assembly pr  20.1      48  0.0012   12.2   1.9   43  460-531   131-174 (469)
214 PRK09825 idnK D-gluconate kina  20.0      48  0.0012   12.2   7.0   31  592-628   100-130 (176)

No 1  
>TIGR01398 FlhA flagellar biosynthesis protein FlhA; InterPro: IPR006301   These sequences describe the flagellar biosynthesis protein FlhA, one of a large number of genes associated with the biosynthesis of functional bacterial flagella. Homologs of many such proteins, including FlhA, function in type III protein secretion systems. ; GO: 0015031 protein transport, 0016021 integral to membrane, 0019861 flagellum.
Probab=100.00  E-value=0  Score=2112.96  Aligned_cols=674  Identities=46%  Similarity=0.765  Sum_probs=653.2

Q ss_pred             HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             34589999999999996038478999999999999999999995137704542004899999999985548888898843
Q gi|254780512|r   18 HDFAFSFCIVLIICILFLPIPTVLLDVGLASSIALSILILMVALWIEKPLEFSSFPTVLLIVTIIRLSLNIATTRAILSF   97 (692)
Q Consensus        18 ~d~~~~~~~~~ii~~~iiPlP~~llD~~~~~ni~~s~lil~~~l~~~~pl~fs~FPslLL~~TlfRL~LniasTRlIL~~   97 (692)
                      +|+.+++++++|+++||+|+|+|+||+|+++||++|++|||++||++||||||+|||+||++|||||||||||||+||+|
T Consensus         2 ~~~~~~~~v~~I~~~~i~PlP~~lLD~lla~nIalS~lILl~~l~i~kPLdFS~FPt~LL~~TlfRL~LNvAsTR~IL~~   81 (713)
T TIGR01398         2 KDLLLAIGVVVILAVIIIPLPAFLLDILLALNIALSLLILLVTLFIQKPLDFSSFPTLLLIATLFRLSLNVASTRLILTH   81 (713)
T ss_pred             CEEHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             30024699999888875078767999999999999999999997522421123005799999998888889999897607


Q ss_pred             CCCCCCHHHHHHHHHHHHHHC----CCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHCCC
Q ss_conf             777763267899987514501----3269999999999999998864575146665545442037603454787876489
Q gi|254780512|r   98 GHEGYGAAGGIIAGFSSLVMS----GDFVIGLVVFMILITINFIVITKGATRIAEVGARFTLDAIPGKQMAIDADLSSGL  173 (692)
Q Consensus        98 g~~g~~~AG~vI~aFG~fVvg----gn~vvG~viF~Il~ivqfiVItkGa~RvaEV~ARFtLDamPGKQMaIDaDl~aG~  173 (692)
                      ||+|++|||+||+|||+||||    ||||||+|||+||+||||+||||||||||||+||||||||||||||||||||||+
T Consensus        82 G~~G~~AaG~VI~aFG~FVvG~~G~G~~ViG~iVF~ILiiiNF~VITKGA~RiaEVaARFTLDamPGKQMaIDADLNAGl  161 (713)
T TIGR01398        82 GHEGPNAAGKVIEAFGQFVVGSSGTGNYVIGLIVFIILIIINFIVITKGATRIAEVAARFTLDAMPGKQMAIDADLNAGL  161 (713)
T ss_pred             CCCCCCHHHHHHHHHHHCCCCCCCCCCEEEEEEHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCCCHHHHHHHCCCC
T ss_conf             99775401356443330100211588707875323644335251131675114678888875126885314455321789


Q ss_pred             CCHHHHHHHHHHHHHHHCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99899999999998652222012201345301058999999999888999999973998899999989998645788851
Q gi|254780512|r  174 IEEEEAKRRRKELEEESAFFGAMDGASKFVRGDAIASIIITAINIVGGIVIGCFRYDMSIHHAADVFVRLSVGDGLVSQV  253 (692)
Q Consensus       174 I~~~eA~~rR~~l~~Es~fyGaMDGA~KFVkGDAiAgiiI~~iNiigG~~iG~~q~gm~~~eA~~~Yt~LTIGDGLVsQI  253 (692)
                      |||+|||+||+++++|||||||||||||||||||||||+||+||||||++||++||||++++|+++||+|||||||||||
T Consensus       162 Ite~EAk~RR~e~~~Ea~FyGAMDGASKFVkGDAIAGiiIt~iNIigGliiGv~~h~M~~~~Aa~~YT~LTiGDGLVaQI  241 (713)
T TIGR01398       162 ITEEEAKKRREELEQEADFYGAMDGASKFVKGDAIAGIIITLINIIGGLIIGVVQHGMSLSEAASTYTILTIGDGLVAQI  241 (713)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHCCCCCCCEEHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf             89899999999998633011020267652001389999999999988787656631763899998867776877899987


Q ss_pred             HHHHHHHHHHHEEEECCC-CCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH---
Q ss_conf             589998733102662377-4305899999876186489999999999861578647899999999999999886443---
Q gi|254780512|r  254 PALIISLSAAFLVSRTTS-KGSTNTAIVEQLSHYPRALLISAFFMIVLSVMPNLPAFPFIMLGGFFACAGFYVPYKN---  329 (692)
Q Consensus       254 PaLliS~aaGiiVTRvss-~~~lg~~i~~Ql~~~p~aL~iaa~~l~~lglvPGmP~~~Fl~la~~l~~~a~~~~r~~---  329 (692)
                      |||+||+|||+||||+|+ ++|+|+++.+||+++||+|+++|++|++||++||||+++|+.+|+++++.||++.+++   
T Consensus       242 PaL~iS~AtG~~VTR~~~~~~~~~~~~~~QL~~~p~~l~~~A~~L~lla~~PGlP~~~~~~~a~~l~~~a~~~~~~~~~~  321 (713)
T TIGR01398       242 PALIISTATGIIVTRASSDEGNLGKAIVTQLTANPRVLLIVAAVLGLLALVPGLPTLPFLLLAGALAFLAWYLRRRAKEG  321 (713)
T ss_pred             HHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             89999998766322256640124789999986221899999999999987305337999999999999999998866642


Q ss_pred             --------------------HHHHHHHH---HHCCCCCCCCCCCCCHHHCCCCCHHHHCC-CCCCCCCCCCCCHHHHHHH
Q ss_conf             --------------------22221001---10002356676753001002460122101-1111234575526889999
Q gi|254780512|r  330 --------------------ELQRLAKV---AQIQEASKQNQHSAQLNFITSGVELVLGS-LVSNRLLSSQEDLFLRVSK  385 (692)
Q Consensus       330 --------------------~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~i~l~lg~-li~l~~~~~~~~L~~rI~~  385 (692)
                                          ++++..+.   ++.++..+++++++......|+++|++|| |+|++|.+|+++|.+||++
T Consensus       322 ~~~~~~~~~S~~~~~~~S~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~d~l~Le~GYgLIpLvd~~qg~~L~~RI~~  401 (713)
T TIGR01398       322 KLDKLEVKKSKKFALVLSEKKQKEEAAAEAAKAQEEAEEEEEESINDILALDDLELELGYGLIPLVDESQGGDLLDRIRS  401 (713)
T ss_pred             HHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCEEEEEEECCCHHHCCCCCCCCHHHHHHH
T ss_conf             34444433110456763334554410101332024334566562221266421588870652110125568732799999


Q ss_pred             HHHHHHHHHCCCCCCEEEEECCCCCCCEEEEEECCEEEEEEEECCCCEEEECCCCCCCCCCCCEEECCCCCCCEEECCHH
Q ss_conf             99999998098788324454377898716999748245348841783413305888767887410147668830343978
Q gi|254780512|r  386 IRRKFAVQYGFIVPEIKVTTDISLPEKGYTIRVYGTTVAISELRVGEVLVILGSGQKPTFPGDEVKEPAFGMPAFAIMES  465 (692)
Q Consensus       386 iRk~la~elG~~iP~IrIrDn~~L~~~~Y~I~I~Gv~va~gei~~~~lLai~~~~~~~~l~G~~~~eP~fgl~A~WI~~~  465 (692)
                      +||++|+||||++|.||||||++|+||+|+|+|+|+|+++|+++||++|||+++...+.++|++|+||+||+||+||+++
T Consensus       402 iRk~~A~e~Gfv~P~iRi~Dn~~L~P~~Y~IkikG~eva~gel~pg~~LA~~~g~~~~~i~Ge~t~ePAFGl~A~WI~e~  481 (713)
T TIGR01398       402 IRKQLAQELGFVVPVIRIRDNLRLPPNEYRIKIKGVEVARGELRPGKYLAMNPGDADGEIPGEETREPAFGLPAYWIEEK  481 (713)
T ss_pred             HHHHHHHHCCCCCCCEEEEECCCCCCCCCEEEEEEEEEEEEEEECCEEEEECCCCCCCCCCCEECCCCCCCCCCEECCHH
T ss_conf             98999986595188213530444789961799988998733664270786468899863175001078889861213813


Q ss_pred             HHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCC
Q ss_conf             84588828990705889999999999998799987299999999997666489999863115998999999999997498
Q gi|254780512|r  466 FSDDLRRQGFHPIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHV  545 (692)
Q Consensus       466 ~~~~a~~~G~tvvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~V  545 (692)
                      .||+|+..|||||||+||++|||+|++|+||+|||||||+|+|||+++++||+||||++|+++|++.+|+|||+||+|+|
T Consensus       482 ~~e~A~~~GYTVVDp~tVlaTHL~E~ik~na~~LL~r~ev~~LLd~l~~~~PklVee~~P~~~~~~~iq~VLq~LL~E~V  561 (713)
T TIGR01398       482 NKEEAERLGYTVVDPATVLATHLSEVIKNNAAELLTRQEVQNLLDRLKEEYPKLVEELIPDKVPLGTIQKVLQLLLRERV  561 (713)
T ss_pred             HHHHHHHCCCEEECCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHCCEEHHHCCCCCCCHHHHHHHHHHHHHCCC
T ss_conf             48999864985870179999999999999898851589999999860132674001138895563369999997531789


Q ss_pred             CHHHHHHHHHHHHHHHCCCC-CHHHHHHHHHHHHHHHHHHHHC-CCCEEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCC
Q ss_conf             65469999999987533579-9899999999998999865207-788489998887899999998303777884645669
Q gi|254780512|r  546 SIRNLPLILESIAEVAPHSR-KTSHIVEQVRIRMAQQICGDLA-PTGILNILKLGNHWDMIFYQAIQRDSKGECVDFNVE  623 (692)
Q Consensus       546 sIRdlr~IlEaLad~a~~~k-D~~~LtE~VR~aL~R~I~~~~~-~~g~L~vi~L~p~lE~~l~~~i~~t~~G~~~~l~l~  623 (692)
                      |||||++||||++|+++.++ ||+.|+||||+||+||||++|. ++|.|++++|+|+||+.+.++++++..|++.++.++
T Consensus       562 SIRnl~~ILEtlad~a~~~~~~~~~L~E~VR~rL~rqI~~~~~~~~g~L~~~~L~~~~E~~l~~~l~~~~~~~~~~~~L~  641 (713)
T TIGR01398       562 SIRNLLTILETLADYAPITKTDPDLLVEHVRQRLGRQITQQYLDEDGVLKVITLDPDLEAALAEALKEDGEGELLELALE  641 (713)
T ss_pred             CCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEECCHHHHHHHHHHHCCCCCCCCCCCCC
T ss_conf             81306789999988775306878789999999999999996448898279998583889999987405877642125778


Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCC----CEEEEECHHHHHHHHHHHHHHCCCCCEEEECCCCCCCEEEEEEEE
Q ss_conf             88999999999999999995699----879982833548999998864489818944017899657988860
Q gi|254780512|r  624 PRAVEMFSENATNSIRQYIDKGI----PLTIVTLPEIRSYIRMILERNFPSLAVLSHMEIAKGLKVNILGTI  691 (692)
Q Consensus       624 P~~~~~l~~~i~~~~~~~~~~g~----~pVLl~s~~iRr~lr~lle~~~p~l~VLS~~EI~~~~~i~~iG~I  691 (692)
                      |+..+++.+++++++++....|.    +|||+|||.+|||+|+++|+++|+++||||+||++|++++.+|+|
T Consensus       642 P~~~~~l~~~~~~~~~~~~~~g~~~~~~~vL~t~~~~R~~~~~~le~~~~~~~VLS~~Ei~~~~~~~~~G~v  713 (713)
T TIGR01398       642 PALLEELLRKVRKEVEKLAQNGEAEFVPPVLLTSPRVRPYVRRILERYFPELPVLSYNEIPKNVRVETVGVV  713 (713)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEECCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCEEEEEEC
T ss_conf             778899999999999999863677131279972860248999999873587400151125789606887629


No 2  
>PRK12792 flhA flagellar biosynthesis protein FlhA; Reviewed
Probab=100.00  E-value=0  Score=1961.25  Aligned_cols=679  Identities=60%  Similarity=1.009  Sum_probs=650.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             01001345899999999999960384789999999999999999999951377045420048999999999855488888
Q gi|254780512|r   13 DRNHLHDFAFSFCIVLIICILFLPIPTVLLDVGLASSIALSILILMVALWIEKPLEFSSFPTVLLIVTIIRLSLNIATTR   92 (692)
Q Consensus        13 ~~~~~~d~~~~~~~~~ii~~~iiPlP~~llD~~~~~ni~~s~lil~~~l~~~~pl~fs~FPslLL~~TlfRL~LniasTR   92 (692)
                      ++.+++|+++++++++|++|||+|||+|+||+++++||++|+++||+++|+++|||||+|||+||++|||||||||||||
T Consensus        11 ~~~~r~d~~~~~~~~~i~~m~i~PlP~~llD~l~~~ni~~s~~ill~~~~~~~pl~fs~FPslLL~~TlfRL~LnissTR   90 (694)
T PRK12792         11 ERRSRRDIGFAAGIVAILAVLFLPVPAVLIDIGLAFSIALSVLILMVALWIQRPLDFSAFPTVLLIATLLRLALNIATTR   90 (694)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHCCHHHHHHHHHHHHHHHHHHH
T ss_conf             54564038799999999999861797899999999999999999999996588102110429999999999999799999


Q ss_pred             HHHHCCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHCC
Q ss_conf             98843777763267899987514501326999999999999999886457514666554544203760345478787648
Q gi|254780512|r   93 AILSFGHEGYGAAGGIIAGFSSLVMSGDFVIGLVVFMILITINFIVITKGATRIAEVGARFTLDAIPGKQMAIDADLSSG  172 (692)
Q Consensus        93 lIL~~g~~g~~~AG~vI~aFG~fVvggn~vvG~viF~Il~ivqfiVItkGa~RvaEV~ARFtLDamPGKQMaIDaDl~aG  172 (692)
                      +||++||+|+++|||||+|||+||||||||||+|||+||++|||+||||||||||||+||||||||||||||||||||||
T Consensus        91 lIL~~g~~g~~~AG~vI~aFG~FVvgGn~vVG~viF~Il~ivqFiVITKGa~RvAEVaARFtLDamPGKQMaIDaDl~aG  170 (694)
T PRK12792         91 LILSHGQEGVDAAGHVIQGFSKFVMSGDFVIGLVVFAILITVNFLVITKGATRIAEVGARFTLDAIPGKQMAIDADLSAG  170 (694)
T ss_pred             HHHHCCCCCCCCHHHHHHHHHCEEECCCEEEHHHHHHHHHHHHHEEECCCCCHHHHHHHHHHCCCCCCCHHHHHHHHHCC
T ss_conf             99966886765214899984013777855653378599967641588468516766655331057874120898987469


Q ss_pred             CCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99989999999999865222201220134530105899999999988899999997399889999998999864578885
Q gi|254780512|r  173 LIEEEEAKRRRKELEEESAFFGAMDGASKFVRGDAIASIIITAINIVGGIVIGCFRYDMSIHHAADVFVRLSVGDGLVSQ  252 (692)
Q Consensus       173 ~I~~~eA~~rR~~l~~Es~fyGaMDGA~KFVkGDAiAgiiI~~iNiigG~~iG~~q~gm~~~eA~~~Yt~LTIGDGLVsQ  252 (692)
                      +||++|||+||+++++|||||||||||||||||||||||+|++||++||++||++|||||++||+++||+||||||||||
T Consensus       171 ~I~~~eAr~rR~~l~~Es~fyGaMDGAsKFVkGDAIAgiiI~~INiiGGl~IGv~q~gm~~~~A~~~YtlLTIGDGLVsQ  250 (694)
T PRK12792        171 LIDDKEAQRRRRELEEESAFFGSMDGASKFVRGDAIASLIIIAVNIFGGIIIGVTRHGMPLAQAADVFTKLSVGDGLVSQ  250 (694)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHCCCCCHHHCCCCHHHHHHHHHHHHHCCEEEEEEECCCCHHHHHHHHHHHHHCHHHHHH
T ss_conf             99989999999998865023320556113116328999999999985121666533588899999997888723129987


Q ss_pred             HHHHHHHHHHHHEEEECCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             15899987331026623774305899999876186489999999999861578647899999999999999886443222
Q gi|254780512|r  253 VPALIISLSAAFLVSRTTSKGSTNTAIVEQLSHYPRALLISAFFMIVLSVMPNLPAFPFIMLGGFFACAGFYVPYKNELQ  332 (692)
Q Consensus       253 IPaLliS~aaGiiVTRvss~~~lg~~i~~Ql~~~p~aL~iaa~~l~~lglvPGmP~~~Fl~la~~l~~~a~~~~r~~~~~  332 (692)
                      |||||||+|||+||||+++++|+++++.+|++++||+|+++|+++++||++||||++||+.+|+++++.||+++|+++.+
T Consensus       251 IPaLliS~aaGiiVTR~~s~~~~~~~i~~Ql~~~p~al~iaa~~l~~lglvPG~P~~~Fl~la~~l~~~~~~l~r~~~~~  330 (694)
T PRK12792        251 IPALIVSLAAGLLVSKGGTRGSAEQAVLGQLGAYPRALLVAALLMFVLAIVPGLPFLPFALLGGLMAFVAYAIPRRRAAE  330 (694)
T ss_pred             HHHHHHHHHHHEEEECCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             27999987543588626885437999999986394289999999999983679816799999999999999988643101


Q ss_pred             HHHHHHHCC----CCCCCCCCCCCHHHCCCCCHHHHCC-CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEEECC
Q ss_conf             210011000----2356676753001002460122101-11112345755268899999999999809878832445437
Q gi|254780512|r  333 RLAKVAQIQ----EASKQNQHSAQLNFITSGVELVLGS-LVSNRLLSSQEDLFLRVSKIRRKFAVQYGFIVPEIKVTTDI  407 (692)
Q Consensus       333 ~~~~~~~~~----~~~~~~~~~~~~~~~~~~i~l~lg~-li~l~~~~~~~~L~~rI~~iRk~la~elG~~iP~IrIrDn~  407 (692)
                      +..+.++..    +...+.+++.......+++++++|| ++++.+. ++++|.+||+++||++++|+||++|+||||||.
T Consensus       331 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~lg~~L~~~~~~-~~g~L~~rI~~lR~~la~elG~vlP~IrIrDn~  409 (694)
T PRK12792        331 QAAEAAKVKAEEERAQAEAKDSVKESLRTAEIELCLGKQLAAQLLG-AHAELAHRVAKMRRKFAQQYGFVVPEIKLTDSL  409 (694)
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCEEEEECCCHHHHHCC-CCHHHHHHHHHHHHHHHHHCCCCCCCEEEEECC
T ss_conf             2211123344444445578653233057665566513004554041-221699999999999999829888836998568


Q ss_pred             CCCCCEEEEEECCEEEEEEEECCCCEEEECCCCCCCCCCCCEEECCCCCCCEEECCHHHHHHHHHCCCEEECHHHHHHHH
Q ss_conf             78987169997482453488417834133058887678874101476688303439788458882899070588999999
Q gi|254780512|r  408 SLPEKGYTIRVYGTTVAISELRVGEVLVILGSGQKPTFPGDEVKEPAFGMPAFAIMESFSDDLRRQGFHPIDNLAVVLTH  487 (692)
Q Consensus       408 ~L~~~~Y~I~I~Gv~va~gei~~~~lLai~~~~~~~~l~G~~~~eP~fgl~A~WI~~~~~~~a~~~G~tvvdp~~ViatH  487 (692)
                      +|+||+|+|+++|+|+++|+++||++||+++++...+++|++++||+||+||+||+++++++|+..|||+|||++|++||
T Consensus       410 ~L~p~~Y~I~I~gv~v~~g~l~p~~lLai~~~~~~~~i~G~~t~ePafGl~A~WI~~~~~~~Ae~~Gytvvdp~tVi~TH  489 (694)
T PRK12792        410 SLPPKTYQIKIHGTVVATQELRPGELLVVVGDGPRPDVPGEEVREPAFGMKALWVPDAFAGEVRREGFEPVDNASVLLTH  489 (694)
T ss_pred             CCCCCCEEEEECCEEEEECCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCEECCCHHHHHHHHHCCCEEECHHHHHHHH
T ss_conf             89997049875657887213465615897489876788872013556788602368888899997898898689999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCH
Q ss_conf             99999987999872999999999976664899998631159989999999999974986546999999998753357998
Q gi|254780512|r  488 LSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIRNLPLILESIAEVAPHSRKT  567 (692)
Q Consensus       488 l~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad~a~~~kD~  567 (692)
                      +++++|+|++||+||||||+|+|+++++||+||||++|+++|++++|+||||||+|+|||||+|+|+|||+||++++|||
T Consensus       490 L~evlr~~a~ellgrQEvq~LLd~l~~~~P~LVeElvP~~l~l~~i~~VLq~LL~E~VsIRdlrtIlEtLad~a~~~kD~  569 (694)
T PRK12792        490 LSEVIRNNLPQLLSYKDMRALLDRLDPEYKRLIDDICPSQISYSGLQAVLKLLLAERVSIRNLHLILEAIAEIAPHARRS  569 (694)
T ss_pred             HHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCCCH
T ss_conf             99999998999829999999999998764899998562568888999999999877897212899999999860136999


Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCCEEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             99999999998999865207788489998887899999998303777884645669889999999999999999956998
Q gi|254780512|r  568 SHIVEQVRIRMAQQICGDLAPTGILNILKLGNHWDMIFYQAIQRDSKGECVDFNVEPRAVEMFSENATNSIRQYIDKGIP  647 (692)
Q Consensus       568 ~~LtE~VR~aL~R~I~~~~~~~g~L~vi~L~p~lE~~l~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~~~~~~~~~g~~  647 (692)
                      +.||||||++|+||||++|+++|+|++++|+|+||+.++++++++++|++..++++|+..+++.+++++.++++...|.+
T Consensus       570 ~~LtE~VR~aL~r~I~~~~~~~g~L~vi~L~p~lE~~l~~si~~t~~G~~~~l~l~P~~~~~l~~~i~~~~~~~~~~g~~  649 (694)
T PRK12792        570 EQIAEHVRMRIAQQICGDLSDNGVLKVLRLGNRWDLAFHQSLKRDAKGEVVEFDIDPRLVEQFGTEASEAIRERMDQGHG  649 (694)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCEEEEEECHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             99999999999999998528898228999688999999999863567875336799799999999999999999865999


Q ss_pred             EEEEECHHHHHHHHHHHHHHCCCCCEEEECCCCCCCEEEEEEEEC
Q ss_conf             799828335489999988644898189440178996579888609
Q gi|254780512|r  648 LTIVTLPEIRSYIRMILERNFPSLAVLSHMEIAKGLKVNILGTIS  692 (692)
Q Consensus       648 pVLl~s~~iRr~lr~lle~~~p~l~VLS~~EI~~~~~i~~iG~Is  692 (692)
                      |||+|||++|||+|+++|+++|+++||||+||+++++++++|+||
T Consensus       650 pVLltsp~iRr~lr~lle~~~p~l~VLS~~EI~~~~~I~~vG~Is  694 (694)
T PRK12792        650 FVLVTAPEARPYVRMIIERLFPTLPVLSHVEIARGVEIKSLGTIS  694 (694)
T ss_pred             EEEECCHHHHHHHHHHHHHHCCCCEEECHHHCCCCCEEEEEEEEC
T ss_conf             699988656899999999868998696432169997268988859


No 3  
>PRK06012 flhA flagellar biosynthesis protein FlhA; Validated
Probab=100.00  E-value=0  Score=1953.57  Aligned_cols=683  Identities=42%  Similarity=0.700  Sum_probs=661.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             00000001001345899999999999960384789999999999999999999951377045420048999999999855
Q gi|254780512|r    7 GISDSNDRNHLHDFAFSFCIVLIICILFLPIPTVLLDVGLASSIALSILILMVALWIEKPLEFSSFPTVLLIVTIIRLSL   86 (692)
Q Consensus         7 ~~~~~~~~~~~~d~~~~~~~~~ii~~~iiPlP~~llD~~~~~ni~~s~lil~~~l~~~~pl~fs~FPslLL~~TlfRL~L   86 (692)
                      .+....+..+.+|+++++++++|++|||+|||+|+||+++++||++|+++||+++|+++|||||+|||+||++|||||+|
T Consensus         5 ~~~~~~~~~~~~d~~~~~~~~~ii~~~iiPlP~~llD~ll~~ni~~s~lil~~~~~~~~pl~fs~FPslLL~~TlfRL~L   84 (691)
T PRK06012          5 RLPNNLKLLNARDLAVALLVLAILAMMILPLPPFLLDILLTFNIALSVLILLVALFIQRPLDFSAFPTLLLITTLLRLAL   84 (691)
T ss_pred             CCCHHHHHCCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHCCCHHHHHHHHHHHHH
T ss_conf             55255542354315899999999999741797899999999999999999999986588412100549999999999998


Q ss_pred             HHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCHHHHHHH
Q ss_conf             48888898843777763267899987514501326999999999999999886457514666554544203760345478
Q gi|254780512|r   87 NIATTRAILSFGHEGYGAAGGIIAGFSSLVMSGDFVIGLVVFMILITINFIVITKGATRIAEVGARFTLDAIPGKQMAID  166 (692)
Q Consensus        87 niasTRlIL~~g~~g~~~AG~vI~aFG~fVvggn~vvG~viF~Il~ivqfiVItkGa~RvaEV~ARFtLDamPGKQMaID  166 (692)
                      ||||||+||++||+|+++|||||++||+||||||||||+|||+||++|||+||||||||||||+||||||||||||||||
T Consensus        85 nissTRlIL~~g~~g~~~AG~vI~~FG~FVvggn~vVG~viF~Il~ivqFiVITkGa~RvAEVaARFtLDamPGKQMaID  164 (691)
T PRK06012         85 NVASTRLILLEGHEGTDAAGKVIEAFGQFVVGGNYVVGIVVFLILVIINFVVITKGAGRIAEVAARFTLDAMPGKQMAID  164 (691)
T ss_pred             HHHHHHHHHHCCCCCCCCCHHHHHHHHHEEECCCEEEHHHHHHHHHHHHHEEEECCCHHHHHHHHHHHHCCCCCCCHHHH
T ss_conf             79999999976887764203899985210676845435589899987753488158417878777620046886322156


Q ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH
Q ss_conf             78764899989999999999865222201220134530105899999999988899999997399889999998999864
Q gi|254780512|r  167 ADLSSGLIEEEEAKRRRKELEEESAFFGAMDGASKFVRGDAIASIIITAINIVGGIVIGCFRYDMSIHHAADVFVRLSVG  246 (692)
Q Consensus       167 aDl~aG~I~~~eA~~rR~~l~~Es~fyGaMDGA~KFVkGDAiAgiiI~~iNiigG~~iG~~q~gm~~~eA~~~Yt~LTIG  246 (692)
                      ||||||+||++|||+||+++++|||||||||||||||||||||||+|++||++||++|||+|||||++||+++||+||||
T Consensus       165 aDl~aG~I~~~eA~~rR~~l~~Es~fyGaMDGAsKFVkGDAIAgiiI~~iNiigG~~iGv~q~gm~~~~A~~~Yt~LTIG  244 (691)
T PRK06012        165 ADLNAGLIDEEEAKKRREEVQQEADFYGAMDGASKFVKGDAIAGILITFINIIGGLIIGVVQHGMSFGEAAETYTLLTIG  244 (691)
T ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHCCCHHHHHHHHHHHHHCCEEEEEEECCCCHHHHHHHHHEEEEC
T ss_conf             38666999999999999999864213102553465524642899999999985114888862699899999874502242


Q ss_pred             HHHHHHHHHHHHHHHHHHEEEECCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             57888515899987331026623774305899999876186489999999999861578647899999999999999886
Q gi|254780512|r  247 DGLVSQVPALIISLSAAFLVSRTTSKGSTNTAIVEQLSHYPRALLISAFFMIVLSVMPNLPAFPFIMLGGFFACAGFYVP  326 (692)
Q Consensus       247 DGLVsQIPaLliS~aaGiiVTRvss~~~lg~~i~~Ql~~~p~aL~iaa~~l~~lglvPGmP~~~Fl~la~~l~~~a~~~~  326 (692)
                      |||||||||||+|+|||++|||+++++|+|+++.+|++++||+|+++|+++++||++||||++||+.+|++++++||+++
T Consensus       245 DGLVsQIPaLliS~AaGiiVTR~~~~~~lg~~i~~Ql~~~p~al~i~a~il~~lglvPG~P~~~Fl~la~~l~~~~~~l~  324 (691)
T PRK06012        245 DGLVAQIPALLISTAAGIIVTRVSSDGDFGEAIVGQLFANPKALYIAAGVLFLLGLVPGMPHLPFLLLAGLLGFLAYRLR  324 (691)
T ss_pred             HHHHHHHHHHHHHHHHHEEEECCCCCCCHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             14887717999997754588757785558999999997296789999999999987589816799999999999999987


Q ss_pred             HHHHHHHHHHHHHCCCCCCCCCCCCCHHHCCCCCHHHHCC-CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEEE
Q ss_conf             4432222100110002356676753001002460122101-111123457552688999999999998098788324454
Q gi|254780512|r  327 YKNELQRLAKVAQIQEASKQNQHSAQLNFITSGVELVLGS-LVSNRLLSSQEDLFLRVSKIRRKFAVQYGFIVPEIKVTT  405 (692)
Q Consensus       327 r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~l~lg~-li~l~~~~~~~~L~~rI~~iRk~la~elG~~iP~IrIrD  405 (692)
                      |+++.++..+.+...++..+.+.++......||+++++|| ++++++.+++++|.+||+++||++++|+||++|+|||||
T Consensus       325 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vd~i~lelg~~Li~lvd~~~~g~L~~RI~~lRk~ia~elG~vlP~IrIrD  404 (691)
T PRK06012        325 KREKKEAEEAAAEAEEAAEPEEESWDDVLPVDPLGLEVGYRLIPLVDENQGGELLDRIKGIRKKIAQELGFLVPPVRIRD  404 (691)
T ss_pred             HHHCCCCCCCCCCCCCCCCCCCCCHHHCCCCCCEEEEEHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEE
T ss_conf             41012323344444445567865633425677368887064797541103672999999999999998298878169986


Q ss_pred             CCCCCCCEEEEEECCEEEEEEEECCCCEEEECCCCCCCCCCCCEEECCCCCCCEEECCHHHHHHHHHCCCEEECHHHHHH
Q ss_conf             37789871699974824534884178341330588876788741014766883034397884588828990705889999
Q gi|254780512|r  406 DISLPEKGYTIRVYGTTVAISELRVGEVLVILGSGQKPTFPGDEVKEPAFGMPAFAIMESFSDDLRRQGFHPIDNLAVVL  485 (692)
Q Consensus       406 n~~L~~~~Y~I~I~Gv~va~gei~~~~lLai~~~~~~~~l~G~~~~eP~fgl~A~WI~~~~~~~a~~~G~tvvdp~~Via  485 (692)
                      |.+|+||+|+|+++|+++++|+++||++||+++++...+++|++++||+||+||+||++++|++|+..|||++||++|++
T Consensus       405 n~~L~p~~Y~I~I~gv~va~g~i~pd~~LAi~~~~~~~~l~G~~t~ePafGl~A~WI~~~~~~~A~~~Gytvvdp~sVia  484 (691)
T PRK06012        405 NLQLPPNEYRIKIKGVEVGEGELRPGRLLAMNPGGVDGELPGIPTKEPAFGLPAVWIDEALREQAQLLGYTVVDPATVVA  484 (691)
T ss_pred             CCCCCCCEEEEEECCEEEEEEEECCCCEEEECCCCCCCCCCCCCCCCCCCCCCEEEECHHHHHHHHHCCCEEECHHHHHH
T ss_conf             78899876999989888988887788577578877656789842458899985397587568899987998976588999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCC
Q ss_conf             99999999879998729999999999766648999986311599899999999999749865469999999987533579
Q gi|254780512|r  486 THLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIRNLPLILESIAEVAPHSR  565 (692)
Q Consensus       486 tHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad~a~~~k  565 (692)
                      ||++|++|+|++||+|+||||+|+|+++++||+||||++|+++|++++|+||||||+|+|||||+++|+|||+||++++|
T Consensus       485 THL~evlr~~a~ellg~QEvq~LLd~L~~~~p~LVeElvp~~lsl~~i~~VLq~LL~E~VsIRdl~~IlEaLad~a~~~k  564 (691)
T PRK06012        485 THLTEVIKQHAAELLGRQEVQQLLDRLAKEYPKLVEELVPKVLSLGTLQKVLQNLLKERVSIRDLRTILETLAEYAPITK  564 (691)
T ss_pred             HHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCC
T ss_conf             99999999989998489999999999986748999986126758899999999998699610468999999998733579


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHCC-CCEEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             98999999999989998652077-88489998887899999998303777884645669889999999999999999956
Q gi|254780512|r  566 KTSHIVEQVRIRMAQQICGDLAP-TGILNILKLGNHWDMIFYQAIQRDSKGECVDFNVEPRAVEMFSENATNSIRQYIDK  644 (692)
Q Consensus       566 D~~~LtE~VR~aL~R~I~~~~~~-~g~L~vi~L~p~lE~~l~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~~~~~~~~~  644 (692)
                      ||+.||||||++|+||||++|.+ +|+|+|++|+|+||+.++++++ +++|++  +++||+..+++++++++.++++..+
T Consensus       565 D~~~LtE~VR~aL~r~I~~~~~~~~g~L~vi~L~p~lE~~l~~si~-~~~g~~--l~L~P~~~~~li~~l~~~~~~~~~~  641 (691)
T PRK06012        565 DPDELTEHVRQRLGRQIVQQYKGEDGELPVITLDPELEQLLLQSLQ-GGGGSY--LALEPGLAERLLQSLQEAVERQEMK  641 (691)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEECHHHHHHHHHHHH-HCCCCC--CCCCHHHHHHHHHHHHHHHHHHHHC
T ss_conf             9999999999999999999852899746999978899999999986-078876--6779899999999999999999854


Q ss_pred             CCCEEEEECHHHHHHHHHHHHHHCCCCCEEEECCCCCCCEEEEEEEEC
Q ss_conf             998799828335489999988644898189440178996579888609
Q gi|254780512|r  645 GIPLTIVTLPEIRSYIRMILERNFPSLAVLSHMEIAKGLKVNILGTIS  692 (692)
Q Consensus       645 g~~pVLl~s~~iRr~lr~lle~~~p~l~VLS~~EI~~~~~i~~iG~Is  692 (692)
                      |.+|||+|||++|||+|+++|+++|+++||||+||+++++++++|+|+
T Consensus       642 g~~pVLl~s~~iRr~lr~lie~~~p~l~VLS~~EI~~~~~i~~~g~I~  689 (691)
T PRK06012        642 GEPPVLLVSPALRPYLRRLLERFLPQLPVLSYNEIPDNKRIRIVGTVG  689 (691)
T ss_pred             CCCEEEEECHHHHHHHHHHHHHHCCCCEEEEHHHCCCCCCEEEEEEEC
T ss_conf             999699908778999999999868998696034349998158999961


No 4  
>pfam00771 FHIPEP FHIPEP family.
Probab=100.00  E-value=0  Score=1896.05  Aligned_cols=653  Identities=43%  Similarity=0.714  Sum_probs=628.5

Q ss_pred             HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHH
Q ss_conf             99999960384789999999999999999999951377045420048999999999855488888988437777632678
Q gi|254780512|r   28 LIICILFLPIPTVLLDVGLASSIALSILILMVALWIEKPLEFSSFPTVLLIVTIIRLSLNIATTRAILSFGHEGYGAAGG  107 (692)
Q Consensus        28 ~ii~~~iiPlP~~llD~~~~~ni~~s~lil~~~l~~~~pl~fs~FPslLL~~TlfRL~LniasTRlIL~~g~~g~~~AG~  107 (692)
                      +|++|||+|||+|+||+++++||++|+++||+++|+++|||||+|||+||++|||||+|||||||+||++||+   +||+
T Consensus         1 ~ii~~~i~PlP~~llD~l~~~ni~~s~~il~~~~~~~~~l~fs~FPslLL~~TlfRL~LnissTRlIL~~g~~---aAG~   77 (658)
T pfam00771         1 AILAMMILPLPPFLLDLLLAFNIALSLLILLVALYIKRPLDFSSFPSLLLITTLFRLALNVASTRLILLEGHD---AAGK   77 (658)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCCC---CCCH
T ss_conf             9699998069889999999999999999999999658831211054999999999999879999999966840---1438


Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHHH
Q ss_conf             99987514501326999999999999999886457514666554544203760345478787648999899999999998
Q gi|254780512|r  108 IIAGFSSLVMSGDFVIGLVVFMILITINFIVITKGATRIAEVGARFTLDAIPGKQMAIDADLSSGLIEEEEAKRRRKELE  187 (692)
Q Consensus       108 vI~aFG~fVvggn~vvG~viF~Il~ivqfiVItkGa~RvaEV~ARFtLDamPGKQMaIDaDl~aG~I~~~eA~~rR~~l~  187 (692)
                      ||++||+||+|||||||+|||+||++|||+||||||||||||+||||||||||||||||||||||+||++|||+||++++
T Consensus        78 vI~aFG~fVvggn~vVG~viF~Il~ivqF~VITkGa~RvAEVaARFtLDamPGKQMaIDaDl~aG~I~~~eA~~rR~~l~  157 (658)
T pfam00771        78 VIEAFGEFVVGGNLVVGLVVFLILVIVNFIVITKGAERVAEVAARFTLDAMPGKQMAIDADLNAGLIDEEEARRRREELE  157 (658)
T ss_pred             HHHHHHHEEECCCEEEHHHHHHHHHHHHHEEEECCCHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCHHHHHHHHHHHH
T ss_conf             99984120676845534589899988753388158417878777620046886322156386669999999999999988


Q ss_pred             HHHCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEEE
Q ss_conf             65222201220134530105899999999988899999997399889999998999864578885158999873310266
Q gi|254780512|r  188 EESAFFGAMDGASKFVRGDAIASIIITAINIVGGIVIGCFRYDMSIHHAADVFVRLSVGDGLVSQVPALIISLSAAFLVS  267 (692)
Q Consensus       188 ~Es~fyGaMDGA~KFVkGDAiAgiiI~~iNiigG~~iG~~q~gm~~~eA~~~Yt~LTIGDGLVsQIPaLliS~aaGiiVT  267 (692)
                      +|||||||||||||||||||||||+|++||++||++|||+|||||++||+++||+|||||||||||||||||+|||++||
T Consensus       158 ~Ea~fyGaMDGAsKFVkGDAIAgiiI~~iNiigGl~iG~~q~gm~~~~A~~~Y~~LTIGDGLVsQIPaLliS~aagiiVT  237 (658)
T pfam00771       158 READFYGAMDGASKFVKGDAIAGIIITLINIIGGLIIGVLQHGMSFGEAAQTYTLLTIGDGLVSQIPALLISTAAGIIVT  237 (658)
T ss_pred             HHHHHHHCCCHHHHHHCCCHHHHHHHHHHHHHHCEEEEEEECCCCHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHCEEEE
T ss_conf             76445430320455523542899999999985002888874699899999997887512158887179999875217997


Q ss_pred             ECCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---CCCCC
Q ss_conf             237743058999998761864899999999998615786478999999999999998864432222100110---00235
Q gi|254780512|r  268 RTTSKGSTNTAIVEQLSHYPRALLISAFFMIVLSVMPNLPAFPFIMLGGFFACAGFYVPYKNELQRLAKVAQ---IQEAS  344 (692)
Q Consensus       268 Rvss~~~lg~~i~~Ql~~~p~aL~iaa~~l~~lglvPGmP~~~Fl~la~~l~~~a~~~~r~~~~~~~~~~~~---~~~~~  344 (692)
                      |+++++|+|+++++|++++||+|+++|+++++||++||||++||+.+|+++++.||+++|+++.++..+...   ...++
T Consensus       238 Rv~~~~~lg~~i~~Ql~~~p~al~iaa~il~~lglvPG~P~~~Fl~la~~l~~~a~~l~~~~~~~~~~~~~~~~~~~~~~  317 (658)
T pfam00771       238 RVSSEGNLGEEIVGQLFANPKALYIAAGVLLLLGLVPGMPTLPFLLLAALLGGLAYRLSKRKRQEAAEAEAEAAEAEAAA  317 (658)
T ss_pred             CCCCCCCHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCC
T ss_conf             37874548899999997091799999999999986479806799999999999999998521124332211123344556


Q ss_pred             CCCCCCCCHHHCCCCCHHHHCC-CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCEEEEEECCEEE
Q ss_conf             6676753001002460122101-111123457552688999999999998098788324454377898716999748245
Q gi|254780512|r  345 KQNQHSAQLNFITSGVELVLGS-LVSNRLLSSQEDLFLRVSKIRRKFAVQYGFIVPEIKVTTDISLPEKGYTIRVYGTTV  423 (692)
Q Consensus       345 ~~~~~~~~~~~~~~~i~l~lg~-li~l~~~~~~~~L~~rI~~iRk~la~elG~~iP~IrIrDn~~L~~~~Y~I~I~Gv~v  423 (692)
                      .+.+.++......+|+++++|| ++++++.+++++|.+||+++||++++||||++|+||||||.+|+||+|+|+++|+|+
T Consensus       318 ~~~~~~~~~~~~~dpl~lelg~~Li~lvd~~~gg~L~~rI~~lRk~la~elG~vlP~IrIrDn~~L~~~~Y~I~I~gv~v  397 (658)
T pfam00771       318 EPEEESWDDVLPVDPLELELGYGLIPLVDPNQGGDLLDRIKGIRRQLAQELGFVLPPIRIRDNLQLPPNEYRILLKGVEV  397 (658)
T ss_pred             CCCCCCHHHCCCCCCEEEEECHHHHHHHCHHCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCEEEEEECCEEE
T ss_conf             67877855636776089998776797743202784899999999999998399887089996788998738999998999


Q ss_pred             EEEEECCCCEEEECCCCCCCCCCCCEEECCCCCCCEEECCHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             34884178341330588876788741014766883034397884588828990705889999999999998799987299
Q gi|254780512|r  424 AISELRVGEVLVILGSGQKPTFPGDEVKEPAFGMPAFAIMESFSDDLRRQGFHPIDNLAVVLTHLSEVIRNNLSQLLSYK  503 (692)
Q Consensus       424 a~gei~~~~lLai~~~~~~~~l~G~~~~eP~fgl~A~WI~~~~~~~a~~~G~tvvdp~~ViatHl~evir~~a~ellg~q  503 (692)
                      ++|+++||++||+++++...+++|++++||+||+||+||++++|++|+..|||++||++|++||+++++|+|++||+|||
T Consensus       398 a~g~l~~~~lLAi~~~~~~~~i~G~~~~eP~fGl~a~WI~~~~~~~A~~~G~tvvd~~~ViatHL~evlr~~a~ellg~q  477 (658)
T pfam00771       398 ARGELRPDRLLAIDPGGVLGEIPGIPTKEPAFGLPAVWIDPDQREEAEAAGYTVVDPATVIATHLSEVLRRHAAELLGRQ  477 (658)
T ss_pred             EEEEECCCCEEEECCCCCCCCCCCEECCCCCCCCCEEEECHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHCCHH
T ss_conf             99887789577667987655679804026899996288676247699978998974588999999999999899972999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             99999999766648999986311599899999999999749865469999999987533579989999999999899986
Q gi|254780512|r  504 DVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIRNLPLILESIAEVAPHSRKTSHIVEQVRIRMAQQIC  583 (692)
Q Consensus       504 Evq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad~a~~~kD~~~LtE~VR~aL~R~I~  583 (692)
                      |||+|+|+++++||+||||++|+++|++++|+||||||+|+|||||+|+|+|||+||++++|||+.||||||++|+||||
T Consensus       478 E~q~LLd~l~~~~p~LVeElvP~~lsl~~i~~VLq~LL~E~VsIRdl~tIlEtLad~a~~~kD~~~LtE~VR~aL~r~I~  557 (658)
T pfam00771       478 EVQKLLDRLEKEYPKLVEELVPKLLPLGRIQKVLQNLLKERVSIRDLRTILEALAEWAPKTKDPDLLTEYVRQALGRQIV  557 (658)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
T ss_conf             99999999987758999987416679999999999999779871669999999998722579999999999999999999


Q ss_pred             HHHCC-CCEEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEECHHHHHHHHH
Q ss_conf             52077-88489998887899999998303777884645669889999999999999999956998799828335489999
Q gi|254780512|r  584 GDLAP-TGILNILKLGNHWDMIFYQAIQRDSKGECVDFNVEPRAVEMFSENATNSIRQYIDKGIPLTIVTLPEIRSYIRM  662 (692)
Q Consensus       584 ~~~~~-~g~L~vi~L~p~lE~~l~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~~~~~~~~~g~~pVLl~s~~iRr~lr~  662 (692)
                      ++|.+ +|+|++++|+|+||++++++++++++|++  +++||+..+++++++++.++++...|.+||++|||++||++|+
T Consensus       558 ~~~~~~~g~L~vi~L~p~lE~~l~~~i~~~~~g~~--l~L~P~~~~~li~~l~~~~~~~~~~g~~pVLl~s~~iRr~lr~  635 (658)
T pfam00771       558 QQYADEDGTLPVITLDPELEQLLRDSIRQTEGGSY--LALDPDLAERLLESVREALEKLAAQGAPPVLLTSPDIRRFLRR  635 (658)
T ss_pred             HHHCCCCCEEEEEEECHHHHHHHHHHHHCCCCCCC--CCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEECHHHHHHHHH
T ss_conf             98548997369999688999999998632678876--6779899999999999999999865999699908777999999


Q ss_pred             HHHHHCCCCCEEEECCCCCCCEE
Q ss_conf             98864489818944017899657
Q gi|254780512|r  663 ILERNFPSLAVLSHMEIAKGLKV  685 (692)
Q Consensus       663 lle~~~p~l~VLS~~EI~~~~~i  685 (692)
                      ++++++|+++||||+||++++++
T Consensus       636 lle~~~p~l~VLS~~EI~~~~~i  658 (658)
T pfam00771       636 LLERFFPDLPVLSYNEIPPEVEI  658 (658)
T ss_pred             HHHHHCCCCEEEECHHCCCCCCC
T ss_conf             99986899869720004898929


No 5  
>PRK12720 secretion system apparatus protein SsaV; Provisional
Probab=100.00  E-value=0  Score=1869.89  Aligned_cols=660  Identities=29%  Similarity=0.506  Sum_probs=616.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             00010013458999999999999603847899999999999999999999513770454200489999999998554888
Q gi|254780512|r   11 SNDRNHLHDFAFSFCIVLIICILFLPIPTVLLDVGLASSIALSILILMVALWIEKPLEFSSFPTVLLIVTIIRLSLNIAT   90 (692)
Q Consensus        11 ~~~~~~~~d~~~~~~~~~ii~~~iiPlP~~llD~~~~~ni~~s~lil~~~l~~~~pl~fs~FPslLL~~TlfRL~Lnias   90 (692)
                      ++..+.++|+++++++++|++|||+|||+|+||+++++||++|++|||+++|+++|||||+|||+||++|||||||||||
T Consensus         8 ~~~~~~~~d~~~a~~~~~ii~mmiiPlP~~llD~~l~~ni~~s~~il~~~~~~~~pl~fs~FPslLL~~TlfRLaLnvss   87 (681)
T PRK12720          8 LSMCAGRQDIVLATMLLVAVFMMILPLPTWMVDILIAINLMFSVILLMIAIYLRDPLEFSVFPSLLLITTLYRLALTIST   87 (681)
T ss_pred             HHHHCCCCCEEHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHCCCHHHHHHHHHHHHHHHHH
T ss_conf             99852787544799999999998507978999999999999999999999865883121005599999999999887898


Q ss_pred             HHHHHHCCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf             88988437777632678999875145013269999999999999998864575146665545442037603454787876
Q gi|254780512|r   91 TRAILSFGHEGYGAAGGIIAGFSSLVMSGDFVIGLVVFMILITINFIVITKGATRIAEVGARFTLDAIPGKQMAIDADLS  170 (692)
Q Consensus        91 TRlIL~~g~~g~~~AG~vI~aFG~fVvggn~vvG~viF~Il~ivqfiVItkGa~RvaEV~ARFtLDamPGKQMaIDaDl~  170 (692)
                      ||+||++||     |||||++||+||||||||||+|||+||++|||+||||||||||||+||||||||||||||||||||
T Consensus        88 TRlIL~~g~-----AG~vI~aFG~FVvgGn~vVG~vvF~Il~ivqFiVITkGa~RvAEV~ARFtLDamPGKQMaIDADL~  162 (681)
T PRK12720         88 SRLVLLQHD-----AGNIVDAFGKFVVGGNLTVGLIVFTIITIVQFIVITKGSERVAEVSARFSLDGMPGKQMSIDGDMR  162 (681)
T ss_pred             HHHHHHCCC-----CCHHHHHHHHEEECCCEEEHHHHHHHHHHHHHEEEECCCHHHHHHHHHHEECCCCCCCHHHHHHHH
T ss_conf             999986477-----643999830016768455345897999776424880584067566554110568752021888987


Q ss_pred             CCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             48999899999999998652222012201345301058999999999888999999973998899999989998645788
Q gi|254780512|r  171 SGLIEEEEAKRRRKELEEESAFFGAMDGASKFVRGDAIASIIITAINIVGGIVIGCFRYDMSIHHAADVFVRLSVGDGLV  250 (692)
Q Consensus       171 aG~I~~~eA~~rR~~l~~Es~fyGaMDGA~KFVkGDAiAgiiI~~iNiigG~~iG~~q~gm~~~eA~~~Yt~LTIGDGLV  250 (692)
                      ||+||++|||+||+++++|||||||||||||||||||||||+|++||++||++|||+|||||++||+++||+||||||||
T Consensus       163 aG~I~~~eAr~rR~~l~~Es~fyGaMDGAsKFVkGDAIAgiiI~~iNiiGGl~iG~~q~gm~~~eA~~~YtlLTIGDGLV  242 (681)
T PRK12720        163 AGVIDADEARRLRQHVQKESRLLGAMDGAMKFVKGDAIAGIIVILVNIIGGIIIGVMQHDMSASEAVNTYAVLSIGDGLC  242 (681)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHCCCCHHHHHHHHHHHHHCCEEEEEEECCCCHHHHHHHHHHHHCCHHHH
T ss_conf             69999899999999998764554105562031163289999999999854418998746987999998856431122488


Q ss_pred             HHHHHHHHHHHHHHEEEECCCC--CCHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             8515899987331026623774--30589999987618648999999999986157864789999999999999988644
Q gi|254780512|r  251 SQVPALIISLSAAFLVSRTTSK--GSTNTAIVEQLSHYPRALLISAFFMIVLSVMPNLPAFPFIMLGGFFACAGFYVPYK  328 (692)
Q Consensus       251 sQIPaLliS~aaGiiVTRvss~--~~lg~~i~~Ql~~~p~aL~iaa~~l~~lglvPGmP~~~Fl~la~~l~~~a~~~~r~  328 (692)
                      |||||||+|+|||++|||++++  +|+|+++++|++++||+|+++|++|++||++||||++||+.+|+++++.+|+++||
T Consensus       243 sQIPaLliS~aagiiVTRv~~~~~~~lg~~i~~Ql~~~p~al~i~a~il~~lglvPG~P~~~F~~la~~l~~~~~~~~r~  322 (681)
T PRK12720        243 GQIPSLLISLTAGIIVTRVPGEKRQNLANELSSQIGRQPQSLILAAVVLMLFALIPGFPFITFATLAALVALPIILIRRK  322 (681)
T ss_pred             HHHHHHHHHHHHHHEEEECCCCCCCCHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             77179999986650787047887444899999999609089999999999996268972789999999999999998744


Q ss_pred             HHHHHHHHHHHCCCCCCCCCCCCCHHHCCCCCHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEEECCC
Q ss_conf             32222100110002356676753001002460122101111123457552688999999999998098788324454377
Q gi|254780512|r  329 NELQRLAKVAQIQEASKQNQHSAQLNFITSGVELVLGSLVSNRLLSSQEDLFLRVSKIRRKFAVQYGFIVPEIKVTTDIS  408 (692)
Q Consensus       329 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~l~lg~li~l~~~~~~~~L~~rI~~iRk~la~elG~~iP~IrIrDn~~  408 (692)
                      ++....++.+.....+. .++.........|+.+++++.      .++++|.+||+++||++++|+||++|+||||||.+
T Consensus       323 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~pl~l~l~~~------l~~~~L~~rI~~iRr~la~elG~vlP~IrIrDn~~  395 (681)
T PRK12720        323 KRRVSADGVEAGGSEEG-APEKDSMVPGACPLILRLSPT------LHSADLIRDIDALRWFLFEDLGVPLPEVNIEVLPE  395 (681)
T ss_pred             HHHCCCCCCCCCCCCCC-CCCCCCCCCCCCCEEEEECCC------CCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEECCC
T ss_conf             42013445445543335-764222476644079985555------56625899999999999997498867359985688


Q ss_pred             CCCCEEEEEECCEEEEEEEECCCCEEEECCCCCCCCCCCCEEECCCCCCCEEECCHHHHHHHHHCCCEEECHHHHHHHHH
Q ss_conf             89871699974824534884178341330588876788741014766883034397884588828990705889999999
Q gi|254780512|r  409 LPEKGYTIRVYGTTVAISELRVGEVLVILGSGQKPTFPGDEVKEPAFGMPAFAIMESFSDDLRRQGFHPIDNLAVVLTHL  488 (692)
Q Consensus       409 L~~~~Y~I~I~Gv~va~gei~~~~lLai~~~~~~~~l~G~~~~eP~fgl~A~WI~~~~~~~a~~~G~tvvdp~~ViatHl  488 (692)
                      |+||+|+|+++|+++++|+++||++||+++++   +++|++++||+||+||+||+++++++|+..|||+|||++|++||+
T Consensus       396 L~p~~Y~I~I~gv~V~~g~l~p~~lLai~~~~---~l~g~~~~ePafgl~a~WI~~~~~~~Ae~~GytvVdp~tViaTHL  472 (681)
T PRK12720        396 PTEKTLTVLLYQEPVLSLSLPPQAYLLIGADA---SVVGDSQTLPNGMGQICWLTKDMAHQAQGFGLDVFAGSQRISALL  472 (681)
T ss_pred             CCCCEEEEEECCEEEEEEEECCCEEEEECCCC---CCCCCCCCCCCCCCCEEEECCCCHHHHHHCCCEEECHHHHHHHHH
T ss_conf             99987999984199888887688288757877---778865557888986489673208799978998987088999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHH
Q ss_conf             99999879998729999999999766648999986311599899999999999749865469999999987533579989
Q gi|254780512|r  489 SEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIRNLPLILESIAEVAPHSRKTS  568 (692)
Q Consensus       489 ~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad~a~~~kD~~  568 (692)
                      +|++|+|++||+|+||||+|+|+++++||+||||+ |+++|++++|+||||||+|+|||||+++|+|||+||++++|||+
T Consensus       473 ~evir~~a~eLLgrqEvq~LLD~L~~~~P~LVeEl-p~~l~l~~i~~VLq~LL~E~VsIRdl~tIlEtLad~a~~~kd~~  551 (681)
T PRK12720        473 KCVLLRYMGEFIGVQETRYLMDAMEKRYGELVKEL-QRQLPIGKIAETLQRLVEERVSIRDLRLIFGTLIDWAPREKDVL  551 (681)
T ss_pred             HHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCCCHH
T ss_conf             99999859998199999999999986678899756-16689899999999998758733228899999998722459999


Q ss_pred             HHHHHHHHHHHHHHHHHHCC-CCEEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             99999999989998652077-88489998887899999998303777884645669889999999999999999956998
Q gi|254780512|r  569 HIVEQVRIRMAQQICGDLAP-TGILNILKLGNHWDMIFYQAIQRDSKGECVDFNVEPRAVEMFSENATNSIRQYIDKGIP  647 (692)
Q Consensus       569 ~LtE~VR~aL~R~I~~~~~~-~g~L~vi~L~p~lE~~l~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~~~~~~~~~g~~  647 (692)
                      .||||||++|+||||++|.+ +++|+|++|+|+||++++++++++++|.+  ++++|+..+++++++++.+.    ++.+
T Consensus       552 ~LtE~VR~aL~r~I~~~~~~~~~~L~VitL~p~lE~~l~~si~~~~~g~~--l~L~p~~~~~l~~~v~~~~~----~~~~  625 (681)
T PRK12720        552 MLTEYVRIALRRHILRRLNPEGKWIPVLRIGEGIENLVRESIRQTAMGTY--SALSSRHKTQILQLIEQALA----ESQK  625 (681)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCEEEEEEECHHHHHHHHHHHHHCCCCCC--CCCCHHHHHHHHHHHHHHHH----CCCC
T ss_conf             99999999999999998558997369999688999999999751368876--68898999999999999997----0598


Q ss_pred             EEEEECHHHHHHHHHHHHHHCCCCCEEEECCCCCCCEEEEEEEEC
Q ss_conf             799828335489999988644898189440178996579888609
Q gi|254780512|r  648 LTIVTLPEIRSYIRMILERNFPSLAVLSHMEIAKGLKVNILGTIS  692 (692)
Q Consensus       648 pVLl~s~~iRr~lr~lle~~~p~l~VLS~~EI~~~~~i~~iG~Is  692 (692)
                      ||++|||++|||+|+++++++|+++||||+|||++++++++|+|+
T Consensus       626 ~VLlvs~~iRr~lr~lle~~~p~l~VLSy~EI~~~~~I~vvG~I~  670 (681)
T PRK12720        626 LVLVTSVDVRRFLRKITERTLFDVPVLSWQELGEESLIQVVGSID  670 (681)
T ss_pred             EEEECCHHHHHHHHHHHHHHCCCCEEECHHHCCCCCEEEEEEEEE
T ss_conf             699918656799999999768998697132159998268999999


No 6  
>TIGR01399 hrcV type III secretion protein, HrcV family; InterPro: IPR006302    Members of this family are closely homologous to the flagellar biosynthesis protein FlhA and should all participate in type III secretion systems. Examples include InvA (Salmonella enterica), LcrD (Yersinia enterocolitica), HrcV (Xanthomonas), etc. Type III secretion systems resemble flagellar biogenesis systems, and may share the property of translocating special classes of peptides through the membrane. ; GO: 0015031 protein transport, 0016021 integral to membrane.
Probab=100.00  E-value=0  Score=1847.26  Aligned_cols=666  Identities=35%  Similarity=0.589  Sum_probs=607.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             01345899999999999960384789999999999999999999951377045420048999999999855488888988
Q gi|254780512|r   16 HLHDFAFSFCIVLIICILFLPIPTVLLDVGLASSIALSILILMVALWIEKPLEFSSFPTVLLIVTIIRLSLNIATTRAIL   95 (692)
Q Consensus        16 ~~~d~~~~~~~~~ii~~~iiPlP~~llD~~~~~ni~~s~lil~~~l~~~~pl~fs~FPslLL~~TlfRL~LniasTRlIL   95 (692)
                      .++|+++|++++++|+|||+||||+++|+||++||++|+++||+|+|+++||+||+|||+||+||||||||||||||+||
T Consensus         1 ~~~d~~la~~~l~~v~MMilPLPt~~vD~LIa~Ni~isvlLLM~a~Yi~~pL~lS~FP~vLLiTTlFRLaLsISTtRlIL   80 (709)
T TIGR01399         1 ARSDLVLALLLLAIVSMMILPLPTLLVDILIAINITISVLLLMIAIYIPDPLALSAFPAVLLITTLFRLALSISTTRLIL   80 (709)
T ss_pred             CCCCHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             98725478889999999873110899999999999999999999860278345553268999999999888699999999


Q ss_pred             HCCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCC
Q ss_conf             43777763267899987514501326999999999999999886457514666554544203760345478787648999
Q gi|254780512|r   96 SFGHEGYGAAGGIIAGFSSLVMSGDFVIGLVVFMILITINFIVITKGATRIAEVGARFTLDAIPGKQMAIDADLSSGLIE  175 (692)
Q Consensus        96 ~~g~~g~~~AG~vI~aFG~fVvggn~vvG~viF~Il~ivqfiVItkGa~RvaEV~ARFtLDamPGKQMaIDaDl~aG~I~  175 (692)
                      +|++     |||||+|||+||||||++||+|||+|+|||||||||||||||||||||||||||||||||||||||||+||
T Consensus        81 L~~d-----AG~Ii~~FG~FVVGGNl~VGlViFlIiTiVQFiVITKGsERVAEVsARFsLDaMPGKQMSIDaDLRAg~ID  155 (709)
T TIGR01399        81 LHAD-----AGNIIEAFGDFVVGGNLVVGLVIFLIITIVQFIVITKGSERVAEVSARFSLDAMPGKQMSIDADLRAGVID  155 (709)
T ss_pred             HHCC-----CCHHHHHHCCCEECCEEEEEHHHHHHHHHHHHHHHHCCCCEEEEEEEEEECCCCCCCCCCCHHHHCCCCCC
T ss_conf             7402-----11075760881571402350345467788755653146630332011220278898343303772058679


Q ss_pred             HHHHHHHHHHHHHHHCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             89999999999865222201220134530105899999999988899999997399889999998999864578885158
Q gi|254780512|r  176 EEEAKRRRKELEEESAFFGAMDGASKFVRGDAIASIIITAINIVGGIVIGCFRYDMSIHHAADVFVRLSVGDGLVSQVPA  255 (692)
Q Consensus       176 ~~eA~~rR~~l~~Es~fyGaMDGA~KFVkGDAiAgiiI~~iNiigG~~iG~~q~gm~~~eA~~~Yt~LTIGDGLVsQIPa  255 (692)
                      .+|||+||+.+|||||||||||||||||||||||||||++||++||+.|||+||||+++||+|+||+|||||||||||||
T Consensus       156 ~~eAR~rRs~l~kESQL~GaMDGAMKFVKGDAIAGiII~~iNi~GGi~IGv~~~GM~~~eAl~~YtvLtiGDgLvsQIPa  235 (709)
T TIGR01399       156 ADEARERRSTLEKESQLYGAMDGAMKFVKGDAIAGIIIVLINILGGISIGVTQHGMSASEALHLYTVLTIGDGLVSQIPA  235 (709)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             78999998899888886267644342200233777999999999789878885387888898451477685578898899


Q ss_pred             HHHHHHHHHEEEECC--CC----CCHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH-
Q ss_conf             999873310266237--74----30589999987618648999999999986157864789999999999999988644-
Q gi|254780512|r  256 LIISLSAAFLVSRTT--SK----GSTNTAIVEQLSHYPRALLISAFFMIVLSVMPNLPAFPFIMLGGFFACAGFYVPYK-  328 (692)
Q Consensus       256 LliS~aaGiiVTRvs--s~----~~lg~~i~~Ql~~~p~aL~iaa~~l~~lglvPGmP~~~Fl~la~~l~~~a~~~~r~-  328 (692)
                      ||||++||+|||||+  ++    .|||.||++|++++||||.++|++|++||++||||+++|+.+|++|++++|.+.+| 
T Consensus       236 LLIS~tAG~ivTRV~d~ge~~k~~nLG~eI~~Ql~~~p~al~~~Avlll~~a~~PGFP~~~F~~lAv~l~~~~y~~~~~k  315 (709)
T TIGR01399       236 LLISVTAGIIVTRVPDEGEAKKEENLGREIVSQLVSQPRALLLAAVLLLLFALIPGFPLLVFALLAVLLAVLGYLLSRRK  315 (709)
T ss_pred             HHHHHHCCEEEEECCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             99998569468764899801578788888999754175899999999999862045406999999999998888862468


Q ss_pred             --HHHHHHHH----HHHCCCCCCCC----CCCCC-----------HHHCCCCCHHHHCCCCCCCCCCCCCCHH------H
Q ss_conf             --32222100----11000235667----67530-----------0100246012210111112345755268------8
Q gi|254780512|r  329 --NELQRLAK----VAQIQEASKQN----QHSAQ-----------LNFITSGVELVLGSLVSNRLLSSQEDLF------L  381 (692)
Q Consensus       329 --~~~~~~~~----~~~~~~~~~~~----~~~~~-----------~~~~~~~i~l~lg~li~l~~~~~~~~L~------~  381 (692)
                        ++......    .+....+..+.    ..+.+           ......|+-|.+.+.+..  ..+...|.      +
T Consensus       316 PaK~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ankGrlGeqe~~~~a~Pl~L~l~p~l~~--~~~~~~L~Gqsfvd~  393 (709)
T TIGR01399       316 PAKRSKAKANTKGAQALGAEASAPGAAALIKNSDKANKGRLGEQEVFAEAVPLILRLSPDLQE--SIDKDALEGQSFVDQ  393 (709)
T ss_pred             CCCCCCCCCCCCCHHHHHEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCHHH--HHHHHHHCCCHHHHH
T ss_conf             888886666665302220112466521134443322236555310120231355760766578--887776236415789


Q ss_pred             HHHHHHHHHHHHHCCCCCCEEEEECCCCCCCEEEEEECCEEEEEEEECCCCEEEECCCCCCCCCCCCE--EECC-CCCCC
Q ss_conf             99999999999809878832445437789871699974824534884178341330588876788741--0147-66883
Q gi|254780512|r  382 RVSKIRRKFAVQYGFIVPEIKVTTDISLPEKGYTIRVYGTTVAISELRVGEVLVILGSGQKPTFPGDE--VKEP-AFGMP  458 (692)
Q Consensus       382 rI~~iRk~la~elG~~iP~IrIrDn~~L~~~~Y~I~I~Gv~va~gei~~~~lLai~~~~~~~~l~G~~--~~eP-~fgl~  458 (692)
                      .|..+|+++++|+|+++|+|+++++..+++++|+|.+++||+.++++++|+++.-+.........+.+  +..+ .-..+
T Consensus       394 ~i~~~R~~l~~d~G~plP~i~~~~~~~l~~~~~~~ll~~vP~~~~~~~~~~~~~~~~~~~P~~~~~~~~~~~~~~~~~~~  473 (709)
T TIGR01399       394 EIERMRRALFEDLGVPLPGIIVRVVESLPDNEFEILLYEVPVLRGTIPPGHVLLNEGVANPIEVAGIPFISGKQLQGESQ  473 (709)
T ss_pred             HHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCEEEEEEEEEEEEEEECCCEEEHHHHHHCCCHHCCCCCCCCCCCCCCCC
T ss_conf             99999999999867999717886368898761889884234688874365202011334020111556331334566788


Q ss_pred             EEECCHHHHHHHHHCCCEEECHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHH
Q ss_conf             03439788458882899070588-----9999999999998799987299999999997666489999863115998999
Q gi|254780512|r  459 AFAIMESFSDDLRRQGFHPIDNL-----AVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGI  533 (692)
Q Consensus       459 A~WI~~~~~~~a~~~G~tvvdp~-----~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i  533 (692)
                      .+|+++++.+.++..|+.++...     ++|+.||+.++.+|+.||+|.||||+|||+||++||+||||+ +|++|++++
T Consensus       474 ~~Wv~~~~~~~L~~~~~~~~~~~~Wrte~~i~~~L~~~l~~~a~~FiGiQETr~ll~~mE~~ypeLvKEv-qR~lpl~ri  552 (709)
T TIGR01399       474 RVWVSEEEAEKLEKAGLDVFSKSVWRTEQVITLRLKAVLLRNAQEFIGIQETRYLLDQMEREYPELVKEV-QRVLPLQRI  552 (709)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHCCCCCHHHHH-HHCCCHHHH
T ss_conf             7766678999999878888876302169999999999998534330106799999999630448078999-740790248


Q ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCC-EEEEEEECHHHHHHHHHHHHCC
Q ss_conf             999999997498654699999999875335799899999999998999865207788-4899988878999999983037
Q gi|254780512|r  534 QAVLKLLLAEHVSIRNLPLILESIAEVAPHSRKTSHIVEQVRIRMAQQICGDLAPTG-ILNILKLGNHWDMIFYQAIQRD  612 (692)
Q Consensus       534 ~~VLq~LL~E~VsIRdlr~IlEaLad~a~~~kD~~~LtE~VR~aL~R~I~~~~~~~g-~L~vi~L~p~lE~~l~~~i~~t  612 (692)
                      ++|||||++|+|||||+|+|+|||++||++|||...||||||.+|+|||||||++.+ .|+||.+++|.|+.+|+++|||
T Consensus       553 ~evLqRLv~E~vSIRn~R~I~E~Li~W~~~EKDvv~LTEYVR~aLkR~I~~rya~~~~~L~~~l~~~e~E~~iR~~iRQT  632 (709)
T TIGR01399       553 AEVLQRLVSEQVSIRNLRLILEALIEWAQKEKDVVLLTEYVRIALKRYICHRYANGGRVLSAYLIDPEIEELIREAIRQT  632 (709)
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCCEEHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCHHHHHHHHHHHCC
T ss_conf             99999871279858899999999987601014500224778998999999998358964799971720578876030017


Q ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEECHHHHHHHHHHHHHHCCCCCEEEECCCCCCCEEEEEEEE
Q ss_conf             7788464566988999999999999999995699879982833548999998864489818944017899657988860
Q gi|254780512|r  613 SKGECVDFNVEPRAVEMFSENATNSIRQYIDKGIPLTIVTLPEIRSYIRMILERNFPSLAVLSHMEIAKGLKVNILGTI  691 (692)
Q Consensus       613 ~~G~~~~l~l~P~~~~~l~~~i~~~~~~~~~~g~~pVLl~s~~iRr~lr~lle~~~p~l~VLS~~EI~~~~~i~~iG~I  691 (692)
                      +.|+|  ++|||+..++++++++..+.+..+...+||||||.|+|||+|||+|.+||++||||||||.++++|||+|+|
T Consensus       633 s~G~y--LaL~p~~~~~ll~~~~~~~~~~~~~~~~~Vllts~DiRRyvRk~ie~~f~~lpVLSyQEl~~~~~~~v~Gri  709 (709)
T TIGR01399       633 STGTY--LALDPEASEQLLDQIRQILGDLLRAKSKPVLLTSMDIRRYVRKLIESEFPDLPVLSYQELGEEIEVQVLGRI  709 (709)
T ss_pred             CCCCC--CCCCHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEECHHHHHHHHHHHCCCCCCEEEHHHHHCCCEEEECCCC
T ss_conf             89774--248989999999999998631144557847999851135678887511687331527434146331101449


No 7  
>COG1298 FlhA Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=100.00  E-value=0  Score=1821.48  Aligned_cols=683  Identities=45%  Similarity=0.743  Sum_probs=649.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             52000000010013458999999999999603847899999999999999999999513770454200489999999998
Q gi|254780512|r    5 LIGISDSNDRNHLHDFAFSFCIVLIICILFLPIPTVLLDVGLASSIALSILILMVALWIEKPLEFSSFPTVLLIVTIIRL   84 (692)
Q Consensus         5 ~~~~~~~~~~~~~~d~~~~~~~~~ii~~~iiPlP~~llD~~~~~ni~~s~lil~~~l~~~~pl~fs~FPslLL~~TlfRL   84 (692)
                      ....+...+-.+.+|+.+++++++|++|||+|||+|+||+++++||++|++|||+++|+++|+|||+|||+||++|||||
T Consensus         6 ~~~~~~~~~~~~~~~~~~~~~iv~Il~~~ilPlP~~lLD~~l~~nialSvlIll~~~~i~~pldfs~FPTlLL~~TL~RL   85 (696)
T COG1298           6 KLRFPGNLDGLQGKDLAVPLGIVLILAMLILPLPAFLLDFLLTFNIALSVLILLVAMFIQRPLDFSSFPTLLLITTLLRL   85 (696)
T ss_pred             HHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHH
T ss_conf             32043312554432023379999999998707978999999999999999999999981883312226689999999998


Q ss_pred             HHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCHHHHH
Q ss_conf             55488888988437777632678999875145013269999999999999998864575146665545442037603454
Q gi|254780512|r   85 SLNIATTRAILSFGHEGYGAAGGIIAGFSSLVMSGDFVIGLVVFMILITINFIVITKGATRIAEVGARFTLDAIPGKQMA  164 (692)
Q Consensus        85 ~LniasTRlIL~~g~~g~~~AG~vI~aFG~fVvggn~vvG~viF~Il~ivqfiVItkGa~RvaEV~ARFtLDamPGKQMa  164 (692)
                      +|||||||+||++||+   +||+||++||+||+||||+||+|||+||++|||+||||||||||||+||||||||||||||
T Consensus        86 ~LNvASTR~IL~~G~~---aaG~vI~aFG~fvvgGn~viG~iVFlILiivnFiVITKGA~RIAEV~ARFtLDAmPGKQMa  162 (696)
T COG1298          86 GLNVASTRVILSHGHE---AAGKVIEAFGNFVVGGNFVIGLIVFLILIIVNFIVITKGAERIAEVAARFTLDAMPGKQMA  162 (696)
T ss_pred             HHHHHHHHHHHHCCCC---CCCHHHHHHCCEEECCCEEHHHHHHHHHHHHHHEEECCCCHHHHHHHHHHEECCCCCCCHH
T ss_conf             7748878889856864---5528999740215648431699999999886406982683176666553100358764200


Q ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Q ss_conf             78787648999899999999998652222012201345301058999999999888999999973998899999989998
Q gi|254780512|r  165 IDADLSSGLIEEEEAKRRRKELEEESAFFGAMDGASKFVRGDAIASIIITAINIVGGIVIGCFRYDMSIHHAADVFVRLS  244 (692)
Q Consensus       165 IDaDl~aG~I~~~eA~~rR~~l~~Es~fyGaMDGA~KFVkGDAiAgiiI~~iNiigG~~iG~~q~gm~~~eA~~~Yt~LT  244 (692)
                      ||||||||+|||+|||+||+++++||||||||||||||||||||||++|++||++||++||++||||++++|+++||+||
T Consensus       163 IDADLnAGlI~e~eAk~RR~~l~~EadFyGAMDGASKFVkGDAIagiiI~~INIigGl~IG~~q~~m~~~~Aa~~yt~LT  242 (696)
T COG1298         163 IDADLNAGLITEEEAKKRRSELEQEADFYGAMDGASKFVKGDAIAGIIILAINIIGGLLIGVLQHGMSFGEAAETYTLLT  242 (696)
T ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHEEEECCCCHHHHHHHEEEEE
T ss_conf             34365348877699999999998752342303674202364489999999999986751101015777788875658987


Q ss_pred             HHHHHHHHHHHHHHHHHHHHEEEECCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             64578885158999873310266237743058999998761864899999999998615786478999999999999998
Q gi|254780512|r  245 VGDGLVSQVPALIISLSAAFLVSRTTSKGSTNTAIVEQLSHYPRALLISAFFMIVLSVMPNLPAFPFIMLGGFFACAGFY  324 (692)
Q Consensus       245 IGDGLVsQIPaLliS~aaGiiVTRvss~~~lg~~i~~Ql~~~p~aL~iaa~~l~~lglvPGmP~~~Fl~la~~l~~~a~~  324 (692)
                      ||||||||||||++|+|||++|||+++++|+|.++.+|++++|++++++|++++++|++||||++||+.+|++++++||+
T Consensus       243 IGDGLVsQIPALliStAagiiVTR~~~~~s~gq~l~~ql~~~p~~l~i~a~~l~~lg~iPG~P~~~f~~la~~l~~~~~~  322 (696)
T COG1298         243 IGDGLVSQIPALLISTAAGIIVTRVSTDESLGQQLFTQLFANPKVLLIAAGVLFLLGLIPGMPHLPFLLLAGLLAFLAYL  322 (696)
T ss_pred             ECCHHHHHHHHHHHHHHHHEEEEECCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
T ss_conf             74217877479999865644888436752368999999970951799999999999737898336999999999999998


Q ss_pred             HHHHHHHHHHHH--HHHCC--CCCCCCCCCCCHHHCCCCCHHHHCC-CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             864432222100--11000--2356676753001002460122101-111123457552688999999999998098788
Q gi|254780512|r  325 VPYKNELQRLAK--VAQIQ--EASKQNQHSAQLNFITSGVELVLGS-LVSNRLLSSQEDLFLRVSKIRRKFAVQYGFIVP  399 (692)
Q Consensus       325 ~~r~~~~~~~~~--~~~~~--~~~~~~~~~~~~~~~~~~i~l~lg~-li~l~~~~~~~~L~~rI~~iRk~la~elG~~iP  399 (692)
                      ++++++.++.+.  ..+..  +...+++.++......+++++++|| +++++|.++|++|.+||+++||++++||||++|
T Consensus       323 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~v~~~~~iele~Gy~lipl~d~~qggeLl~RI~~iRk~~a~elG~v~P  402 (696)
T COG1298         323 LSKRKEQQAEEKEKPAEEAKKEEEEEEEESVDDVLLIDPIELELGYGLIPLVDEQQGGELLDRIRGIRKKIAQELGFVVP  402 (696)
T ss_pred             HHHCCCHHHHHHCCHHHHHHHHHCCCCCCCCCCCCCCCCCEEEECCCEEECCCCCCCCCHHHHHHHHHHHHHHHCCCCCC
T ss_conf             64001002322000123322100002543301145565220011432453125123551999999999999996596676


Q ss_pred             CEEEEECCCCCCCEEEEEECCEEEEEEEECCCCEEEECCCCCCCCCCCCEEECCCCCCCEEECCHHHHHHHHHCCCEEEC
Q ss_conf             32445437789871699974824534884178341330588876788741014766883034397884588828990705
Q gi|254780512|r  400 EIKVTTDISLPEKGYTIRVYGTTVAISELRVGEVLVILGSGQKPTFPGDEVKEPAFGMPAFAIMESFSDDLRRQGFHPID  479 (692)
Q Consensus       400 ~IrIrDn~~L~~~~Y~I~I~Gv~va~gei~~~~lLai~~~~~~~~l~G~~~~eP~fgl~A~WI~~~~~~~a~~~G~tvvd  479 (692)
                      .||||||.+|+||+|+|+++|+++++|+++||++||++++...+.+||++|+||+||+||+||+++.||+|+..||||+|
T Consensus       403 ~IrIrDN~~L~p~~Y~ikikG~eVa~gel~~g~~Lai~~g~~~~~i~G~~t~ePaFGl~a~WI~~~~ke~A~~~GYtVvd  482 (696)
T COG1298         403 VIRIRDNLRLKPNSYRIKIKGVEVASGELRPGKLLAINPGGVTGEIPGEETKDPAFGLPAYWIEEDQKEEAQILGYTVVD  482 (696)
T ss_pred             EEEEECCCCCCCCCEEEEEEEEEEEECCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCEEECCCHHHHHHHHCCCEEEC
T ss_conf             27984255679877079995389750322578278764877678888842467778996032171145689865975614


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf             88999999999999879998729999999999766648999986311599899999999999749865469999999987
Q gi|254780512|r  480 NLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIRNLPLILESIAE  559 (692)
Q Consensus       480 p~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad  559 (692)
                      |++|++||++|++|+|++|++||||+|+|+|+++++||+||||++|+++|++.+|+|||+||+|+|||||++||+||++|
T Consensus       483 ~~sVi~THl~evir~~a~eLl~rqevq~Lld~l~~~~p~lvEei~p~~is~s~iqkVLq~LL~E~VsIRdl~tIlEtlad  562 (696)
T COG1298         483 PSSVIATHLSEVIRNHAHELLGRQEVQQLLDRLAEEYPKLVEEIVPKKISLSTLQKVLQNLLKERVSIRDLPTILETLAD  562 (696)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH
T ss_conf             14777986899999758988679999999998777717889986647667899999999998658753108999999987


Q ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHHHC-CCCEEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHH
Q ss_conf             5335799899999999998999865207-788489998887899999998303777884645669889999999999999
Q gi|254780512|r  560 VAPHSRKTSHIVEQVRIRMAQQICGDLA-PTGILNILKLGNHWDMIFYQAIQRDSKGECVDFNVEPRAVEMFSENATNSI  638 (692)
Q Consensus       560 ~a~~~kD~~~LtE~VR~aL~R~I~~~~~-~~g~L~vi~L~p~lE~~l~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~~~  638 (692)
                      +++++||++.|||+||++|+||||++|. ++|+|+|++|+|+||+.+.++++++..+.  .+.++|+..+++++++++.+
T Consensus       563 ~a~~~kd~~~L~e~VR~~L~r~I~~~~~~~~~~L~VitL~~~~E~~l~~s~~~~~~~~--~~~i~p~~~~~l~~~v~~~~  640 (696)
T COG1298         563 YAPITKDPDELTEKVRQALGRQITQQLLDENGELEVITLDPSLEQLLLNSLQKGGELD--ELPLDPDLLEKLIRQVKEEL  640 (696)
T ss_pred             HCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECHHHHHHHHHHHHCCCCCC--CCCCCHHHHHHHHHHHHHHH
T ss_conf             5546899899999999999999999863769806999958279999999885057655--55678678999999999999


Q ss_pred             HHHHHCCCCEEEEECHHHHHHHHHHHHHHCCCCCEEEECCCCCCCEEEEEEEEC
Q ss_conf             999956998799828335489999988644898189440178996579888609
Q gi|254780512|r  639 RQYIDKGIPLTIVTLPEIRSYIRMILERNFPSLAVLSHMEIAKGLKVNILGTIS  692 (692)
Q Consensus       639 ~~~~~~g~~pVLl~s~~iRr~lr~lle~~~p~l~VLS~~EI~~~~~i~~iG~Is  692 (692)
                      ++....|.+|||+|||++|+++|+++++++|+++||||+|+|++++++.+|+|+
T Consensus       641 ~~~~~~G~~~VLl~s~~~R~~~~~~~~r~~p~l~VLS~~Ei~~~~~i~~~g~V~  694 (696)
T COG1298         641 ERVEQKGFPPVLLVSPELRPYLRRILERYFPDLVVLSHNELPDNIEIKILGTVS  694 (696)
T ss_pred             HHHHHCCCCEEEEECCCHHHHHHHHHHHHCCCCEEEEHHHCCCCCEEEEEEEEC
T ss_conf             999856998599957231899999998737997896442248997479998624


No 8  
>COG4789 EscV Type III secretory pathway, component EscV [Intracellular trafficking and secretion]
Probab=100.00  E-value=0  Score=1619.91  Aligned_cols=668  Identities=35%  Similarity=0.592  Sum_probs=607.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             01001345899999999999960384789999999999999999999951377045420048999999999855488888
Q gi|254780512|r   13 DRNHLHDFAFSFCIVLIICILFLPIPTVLLDVGLASSIALSILILMVALWIEKPLEFSSFPTVLLIVTIIRLSLNIATTR   92 (692)
Q Consensus        13 ~~~~~~d~~~~~~~~~ii~~~iiPlP~~llD~~~~~ni~~s~lil~~~l~~~~pl~fs~FPslLL~~TlfRL~LniasTR   92 (692)
                      ....++|+++++.++++++|||+||||+++|++|++|+++|+++||+++|+++||+||+|||+||+||||||||||||||
T Consensus         8 ~~~~~~dl~la~lll~~V~MmvlPLPt~lvD~LI~iNi~lsvlLlMvsiYi~~pL~lS~FPslLLiTTLfRLaLsISTtR   87 (689)
T COG4789           8 RIRSRPDLILALLLLMAVAMMILPLPTVLVDILIAINLTLSVLLLMVSIYIPSPLSLSVFPSLLLITTLFRLALSISTTR   87 (689)
T ss_pred             HCCCCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             14567206999999999999873884999999999989999999999875388302200538999999999997665767


Q ss_pred             HHHHCCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHCC
Q ss_conf             98843777763267899987514501326999999999999999886457514666554544203760345478787648
Q gi|254780512|r   93 AILSFGHEGYGAAGGIIAGFSSLVMSGDFVIGLVVFMILITINFIVITKGATRIAEVGARFTLDAIPGKQMAIDADLSSG  172 (692)
Q Consensus        93 lIL~~g~~g~~~AG~vI~aFG~fVvggn~vvG~viF~Il~ivqfiVItkGa~RvaEV~ARFtLDamPGKQMaIDaDl~aG  172 (692)
                      +||++++     ||+||++||+||||||+|||+|||+|+|+|||+||||||||||||+||||||||||||||||||||||
T Consensus        88 lILL~ad-----AG~II~sFG~FVVGGNlvVG~VIFlIITiVQFiVItKGsERVAEVaARFsLD~MPGKQMSIDaDlRAG  162 (689)
T COG4789          88 LILLEAD-----AGEIIYSFGDFVVGGNLVVGFVIFLIITIVQFIVITKGSERVAEVAARFSLDGMPGKQMSIDADLRAG  162 (689)
T ss_pred             HHHHHCC-----CCHHHHHHCCEEECCCEEEEEEEEEHHHHHEEEEEECCHHHHHHHHHHEECCCCCCCCCCCCCHHHCC
T ss_conf             8887523-----25188872775675724898662133200123687056178867765210267987543203053348


Q ss_pred             CCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99989999999999865222201220134530105899999999988899999997399889999998999864578885
Q gi|254780512|r  173 LIEEEEAKRRRKELEEESAFFGAMDGASKFVRGDAIASIIITAINIVGGIVIGCFRYDMSIHHAADVFVRLSVGDGLVSQ  252 (692)
Q Consensus       173 ~I~~~eA~~rR~~l~~Es~fyGaMDGA~KFVkGDAiAgiiI~~iNiigG~~iG~~q~gm~~~eA~~~Yt~LTIGDGLVsQ  252 (692)
                      .||.+|||+||+.+|||||||||||||||||||||||||+|++||++||+.||++|||||++||+|+||+||||||||||
T Consensus       163 ~IDa~eAr~rRa~lekESqlyGsMDGAMKFVKGDaIAGiIIilVNiiGGi~IGv~q~gM~~~~Al~~YtvLsIGDglvsQ  242 (689)
T COG4789         163 VIDADEARERRAVLEKESQLYGSMDGAMKFVKGDAIAGIIIILVNIIGGISIGVTQHGMSFSEALHLYTVLTIGDGLVSQ  242 (689)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHCCCCCHHHHCCCCCCCCEEEEEEEHHCCEEEEEEECCCCHHHHHHHEEEEEECCCHHHH
T ss_conf             86878889999999988887403420023204650023678988010676876444688889986454677874006766


Q ss_pred             HHHHHHHHHHHHEEEECCCC--CCHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             15899987331026623774--3058999998761864899999999998615786478999999999999998864432
Q gi|254780512|r  253 VPALIISLSAAFLVSRTTSK--GSTNTAIVEQLSHYPRALLISAFFMIVLSVMPNLPAFPFIMLGGFFACAGFYVPYKNE  330 (692)
Q Consensus       253 IPaLliS~aaGiiVTRvss~--~~lg~~i~~Ql~~~p~aL~iaa~~l~~lglvPGmP~~~Fl~la~~l~~~a~~~~r~~~  330 (692)
                      |||||||++||++||||+++  .|+|.+|.+|+.++||+++++|+++.+||++||||.+.|+.+|+.+++.+|..+||+.
T Consensus       243 IPaLLIsitAGiiVTRV~g~~~~~Lg~eI~~Ql~~~pral~vaa~lll~~gliPGFP~~~Fl~LA~~~~~~~~~~~rkk~  322 (689)
T COG4789         243 IPALLISITAGIIVTRVSGDESKNLGTEIVSQLVANPRALLVAAALLLLFGLIPGFPLLVFLFLAVLLAAIGFLLRRKKS  322 (689)
T ss_pred             HHHHHHHHHHCEEEEECCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             27999987624699963862566678999999863861789999999998725897289999999999878887321120


Q ss_pred             HHHHHHHHHCCCC---CCCCCCCC--CHH--HCCCCCHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCEEE
Q ss_conf             2221001100023---56676753--001--0024601221011111234575526889999999999980987883244
Q gi|254780512|r  331 LQRLAKVAQIQEA---SKQNQHSA--QLN--FITSGVELVLGSLVSNRLLSSQEDLFLRVSKIRRKFAVQYGFIVPEIKV  403 (692)
Q Consensus       331 ~~~~~~~~~~~~~---~~~~~~~~--~~~--~~~~~i~l~lg~li~l~~~~~~~~L~~rI~~iRk~la~elG~~iP~IrI  403 (692)
                      ....+........   +.+...+.  ..+  ....|+-+.++....  ..-+.-+|.+.+.++|+++++|+|+++|+|++
T Consensus       323 ~~~~~~~~~~~~~~~g~~~g~~~~~~~q~~~~~tvPlil~l~~~l~--~~l~~~~l~~~i~r~R~~lf~d~Gip~P~I~i  400 (689)
T COG4789         323 VGTKEGGDLGAITLSGSADGAASLGAEQDVSAGTVPLILRLGSDLA--KALESIDLDQEIDRMRWALFEDLGIPLPGIHI  400 (689)
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECHHHH--HHHCCCCHHHHHHHHHHHHHHHHCCCCCCEEE
T ss_conf             2676776665444677767776655545566655557999175677--54102207789999999999982998898055


Q ss_pred             EEC-CCCCCCEEEEEECCEEEEEEEECCCCEEEECCCCCCCCCCCCEEECCCCCCCE-EECCHHHHHHHHHCCCEEECHH
Q ss_conf             543-77898716999748245348841783413305888767887410147668830-3439788458882899070588
Q gi|254780512|r  404 TTD-ISLPEKGYTIRVYGTTVAISELRVGEVLVILGSGQKPTFPGDEVKEPAFGMPA-FAIMESFSDDLRRQGFHPIDNL  481 (692)
Q Consensus       404 rDn-~~L~~~~Y~I~I~Gv~va~gei~~~~lLai~~~~~~~~l~G~~~~eP~fgl~A-~WI~~~~~~~a~~~G~tvvdp~  481 (692)
                      |.| ..+++++|.+.++++|+.+++++||++|..+..+.. ...+++..- --|.++ .|++++++++++..|++++.+.
T Consensus       401 r~~~e~l~~~~~~v~l~evpv~~~~i~~~~~l~~~~~~~~-~~~~i~~~~-~~~~~~~~wv~~~~~~~l~~~g~~~~~~~  478 (689)
T COG4789         401 RVDPEGLEDNDYEVLLNEVPVEQGKIPPDHVLLVEGSDEL-VSTGIPYPT-NPGMEQYYWVTKSHAQKLEKLGITYYAPL  478 (689)
T ss_pred             ECCCCCCCCCCEEEEEECCEEEEEEECCCEEEEECCHHHH-HHCCCCCCC-CCCCCCCEEECHHHHHHHHHCCCCEECHH
T ss_conf             4177767887489997111321014068625663235667-633686778-99998515655878999986498155478


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHH
Q ss_conf             99999999999987999872999999999976664899998631159989999999999974986546999999998753
Q gi|254780512|r  482 AVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIRNLPLILESIAEVA  561 (692)
Q Consensus       482 ~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad~a  561 (692)
                      .+++.||+.+++||++||+|.||||+|+|.++++||+||||+ +|++|++++++|||||++|+|||||||+|+|+|++|+
T Consensus       479 ~~i~~~L~~~l~r~a~efiGiQETryll~~mE~~Y~dLvKEv-qR~ip~qriaeiLqRLv~E~IsIRnmR~IlEaL~~W~  557 (689)
T COG4789         479 DVITLHLSHVLRRNANEFIGIQETRYLLDQMERKYSDLVKEV-QRQIPLQRIAEILQRLVEERISIRNMRLILEALVEWA  557 (689)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHC
T ss_conf             999999999999868875136889999999863368999999-9857787899999999856887557999999997635


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHCCCC-EEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             35799899999999998999865207788-48999888789999999830377788464566988999999999999999
Q gi|254780512|r  562 PHSRKTSHIVEQVRIRMAQQICGDLAPTG-ILNILKLGNHWDMIFYQAIQRDSKGECVDFNVEPRAVEMFSENATNSIRQ  640 (692)
Q Consensus       562 ~~~kD~~~LtE~VR~aL~R~I~~~~~~~g-~L~vi~L~p~lE~~l~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~~~~~  640 (692)
                      ++|||...||||||.+|+|||||||+..| .++++.++++.|+.+|+++|||+.|+|  +++||+..+.+++++++.+..
T Consensus       558 ~kEKDvv~LtEYVR~aL~R~Ic~k~s~~~~~l~a~ll~~~iE~~iR~~IRqTsaGsy--LaLdp~~~e~il~~ir~~l~~  635 (689)
T COG4789         558 PKEKDVVMLTEYVRSALKRYICHKFSNGGTILPALLLDPEIEDVIREAIRQTSAGSY--LALDPRQSEAILDQIRNILSG  635 (689)
T ss_pred             CCCCCEEEHHHHHHHHHHHHHHHHHCCCCCCEEEEEECHHHHHHHHHHCCCCCCCCC--CCCCHHHHHHHHHHHHHHCCC
T ss_conf             557763321999999999999887458986114899472489999874035788872--326988999999999987078


Q ss_pred             HHHCCCCEEEEECHHHHHHHHHHHHHHCCCCCEEEECCCCCCCEEEEEEEEC
Q ss_conf             9956998799828335489999988644898189440178996579888609
Q gi|254780512|r  641 YIDKGIPLTIVTLPEIRSYIRMILERNFPSLAVLSHMEIAKGLKVNILGTIS  692 (692)
Q Consensus       641 ~~~~g~~pVLl~s~~iRr~lr~lle~~~p~l~VLS~~EI~~~~~i~~iG~Is  692 (692)
                      ....+.+||++||.|+|||+||++|+++|++|||||+|+.++++++++|+|.
T Consensus       636 ~~~~~q~~vlltS~DiRRyVrkliE~~~~dl~VLSyQEl~~~i~i~~lg~I~  687 (689)
T COG4789         636 TPAPGQDPVLLTSVDIRRYVRKLIESSFPDLPVLSYQELGEEINIQPLGTIV  687 (689)
T ss_pred             CCCCCCCEEEEEEHHHHHHHHHHHHCCCCCCCEEEHHHHCCCCCCEEEEEEE
T ss_conf             8678888079984039999999731247886454088853664411420671


No 9  
>PRK05910 type III secretion system protein; Validated
Probab=100.00  E-value=0  Score=1586.28  Aligned_cols=573  Identities=28%  Similarity=0.416  Sum_probs=522.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             10013458999999999999603847899999999999999999999513770454200489999999998554888889
Q gi|254780512|r   14 RNHLHDFAFSFCIVLIICILFLPIPTVLLDVGLASSIALSILILMVALWIEKPLEFSSFPTVLLIVTIIRLSLNIATTRA   93 (692)
Q Consensus        14 ~~~~~d~~~~~~~~~ii~~~iiPlP~~llD~~~~~ni~~s~lil~~~l~~~~pl~fs~FPslLL~~TlfRL~LniasTRl   93 (692)
                      ..+.+++.+++++++|++|||+|||+|+||+++++||++|+++||+++|+++|||||+|||+||++|||||||||||||+
T Consensus         3 ~~~~~~~~~~~~~v~iv~~~i~PlP~~llD~ll~~ni~~s~lill~s~y~~~pl~fS~FPslLLi~TLfRLsLniasTRl   82 (583)
T PRK05910          3 SKRGSSWKMVLIPLCILFTLLLPLPQWLLDFGLCINFALSLSIVFWVFSLRSSASAKLFPSLFLYLCLLRLGLNLASTRW   82 (583)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             74443167999999999998618978999999999999999999999973881131005499999999999998999999


Q ss_pred             HHHCCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHCCC
Q ss_conf             88437777632678999875145013269999999999999998864575146665545442037603454787876489
Q gi|254780512|r   94 ILSFGHEGYGAAGGIIAGFSSLVMSGDFVIGLVVFMILITINFIVITKGATRIAEVGARFTLDAIPGKQMAIDADLSSGL  173 (692)
Q Consensus        94 IL~~g~~g~~~AG~vI~aFG~fVvggn~vvG~viF~Il~ivqfiVItkGa~RvaEV~ARFtLDamPGKQMaIDaDl~aG~  173 (692)
                      ||+|||     ||+||+|||+||+|||||||+|||+||++|||+||||||||||||+||||||||||||||||||||||+
T Consensus        83 IL~~g~-----aG~vI~aFG~FVvgGn~vVG~vvF~Il~ivqFiVITKGa~RVAEVaARFTLDaMPGKQMaIDADLnaG~  157 (583)
T PRK05910         83 ILSSGW-----ASPLIFSLGNFFSLGSLPAATTACLLLFLVNFLVITKGSERIAEVRARFSLEALPGKQMSLDADLVSGR  157 (583)
T ss_pred             HHHCCC-----CCHHHHHHHHHEECCCEEEEHHHHHHHHHHHHEEEECCCHHHHHHHHHHHHCCCCCCCHHHHHHHHCCC
T ss_conf             984688-----744999851315658545711364798666442771583288788776300468863220675865599


Q ss_pred             CCHHHHHHHHHHHHHHHCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99899999999998652222012201345301058999999999888999999973998899999989998645788851
Q gi|254780512|r  174 IEEEEAKRRRKELEEESAFFGAMDGASKFVRGDAIASIIITAINIVGGIVIGCFRYDMSIHHAADVFVRLSVGDGLVSQV  253 (692)
Q Consensus       174 I~~~eA~~rR~~l~~Es~fyGaMDGA~KFVkGDAiAgiiI~~iNiigG~~iG~~q~gm~~~eA~~~Yt~LTIGDGLVsQI  253 (692)
                      ||++|||+||++++||||||||||||||||||||||||+|++||++||++||     |++++|+++|++|||||||||||
T Consensus       158 Id~~eAr~RR~~l~~Ea~fyGAMDGAsKFVkGDAIAgiiI~~iNiiGG~~iG-----m~~~~a~~~y~lltIGDGLVsQI  232 (583)
T PRK05910        158 ASYSRVSKQKNSLLEESDFFSAMEGVFRFVKGDAIMSCILLGVNVLAATFLG-----YSSGYAVESLWLTVLGDALVSQV  232 (583)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHCCCHHHHHCCCHHHHHHHHHHHHHHHHHHC-----CCHHHHHHHHHHHHHHHHHHHHH
T ss_conf             9999999999999976566650321466632039999999999998896402-----01778887756655134699888


Q ss_pred             HHHHHHHHHHHEEEECCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             58999873310266237743058999998761864899999999998615786478999999999999998864432222
Q gi|254780512|r  254 PALIISLSAAFLVSRTTSKGSTNTAIVEQLSHYPRALLISAFFMIVLSVMPNLPAFPFIMLGGFFACAGFYVPYKNELQR  333 (692)
Q Consensus       254 PaLliS~aaGiiVTRvss~~~lg~~i~~Ql~~~p~aL~iaa~~l~~lglvPGmP~~~Fl~la~~l~~~a~~~~r~~~~~~  333 (692)
                      |||++|+|||++|||+++++|+|+++.+|++++|++|+++|+++++||++||||++||+.+|+++ +.+|   |+.+..+
T Consensus       233 PaLliS~aaGiiVTR~~~~~~l~~~i~~ql~~~~~~l~~~a~~l~~~~lvPG~P~~~fl~~a~~~-~~~~---~~~~~~~  308 (583)
T PRK05910        233 PALLTSCAAATLISKVGEKESLLQHLFDYYEQARQHFRVIALLLCSLACIPGAPKAPILLFAVLL-FLAY---KKPKSAE  308 (583)
T ss_pred             HHHHHHHHHHHEEEECCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH-HHHH---CCCCCCC
T ss_conf             89999987772477056754469999999844863999999999999874487079999999999-9973---3876645


Q ss_pred             HHHHHHCCCCCCCCCCCCCHHHCCCCCHHHHCC-CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCC
Q ss_conf             100110002356676753001002460122101-1111234575526889999999999980987883244543778987
Q gi|254780512|r  334 LAKVAQIQEASKQNQHSAQLNFITSGVELVLGS-LVSNRLLSSQEDLFLRVSKIRRKFAVQYGFIVPEIKVTTDISLPEK  412 (692)
Q Consensus       334 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~l~lg~-li~l~~~~~~~~L~~rI~~iRk~la~elG~~iP~IrIrDn~~L~~~  412 (692)
                      .             .       ...+.+++..+ .++   ..+++++.+|++.+||+++.|+||++|.+++.++.+++| 
T Consensus       309 ~-------------~-------~~~~~~~~~~~~~~~---~~~~~~~~~~i~~~R~~~a~elG~~~P~~~~~~~~~~~~-  364 (583)
T PRK05910        309 E-------------L-------SFIKERFEYVELALP---KEGTGNPYELYRAAREEIFQELGVRLPEEIVVRYVEKSP-  364 (583)
T ss_pred             C-------------H-------HCCCHHHHHCCCCCC---CCCCCCHHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCC-
T ss_conf             5-------------0-------004145521012488---456888899999999999997598889465642555585-


Q ss_pred             EEEEEECCEEEEEEEECCCCEEEECCCCCCCCCCCCEEECCCCCCCEEECCHHHHHHHHHCCCEEECHHHHHHHHHHHHH
Q ss_conf             16999748245348841783413305888767887410147668830343978845888289907058899999999999
Q gi|254780512|r  413 GYTIRVYGTTVAISELRVGEVLVILGSGQKPTFPGDEVKEPAFGMPAFAIMESFSDDLRRQGFHPIDNLAVVLTHLSEVI  492 (692)
Q Consensus       413 ~Y~I~I~Gv~va~gei~~~~lLai~~~~~~~~l~G~~~~eP~fgl~A~WI~~~~~~~a~~~G~tvvdp~~ViatHl~evi  492 (692)
                        ++.+.|.+++.+                                                       ++.+||++|++
T Consensus       365 --~~~~~g~~~~~~-------------------------------------------------------ev~~tHL~eii  387 (583)
T PRK05910        365 --RLSFSGQEVYLD-------------------------------------------------------ELSCEALLPIL  387 (583)
T ss_pred             --CEEECCEEEECC-------------------------------------------------------CCHHHHHHHHH
T ss_conf             --532277488511-------------------------------------------------------10287899999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHH
Q ss_conf             98799987299999999997666489999863115998999999999997498654699999999875335799899999
Q gi|254780512|r  493 RNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIRNLPLILESIAEVAPHSRKTSHIVE  572 (692)
Q Consensus       493 r~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad~a~~~kD~~~LtE  572 (692)
                      |+||+|++|+||+|+|+|+++++||++|||++|+++|++.+|+||||||+|+|||||+++|+|||+||++++|||+.|||
T Consensus       388 r~~A~ELLgrqevq~LLd~l~~~~p~lVeelvP~~lsl~~i~~VLQ~LL~E~VsIRDLrtILEtLad~a~~~kDp~~LtE  467 (583)
T PRK05910        388 RNLAPEAIHERFVKKLVEEFQEVLGISIEEIIPKKISENSLVFLLRALVRERVSLHLFPKILEAIAVYGSQGDSLEILAE  467 (583)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCCCHHHHHH
T ss_conf             98699886799999999999876607888873465787899999999986798623388999999985445699999999


Q ss_pred             HHHHHHHHHHHHHHC-CCCEEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEE
Q ss_conf             999998999865207-7884899988878999999983037778846456698899999999999999999569987998
Q gi|254780512|r  573 QVRIRMAQQICGDLA-PTGILNILKLGNHWDMIFYQAIQRDSKGECVDFNVEPRAVEMFSENATNSIRQYIDKGIPLTIV  651 (692)
Q Consensus       573 ~VR~aL~R~I~~~~~-~~g~L~vi~L~p~lE~~l~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~~~~~~~~~g~~pVLl  651 (692)
                      |||++|+||||++|. ++|+|+|++|+|++|+.++++.++          .+|+..+++++++++.+++....+ .|+++
T Consensus       468 ~VR~aL~R~I~~~~~~~~g~L~VitLdp~lEq~l~~s~~~----------~~P~l~~~li~~l~~~~~~~~~~~-~~vlL  536 (583)
T PRK05910        468 KVRKYLGKQIGRSLWDQKDTLEVITIDSHVEQFIRDSYSK----------SNPDMNEKVVRQVKSLLERSGEGD-FRAIV  536 (583)
T ss_pred             HHHHHHHHHHHHHHCCCCCEEEEEEECHHHHHHHHHHHHC----------CCCHHHHHHHHHHHHHHHHHHCCC-CCEEE
T ss_conf             9999999999998458998258999688999999876651----------794189999999999999985689-98698


Q ss_pred             ECHHHHHHHHHHHHHHCCCCCEEEECCCCCCCEEEEEEEEC
Q ss_conf             28335489999988644898189440178996579888609
Q gi|254780512|r  652 TLPEIRSYIRMILERNFPSLAVLSHMEIAKGLKVNILGTIS  692 (692)
Q Consensus       652 ~s~~iRr~lr~lle~~~p~l~VLS~~EI~~~~~i~~iG~Is  692 (692)
                      |||++|||+|+++|+++|+++||||||||++++++++|+||
T Consensus       537 ts~~iRr~lrrlie~~~p~L~VLSy~EI~~~~~I~vvGtVs  577 (583)
T PRK05910        537 TGCETRFELKKMVDPHFPDLLVLSHSELPEEIPISLLGAVS  577 (583)
T ss_pred             CCCCHHHHHHHHHHHHCCCCEEECHHHCCCCCEEEEEEEEE
T ss_conf             08303899999999877998697712069998268999972


No 10 
>PRK10527 hypothetical protein; Provisional
Probab=92.90  E-value=0.16  Score=30.77  Aligned_cols=25  Identities=36%  Similarity=0.680  Sum_probs=18.2

Q ss_pred             HHHHHHH-CCCCHHHHHHHHHHHHHH
Q ss_conf             9999861-578647899999999999
Q gi|254780512|r  296 FMIVLSV-MPNLPAFPFIMLGGFFAC  320 (692)
Q Consensus       296 ~l~~lgl-vPGmP~~~Fl~la~~l~~  320 (692)
                      .++.+|. +|++|+.||+.+|+.|..
T Consensus        15 ~LG~iGi~LP~LPTTpFlLLAa~cFa   40 (125)
T PRK10527         15 VLGTLGVVLPLLPTTPFILLAAWCFA   40 (125)
T ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHH
T ss_conf             99999883778887399999999998


No 11 
>PRK06012 flhA flagellar biosynthesis protein FlhA; Validated
Probab=92.87  E-value=0.82  Score=25.43  Aligned_cols=63  Identities=17%  Similarity=0.090  Sum_probs=32.2

Q ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             0589999987618648999999999986157864789999999999999988644322221001
Q gi|254780512|r  274 STNTAIVEQLSHYPRALLISAFFMIVLSVMPNLPAFPFIMLGGFFACAGFYVPYKNELQRLAKV  337 (692)
Q Consensus       274 ~lg~~i~~Ql~~~p~aL~iaa~~l~~lglvPGmP~~~Fl~la~~l~~~a~~~~r~~~~~~~~~~  337 (692)
                      +++.|+..|=.+---+=.+...+.++=|+ |-+|++.+....+.+++.-++..++++.....+.
T Consensus       276 ~i~~Ql~~~p~al~i~a~il~~lglvPG~-P~~~Fl~la~~l~~~~~~l~~~~~~~~~~~~~~~  338 (691)
T PRK06012        276 AIVGQLFANPKALYIAAGVLFLLGLVPGM-PHLPFLLLAGLLGFLAYRLRKREKKEAEEAAAEA  338 (691)
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHCCCC-CHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCC
T ss_conf             99999972967899999999999875898-1679999999999999998741012323344444


No 12 
>pfam06277 EutA Ethanolamine utilisation protein EutA. This family consists of several bacterial EutA ethanolamine utilisation proteins. The EutA protein is thought to protect the lyase (EutBC) from inhibition by CNB12.
Probab=89.31  E-value=1.7  Score=22.97  Aligned_cols=239  Identities=19%  Similarity=0.190  Sum_probs=125.6

Q ss_pred             EEECCCCCCCEEEEEECCEEEEEEEECCC-CEEEECCCCCCCCCCCCEEECCCCCCCEEECCHHHHHHHHHCCCEEECHH
Q ss_conf             45437789871699974824534884178-34133058887678874101476688303439788458882899070588
Q gi|254780512|r  403 VTTDISLPEKGYTIRVYGTTVAISELRVG-EVLVILGSGQKPTFPGDEVKEPAFGMPAFAIMESFSDDLRRQGFHPIDNL  481 (692)
Q Consensus       403 IrDn~~L~~~~Y~I~I~Gv~va~gei~~~-~lLai~~~~~~~~l~G~~~~eP~fgl~A~WI~~~~~~~a~~~G~tvvdp~  481 (692)
                      +.-|..=....|.++-+|..++.+.+..| +++..+++       |          .-..|.|.-+.-++..|+..-...
T Consensus       146 lNiDIGGGTtn~Alf~~G~v~~t~cl~IGGRLi~~d~~-------g----------rit~i~~~~~~~~~~~g~~~~~G~  208 (473)
T pfam06277       146 LNIDIGGGTTNLALFENGEVIDTACLDIGGRLIKIDPT-------G----------RITYISPKGRRLIAELGLELEVGD  208 (473)
T ss_pred             EEEEECCCCEEEEEEECCEEEEEEEEEECCEEEEECCC-------C----------CEEEECHHHHHHHHHCCCCCCCCC
T ss_conf             99886688305799858889898757053479999799-------9----------689978779999998299875556


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH
Q ss_conf             9999999999998799987299999999997666-489999863115998999999999997498654699999999875
Q gi|254780512|r  482 AVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPE-YQKLAEETCSSHISYSGIQAVLKLLLAEHVSIRNLPLILESIAEV  560 (692)
Q Consensus       482 ~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~-~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad~  560 (692)
                      .+=..++.+++++-+.-++..         +... .+.+.+++.... +           |....++. -.+.=-..+|+
T Consensus       209 ~~~~~~l~~i~~~Ma~~l~~~---------i~~~p~~~l~~~L~~~~-~-----------l~~~~~~~-~vtfSGGVae~  266 (473)
T pfam06277       209 RATPEQLDQVCREMAQLLEEV---------LGGQPESPLAQLLMTTK-P-----------LPGLDRID-CVTFSGGVADC  266 (473)
T ss_pred             CCCHHHHHHHHHHHHHHHHHH---------HCCCCCCHHHHHHHCCC-C-----------CCCCCCCC-EEEECCCHHHE
T ss_conf             079999999999999999999---------55888986999974689-9-----------98778878-89982532431


Q ss_pred             --HCCCCCH-------HHHHHHHHHHHH-----------------------------HHHHH--HHCCCCEEEEEEECH-
Q ss_conf             --3357998-------999999999989-----------------------------99865--207788489998887-
Q gi|254780512|r  561 --APHSRKT-------SHIVEQVRIRMA-----------------------------QQICG--DLAPTGILNILKLGN-  599 (692)
Q Consensus       561 --a~~~kD~-------~~LtE~VR~aL~-----------------------------R~I~~--~~~~~g~L~vi~L~p-  599 (692)
                        ...+.|+       ..|...+|....                             .+|.-  ..-|-..+||+-++. 
T Consensus       267 iY~~~~~d~f~yGDiG~lLg~al~~~~~~~~~~v~~p~etIRATViGAg~hT~~lSGSTI~~~~~~LPlrNiPVl~~~~~  346 (473)
T pfam06277       267 IYREEEADPFRYGDIGPLLGKALRRSPDLLSLKVLQPAETIRATVVGAGSHTTELSGSTITYTADLLPLKNLPVLKPSLD  346 (473)
T ss_pred             EECCCCCCCCCCCCHHHHHHHHHHHCHHCCCCCEECCCCCEEEEEEECCCEEEEEEEEEEEECCCCCCCCCCCEEECCCC
T ss_conf             63677778755454689999999727330477365799860589981565069985214985366455257856405745


Q ss_pred             -------HHHHHHHHHHHC-CCCCCC--CCC------CCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEECHHHHHHHHHH
Q ss_conf             -------899999998303-777884--645------6698899999999999999999569987998283354899999
Q gi|254780512|r  600 -------HWDMIFYQAIQR-DSKGEC--VDF------NVEPRAVEMFSENATNSIRQYIDKGIPLTIVTLPEIRSYIRMI  663 (692)
Q Consensus       600 -------~lE~~l~~~i~~-t~~G~~--~~l------~l~P~~~~~l~~~i~~~~~~~~~~g~~pVLl~s~~iRr~lr~l  663 (692)
                             ++++.+++++.. .-++..  ..+      ...=...+.+.+.+.+.+++....+.|.++++-.|+=+.+-+.
T Consensus       347 ~e~~~~~~l~~~i~~al~~fdl~~~~~~vALA~~g~~~~~y~~i~~la~~i~~~~~~~~~~~~PLiiv~e~D~gK~LG~~  426 (473)
T pfam06277       347 DEEQGNEPLAEAIRQALAWFDLEGEVQPVALAFPGLKNPSFQAVQALAEAIAEGMADLIERGLPLIIVVEQDMAKVLGQT  426 (473)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCHHHHHHHH
T ss_conf             33267688999999999875155777508999568999999999999999999986336689988999846189999999


Q ss_pred             HHHHCC-CCCEEEECCCC
Q ss_conf             886448-98189440178
Q gi|254780512|r  664 LERNFP-SLAVLSHMEIA  680 (692)
Q Consensus       664 le~~~p-~l~VLS~~EI~  680 (692)
                      +....+ +.+|++..++.
T Consensus       427 l~~~l~~~~~vi~ID~V~  444 (473)
T pfam06277       427 LQALLGPKKPIICIDSIK  444 (473)
T ss_pred             HHHHCCCCCCEEEEEEEE
T ss_conf             998608899889996599


No 13 
>PRK10719 eutA reactivating factor for ethanolamine ammonia lyase; Provisional
Probab=88.71  E-value=1.9  Score=22.68  Aligned_cols=58  Identities=17%  Similarity=0.347  Sum_probs=50.6

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHCCCCEEEEECHHHHHHHHHHHHHHCC-CCCEEEECCCC
Q ss_conf             98899999999999999999569987998283354899999886448-98189440178
Q gi|254780512|r  623 EPRAVEMFSENATNSIRQYIDKGIPLTIVTLPEIRSYIRMILERNFP-SLAVLSHMEIA  680 (692)
Q Consensus       623 ~P~~~~~l~~~i~~~~~~~~~~g~~pVLl~s~~iRr~lr~lle~~~p-~l~VLS~~EI~  680 (692)
                      .=...+.+.+.+.+.+.+...++.|.++++-.|+=+.+-+.+....+ +.++++..++.
T Consensus       383 ~y~~i~~la~~i~~~~~~~~~~~~PLivv~e~D~gK~LG~~l~~~l~~~~~li~ID~V~  441 (471)
T PRK10719        383 SFAAVQTVAKALVDGVARFIPNPHPLIVVAEQDFGKVLGQLLRPQLPKQLPLICIDEVK  441 (471)
T ss_pred             CHHHHHHHHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHHHHHHHCCCCCCEEEEEEEE
T ss_conf             99999999999999886225578888999856089999999998638999889995489


No 14 
>TIGR03142 cytochro_ccmI cytochrome c-type biogenesis protein CcmI. This TPR repeat-containing protein is the CcmI protein (also called CycH) of c-type cytochrome biogenesis. CcmI is thought to act as an apo-cytochrome c chaperone. This model describes the N-terminal region of the protein, Members of this protein family
Probab=85.32  E-value=2.9  Score=21.37  Aligned_cols=29  Identities=34%  Similarity=0.637  Sum_probs=25.3

Q ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHHHHH
Q ss_conf             34547878764899989999999999865
Q gi|254780512|r  161 KQMAIDADLSSGLIEEEEAKRRRKELEEE  189 (692)
Q Consensus       161 KQMaIDaDl~aG~I~~~eA~~rR~~l~~E  189 (692)
                      .---+|.|+..|.|+++|+.+-|.|++|.
T Consensus        44 qL~ELe~d~~~G~l~~~e~~~~r~El~rr   72 (117)
T TIGR03142        44 RLAELERDLAEGLLDEAEAEAARAELQRR   72 (117)
T ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHHHHH
T ss_conf             99999999986998999999999999999


No 15 
>COG2832 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=82.33  E-value=1.6  Score=23.19  Aligned_cols=29  Identities=31%  Similarity=0.668  Sum_probs=19.8

Q ss_pred             HHHHHHHHHHH----CCCCHHHHHHHHHHHHHH
Q ss_conf             99999999861----578647899999999999
Q gi|254780512|r  292 ISAFFMIVLSV----MPNLPAFPFIMLGGFFAC  320 (692)
Q Consensus       292 iaa~~l~~lgl----vPGmP~~~Fl~la~~l~~  320 (692)
                      +.|.++.++|.    +|.||+.||+.+|+.|..
T Consensus         8 ~iGfl~l~LGIiGifLPlLPTTPFlLLaa~cFa   40 (119)
T COG2832           8 ILGFLSLALGIIGIFLPLLPTTPFLLLAAACFA   40 (119)
T ss_pred             HHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHH
T ss_conf             999999999899760765678679999999997


No 16 
>TIGR01990 bPGM beta-phosphoglucomutase; InterPro: IPR010972   This model represents the beta-phosphoglucomutase enzyme which catalyses the interconversion of beta-D-glucose-1-phosphate and beta-D-glucose-6-phosphate. The 6-phosphate is capable of non-enzymatic anomerization (alpha to beta or vice versa) while the 1-phosphate is not. A separate enzyme is responsible for the isomerisation of the alpha anomers. Beta-D-glucose-1-phosphate results from the phosphorolysis of maltose (2.4.1.8 from EC), trehalose (2.4.1.64 from EC) or trehalose-6-phosphate (2.4.1.216 from EC). Alternatively, these reactions can be run in the synthetic direction to create the disaccharides. All sequenced genomes which contain a member of this family also appear to contain at least one putative maltose or trehalose phosphorylase. Three species, Lactococcus, Enterococcus and Neisseria appear to contain a pair of paralogous beta-PGM's.   Beta-phosphoglucomutase is a member of the haloacid dehalogenase superfamily of hydrolase enzymes. These enzymes are characterised by a series of three catalytic motifs positioned within an alpha-beta (Rossman) fold . Beta-PGM contains an inserted alpha helical domain in between the first and second conserved motifs and thus is a member of subfamily IA of the superfamily , . The third catalytic motif comes in three variants, the third of which, containing a conserved DD or ED, is the only one found here as well as in several other related enzymes.    The enzyme from Lactococcus lactis has been extensively characterised including a remarkable crystal structure which traps the pentacoordinate transition state . .
Probab=81.80  E-value=2.9  Score=21.36  Aligned_cols=66  Identities=23%  Similarity=0.305  Sum_probs=55.2

Q ss_pred             HHHHHHHH--HHHHHHHHHHHHHHHHHHHHHH-HHHHHCCCCHHHHHHHHHHHHHCCCCH------HHHHHHHHHH
Q ss_conf             99987999--8729999999999766648999-986311599899999999999749865------4699999999
Q gi|254780512|r  491 VIRNNLSQ--LLSYKDVKNLISRLDPEYQKLA-EETCSSHISYSGIQAVLKLLLAEHVSI------RNLPLILESI  557 (692)
Q Consensus       491 vir~~a~e--llg~qEvq~LLd~L~~~~P~LV-~Elvp~~v~l~~i~~VLq~LL~E~VsI------Rdlr~IlEaL  557 (692)
                      .|.++.+.  =++-+|.++|-.+=-..|-+|. +|+.|+-+=+| |.+.|+.|=+.+++|      ||-++|||.|
T Consensus        53 ~IL~~~~~En~~s~~e~~~la~~KN~~Y~~LlD~~lTp~d~LPG-i~~lL~~Lk~~~ikialASaSkNA~~vLekL  127 (190)
T TIGR01990        53 RILKLGGKENKYSEEEKEELAERKNDYYVELLDKELTPEDVLPG-IKSLLEDLKKKNIKIALASASKNAPTVLEKL  127 (190)
T ss_pred             HHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHCCC-HHHHHHHHHHCCCCEEEEEHHHHHHHHHHHH
T ss_conf             99733798888577899999998779999997506898660401-8999999998489488730234489999982


No 17 
>PRK05858 hypothetical protein; Provisional
Probab=79.89  E-value=4.5  Score=19.91  Aligned_cols=37  Identities=16%  Similarity=0.300  Sum_probs=24.8

Q ss_pred             HCCCCHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHH
Q ss_conf             7399889999998999---------864578885158999873310
Q gi|254780512|r  228 RYDMSIHHAADVFVRL---------SVGDGLVSQVPALIISLSAAF  264 (692)
Q Consensus       228 q~gm~~~eA~~~Yt~L---------TIGDGLVsQIPaLliS~aaGi  264 (692)
                      .|--..+-|+.-|+..         |-|=|+..-+++|.-+-..++
T Consensus        51 rhE~~A~~~AdGyar~tg~~gv~~~t~GpG~~N~~~gl~~A~~~~~   96 (543)
T PRK05858         51 RHEQTAAFAAEGWSKVTRVPGVAALTAGPGVTNGMSAMAAAQQNQS   96 (543)
T ss_pred             CCHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHHHHCC
T ss_conf             9689999999999999799889998367169999999999997399


No 18 
>pfam11829 DUF3349 Protein of unknown function (DUF3349). This family of proteins are functionally uncharacterized. This protein is found in bacteria. Proteins in this family are typically between 99 to 124 amino acids in length.
Probab=75.01  E-value=6  Score=18.95  Aligned_cols=75  Identities=19%  Similarity=0.160  Sum_probs=52.1

Q ss_pred             HHHHHHHHHHHHHHH---------HHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHH
Q ss_conf             999999997666489---------99986311599899999999999749865469999999987533579989999999
Q gi|254780512|r  504 DVKNLISRLDPEYQK---------LAEETCSSHISYSGIQAVLKLLLAEHVSIRNLPLILESIAEVAPHSRKTSHIVEQV  574 (692)
Q Consensus       504 Evq~LLd~L~~~~P~---------LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad~a~~~kD~~~LtE~V  574 (692)
                      -+++++++|+.-||+         |. -++.+.++=.++.+|-+.|.+++.+=-|---|=+.+.+...+...++. .|.|
T Consensus         4 ~l~~iv~WLRaGYP~GvP~~Dy~pLL-ALL~r~Ltddev~~Va~~L~~~~~~~i~~~dI~~~I~~vt~~~P~p~d-i~RV   81 (97)
T pfam11829         4 FLASIVAWLRAGYPEGVPGPDYVPLL-ALLRRRLTDDEVAEVAAELTRRGEPAIDDDDIGVLITAVTDELPSPED-VERV   81 (97)
T ss_pred             HHHHHHHHHHCCCCCCCCCCCCHHHH-HHHHCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCCCHHH-HHHH
T ss_conf             99999999986899998988708999-998142889999999999986478999999999999998747989899-9999


Q ss_pred             HHHHHH
Q ss_conf             999899
Q gi|254780512|r  575 RIRMAQ  580 (692)
Q Consensus       575 R~aL~R  580 (692)
                      |.+|.+
T Consensus        82 ~arLaa   87 (97)
T pfam11829        82 RARLAA   87 (97)
T ss_pred             HHHHHH
T ss_conf             999986


No 19 
>PRK06456 acetolactate synthase catalytic subunit; Reviewed
Probab=74.53  E-value=6.2  Score=18.86  Aligned_cols=37  Identities=32%  Similarity=0.460  Sum_probs=21.2

Q ss_pred             HHCCCCHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHH
Q ss_conf             973998899999989998---------6457888515899987331
Q gi|254780512|r  227 FRYDMSIHHAADVFVRLS---------VGDGLVSQVPALIISLSAA  263 (692)
Q Consensus       227 ~q~gm~~~eA~~~Yt~LT---------IGDGLVsQIPaLliS~aaG  263 (692)
                      ..|-...+-|+.-|+.+|         -|=|+-.-++++.-+-..+
T Consensus        49 ~rhE~~A~~mAdgyar~tg~~gv~~~t~GPG~~N~~~gl~~A~~d~   94 (572)
T PRK06456         49 MRHEQAAAHAADGYARASGFPGVCTATSGPGVTNLVTGLITAYWDS   94 (572)
T ss_pred             ECCHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHHHHC
T ss_conf             2978999999999999969988999803636999999999999749


No 20 
>PRK02463 OxaA-like protein precursor; Provisional
Probab=73.59  E-value=3.8  Score=20.43  Aligned_cols=44  Identities=14%  Similarity=0.246  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH----HCCC----CHHHHHH
Q ss_conf             7899987514501326999999999999999886----4575----1466655
Q gi|254780512|r  106 GGIIAGFSSLVMSGDFVIGLVVFMILITINFIVI----TKGA----TRIAEVG  150 (692)
Q Consensus       106 G~vI~aFG~fVvggn~vvG~viF~Il~ivqfiVI----tkGa----~RvaEV~  150 (692)
                      .++|+-|+++. ||||-+++|+|.|++=+=.+=.    +|-+    ++.++..
T Consensus        46 ~~~i~~~a~~~-g~nyG~aIIl~TiiIRlillPL~~~Q~kk~~~~q~KMq~lQ   97 (307)
T PRK02463         46 SYFIDYFANNL-GLGFGLAIIIVTIIVRTLILPLGLYQSWKATYQSEKMAYLK   97 (307)
T ss_pred             HHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHC
T ss_conf             99999999863-87733899999999999998301889998899999999858


No 21 
>PRK06112 acetolactate synthase catalytic subunit; Validated
Probab=72.07  E-value=7  Score=18.45  Aligned_cols=40  Identities=25%  Similarity=0.270  Sum_probs=29.5

Q ss_pred             HHCCCCHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHEE
Q ss_conf             9739988999999899986---------457888515899987331026
Q gi|254780512|r  227 FRYDMSIHHAADVFVRLSV---------GDGLVSQVPALIISLSAAFLV  266 (692)
Q Consensus       227 ~q~gm~~~eA~~~Yt~LTI---------GDGLVsQIPaLliS~aaGiiV  266 (692)
                      ..|-...+-|+.-|+.+|=         |=|.-.-++++.-+-+..+=|
T Consensus        58 ~rhE~~Aa~mAdgyAR~tG~~gv~~~t~GpG~~N~~~gl~~A~~~~~Pv  106 (581)
T PRK06112         58 YRTENAGGAMADGYARVSGKPAVVTAQNGPAAALLVAPLAEALKASVPI  106 (581)
T ss_pred             CCCHHHHHHHHHHHHHHHCCCEEEEECHHHHHHHHHHHHHHHHHHCCCE
T ss_conf             3988999999999999809959999663889999999999997028987


No 22 
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB; InterPro: IPR014149   This entry represents TrbB, a protein, which is encoded in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer . TrbB is a homologue of the vir system VirB11 ATPase , and the Flp pilus system ATPase TadA ..
Probab=70.22  E-value=7.6  Score=18.17  Aligned_cols=76  Identities=13%  Similarity=0.230  Sum_probs=54.5

Q ss_pred             HHHHHHHHHHHHHHHHHCCCCEEEEEEECHH---HHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             9999999989998652077884899988878---9999999830377788464566988999999999999999995699
Q gi|254780512|r  570 IVEQVRIRMAQQICGDLAPTGILNILKLGNH---WDMIFYQAIQRDSKGECVDFNVEPRAVEMFSENATNSIRQYIDKGI  646 (692)
Q Consensus       570 LtE~VR~aL~R~I~~~~~~~g~L~vi~L~p~---lE~~l~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~~~~~~~~~g~  646 (692)
                      ..+..|..|+.+||.-++|++... ++|.|+   |=+.|-+.++.      ....++|..++.++..+...+..-..+ .
T Consensus         2 ~~r~l~~~lG~~i~~~LdD~~vvE-IMLNpDG~Lwve~Lg~G~~~------~G~t~~~~~a~~Ii~~vA~~l~~~V~~-~   73 (315)
T TIGR02782         2 LVRKLRRALGPEIAAALDDPKVVE-IMLNPDGKLWVERLGEGMEP------LGKTVSPADAERIIGLVADYLGTEVDR-D   73 (315)
T ss_pred             CHHHHHHHHHHHHHHHHCCCCEEE-EEECCCCHHHHHHCCCCCCC------CCCCCCHHHHHHHHHHHHHHHCCEEEC-C
T ss_conf             067899998999999737988389-98669870105006797300------166117899999999998764460435-7


Q ss_pred             CEEEEEC
Q ss_conf             8799828
Q gi|254780512|r  647 PLTIVTL  653 (692)
Q Consensus       647 ~pVLl~s  653 (692)
                      +|.+=+-
T Consensus        74 ~PivegE   80 (315)
T TIGR02782        74 KPIVEGE   80 (315)
T ss_pred             CCEEEEC
T ss_conf             8626610


No 23 
>PRK06048 acetolactate synthase 3 catalytic subunit; Reviewed
Probab=68.89  E-value=8.1  Score=17.97  Aligned_cols=38  Identities=24%  Similarity=0.368  Sum_probs=28.7

Q ss_pred             HHCCCCHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHH
Q ss_conf             973998899999989998---------64578885158999873310
Q gi|254780512|r  227 FRYDMSIHHAADVFVRLS---------VGDGLVSQVPALIISLSAAF  264 (692)
Q Consensus       227 ~q~gm~~~eA~~~Yt~LT---------IGDGLVsQIPaLliS~aaGi  264 (692)
                      ..|--..+-++.-|+.+|         -|=|.-.-++++.-+-..++
T Consensus        51 ~rhE~~A~~mAdgyar~tg~~gv~~~t~GPG~~N~~~gl~~A~~~~~   97 (562)
T PRK06048         51 VRHEQAAAHAADGYARATGKVGVCVATSGPGATNLVTGIATAYMDSV   97 (562)
T ss_pred             ECCHHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHHHHCC
T ss_conf             38789999999999999799889998156789999999999997399


No 24 
>TIGR02871 spore_ylbJ sporulation integral membrane protein YlbJ; InterPro: IPR014226   Members of this entry include YlbJ, from Bacillus subtilis. They are found exclusively in the Firmicutes (low-GC Gram-positive bacteria) and are known from studies in B. subtilis to be part of the sigma-E regulon . Mutation leads to a sporulation defect, confirming that members of this entry are involved in sporulation. The protein appears to be universal among endospore-forming bacteria, and in Symbiobacterium thermophilum IAM 14863, there are two ORFs encoding YlbJ that are distant from each other..
Probab=68.67  E-value=8.2  Score=17.94  Aligned_cols=132  Identities=23%  Similarity=0.283  Sum_probs=96.0

Q ss_pred             HHHH-CCCCCHHHHHHHHHHHHHHHCC--CCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf             7876-4899989999999999865222--201220134530105899999999988899999997399889999998999
Q gi|254780512|r  167 ADLS-SGLIEEEEAKRRRKELEEESAF--FGAMDGASKFVRGDAIASIIITAINIVGGIVIGCFRYDMSIHHAADVFVRL  243 (692)
Q Consensus       167 aDl~-aG~I~~~eA~~rR~~l~~Es~f--yGaMDGA~KFVkGDAiAgiiI~~iNiigG~~iG~~q~gm~~~eA~~~Yt~L  243 (692)
                      |||+ .|+||.+|++|-=.==.--+=+  .||- |++=|  +|.-+|.++..=|=++-+++|...+--.-.+--+.+...
T Consensus        98 adLye~~lI~~~e~eRL~nfann~gPLFi~GaV-g~sml--~Np~lGy~Llis~YLs~I~~GLI~~~~~~~~~~~~~~~~  174 (384)
T TIGR02871        98 ADLYEEKLITFEEAERLLNFANNSGPLFIIGAV-GTSML--NNPTLGYILLISHYLSCITVGLILRFKKRKKRKKLSKKK  174 (384)
T ss_pred             HHHHHCCCCCHHHHHHHHHHHCCCCHHHHHHHH-HHHHH--CCHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHC
T ss_conf             655654774568999999987278837899999-99740--575689999998589999999860777414666556416


Q ss_pred             ----HHHHHHHHHHHHHHHHHHHHHEEEECCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHH
Q ss_conf             ----8645788851589998733102662377430589999987618648999999999986157864789999
Q gi|254780512|r  244 ----SVGDGLVSQVPALIISLSAAFLVSRTTSKGSTNTAIVEQLSHYPRALLISAFFMIVLSVMPNLPAFPFIM  313 (692)
Q Consensus       244 ----TIGDGLVsQIPaLliS~aaGiiVTRvss~~~lg~~i~~Ql~~~p~aL~iaa~~l~~lglvPGmP~~~Fl~  313 (692)
                          ++-|+|-+            .-.+|++++.|+|+-+.+=..+.-+.+..+||...+|.++=.+=+..|+.
T Consensus       175 ~~~fS~~~AL~~------------l~~~~~~s~~~~G~~L~~aie~av~til~vgGFvIlFSV~i~~lk~~~l~  236 (384)
T TIGR02871       175 KTEFSLKDALTG------------LHSIRLKSKKNIGKLLKEAIENAVKTILLVGGFVILFSVLISLLKNSFLF  236 (384)
T ss_pred             CCCCCHHHHHHH------------HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             876657889887------------83235406788768999999999999989966999999999999987788


No 25 
>PRK08611 pyruvate oxidase; Provisional
Probab=67.41  E-value=8.6  Score=17.76  Aligned_cols=38  Identities=18%  Similarity=0.213  Sum_probs=23.3

Q ss_pred             HHCCCCHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHH
Q ss_conf             973998899999989998---------64578885158999873310
Q gi|254780512|r  227 FRYDMSIHHAADVFVRLS---------VGDGLVSQVPALIISLSAAF  264 (692)
Q Consensus       227 ~q~gm~~~eA~~~Yt~LT---------IGDGLVsQIPaLliS~aaGi  264 (692)
                      ..|--..+-|+.-|+.+|         -|=|+..-++++.-+-..++
T Consensus        49 ~rhE~~A~~mAdgYar~tg~~gv~~~t~GPG~~N~~~gl~~A~~d~~   95 (576)
T PRK08611         49 VRHEEVAALAAAAYAKLTGKIGVCLSIGGPGAIHLLNGLYDAKMDNV   95 (576)
T ss_pred             ECCHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHHHHCC
T ss_conf             18789999999999999799989997377189999999999997099


No 26 
>PRK09107 acetolactate synthase 3 catalytic subunit; Validated
Probab=67.24  E-value=8.7  Score=17.74  Aligned_cols=38  Identities=26%  Similarity=0.358  Sum_probs=24.5

Q ss_pred             HHCCCCHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHH
Q ss_conf             973998899999989998---------64578885158999873310
Q gi|254780512|r  227 FRYDMSIHHAADVFVRLS---------VGDGLVSQVPALIISLSAAF  264 (692)
Q Consensus       227 ~q~gm~~~eA~~~Yt~LT---------IGDGLVsQIPaLliS~aaGi  264 (692)
                      ..|-...+-|+.-|+.+|         -|=|+-.-++++.-+-+.++
T Consensus        55 ~rhE~~A~~mAdgYar~tgk~gv~~~t~GPG~~N~~~gl~~A~~d~~  101 (594)
T PRK09107         55 VRHEQGAGHAAEGYARSTGKPGVVLVTSGPGATNAVTPLQDALMDSI  101 (594)
T ss_pred             ECCHHHHHHHHHHHHHHHCCCEEEEECCCCHHHHHHHHHHHHHHHCC
T ss_conf             38689999999999999789889997467129999999999998499


No 27 
>pfam04282 DUF438 Family of unknown function (DUF438).
Probab=66.94  E-value=8.8  Score=17.70  Aligned_cols=43  Identities=21%  Similarity=0.257  Sum_probs=32.6

Q ss_pred             HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHH
Q ss_conf             999766648999986311599899999999999749865469999999
Q gi|254780512|r  509 ISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIRNLPLILES  556 (692)
Q Consensus       509 Ld~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEa  556 (692)
                      ++.+++++.+++     +-++...|...=|.|++||+|.++.+....-
T Consensus        15 ~e~vk~~F~~~~-----~~Vs~~EI~~~EqeLi~eG~~~~eiq~LCdv   57 (79)
T pfam04282        15 PEEVKERFQELF-----KGVSPSEISAMEQELIAEGMPPEEIQKLCDV   57 (79)
T ss_pred             HHHHHHHHHHHH-----CCCCHHHHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             999999999997-----7899999999999999959999999999699


No 28 
>COG2089 SpsE Sialic acid synthase [Cell envelope biogenesis, outer membrane]
Probab=66.15  E-value=9.1  Score=17.59  Aligned_cols=114  Identities=13%  Similarity=0.239  Sum_probs=71.6

Q ss_pred             CCHHHHHHHHHHHHHCCCC----------------------HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             9989999999999974986----------------------546999999998753357998999999999989998652
Q gi|254780512|r  528 ISYSGIQAVLKLLLAEHVS----------------------IRNLPLILESIAEVAPHSRKTSHIVEQVRIRMAQQICGD  585 (692)
Q Consensus       528 v~l~~i~~VLq~LL~E~Vs----------------------IRdlr~IlEaLad~a~~~kD~~~LtE~VR~aL~R~I~~~  585 (692)
                      -++..+++.+.-+-+++.+                      |.+|+.+|+...-.+.++.+  .++--.-.+||--+..+
T Consensus       157 a~~~ei~~av~~~r~~g~~~i~LLhC~s~YPap~ed~nL~~i~~l~~~Fn~~vGlSDHT~g--~~a~l~AvALGA~viEK  234 (347)
T COG2089         157 ATIEEIEEAVAILRENGNPDIALLHCTSAYPAPFEDVNLKAIPKLAEAFNAIVGLSDHTLG--ILAPLAAVALGASVIEK  234 (347)
T ss_pred             CCHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCC--HHHHHHHHHHCCCCEEE
T ss_conf             4077799999999966998769998357899977773488799999996876156667653--16789998721001000


Q ss_pred             HCCCCEEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEECHHHHHHHHHHH
Q ss_conf             0778848999888789999999830377788464566988999999999999999995699879982833548999998
Q gi|254780512|r  586 LAPTGILNILKLGNHWDMIFYQAIQRDSKGECVDFNVEPRAVEMFSENATNSIRQYIDKGIPLTIVTLPEIRSYIRMIL  664 (692)
Q Consensus       586 ~~~~g~L~vi~L~p~lE~~l~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~~~~~~~~~g~~pVLl~s~~iRr~lr~ll  664 (692)
                      +        +||+-            +-+|....++|||+..+.+++++++. +.+...|.+-++=--.+.|++.+|-+
T Consensus       235 H--------Ftldk------------~~~GpD~afSldP~efk~mv~~ir~~-~~alG~~~k~~~~~E~~~~~~~~Rsl  292 (347)
T COG2089         235 H--------FTLDK------------SREGPDHAFSLDPDEFKEMVDAIRQV-EKALGDGEKEILPSEEETRNFARRSL  292 (347)
T ss_pred             E--------EEECC------------CCCCCCCCEECCHHHHHHHHHHHHHH-HHHHCCCCCCCCHHHHHHHHHHHHHE
T ss_conf             0--------32147------------77899711113889999999999999-99837786545735788999886531


No 29 
>TIGR03254 oxalate_oxc oxalyl-CoA decarboxylase. In a number of bacteria, including Oxalobacter formigenes from the human gut, a two-gene operon of oxc (oxalyl-CoA decarboxylase) and frc (formyl-CoA transferase) encodes a system for degrading and therefore detoxifying oxalate. Members of this family are the thiamine pyrophosphate (TPP)-containing enzyme oxalyl-CoA decarboxylase.
Probab=64.23  E-value=9.8  Score=17.34  Aligned_cols=38  Identities=26%  Similarity=0.287  Sum_probs=25.2

Q ss_pred             HHCCCCHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHH
Q ss_conf             973998899999989998---------64578885158999873310
Q gi|254780512|r  227 FRYDMSIHHAADVFVRLS---------VGDGLVSQVPALIISLSAAF  264 (692)
Q Consensus       227 ~q~gm~~~eA~~~Yt~LT---------IGDGLVsQIPaLliS~aaGi  264 (692)
                      ..|-...+-++.-|+.+|         -|=|.-.-++++.-+-+.++
T Consensus        46 ~rhE~~A~~mAdgyar~tg~~gv~~~t~GpG~~N~~~gl~~A~~~~~   92 (554)
T TIGR03254        46 FRHEQSAGYAAAAAGFLTQKPGVCLTVSAPGFLNGLTALANATTNCF   92 (554)
T ss_pred             ECCHHHHHHHHHHHHHHHCCCEEEEEEHHHHHHHHHHHHHHHHHHCC
T ss_conf             39889999999999999699789998116799999999999986399


No 30 
>PRK06725 acetolactate synthase 3 catalytic subunit; Validated
Probab=64.15  E-value=9.9  Score=17.33  Aligned_cols=93  Identities=19%  Similarity=0.174  Sum_probs=53.9

Q ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHH
Q ss_conf             45478787648999899999999998652222012201345301058999999999888999999973998899999989
Q gi|254780512|r  162 QMAIDADLSSGLIEEEEAKRRRKELEEESAFFGAMDGASKFVRGDAIASIIITAINIVGGIVIGCFRYDMSIHHAADVFV  241 (692)
Q Consensus       162 QMaIDaDl~aG~I~~~eA~~rR~~l~~Es~fyGaMDGA~KFVkGDAiAgiiI~~iNiigG~~iG~~q~gm~~~eA~~~Yt  241 (692)
                      |-.---.|.+.-||..|+=.++-+-.-=...||        |-||.+-.++=-+-+  .|+-.=...|--..+-++.-|+
T Consensus         3 ~~~~~~~~~~~kmtga~~lv~~L~~~GV~~vFG--------vpG~~~~~l~dal~~--~~i~~v~~rhE~~A~~mAdgYa   72 (570)
T PRK06725          3 QYTTYEKLQCEEVTGAGHVIQCLKKLGVTTVFG--------YPGGAILPVYDALYE--SGLKHILTRHEQAAIHAAEGYA   72 (570)
T ss_pred             CCCCCHHCCCCCCCHHHHHHHHHHHCCCCEEEE--------CCCCCHHHHHHHHHH--CCCEEEEECCHHHHHHHHHHHH
T ss_conf             433300023255549999999999879999997--------676427999999974--6993980497899999999999


Q ss_pred             HHH---------HHHHHHHHHHHHHHHHHHHH
Q ss_conf             998---------64578885158999873310
Q gi|254780512|r  242 RLS---------VGDGLVSQVPALIISLSAAF  264 (692)
Q Consensus       242 ~LT---------IGDGLVsQIPaLliS~aaGi  264 (692)
                      ..|         -|=|+-.-++++.-+.+.++
T Consensus        73 r~tg~~gv~~~t~GPG~~N~~~gl~~A~~~~~  104 (570)
T PRK06725         73 RASGKVGVVFATSGPGATNLVTGLADAYMDSI  104 (570)
T ss_pred             HHHCCCEEEEEECCHHHHHHHHHHHHHHHHCC
T ss_conf             99789989998057689999999999997399


No 31 
>PRK11160 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed
Probab=63.45  E-value=10  Score=17.24  Aligned_cols=43  Identities=14%  Similarity=0.134  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHHHHHHHC----CCCEEEEEEECHHHHHHHHHHHHCCCCCC
Q ss_conf             99999998999865207----78848999888789999999830377788
Q gi|254780512|r  571 VEQVRIRMAQQICGDLA----PTGILNILKLGNHWDMIFYQAIQRDSKGE  616 (692)
Q Consensus       571 tE~VR~aL~R~I~~~~~----~~g~L~vi~L~p~lE~~l~~~i~~t~~G~  616 (692)
                      =|.=|.+++|.+.++-.    |+-+   --||++.|+.+.+++++-.+|.
T Consensus       480 GQrQRiaiARAll~~~~iliLDEaT---s~LD~~te~~i~~~l~~~~~~r  526 (575)
T PRK11160        480 GEQRRLGIARALLHDAPLLLLDEPT---EGLDAETERQILELLFEHAQNK  526 (575)
T ss_pred             HHHHHHHHHHHHHCCCCEEEEECCC---CCCCHHHHHHHHHHHHHHCCCC
T ss_conf             9999999999994599999984986---6679999999999999866999


No 32 
>CHL00099 ilvB acetohydroxyacid synthase large subunit
Probab=63.02  E-value=10  Score=17.18  Aligned_cols=37  Identities=24%  Similarity=0.379  Sum_probs=27.2

Q ss_pred             HCCCCHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHH
Q ss_conf             73998899999989998---------64578885158999873310
Q gi|254780512|r  228 RYDMSIHHAADVFVRLS---------VGDGLVSQVPALIISLSAAF  264 (692)
Q Consensus       228 q~gm~~~eA~~~Yt~LT---------IGDGLVsQIPaLliS~aaGi  264 (692)
                      .|-...+-|+.-|+.+|         -|=|+-+-+.++.-+-+.++
T Consensus        57 rhE~~A~~aAdgYAR~tGk~gv~~~t~GpG~~Na~~gi~~A~~~~~  102 (588)
T CHL00099         57 RHEQGAAHAADAYARSTGKVGVCFATSGPGATNLVTGIATAQMDSV  102 (588)
T ss_pred             CCHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHHHHCC
T ss_conf             9789999999999999699989998037789999999999998299


No 33 
>TIGR02451 anti_sig_ChrR anti-sigma factor, putative, ChrR family; InterPro: IPR012807    The member of this family from Rhodobacter sphaeroides has been shown both to form a complex with sigma(E) and to negatively regulate tetrapyrrole biosynthesis. This protein likely contains (at least) two distinct functional domains as several smaller homologues (excluded in this entry) show homology only to the C-terminal region including a motif: PxHxHxGxE..
Probab=62.85  E-value=9.4  Score=17.49  Aligned_cols=47  Identities=26%  Similarity=0.282  Sum_probs=25.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------------HHHHHCCCCHHHHHHHHHHH
Q ss_conf             99999999999879998729999999999766648999----------------98631159989999999999
Q gi|254780512|r  483 VVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLA----------------EETCSSHISYSGIQAVLKLL  540 (692)
Q Consensus       483 ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV----------------~Elvp~~v~l~~i~~VLq~L  540 (692)
                      |+||||+-           .+|+|.+.+.++..-.+|.                +|+.|.-+.-+.+..|+..+
T Consensus        23 vVAtHl~l-----------Cp~Cr~~~a~~~a~gG~ll~~sssddPvqh~A~~~~~~~~~a~~~~~ld~v~A~~   85 (234)
T TIGR02451        23 VVATHLAL-----------CPECRARIAALEALGGELLFVSSSDDPVQHNASKEEDLEPEALWQGMLDNVMALL   85 (234)
T ss_pred             HHHHHHHH-----------CHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHCCCCCCCCCCCCCHHHHHHHHCCC
T ss_conf             55656662-----------5788999988647665654102567614441476424674763468899984246


No 34 
>TIGR01113 mtrE tetrahydromethanopterin S-methyltransferase, subunit E; InterPro: IPR005780    This model describes N5-methyltetrahydromethanopterin: coenzyme M methyltransferase subunit E in methanogenic archaea. This methyltranferase is a membrane-associated enzyme complex that uses methyl-transfer reaction to drive sodium-ion pump.  5-methyl-5,6,7,8-tetrahydromethanopterin + 2-mercaptoethanesulphonate = 5,6,7,8-tetrahydromethanopterin + 2-(methylthio)ethanesulphonate.  Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase (encoded by subunit A) is involved in the transfer of 'methyl' group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of methyl-coenzyme M by another enzyme, methyl-coenzyme M reductase.; GO: 0030269 tetrahydromethanopterin S-methyltransferase activity, 0006814 sodium ion transport, 0005737 cytoplasm, 0012506 vesicle membrane.
Probab=62.76  E-value=7.3  Score=18.29  Aligned_cols=10  Identities=10%  Similarity=0.109  Sum_probs=4.2

Q ss_pred             CCHHHHHHHH
Q ss_conf             3058999998
Q gi|254780512|r  273 GSTNTAIVEQ  282 (692)
Q Consensus       273 ~~lg~~i~~Q  282 (692)
                      +|+-+||+.|
T Consensus        18 EDlESDvGSQ   27 (298)
T TIGR01113        18 EDLESDVGSQ   27 (298)
T ss_pred             HHHHHCCCCC
T ss_conf             6555157764


No 35 
>PRK01622 OxaA-like protein precursor; Validated
Probab=61.13  E-value=11  Score=17.04  Aligned_cols=33  Identities=15%  Similarity=0.318  Sum_probs=22.8

Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             8999875145013269999999999999998864
Q gi|254780512|r  107 GIIAGFSSLVMSGDFVIGLVVFMILITINFIVIT  140 (692)
Q Consensus       107 ~vI~aFG~fVvggn~vvG~viF~Il~ivqfiVIt  140 (692)
                      +.|..|+++ .||||.+++|+|.|++=+=..=.|
T Consensus        47 ~~i~~~a~~-~~gnyGlaIIl~TiivRlil~PL~   79 (266)
T PRK01622         47 FLIQFVAHH-IHGSYGIAIIIVTLIIRSLMIPLA   79 (266)
T ss_pred             HHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             999999987-588499999999999999998702


No 36 
>TIGR02124 hypE hydrogenase expression/formation protein HypE; InterPro: IPR011854    This family contains HypE (or HupE), a protein required for expression of catalytically active hydrogenase in many systems. It appears to be an accessory protein involved in maturation rather than a regulatory protein involved in expression. HypE shows considerable homology to the thiamine-monophosphate kinase ThiL (IPR006283 from INTERPRO) and other enzymes..
Probab=61.08  E-value=5  Score=19.51  Aligned_cols=126  Identities=16%  Similarity=0.158  Sum_probs=69.8

Q ss_pred             HHHHCCCCHHHHHHHHHHHH---HCCCCHHHH--HHHHHHHHHHHCCCCCHHHHH-------HHHHHHHHHHHHHHH---
Q ss_conf             86311599899999999999---749865469--999999987533579989999-------999999899986520---
Q gi|254780512|r  522 ETCSSHISYSGIQAVLKLLL---AEHVSIRNL--PLILESIAEVAPHSRKTSHIV-------EQVRIRMAQQICGDL---  586 (692)
Q Consensus       522 Elvp~~v~l~~i~~VLq~LL---~E~VsIRdl--r~IlEaLad~a~~~kD~~~Lt-------E~VR~aL~R~I~~~~---  586 (692)
                      ++-.+--||..+-+.|.+.-   .+=-.+||.  =-+-.+|=|||..+..-..|-       |-||     -+|.-+   
T Consensus       197 ~i~SDCapL~~lv~~ll~~~g~~~~v~~~RD~TRGGLA~vLNE~A~~sg~~i~l~E~~iPV~eeV~-----gaCE~LGld  271 (345)
T TIGR02124       197 NIESDCAPLNGLVEALLAVGGYEPAVHAMRDATRGGLAAVLNEIAESSGVGIELEEEKIPVKEEVK-----GACELLGLD  271 (345)
T ss_pred             CCCCHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHHHCCCEEEEECCCCCCHHHH-----HHHHHHCCC
T ss_conf             733327765899999984379871423761678550478999999961992799852478837899-----999861703


Q ss_pred             ----CCCCEEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCC-CEEEEECHHHHHHHH
Q ss_conf             ----778848999888789999999830377788464566988999999999999999995699-879982833548999
Q gi|254780512|r  587 ----APTGILNILKLGNHWDMIFYQAIQRDSKGECVDFNVEPRAVEMFSENATNSIRQYIDKGI-PLTIVTLPEIRSYIR  661 (692)
Q Consensus       587 ----~~~g~L~vi~L~p~lE~~l~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~~~~~~~~~g~-~pVLl~s~~iRr~lr  661 (692)
                          +.+|.+ ++.++||-++...+.+|.++.|....         .++..+       .++.. .++|=|+-.-+|.+=
T Consensus       272 Pl~lANEG~~-v~~V~~E~A~~vLe~lk~hp~G~~A~---------YiIG~V-------~e~~~~~V~l~t~~G~~R~ld  334 (345)
T TIGR02124       272 PLYLANEGKL-VLAVPPEAAEKVLEILKSHPLGKDAA---------YIIGEV-------VEKKEGLVVLKTAYGGKRILD  334 (345)
T ss_pred             HHHHHCCCEE-EEEECHHHHHHHHHHHHHCCCCCCCC---------EEEEEE-------EECCCCEEEEEECCCCEEEEE
T ss_conf             2542047628-99828377999999986077643321---------563014-------737987799970688405655


Q ss_pred             HHHHHHCC
Q ss_conf             99886448
Q gi|254780512|r  662 MILERNFP  669 (692)
Q Consensus       662 ~lle~~~p  669 (692)
                      ...=..+|
T Consensus       335 ~p~GE~LP  342 (345)
T TIGR02124       335 MPSGELLP  342 (345)
T ss_pred             CCCCCCCC
T ss_conf             35678788


No 37 
>PRK07979 acetolactate synthase 3 catalytic subunit; Validated
Probab=58.54  E-value=12  Score=16.64  Aligned_cols=60  Identities=22%  Similarity=0.305  Sum_probs=34.7

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHH
Q ss_conf             01058999999999888999999973998899999989998---------64578885158999873310
Q gi|254780512|r  204 RGDAIASIIITAINIVGGIVIGCFRYDMSIHHAADVFVRLS---------VGDGLVSQVPALIISLSAAF  264 (692)
Q Consensus       204 kGDAiAgiiI~~iNiigG~~iG~~q~gm~~~eA~~~Yt~LT---------IGDGLVsQIPaLliS~aaGi  264 (692)
                      -||.+..++=-+-+- +|+-.=...|-...+-++.-|+..|         -|=|.-+-+.++.-+-+.++
T Consensus        26 pG~~~~~~~dal~~~-~~i~~i~~rhE~~A~~mAdgYar~tG~~gv~~~t~GPG~~N~~~gl~~A~~d~~   94 (574)
T PRK07979         26 PGGAVLDIYDALHTV-GGIDHVLVRHEQAAVHMADGLARATGEVGVVLVTSGPGATNAITGIATAYMDSI   94 (574)
T ss_pred             CCCCHHHHHHHHHHC-CCCCEEEECCHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHHHHCC
T ss_conf             771469999998753-898299038789999999999999699889998267369999999999996099


No 38 
>PRK06882 acetolactate synthase 3 catalytic subunit; Validated
Probab=57.64  E-value=13  Score=16.53  Aligned_cols=38  Identities=18%  Similarity=0.354  Sum_probs=24.3

Q ss_pred             HHCCCCHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHH
Q ss_conf             973998899999989998---------64578885158999873310
Q gi|254780512|r  227 FRYDMSIHHAADVFVRLS---------VGDGLVSQVPALIISLSAAF  264 (692)
Q Consensus       227 ~q~gm~~~eA~~~Yt~LT---------IGDGLVsQIPaLliS~aaGi  264 (692)
                      ..|-...+-++.-|+..|         -|=|.-.-+.++.-+-+.++
T Consensus        48 ~rhE~~A~~mAdgyaR~tg~~gv~~~t~GPG~~N~~~gl~~A~~d~~   94 (574)
T PRK06882         48 VRHEQAAVHMADGYARSTGKVGCVLVTSGPGATNAITGIATAYADSV   94 (574)
T ss_pred             ECCHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHHHHCC
T ss_conf             48789999999999999699889998367249999999999998499


No 39 
>PRK11195 major facilitator family transporter; Provisional
Probab=57.54  E-value=13  Score=16.52  Aligned_cols=72  Identities=21%  Similarity=0.157  Sum_probs=29.2

Q ss_pred             HHHHHHHHHEEE--------ECCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHH-HHHHHHHHHHHHHHHHHH
Q ss_conf             999873310266--------23774305899999876186489999999999861578647-899999999999999886
Q gi|254780512|r  256 LIISLSAAFLVS--------RTTSKGSTNTAIVEQLSHYPRALLISAFFMIVLSVMPNLPA-FPFIMLGGFFACAGFYVP  326 (692)
Q Consensus       256 LliS~aaGiiVT--------Rvss~~~lg~~i~~Ql~~~p~aL~iaa~~l~~lglvPGmP~-~~Fl~la~~l~~~a~~~~  326 (692)
                      +++.+.+|+.+-        |...+-..|.-|.-|=+.+.-++...+++..++ .-=|+|- ..++.++.......|..+
T Consensus       316 ~llG~~gG~fvVPLnAliQ~r~~~~~~aGr~iA~qN~~~n~~m~~~~~~~~~~-~~~g~~~~~~~~~~g~~~~~~~~~~~  394 (415)
T PRK11195        316 ILIGALGGFFVVPMNALLQHRGHVLVGAGHSIAVQNFNENLAMLLMLGLYSLL-VKLGVPVVPVIVGFGLFVALAMWLLW  394 (415)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCCHHCCCCCEEEEHHHHHHHHHHHHHHHHHHH-HHCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999725300165699875472202456653200199999999999999999-98799799999999999999999999


Q ss_pred             HH
Q ss_conf             44
Q gi|254780512|r  327 YK  328 (692)
Q Consensus       327 r~  328 (692)
                      |.
T Consensus       395 ~~  396 (415)
T PRK11195        395 RW  396 (415)
T ss_pred             HH
T ss_conf             99


No 40 
>pfam01944 DUF95 Integral membrane protein DUF95. Members of this family have several predicted transmembrane regions. The function of this family is unknown.
Probab=56.19  E-value=13  Score=16.37  Aligned_cols=52  Identities=17%  Similarity=0.310  Sum_probs=27.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHEEEEC--CCCCCHHHHHHHHHHCCCHHHHHHHHHHH
Q ss_conf             6457888515899987331026623--77430589999987618648999999999
Q gi|254780512|r  245 VGDGLVSQVPALIISLSAAFLVSRT--TSKGSTNTAIVEQLSHYPRALLISAFFMI  298 (692)
Q Consensus       245 IGDGLVsQIPaLliS~aaGiiVTRv--ss~~~lg~~i~~Ql~~~p~aL~iaa~~l~  298 (692)
                      .-.|+. -|||+++|-++|+...+.  ..... .+...+++..+.+.+...+.+++
T Consensus        98 lPHgi~-EIpa~~ia~~~g~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~ll  151 (164)
T pfam01944        98 LPHGIL-EIPAIIIAGAAGLRLGWALIFPGFL-EEALKKAFRKAVLLLLLGVVLLL  151 (164)
T ss_pred             HHHHHH-HHHHHHHHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             713689-9999999999999999999706543-06679999999999999999999


No 41 
>PRK09259 putative oxalyl-CoA decarboxylase; Validated
Probab=56.19  E-value=13  Score=16.36  Aligned_cols=37  Identities=24%  Similarity=0.240  Sum_probs=22.2

Q ss_pred             HHCCCCHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHH
Q ss_conf             97399889999998999---------86457888515899987331
Q gi|254780512|r  227 FRYDMSIHHAADVFVRL---------SVGDGLVSQVPALIISLSAA  263 (692)
Q Consensus       227 ~q~gm~~~eA~~~Yt~L---------TIGDGLVsQIPaLliS~aaG  263 (692)
                      ..|-...+-++.-|+.+         |-|=|+..-++++.-+-..+
T Consensus        56 ~rhE~~A~~mAdgyar~tg~~gv~~~t~GPG~~N~~tgl~~A~~~~  101 (572)
T PRK09259         56 FRHEQSAGNAAAAAGFLTQKPGICLTVSAPGFLNGLTALANATTNC  101 (572)
T ss_pred             CCCHHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHHHHC
T ss_conf             0968999999999999868978999805718999999999998339


No 42 
>PRK08266 hypothetical protein; Provisional
Probab=55.79  E-value=13  Score=16.32  Aligned_cols=38  Identities=18%  Similarity=0.194  Sum_probs=28.9

Q ss_pred             HHCCCCHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHH
Q ss_conf             973998899999989998---------64578885158999873310
Q gi|254780512|r  227 FRYDMSIHHAADVFVRLS---------VGDGLVSQVPALIISLSAAF  264 (692)
Q Consensus       227 ~q~gm~~~eA~~~Yt~LT---------IGDGLVsQIPaLliS~aaGi  264 (692)
                      ..|-.+.+-++.-|+..|         -|=|+-.-+|++.-+-..++
T Consensus        46 ~~hE~~A~~~A~gyar~tg~~gv~~~t~GpG~~N~~~~v~~A~~~~~   92 (531)
T PRK08266         46 TRHEQAAGYMAFGYARSTGRPGVFSVVPGPGVLNAGAALLTAYGCNA   92 (531)
T ss_pred             ECCHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHHHCCC
T ss_conf             28789999999999999799789998258269989999999986299


No 43 
>COG3950 Predicted ATP-binding protein involved in virulence [General function prediction only]
Probab=55.72  E-value=13  Score=16.31  Aligned_cols=101  Identities=9%  Similarity=0.078  Sum_probs=51.0

Q ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHH----HHHHHCCCCCH-HHHHHHHH--HHHHHHHHHHHCCCCEEEEEEECHHHH
Q ss_conf             899999999999749865469999999----98753357998-99999999--998999865207788489998887899
Q gi|254780512|r  530 YSGIQAVLKLLLAEHVSIRNLPLILES----IAEVAPHSRKT-SHIVEQVR--IRMAQQICGDLAPTGILNILKLGNHWD  602 (692)
Q Consensus       530 l~~i~~VLq~LL~E~VsIRdlr~IlEa----Lad~a~~~kD~-~~LtE~VR--~aL~R~I~~~~~~~g~L~vi~L~p~lE  602 (692)
                      +.+++++.+..+.+ +|+.|++-+-+.    ...+....+=| -.|+.-+|  .+|.--|..+.        ..|.|.++
T Consensus       218 i~rlq~aine~i~~-ts~~d~~~~s~~~h~l~mk~~~~geI~ls~lSdg~Rt~~Alvadiarr~--------v~LNp~Ls  288 (440)
T COG3950         218 IARLQDAINENISS-TSWNDLLIGSQRKHELFMKHGNGGEIPLSELSDGPRTKFALVADIARRC--------VVLNPYLS  288 (440)
T ss_pred             HHHHHHHHHHHCCC-CCHHHHHHHCCCCHHHHHCCCCCCCCCHHHCCCCHHHHHHHHHHHHHHH--------HHCCHHHC
T ss_conf             99999987510466-7504555203430478870577771010330311488999999998889--------63682112


Q ss_pred             HHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             9999983037778846456698899999999999999
Q gi|254780512|r  603 MIFYQAIQRDSKGECVDFNVEPRAVEMFSENATNSIR  639 (692)
Q Consensus       603 ~~l~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~~~~  639 (692)
                      +.+...-.--.--...++-+.|.+.|++.+.+..++.
T Consensus       289 d~la~~tpgivLiDeIdlflhP~WQQqi~qkL~saFp  325 (440)
T COG3950         289 DALAKLTPGIVLIDEIDLFLHPKWQQQINQKLLSAFP  325 (440)
T ss_pred             CHHHCCCCCEEEEEHHHHHCCHHHHHHHHHHHHHHCH
T ss_conf             6544489866974220110288899999999986443


No 44 
>PRK07282 acetolactate synthase catalytic subunit; Reviewed
Probab=54.88  E-value=14  Score=16.22  Aligned_cols=38  Identities=16%  Similarity=0.305  Sum_probs=26.2

Q ss_pred             HHCCCCHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHH
Q ss_conf             973998899999989998---------64578885158999873310
Q gi|254780512|r  227 FRYDMSIHHAADVFVRLS---------VGDGLVSQVPALIISLSAAF  264 (692)
Q Consensus       227 ~q~gm~~~eA~~~Yt~LT---------IGDGLVsQIPaLliS~aaGi  264 (692)
                      ..|-.+.+-++.-|+.+|         -|=|.-.-++++.-+-+.++
T Consensus        54 ~rhE~~A~~~Adgyar~tg~~gv~~~t~GpG~~N~~~gl~~A~~~~~  100 (566)
T PRK07282         54 ARHEQGALHEAEGYAKSTGKLGVAVVTSGPGATNAITGIADAMSDSV  100 (566)
T ss_pred             ECCHHHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHHHHHHHHCC
T ss_conf             28789999999999999799889999068579989999999998399


No 45 
>PRK08327 acetolactate synthase catalytic subunit; Validated
Probab=54.73  E-value=14  Score=16.20  Aligned_cols=40  Identities=15%  Similarity=0.147  Sum_probs=29.3

Q ss_pred             HHHHHCCCCHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHH
Q ss_conf             999973998899999989998---------64578885158999873310
Q gi|254780512|r  224 IGCFRYDMSIHHAADVFVRLS---------VGDGLVSQVPALIISLSAAF  264 (692)
Q Consensus       224 iG~~q~gm~~~eA~~~Yt~LT---------IGDGLVsQIPaLliS~aaGi  264 (692)
                      |.+ .|-...+-++.-|+..|         -|=|.-.-++++.-+-+.++
T Consensus        54 v~~-rhE~~A~~mAdgyar~tg~~gv~~~t~GpG~~N~~~gl~~A~~~~~  102 (568)
T PRK08327         54 IIC-PHEIVAIAMAIGYALGTGKPQAVMVHVNVGTANAAGGIINAFRSRI  102 (568)
T ss_pred             EEC-CCHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHHHHCC
T ss_conf             804-9689999999999998599889997458689989999999997199


No 46 
>PRK10923 glnG nitrogen regulation protein NR(I); Provisional
Probab=54.10  E-value=14  Score=16.13  Aligned_cols=60  Identities=13%  Similarity=0.135  Sum_probs=27.6

Q ss_pred             HHHHHHHHEEEECCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             99873310266237743058999998761864899999999998615786478999999999999998
Q gi|254780512|r  257 IISLSAAFLVSRTTSKGSTNTAIVEQLSHYPRALLISAFFMIVLSVMPNLPAFPFIMLGGFFACAGFY  324 (692)
Q Consensus       257 liS~aaGiiVTRvss~~~lg~~i~~Ql~~~p~aL~iaa~~l~~lglvPGmP~~~Fl~la~~l~~~a~~  324 (692)
                      +-.-.-.++++=+.-.+--|-++.+++-.+....        -.=++.|........-|.-.|+..|.
T Consensus        43 l~~~~~dlvl~Di~mP~~~Gl~ll~~lr~~~~~~--------pvIviT~~~~~~~av~A~~~GA~dyL  102 (469)
T PRK10923         43 LASKTPDVLLSDIRMPGMDGLALLKQIKQRHPML--------PVIIMTAHSDLDAAVSAYQQGAFDYL  102 (469)
T ss_pred             HHCCCCCEEEECCCCCCCCHHHHHHHHHHCCCCC--------CEEEEECCCCHHHHHHHHHCCHHHHC
T ss_conf             8669999998789999989999999998429899--------78999899998999999855704430


No 47 
>COG4838 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=53.81  E-value=14  Score=16.10  Aligned_cols=32  Identities=38%  Similarity=0.498  Sum_probs=22.9

Q ss_pred             CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHH
Q ss_conf             76034547878764899989999999999865
Q gi|254780512|r  158 IPGKQMAIDADLSSGLIEEEEAKRRRKELEEE  189 (692)
Q Consensus       158 mPGKQMaIDaDl~aG~I~~~eA~~rR~~l~~E  189 (692)
                      |=|-|--||--.|-|+||+++.|+--..+++|
T Consensus        50 MfGLsrEidFAvrLgLid~e~GKqll~~LEke   81 (92)
T COG4838          50 MFGLSREIDFAVRLGLIDEEDGKQLLSTLEKE   81 (92)
T ss_pred             HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH
T ss_conf             85025555388886366788879999999999


No 48 
>TIGR02535 hyp_Hser_kinase proposed homoserine kinase; InterPro: IPR013371    The genes encoding proteins in this entry are largely adjacent to genes involved in the biosynthesis of threonine (aspartate kinase, homoserine dehydrogenase and threonine synthase) in genomes which are lacking any other known homoserine kinase, and in which the presence of a homoserine kinase would indicate a complete pathway for the biosynthesis of threonine. These proteins are homologous to the archaeal form of 2,3-bisphosphoglycerate-independent phosphoglycerate mutase and form part of a superfamily of metalloenzymes including phosphopentomutases, alkaline phosphatases and sulphatases. The proposal that these proteins encode a kinase is based on analogy to phosphomutases which are intramolecular phosphotransferases. A mutase active site could evolve to bring together homoserine and a phosphate donor such as phosphoenolpyruvate, resulting in kinase activity.; GO: 0004619 phosphoglycerate mutase activity.
Probab=51.53  E-value=11  Score=17.10  Aligned_cols=18  Identities=6%  Similarity=0.174  Sum_probs=11.0

Q ss_pred             CHHHHHHHHHHHHHHHHC
Q ss_conf             268899999999999809
Q gi|254780512|r  378 DLFLRVSKIRRKFAVQYG  395 (692)
Q Consensus       378 ~L~~rI~~iRk~la~elG  395 (692)
                      +-..-|..++|++..|=|
T Consensus       122 EA~~Lie~L~~~l~~e~G  139 (431)
T TIGR02535       122 EAAELIEALNKELSNEGG  139 (431)
T ss_pred             HHHHHHHHHHHHHCCCCC
T ss_conf             899999999997255789


No 49 
>COG2733 Predicted membrane protein [Function unknown]
Probab=51.32  E-value=16  Score=15.82  Aligned_cols=63  Identities=21%  Similarity=0.186  Sum_probs=38.4

Q ss_pred             HHHHHHHHHHHHHCCC-------CHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHH
Q ss_conf             6664899998631159-------989999999999974986546999999998753357998999999999
Q gi|254780512|r  513 DPEYQKLAEETCSSHI-------SYSGIQAVLKLLLAEHVSIRNLPLILESIAEVAPHSRKTSHIVEQVRI  576 (692)
Q Consensus       513 ~~~~P~LV~Elvp~~v-------~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad~a~~~kD~~~LtE~VR~  576 (692)
                      +.+|.+++++++....       +...+.++.+++++|.-|.-+.+.+-+.+.+.. ....+..+++.||+
T Consensus       178 d~r~q~l~D~l~~~L~r~~~~~~~~~~i~~~I~r~~e~e~p~~a~~~~~~~v~~~~-I~~a~~~~lD~v~~  247 (415)
T COG2733         178 DDRHQALLDKLIDRLIRWLLNDKVREFIAAVIVRYLEEEHPLFAPIIIVSLVGKRD-ISDAVNSFLDEVRR  247 (415)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHH-HHHHHHHHHHHHHH
T ss_conf             42277899999999999864225789999999999986077520477699981125-98879999999875


No 50 
>pfam08559 Cut8 Cut8. In Schizosaccharomyces pombe, Cut8 is a nuclear envelope protein that physically interacts with and tethers 26S proteasome in the nucleus resulting in the nuclear accumulation of proteasome. Cut8 is a proteasome substrate and amino terminal residues 1-72 are polyubiquitinated and function as a degron tag. Ubiquitination of the amino terminal is essential to the function of Cut8. Lysine residues in the amino terminal 72 amino acids of Cut8 are required for physical interaction with proteasome. In fission yeast the function of Cut8 has been demonstrated to be regulated by ubiquitin-conjugating Rhp6/Ubc2/Rad6 and ligating enzymes Ubr1. Cut8 homologs have been identified in Drosophila melanogaster, Anopheles gambiae and Dictyostelium discoideum.
Probab=50.86  E-value=16  Score=15.77  Aligned_cols=46  Identities=17%  Similarity=0.209  Sum_probs=34.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC---HHHHHHHHHHHH
Q ss_conf             79998729999999999766648999986311599---899999999999
Q gi|254780512|r  495 NLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHIS---YSGIQAVLKLLL  541 (692)
Q Consensus       495 ~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~---l~~i~~VLq~LL  541 (692)
                      ..=|.+..+.-+.+|..+=++||++-+|++ +..|   +....+||+...
T Consensus        51 RlLE~Ldk~qL~~lL~~l~~~HPel~~ei~-~~~P~Psv~~~~~~L~~~~   99 (227)
T pfam08559        51 RLLETLDKEQLQSLLTSLCERHPELGQEIR-NILPRPSIASALEVLRDKQ   99 (227)
T ss_pred             HHHHHCCHHHHHHHHHHHHHHCCHHHHHHH-HCCCCCCHHHHHHHHHHHH
T ss_conf             889870899999999999997907888987-3389998999999999999


No 51 
>PRK06154 hypothetical protein; Provisional
Probab=50.67  E-value=16  Score=15.75  Aligned_cols=37  Identities=19%  Similarity=0.277  Sum_probs=23.0

Q ss_pred             HHCCCCHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHH
Q ss_conf             9739988999999899986-----------457888515899987331
Q gi|254780512|r  227 FRYDMSIHHAADVFVRLSV-----------GDGLVSQVPALIISLSAA  263 (692)
Q Consensus       227 ~q~gm~~~eA~~~Yt~LTI-----------GDGLVsQIPaLliS~aaG  263 (692)
                      ..|--..+-++.-|+..|=           |=|.-.-+.++.-+-+.+
T Consensus        52 ~rhE~~A~~mAdgyaR~tg~r~~gv~~~t~GPG~~N~~tgla~A~~d~   99 (556)
T PRK06154         52 ARTERVVVGMADGYARATLGRRVGVCAVQYGPGAENAFGGMAQAFSDS   99 (556)
T ss_pred             ECCHHHHHHHHHHHHHHHCCCCCEEEEECCCHHHHHHHHHHHHHHHHC
T ss_conf             597899999999999986999888999725547999999999999829


No 52 
>pfam04278 Tic22 Tic22-like family. The preprotein translocation at the inner envelope membrane of chloroplasts so far involves five proteins: Tic110, Tic55, Tic40, Tic22 (this family) and Tic20. The molecular function of these proteins has not yet been established.
Probab=50.06  E-value=12  Score=16.80  Aligned_cols=157  Identities=13%  Similarity=0.138  Sum_probs=83.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH--CCCCHH------HHHHHHHHHHHHHCCCCC---
Q ss_conf             987299999999997666489999863115998999999999997--498654------699999999875335799---
Q gi|254780512|r  498 QLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLA--EHVSIR------NLPLILESIAEVAPHSRK---  566 (692)
Q Consensus       498 ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~--E~VsIR------dlr~IlEaLad~a~~~kD---  566 (692)
                      =+++++|.+..++.+++++|++-+..-=..+|++.+-+..|.--.  |++-.|      .+..-.+-+-+.+...++   
T Consensus        88 vf~sq~dA~afL~~lk~~~pe~~~~~kV~pvsLg~vY~l~~~~~~k~~~l~f~fvP~~~qv~~A~~ll~~~gq~~~~F~G  167 (259)
T pfam04278        88 LFLSQEDAEAFLNELKKQNPELASGAKVVPISLGQVYKLAQSNQKKVEGVAFRFVPDPKQVKNALELLKKNGQNVDGFRG  167 (259)
T ss_pred             EEECHHHHHHHHHHHHHHCHHHHCCCEEEEEEHHHHHHHHHHHCCCCCCEEEEECCCHHHHHHHHHHHHHHCCCCCCCCC
T ss_conf             99669999999999875194340575599967899999888751687560699638989999999999970987778988


Q ss_pred             -HHHHHHHHHHHHHHHHHHHHCCCCEEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             -8999999999989998652077884899988878999999983037778846456698899999999999999999569
Q gi|254780512|r  567 -TSHIVEQVRIRMAQQICGDLAPTGILNILKLGNHWDMIFYQAIQRDSKGECVDFNVEPRAVEMFSENATNSIRQYIDKG  645 (692)
Q Consensus       567 -~~~LtE~VR~aL~R~I~~~~~~~g~L~vi~L~p~lE~~l~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~~~~~~~~~g  645 (692)
                       |.-.   .|.. ..+++-+-.++..+|++-=--+++..+...-++.+. -.....++--.++.++..+.+.-    +.+
T Consensus       168 VPlF~---~~~g-~~~Lti~~~n~~~iP~FF~Kedlq~~l~~~k~qqp~-l~~~~~I~V~~Le~vi~~m~~~~----d~~  238 (259)
T pfam04278       168 VPVFQ---SRSG-EGYLTIQKDNKQYIPVFFSKEDLQRMLDRAKRQQPD-LAVSVKIEVGSLEDVLKKMLTSD----DSG  238 (259)
T ss_pred             CCEEE---ECCC-CCEEEEECCCCEEEEEEEEHHHHHHHHHHHHHHCCC-CCCCCEEEEEEHHHHHHHHHCCC----CCC
T ss_conf             55688---7388-624889529917975686379999999997775757-67885499974999999986556----524


Q ss_pred             -CCEEEEECHHHHHHHHHH
Q ss_conf             -987998283354899999
Q gi|254780512|r  646 -IPLTIVTLPEIRSYIRMI  663 (692)
Q Consensus       646 -~~pVLl~s~~iRr~lr~l  663 (692)
                       .+.+++-|.+-+-|+|.+
T Consensus       239 ~~~ivfiPs~es~e~i~~l  257 (259)
T pfam04278       239 WDKIIFIPPGKSLEFVQSL  257 (259)
T ss_pred             CCEEEEECCHHHHHHHHHC
T ss_conf             0428998998999999860


No 53 
>TIGR02847 CyoD cytochrome o ubiquinol oxidase subunit IV; InterPro: IPR014210   This entry represents subunit 4 (CyoD) of cytochrome o terminal oxidase complex, which is a component of the aerobic respiratory chain that reacts with oxygen, reducing it to water with the concomitant transport of 4 protons across the membrane. Also known as the cytochrome bo complex, cytochrome o ubiquinol oxidase contains four subunits, two heme b cofactors and a copper atom which is believed to be the oxygen active site. This complex is structurally related to the cytochrome caa3 oxidases which utilise cytochrome c as the reductant and contain heme a cofactors, as well as the intermediate form aa3 oxidases which also react directly with quinones as the reductant..
Probab=49.81  E-value=16  Score=15.66  Aligned_cols=25  Identities=32%  Similarity=0.634  Sum_probs=22.6

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             3269999999999999998864575
Q gi|254780512|r  119 GDFVIGLVVFMILITINFIVITKGA  143 (692)
Q Consensus       119 gn~vvG~viF~Il~ivqfiVItkGa  143 (692)
                      ++|.+|+|.=+|||++=|..+..|+
T Consensus         5 ksYliGFvlsv~LT~~pF~~Vm~~~   29 (99)
T TIGR02847         5 KSYLIGFVLSVILTVIPFGLVMSGT   29 (99)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             6179999999999998889998075


No 54 
>KOG4715 consensus
Probab=49.26  E-value=17  Score=15.60  Aligned_cols=89  Identities=16%  Similarity=0.124  Sum_probs=62.4

Q ss_pred             HCCCEEECHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHH
Q ss_conf             289907058899999999999987999872999-9999999766648999986311599899999999999749865469
Q gi|254780512|r  472 RQGFHPIDNLAVVLTHLSEVIRNNLSQLLSYKD-VKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIRNL  550 (692)
Q Consensus       472 ~~G~tvvdp~~ViatHl~evir~~a~ellg~qE-vq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdl  550 (692)
                      ..+-.|-|.-+|+.||-.++++|.+..|...|- .-.-|-.++++|.+--.-.+   =+-..++.-|++|..+.| --|+
T Consensus       206 ~SesvVpDvrsVVtt~RMqvlkrQv~SL~~HQ~KLEaEL~q~Ee~hq~kKrk~~---estdsf~~eLKr~c~~kv-evd~  281 (410)
T KOG4715         206 LSESVVPDVRSVVTTARMQVLKRQVQSLMVHQRKLEAELLQIEERHQEKKRKFL---ESTDSFNNELKRLCGLKV-EVDM  281 (410)
T ss_pred             HCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HCCHHHHHHHHHHCCCCC-CCCH
T ss_conf             132224640332147789999998899888999899999899998899988887---510888999998658741-0019


Q ss_pred             HHHHHHHHHHHCCC
Q ss_conf             99999998753357
Q gi|254780512|r  551 PLILESIAEVAPHS  564 (692)
Q Consensus       551 r~IlEaLad~a~~~  564 (692)
                      ..+.+.+++|-.+.
T Consensus       282 eK~~~~i~q~eeq~  295 (410)
T KOG4715         282 EKMAAEIAQAEEQA  295 (410)
T ss_pred             HHHHHHHHHHHHHH
T ss_conf             99999999999999


No 55 
>PRK08979 acetolactate synthase 3 catalytic subunit; Validated
Probab=48.99  E-value=17  Score=15.57  Aligned_cols=38  Identities=18%  Similarity=0.348  Sum_probs=27.9

Q ss_pred             HHCCCCHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHH
Q ss_conf             973998899999989998---------64578885158999873310
Q gi|254780512|r  227 FRYDMSIHHAADVFVRLS---------VGDGLVSQVPALIISLSAAF  264 (692)
Q Consensus       227 ~q~gm~~~eA~~~Yt~LT---------IGDGLVsQIPaLliS~aaGi  264 (692)
                      ..|-...+-++.-|+..|         -|=|+-.-++++.-+-+.++
T Consensus        48 ~rhE~~A~~mAdgYar~tg~~gv~~~t~GPG~~N~~~gl~~A~~d~~   94 (572)
T PRK08979         48 VRHEQAAVHMADGYARATGKVGVVLVTSGPGATNAITGIATAYMDSI   94 (572)
T ss_pred             ECCHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHHHHCC
T ss_conf             18689999999999999799889998267379999999999998599


No 56 
>PRK08322 acetolactate synthase; Reviewed
Probab=48.71  E-value=17  Score=15.54  Aligned_cols=36  Identities=19%  Similarity=0.287  Sum_probs=19.2

Q ss_pred             HCCCCHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHH
Q ss_conf             73998899999989998---------6457888515899987331
Q gi|254780512|r  228 RYDMSIHHAADVFVRLS---------VGDGLVSQVPALIISLSAA  263 (692)
Q Consensus       228 q~gm~~~eA~~~Yt~LT---------IGDGLVsQIPaLliS~aaG  263 (692)
                      .|-...+-++.-|+..|         .|=|...-++++.-+-+.+
T Consensus        45 ~hE~~A~~~AdGyar~tgk~gv~~~t~GpG~~N~~~~v~~A~~~~   89 (547)
T PRK08322         45 RHEQGAGFMAATYGRLTGKAGVCLSTLGPGATNLVTGVAYAQLGG   89 (547)
T ss_pred             CCHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHHHHC
T ss_conf             878999999999999979988999797806999999999998529


No 57 
>COG1297 Predicted membrane protein [Function unknown]
Probab=48.22  E-value=17  Score=15.48  Aligned_cols=104  Identities=17%  Similarity=0.289  Sum_probs=59.0

Q ss_pred             HHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEEEECCC-CCCHHHHHHHHHHCCCH-HH
Q ss_conf             99999888999999973998899999989998645788851589998733102662377-43058999998761864-89
Q gi|254780512|r  213 ITAINIVGGIVIGCFRYDMSIHHAADVFVRLSVGDGLVSQVPALIISLSAAFLVSRTTS-KGSTNTAIVEQLSHYPR-AL  290 (692)
Q Consensus       213 I~~iNiigG~~iG~~q~gm~~~eA~~~Yt~LTIGDGLVsQIPaLliS~aaGiiVTRvss-~~~lg~~i~~Ql~~~p~-aL  290 (692)
                      +|+-|.+-|++|++.      --|.+.|-=|++|=---+-|||-+||+|---..--.+- |+|+-.....--..-+. +.
T Consensus        15 lTlr~vIlGilitvi------~~aaN~yLGL~vGlT~a~SIPAAVISmavlk~~~~~silENNmVQT~ASAagtlsa~vI   88 (624)
T COG1297          15 LTLRGVILGILITVI------FLAANVYLGLKVGLTFASSIPAAVISMAVLKAFKGSSILENNMVQTQASAAGTLSAGVI   88 (624)
T ss_pred             HHHHHHHHHHHHHHH------HHHHHHHHHHEECCEEHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCEE
T ss_conf             019999999999999------99888761021442503314999999999998276635566789989866414433278


Q ss_pred             HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             999999999861578647899999999999999
Q gi|254780512|r  291 LISAFFMIVLSVMPNLPAFPFIMLGGFFACAGF  323 (692)
Q Consensus       291 ~iaa~~l~~lglvPGmP~~~Fl~la~~l~~~a~  323 (692)
                      ++--+++. ++-=-+||.++-+..+++.+.++-
T Consensus        89 FviPgl~m-~g~w~~fpf~~t~~i~~lggiLGv  120 (624)
T COG1297          89 FVLPGLLM-LGYWSGFPFWQTAIICALGGILGV  120 (624)
T ss_pred             EECHHHHH-HCCCCCCCHHHHHHHHHHHHHCCE
T ss_conf             82012776-444258837999999998745004


No 58 
>pfam04550 Phage_holin_2 Phage holin family 2. Holins are a diverse family of proteins that cause bacterial membrane lysis during late-protein synthesis. It is thought that the temporal precision of holin-mediated lysis may occur through the buildup of a holin oligomer which causes the lysis.
Probab=48.21  E-value=17  Score=15.48  Aligned_cols=42  Identities=14%  Similarity=0.235  Sum_probs=29.6

Q ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             9998761864899999999998615786478999999999999998
Q gi|254780512|r  279 IVEQLSHYPRALLISAFFMIVLSVMPNLPAFPFIMLGGFFACAGFY  324 (692)
Q Consensus       279 i~~Ql~~~p~aL~iaa~~l~~lglvPGmP~~~Fl~la~~l~~~a~~  324 (692)
                      +++-+.+  .++-++|+..+.  .+|++|.+....++++++.++|-
T Consensus        36 iGR~iLG--s~~S~~Ag~~Lv--~~Pdl~plAv~GigsalGIaG~q   77 (90)
T pfam04550        36 VGRMILG--SAVSMVAGVALI--QFPDIHPLALCGIGSALGIAGSQ   77 (90)
T ss_pred             HHHHHHH--HHHHHHHHHHHH--CCCCCCHHHHHHHHHHHHHHHHH
T ss_conf             8899995--498998878987--08999899999899998552699


No 59 
>pfam05529 Bap31 B-cell receptor-associated protein 31-like. Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31.
Probab=48.11  E-value=17  Score=15.47  Aligned_cols=108  Identities=12%  Similarity=0.155  Sum_probs=52.2

Q ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHH
Q ss_conf             99999999603847899999999999999999999513770454200489999999998554888889884377776326
Q gi|254780512|r   26 IVLIICILFLPIPTVLLDVGLASSIALSILILMVALWIEKPLEFSSFPTVLLIVTIIRLSLNIATTRAILSFGHEGYGAA  105 (692)
Q Consensus        26 ~~~ii~~~iiPlP~~llD~~~~~ni~~s~lil~~~l~~~~pl~fs~FPslLL~~TlfRL~LniasTRlIL~~g~~g~~~A  105 (692)
                      =+++++++++|+|...---+     .-+.......-+.+...-+..+==++|+.--.|=...+++.-.--.+++.+++..
T Consensus        15 Em~~~~lL~lP~~~~~R~~i-----f~~~~~~~~~~~~~~~~~~~~~~l~llfiDsv~~~~k~~~~~~~~~~~~~~~~~~   89 (192)
T pfam05529        15 EMAVFLLLVLPLPSPIRRKI-----FKSVSKLQLSQQFQTGFKILLIFLLVLFIDSVRRVYKYSGELQGSKNASLGGGER   89 (192)
T ss_pred             HHHHHHHHHHCCCHHHHHHH-----HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCH
T ss_conf             99999999934875899999-----9999999885155036889999999999999999999998751002356777510


Q ss_pred             HHHHHHHHHHHHCCC-HHHHHHHHHHHHHHHHHH
Q ss_conf             789998751450132-699999999999999988
Q gi|254780512|r  106 GGIIAGFSSLVMSGD-FVIGLVVFMILITINFIV  138 (692)
Q Consensus       106 G~vI~aFG~fVvggn-~vvG~viF~Il~ivqfiV  138 (692)
                      -..-.-.-.|-...| |.-|+..|+-++|--.+-
T Consensus        90 ~~~~~~~r~F~aQRN~Yl~GF~LfL~lvi~R~~~  123 (192)
T pfam05529        90 SEYQTLARLFYAQRNLYLSGFTLFLTLVIRRVVT  123 (192)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             7789999999999879999999999999999999


No 60 
>pfam09851 DUF2078 Predicted membrane protein (DUF2078). This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=48.04  E-value=17  Score=15.46  Aligned_cols=36  Identities=31%  Similarity=0.408  Sum_probs=24.8

Q ss_pred             HHHCCCCHHHHHH---HHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf             4420376034547---87876489998999999999986
Q gi|254780512|r  153 FTLDAIPGKQMAI---DADLSSGLIEEEEAKRRRKELEE  188 (692)
Q Consensus       153 FtLDamPGKQMaI---DaDl~aG~I~~~eA~~rR~~l~~  188 (692)
                      ..-+..|.+.-|.   |--+..|-||++|=++||++|++
T Consensus        35 ~~~~~~~~~~~al~IL~eRyArGEI~eeEy~~rk~~L~~   73 (73)
T pfam09851        35 RGRSDSPPDSDALEILKERYARGEIDEEEYEERKKDLRE   73 (73)
T ss_pred             CCCCCCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHCC
T ss_conf             988999887689999999986589899999999988639


No 61 
>PRK07418 acetolactate synthase 3 catalytic subunit; Reviewed
Probab=47.50  E-value=18  Score=15.41  Aligned_cols=59  Identities=25%  Similarity=0.290  Sum_probs=34.6

Q ss_pred             CHHHHHHHHHHHHH--HHHH-HHHHHHCCCCHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHH
Q ss_conf             10589999999998--8899-9999973998899999989998---------64578885158999873310
Q gi|254780512|r  205 GDAIASIIITAINI--VGGI-VIGCFRYDMSIHHAADVFVRLS---------VGDGLVSQVPALIISLSAAF  264 (692)
Q Consensus       205 GDAiAgiiI~~iNi--igG~-~iG~~q~gm~~~eA~~~Yt~LT---------IGDGLVsQIPaLliS~aaGi  264 (692)
                      ||.+-.++=.+.+.  -+++ .|. ..|-...+-|+.-|+..|         -|=|..+-+.++.-+-+.++
T Consensus        42 G~~~lpl~dal~~~~~~~~i~~I~-~rhE~~A~~aAdGYAR~tGk~gv~~~T~GPG~~N~~tgia~A~~d~v  112 (615)
T PRK07418         42 GGAILPIYDALYKAEAEGWLKHIL-VRHEQGAAHAADGYARATGKVGVCFGTSGPGATNLVTGIATAQMDSV  112 (615)
T ss_pred             CCCHHHHHHHHHHCCCCCCCEEEC-CCCHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHHHHCC
T ss_conf             975379999998455468961862-29789999999999999799989996456079999999999998499


No 62 
>pfam06120 Phage_HK97_TLTM Tail length tape measure protein. This family consists of the tail length tape measure protein from bacteriophage HK97 and related sequences from Escherichia coli O157:H7.
Probab=47.40  E-value=18  Score=15.40  Aligned_cols=39  Identities=15%  Similarity=0.159  Sum_probs=24.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999999999879998729999999999766648999986
Q gi|254780512|r  485 LTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEET  523 (692)
Q Consensus       485 atHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~El  523 (692)
                      .+.+..-=.|.-..+=..+++|..+..++...-.+..+.
T Consensus       143 ~~~L~ve~~rl~qm~~k~~~iq~~l~~le~~~~~li~k~  181 (311)
T pfam06120       143 ADALAVEEERLEQMLAKRKEIQQLIEDIEDQAIDLIRNK  181 (311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             999998799999999988999999987777788999999


No 63 
>COG3462 Predicted membrane protein [Function unknown]
Probab=46.96  E-value=15  Score=15.98  Aligned_cols=21  Identities=29%  Similarity=0.414  Sum_probs=18.1

Q ss_pred             HHHCCCCCHHHHHHHHHHHHH
Q ss_conf             876489998999999999986
Q gi|254780512|r  168 DLSSGLIEEEEAKRRRKELEE  188 (692)
Q Consensus       168 Dl~aG~I~~~eA~~rR~~l~~  188 (692)
                      -+..|-|||||=++++++++|
T Consensus        97 R~AkGEItEEEY~r~~~~irr  117 (117)
T COG3462          97 RYAKGEITEEEYRRIIRTIRR  117 (117)
T ss_pred             HHHCCCCCHHHHHHHHHHHCC
T ss_conf             973478889999999998509


No 64 
>PRK06466 acetolactate synthase 3 catalytic subunit; Validated
Probab=46.91  E-value=18  Score=15.34  Aligned_cols=38  Identities=18%  Similarity=0.363  Sum_probs=24.3

Q ss_pred             HHCCCCHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHH
Q ss_conf             973998899999989998---------64578885158999873310
Q gi|254780512|r  227 FRYDMSIHHAADVFVRLS---------VGDGLVSQVPALIISLSAAF  264 (692)
Q Consensus       227 ~q~gm~~~eA~~~Yt~LT---------IGDGLVsQIPaLliS~aaGi  264 (692)
                      ..|--..+-++.-|+..|         -|=|.-.-++++.-+-+.++
T Consensus        48 ~rhE~~A~~mAdgyaR~tgk~gv~~~t~GPG~~N~~~gi~~A~~d~~   94 (574)
T PRK06466         48 VRHEQAATHMADGYARATGKAGVVLVTSGPGATNAITGIATAYMDSI   94 (574)
T ss_pred             ECCHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHHHHCC
T ss_conf             48789999999999999799879998257059999999999998499


No 65 
>TIGR02002 PTS-II-BC-glcB PTS system, glucose-specific IIBC component; InterPro: IPR011299   This entry represents the combined B and C domains of the PTS transport system enzyme II specific for glucose transport . Many of the genes in this family also include an A domain as part of the same polypeptide and thus should be given the name 'PTS system, glucose-specific IIABC component' while the Bacillus subtilus enzyme also contains an enzyme III domain which appears to act independently of the enzyme II domains . This group is most closely related to the N-acetylglucosamine-specific PTS enzymes (IPR010974 from INTERPRO).; GO: 0005355 glucose transmembrane transporter activity, 0015758 glucose transport, 0016021 integral to membrane.
Probab=46.33  E-value=14  Score=16.21  Aligned_cols=30  Identities=17%  Similarity=0.356  Sum_probs=26.5

Q ss_pred             HHHHHCCC--CHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99861578--6478999999999999998864
Q gi|254780512|r  298 IVLSVMPN--LPAFPFIMLGGFFACAGFYVPY  327 (692)
Q Consensus       298 ~~lglvPG--mP~~~Fl~la~~l~~~a~~~~r  327 (692)
                      +.+|+.|+  -|.|-|.+++...+...|.+-|
T Consensus       382 L~~G~ls~dr~~~W~~IIvG~~~A~iYYflFR  413 (518)
T TIGR02002       382 LLYGVLSGDREAAWLVIIVGLVYAIIYYFLFR  413 (518)
T ss_pred             HHCCCCCCCCCCCEEHHHHHHHHHHHHHHHHH
T ss_conf             86178832026412020378999999998999


No 66 
>PRK07525 sulfoacetaldehyde acetyltransferase; Validated
Probab=45.88  E-value=19  Score=15.23  Aligned_cols=38  Identities=24%  Similarity=0.297  Sum_probs=25.4

Q ss_pred             HHCCCCHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHH
Q ss_conf             9739988999999899986---------4578885158999873310
Q gi|254780512|r  227 FRYDMSIHHAADVFVRLSV---------GDGLVSQVPALIISLSAAF  264 (692)
Q Consensus       227 ~q~gm~~~eA~~~Yt~LTI---------GDGLVsQIPaLliS~aaGi  264 (692)
                      ..|-...+-|+.-|+..|=         |=|+-.-+.++.-+.+.++
T Consensus        49 ~rhE~~A~~mAdgyar~tg~~gv~~~t~GPG~~N~~tgl~~A~~d~~   95 (589)
T PRK07525         49 VAHEQNAGHMADGYTRVTGRMGMVIGQNGPGITNFVTAVATAYWAHT   95 (589)
T ss_pred             ECCHHHHHHHHHHHHHHHCCCEEEEEECCCHHHHHHHHHHHHHHHCC
T ss_conf             09789999999999999799889999676079999999999997399


No 67 
>TIGR01474 ubiA_proteo 4-hydroxybenzoate polyprenyl transferase; InterPro: IPR006370   These sequences are a family of integral membrane proteins that condense para-hydroxybenzoate with any of several polyprenyldiphosphates. Heterologous expression studies suggest that for, many but not all members, the activity seen (e.g. octaprenyltransferase in Escherichia coli) reflects available host isoprenyl pools rather than enzyme specificity. A fairly deep split by both clustering (UPGMA) and phylogenetics (NJ tree) separates this group (mostly Proteobacterial and mitochondrial), with several characterised members, from another group (mostly archaeal and Gram-positive bacterial) lacking characterised members IPR006371 from INTERPRO .; GO: 0004659 prenyltransferase activity, 0009058 biosynthetic process, 0016021 integral to membrane.
Probab=45.85  E-value=18  Score=15.29  Aligned_cols=75  Identities=11%  Similarity=0.194  Sum_probs=48.7

Q ss_pred             HHHHHHHHHHHHEEEECCC-------CCCHHHHHH---------HHHHCCCHHHHHHHHHHHHHHHCCCCHHHHH-HHHH
Q ss_conf             1589998733102662377-------430589999---------9876186489999999999861578647899-9999
Q gi|254780512|r  253 VPALIISLSAAFLVSRTTS-------KGSTNTAIV---------EQLSHYPRALLISAFFMIVLSVMPNLPAFPF-IMLG  315 (692)
Q Consensus       253 IPaLliS~aaGiiVTRvss-------~~~lg~~i~---------~Ql~~~p~aL~iaa~~l~~lglvPGmP~~~F-l~la  315 (692)
                      -+.+|.-...|.+.+|++.       |.+++.++-         ++++.+---++.+...+..+|++==|+++.+ +.++
T Consensus        41 ~~~~L~~F~~G~~lMRgAGCviND~~DR~~D~~VeRTk~RPLasG~vs~~~A~~~~~~~~l~~l~~Ll~LN~~ti~Lgv~  120 (291)
T TIGR01474        41 PLLLLALFTVGAILMRGAGCVINDIVDRDFDKQVERTKSRPLASGAVSVRQAILFLLVQLLVALGVLLQLNSLTILLGVA  120 (291)
T ss_pred             CHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             08999999999999864043433046240043340000378746631189999999999999999998755799999899


Q ss_pred             HHHHHHHH-HHHH
Q ss_conf             99999999-8864
Q gi|254780512|r  316 GFFACAGF-YVPY  327 (692)
Q Consensus       316 ~~l~~~a~-~~~r  327 (692)
                      ++.....| ++||
T Consensus       121 sL~lv~~YP~~KR  133 (291)
T TIGR01474       121 SLALVAIYPFMKR  133 (291)
T ss_pred             HHHHHHHHCCHHH
T ss_conf             9999998011320


No 68 
>PRK09390 fixJ response regulator FixJ; Provisional
Probab=45.40  E-value=14  Score=16.30  Aligned_cols=20  Identities=5%  Similarity=0.155  Sum_probs=9.4

Q ss_pred             HHCCCCCHHHHHHHHHHHHH
Q ss_conf             53357998999999999989
Q gi|254780512|r  560 VAPHSRKTSHIVEQVRIRMA  579 (692)
Q Consensus       560 ~a~~~kD~~~LtE~VR~aL~  579 (692)
                      |-.+.-+++.|.+.+|.++.
T Consensus       101 yl~K~~~~~~L~~aI~~~l~  120 (202)
T PRK09390        101 FIEKPFEDERLIGAIERALA  120 (202)
T ss_pred             HCCCCCCHHHHHHHHHHHHH
T ss_conf             45599999999999999997


No 69 
>PRK07710 acetolactate synthase catalytic subunit; Reviewed
Probab=45.19  E-value=19  Score=15.16  Aligned_cols=81  Identities=22%  Similarity=0.289  Sum_probs=51.1

Q ss_pred             CCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHH-HHHHHHCCCCHHHHHHHHHHHH-------
Q ss_conf             99989999999999865222201220134530105899999999988899-9999973998899999989998-------
Q gi|254780512|r  173 LIEEEEAKRRRKELEEESAFFGAMDGASKFVRGDAIASIIITAINIVGGI-VIGCFRYDMSIHHAADVFVRLS-------  244 (692)
Q Consensus       173 ~I~~~eA~~rR~~l~~Es~fyGaMDGA~KFVkGDAiAgiiI~~iNiigG~-~iG~~q~gm~~~eA~~~Yt~LT-------  244 (692)
                      ++|-.|+=.++-+-+-=...||        +-|+.+..++=.+.+  .|+ .|+ ..|-...+-|+.-|+.+|       
T Consensus        15 ~~tGa~~l~~~L~~~GV~~vFG--------vpG~~~~~l~dal~~--~~i~~V~-~rhE~~A~~mAdgYaR~tg~pgv~~   83 (571)
T PRK07710         15 LATGAQLLLEALEKEGVEVIFG--------YPGGAVLPLYDALYD--CGIPHIL-TRHEQGAIHAAEGYARITGNPGVVI   83 (571)
T ss_pred             CCCHHHHHHHHHHHCCCCEEEE--------CCCCCHHHHHHHHHH--CCCCEEE-ECCHHHHHHHHHHHHHHHCCCEEEE
T ss_conf             4749999999999879999998--------477148999999986--6993993-3878999999999999979988999


Q ss_pred             --HHHHHHHHHHHHHHHHHHHH
Q ss_conf             --64578885158999873310
Q gi|254780512|r  245 --VGDGLVSQVPALIISLSAAF  264 (692)
Q Consensus       245 --IGDGLVsQIPaLliS~aaGi  264 (692)
                        -|=|+-.-++++.-+-+.++
T Consensus        84 ~t~GpG~~N~~~gl~~A~~~~~  105 (571)
T PRK07710         84 ATSGPGATNVITGLADAMIDSL  105 (571)
T ss_pred             EECCHHHHHHHHHHHHHHHHCC
T ss_conf             8167289999999999998399


No 70 
>PRK10046 dpiA two-component response regulator DpiA; Provisional
Probab=45.01  E-value=19  Score=15.14  Aligned_cols=67  Identities=7%  Similarity=0.026  Sum_probs=34.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCC--------HHHHHHHHHHH----HHHHCCCCCHHHHHHH
Q ss_conf             99999976664899998631159989999999999974986--------54699999999----8753357998999999
Q gi|254780512|r  506 KNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVS--------IRNLPLILESI----AEVAPHSRKTSHIVEQ  573 (692)
Q Consensus       506 q~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~Vs--------IRdlr~IlEaL----ad~a~~~kD~~~LtE~  573 (692)
                      ++-++.+++..|+||  ++.-.+|-+.=-++|+.|-+++.+        -.|..++.|++    .||--|-=+.+.|.+.
T Consensus        40 ~eA~~~l~~~~pDLv--LLDi~LPd~~Glell~~lr~~~~~~~VI~iTA~~d~~~~~~Al~~Ga~DYLvKPf~~erl~~~  117 (225)
T PRK10046         40 AQARMMIERFKPGLI--LLDNYLPDGRGINLLHELVQAHYPGDVVFTTAASDMETVSEAVRCGVFDYLIKPIAYERLGQT  117 (225)
T ss_pred             HHHHHHHHHCCCCEE--EEECCCCCCCHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHHHCCCCCCEECCCCHHHHHHH
T ss_conf             999999973599999--982898999799999999964879988999689999999999974998310289999999999


Q ss_pred             H
Q ss_conf             9
Q gi|254780512|r  574 V  574 (692)
Q Consensus       574 V  574 (692)
                      .
T Consensus       118 L  118 (225)
T PRK10046        118 L  118 (225)
T ss_pred             H
T ss_conf             9


No 71 
>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=44.19  E-value=20  Score=15.05  Aligned_cols=93  Identities=15%  Similarity=0.219  Sum_probs=60.8

Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             35799899999999998999865207788489998887899999998303777884645669889999999999999999
Q gi|254780512|r  562 PHSRKTSHIVEQVRIRMAQQICGDLAPTGILNILKLGNHWDMIFYQAIQRDSKGECVDFNVEPRAVEMFSENATNSIRQY  641 (692)
Q Consensus       562 ~~~kD~~~LtE~VR~aL~R~I~~~~~~~g~L~vi~L~p~lE~~l~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~~~~~~  641 (692)
                      ...+|+...++.-|.++...+.+....++.++-++- ..++..++.+.|.++  .-..+.+.|..+..++........  
T Consensus       306 ae~~~~m~~~~~nr~k~~~~~~q~v~~d~~ip~~~~-~Av~~li~~a~R~Ag--~~~~Ltl~~rdl~~lv~~A~~ia~--  380 (647)
T COG1067         306 AEFEDTMPITDANRSKLVQFYVQELARDGNIPHLDK-DAVEELIREAARRAG--DQNKLTLRLRDLGNLVREAGDIAV--  380 (647)
T ss_pred             EEECCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCH-HHHHHHHHHHHHHCC--CCCEECCCHHHHHHHHHHHHHHHH--
T ss_conf             997688899868999999999999986289998888-999999999998616--565021489999999998668885--


Q ss_pred             HHCCCCEEEEECHHHHHHHHH
Q ss_conf             956998799828335489999
Q gi|254780512|r  642 IDKGIPLTIVTLPEIRSYIRM  662 (692)
Q Consensus       642 ~~~g~~pVLl~s~~iRr~lr~  662 (692)
                       ..|  --++++-+++..+++
T Consensus       381 -~~~--~~~I~ae~Ve~a~~~  398 (647)
T COG1067         381 -SEG--RKLITAEDVEEALQK  398 (647)
T ss_pred             -CCC--CCCCCHHHHHHHHHH
T ss_conf             -378--664769999999987


No 72 
>pfam03530 SK_channel Calcium-activated SK potassium channel.
Probab=43.30  E-value=20  Score=14.96  Aligned_cols=24  Identities=29%  Similarity=0.582  Sum_probs=20.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             000100134589999999999996
Q gi|254780512|r   11 SNDRNHLHDFAFSFCIVLIICILF   34 (692)
Q Consensus        11 ~~~~~~~~d~~~~~~~~~ii~~~i   34 (692)
                      +..+.+.+|.++.+++.+|+.|++
T Consensus         9 ~e~r~rl~D~aL~~Av~GIilMvi   32 (120)
T pfam03530         9 FEKRKRLSDYALAFAVFGIILMVI   32 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             999888999999999976876442


No 73 
>pfam02341 RcbX RbcX protein. The RBCX protein has been identified as having a possible chaperone-like function. The rbcX gene is juxtaposed to and cotranscribed with rbcL and rbcS encoding RuBisCO in Anabaena sp. CA. RbcX has been shown to possess a chaperone-like function assisting correct folding of RuBisCO in E. coli expression studies and is needed for RuBisCO to reach its maximal activity.
Probab=43.24  E-value=20  Score=14.95  Aligned_cols=57  Identities=21%  Similarity=0.247  Sum_probs=40.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC---CHHHHHHHHHHHHHCC
Q ss_conf             999999987999872999999999976664899998631159---9899999999999749
Q gi|254780512|r  487 HLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHI---SYSGIQAVLKLLLAEH  544 (692)
Q Consensus       487 Hl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v---~l~~i~~VLq~LL~E~  544 (692)
                      ++..-..++....|++|.++..++.|.+.+|...-.+- .-.   +++.=-.-|+.|++|+
T Consensus         4 ~iakdtak~L~sYlTYqAvrtVl~QL~EtNP~~~~WL~-~Fsa~~~iqDGe~fl~~L~~E~   63 (108)
T pfam02341         4 QIAKDTAKVLQSYLTYQAVRTVLDQLSETNPPLAIWLH-QFSASGKIQDGEAYLEELLLEN   63 (108)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH-HHHHCCCCCCHHHHHHHHHHHC
T ss_conf             88899999999999999999999998625868877999-8851389856899999998669


No 74 
>PRK07021 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=43.20  E-value=20  Score=14.95  Aligned_cols=13  Identities=8%  Similarity=0.061  Sum_probs=5.9

Q ss_pred             HHHHHHHHHHHHH
Q ss_conf             9999999886443
Q gi|254780512|r  317 FFACAGFYVPYKN  329 (692)
Q Consensus       317 ~l~~~a~~~~r~~  329 (692)
                      +.++.+||+.++.
T Consensus        28 ~g~g~~~~~~~~~   40 (159)
T PRK07021         28 AGAGYSYWLSKQG   40 (159)
T ss_pred             HHHHHHHHHCCCC
T ss_conf             9999999954776


No 75 
>pfam06570 DUF1129 Protein of unknown function (DUF1129). This family consists of several hypothetical bacterial proteins of unknown function.
Probab=42.99  E-value=21  Score=14.92  Aligned_cols=28  Identities=25%  Similarity=0.615  Sum_probs=23.5

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             7864789999999999999988644322
Q gi|254780512|r  304 PNLPAFPFIMLGGFFACAGFYVPYKNEL  331 (692)
Q Consensus       304 PGmP~~~Fl~la~~l~~~a~~~~r~~~~  331 (692)
                      |-+|.++-+++|++..++-|+.+||-+.
T Consensus       176 P~Lp~~v~iiigaia~~~r~~lkkky~I  203 (206)
T pfam06570       176 PVLPPWVYIIIGAIAFGVRYYLKKKYNI  203 (206)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             8986699999999999999999997277


No 76 
>PRK07789 acetolactate synthase 1 catalytic subunit; Validated
Probab=42.81  E-value=21  Score=14.90  Aligned_cols=159  Identities=14%  Similarity=0.120  Sum_probs=66.5

Q ss_pred             HHHHHHHHHHHHHHHCCCCCCEEEE-ECCCCCCC-EEEEE---ECCEEEEEEEE-CCCCEEEECCCCCCCCCCCCEEECC
Q ss_conf             8899999999999809878832445-43778987-16999---74824534884-1783413305888767887410147
Q gi|254780512|r  380 FLRVSKIRRKFAVQYGFIVPEIKVT-TDISLPEK-GYTIR---VYGTTVAISEL-RVGEVLVILGSGQKPTFPGDEVKEP  453 (692)
Q Consensus       380 ~~rI~~iRk~la~elG~~iP~IrIr-Dn~~L~~~-~Y~I~---I~Gv~va~gei-~~~~lLai~~~~~~~~l~G~~~~eP  453 (692)
                      ..+....-+++++.+|+++  +.-. -.--++.+ .+.+=   ..|.+.+...+ ..|-++++...-. ....|..   +
T Consensus       244 ~~~a~~~l~~Lae~l~iPV--~tt~~gkg~~pe~hpl~~G~~G~~g~~~a~~~l~~aDlvL~iG~rl~-~~~tg~~---~  317 (612)
T PRK07789        244 RAEASEELRELAELTGIPV--VTTLMARGAFPDSHPQNLGMPGMHGTVAAVAALQRSDLLIALGARFD-DRVTGKL---D  317 (612)
T ss_pred             HHHHHHHHHHHHHHCCCCE--EEECCCCCCCCCCCCHHCCCCCCCCCHHHHHHHCCCCEEEEECCCCC-CCCCCCC---C
T ss_conf             4658999999999619978--98305768899888010477777788899976505886888625567-5556873---4


Q ss_pred             CCCCCEEE--CCHHHHHH--HHHCCCEEECHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             66883034--39788458--882899070588999999999999879998--7299999999997666489999863115
Q gi|254780512|r  454 AFGMPAFA--IMESFSDD--LRRQGFHPIDNLAVVLTHLSEVIRNNLSQL--LSYKDVKNLISRLDPEYQKLAEETCSSH  527 (692)
Q Consensus       454 ~fgl~A~W--I~~~~~~~--a~~~G~tvvdp~~ViatHl~evir~~a~el--lg~qEvq~LLd~L~~~~P~LV~Elvp~~  527 (692)
                      .|.-++.+  |+.+..+-  -....+.++-........|.+.++++...-  -.+++-.+-++.+++++|.-.++--...
T Consensus       318 ~~~p~~kvI~Id~D~~eig~~~~~dl~i~gD~~~~l~~L~~~l~~~~~~~~~~~~~~w~~~~~~~r~~~~~~~~~~~~~~  397 (612)
T PRK07789        318 SFAPDAKVIHADIDPAEIGKNRHADVPIVGDVKEVIAELIEALRAEQAPGGTPDLTAWWAYLDGLRETYPLGYDEPSDGS  397 (612)
T ss_pred             CCCCCCEEEEEECCHHHHCCCCCCCEEEECCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCC
T ss_conf             35998738997299899676657884684289999999999876402566523269999999999985500136887787


Q ss_pred             CCHHHHHHHHHHHHHCC
Q ss_conf             99899999999999749
Q gi|254780512|r  528 ISYSGIQAVLKLLLAEH  544 (692)
Q Consensus       528 v~l~~i~~VLq~LL~E~  544 (692)
                      +....+.+.|+.++.+.
T Consensus       398 i~p~~v~~~l~~~l~~d  414 (612)
T PRK07789        398 LAPQYVIERLGEIAGPD  414 (612)
T ss_pred             CCHHHHHHHHHHHCCCC
T ss_conf             39999999999866999


No 77 
>TIGR03457 sulphoacet_xsc sulfoacetaldehyde acetyltransferase. Members of this protein family are sulfoacetaldehyde acetyltransferase, an enzyme of taurine utilization. Taurine, or 2-aminoethanesulfonate, can be used by bacteria as a source of carbon, nitrogen, and sulfur.
Probab=42.27  E-value=21  Score=14.85  Aligned_cols=38  Identities=26%  Similarity=0.308  Sum_probs=25.3

Q ss_pred             HHCCCCHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHH
Q ss_conf             973998899999989998---------64578885158999873310
Q gi|254780512|r  227 FRYDMSIHHAADVFVRLS---------VGDGLVSQVPALIISLSAAF  264 (692)
Q Consensus       227 ~q~gm~~~eA~~~Yt~LT---------IGDGLVsQIPaLliS~aaGi  264 (692)
                      ..|-...+-++.-|+..|         -|=|+-.-++++.-+-+.++
T Consensus        45 ~rhE~~A~~mAdgyar~tGk~gv~~~t~GpG~~N~~~gi~~A~~~~~   91 (579)
T TIGR03457        45 VVHEQGAGHMADGFARVTGRMSMVIGQNGPGVTNCVTAIAAAYWAHT   91 (579)
T ss_pred             ECCHHHHHHHHHHHHHHHCCCEEEEEECCCHHHHHHHHHHHHHHHCC
T ss_conf             19789999999999999699889999656379999999999996499


No 78 
>PRK08199 acetolactate synthase 2 catalytic subunit; Validated
Probab=42.16  E-value=21  Score=14.83  Aligned_cols=37  Identities=14%  Similarity=0.200  Sum_probs=21.5

Q ss_pred             HCCCCHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHH
Q ss_conf             73998899999989998---------64578885158999873310
Q gi|254780512|r  228 RYDMSIHHAADVFVRLS---------VGDGLVSQVPALIISLSAAF  264 (692)
Q Consensus       228 q~gm~~~eA~~~Yt~LT---------IGDGLVsQIPaLliS~aaGi  264 (692)
                      .|-...+-|+.-|+..|         -|=|+-.-++++.-+-+.++
T Consensus        47 ~hE~~A~~aAdgyar~tg~pgv~~~t~GpG~~N~~~~i~~A~~~~~   92 (553)
T PRK08199         47 RQEGGAAMMAEAYGKLTGRPGICFVTRGPGATNASIGVHTAFQDST   92 (553)
T ss_pred             CCHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHHHHCC
T ss_conf             8789999999999998699889998547459999999999997299


No 79 
>TIGR03545 conserved hypothetical protein TIGR03545. This model represents a relatively rare but broadly distributed uncharacterized protein family, distributed in 1-2 percent of bacterial genomes, all of which have outer membranes. In many of these genomes, it is part of a two-gene pair.
Probab=41.46  E-value=22  Score=14.76  Aligned_cols=63  Identities=10%  Similarity=0.180  Sum_probs=36.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHH
Q ss_conf             999999999766648999986311599899999999999749865469999999987533579989
Q gi|254780512|r  503 KDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIRNLPLILESIAEVAPHSRKTS  568 (692)
Q Consensus       503 qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad~a~~~kD~~  568 (692)
                      ++.++-++..+...-+..+++ |+.-.+....+=+..|-..  .++|...|..+.-+...--++..
T Consensus       167 e~~~~~~k~~~~~w~~~~~~L-p~~~~l~~y~~rl~~i~~~--~~~~~~~l~~~k~~~d~lk~e~~  229 (554)
T TIGR03545       167 EEIERSLKAMQQKWKKRKDSL-PQKQDLEEYQKRLEAIKEA--DIKNPLELQKAKEEFDKLKKEGK  229 (554)
T ss_pred             HHHHHHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHHHHC--CCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             999999999999999999857-6556799999999998743--68999999999999999999999


No 80 
>CHL00119 atpD ATP synthase CF1 delta subunit; Validated
Probab=40.41  E-value=22  Score=14.65  Aligned_cols=111  Identities=15%  Similarity=0.216  Sum_probs=53.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHH
Q ss_conf             99999999879998729999999999766----------64899998631159989999999999974986546999999
Q gi|254780512|r  486 THLSEVIRNNLSQLLSYKDVKNLISRLDP----------EYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIRNLPLILE  555 (692)
Q Consensus       486 tHl~evir~~a~ellg~qEvq~LLd~L~~----------~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlE  555 (692)
                      +-++.+-|+||.-|+..-.-..-+|.+..          ++|++-+=+-...++...-.+++..++.+.++-- +...+.
T Consensus         3 ~~~s~iAkrYA~ALf~~A~e~~~l~~v~~~l~~l~~~~~~~~~l~~~l~~p~i~~~~K~~il~~~~~~~~~~~-~~nfl~   81 (184)
T CHL00119          3 PLVSKIAQPYAEALLEFAVAKNILEQITNDLQLILTILANSPDLKKFLANPLITKEAKKEVLKKTFSKQINEN-TLKFLM   81 (184)
T ss_pred             CHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCHH-HHHHHH
T ss_conf             1757889999999999998749899999999999999956899999985867798999999999865304899-999999


Q ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHC-----CCCEE-----EEEEECHHHHHHHHHHHH
Q ss_conf             99875335799899999999998999865207-----78848-----999888789999999830
Q gi|254780512|r  556 SIAEVAPHSRKTSHIVEQVRIRMAQQICGDLA-----PTGIL-----NILKLGNHWDMIFYQAIQ  610 (692)
Q Consensus       556 aLad~a~~~kD~~~LtE~VR~aL~R~I~~~~~-----~~g~L-----~vi~L~p~lE~~l~~~i~  610 (692)
                      .             |.|+=|..+=+.|+..|.     ..|..     .+.-|+.+-.+.+.+.+.
T Consensus        82 l-------------l~~~~R~~~l~~I~~~f~~l~~~~~~~~~v~V~sA~~Ls~~q~~~i~~~l~  133 (184)
T CHL00119         82 V-------------LVDRGRISLLDAIIEKYLELVYKLASIKIAEVTTAVPLSSEQKEALIEKLK  133 (184)
T ss_pred             H-------------HHHCCCHHHHHHHHHHHHHHHHHHCCEEEEEEEEEECCCHHHHHHHHHHHH
T ss_conf             9-------------987898435899999999999984896999999820899999999999999


No 81 
>TIGR03024 arch_pef_cterm PEF-C-terminal archaeal protein sorting domain. This domain, distantly related to the PEP-Cterm domain described in model TIGR02595, is found in Methanosarcina mazei in four different proteins, as well as in other archaea such as Methanococcoides burtonii. Several proteins with this domain have their genes only a short distance from a distant homology of EpsH, a proposed integral membrane transpeptidase.
Probab=40.34  E-value=23  Score=14.64  Aligned_cols=24  Identities=13%  Similarity=0.384  Sum_probs=14.1

Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             5786478999999999999998864
Q gi|254780512|r  303 MPNLPAFPFIMLGGFFACAGFYVPY  327 (692)
Q Consensus       303 vPGmP~~~Fl~la~~l~~~a~~~~r  327 (692)
                      +|-||++.+=. ++++|..-++.+|
T Consensus         3 iPEFPTvAlPv-~ailGl~f~f~rr   26 (28)
T TIGR03024         3 IPEFPTVALPV-AAILGLMFFFQRR   26 (28)
T ss_pred             CCCCCHHHHHH-HHHHHHHHHHHHC
T ss_conf             87675258799-9999999997313


No 82 
>pfam11491 DUF3213 Protein of unknown function (DUF3213). The backbone structure of this family of proteins has been determined however the function remains unknown. The protein has an alpha and beta structure with a ferredoxin-like fold.
Probab=39.98  E-value=22  Score=14.77  Aligned_cols=11  Identities=18%  Similarity=0.111  Sum_probs=4.2

Q ss_pred             HHHHHHHHHHH
Q ss_conf             76664899998
Q gi|254780512|r  512 LDPEYQKLAEE  522 (692)
Q Consensus       512 L~~~~P~LV~E  522 (692)
                      +++-.|++++|
T Consensus        57 leelkpev~~e   67 (90)
T pfam11491        57 KEELKGEVIEE   67 (90)
T ss_pred             HHHCCHHHCCC
T ss_conf             98648154042


No 83 
>COG4877 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=39.45  E-value=23  Score=14.61  Aligned_cols=35  Identities=26%  Similarity=0.317  Sum_probs=27.1

Q ss_pred             CCCCHHHHHHHHHHHHHHHCCCCC-H-----HHHHHHHHHH
Q ss_conf             498654699999999875335799-8-----9999999999
Q gi|254780512|r  543 EHVSIRNLPLILESIAEVAPHSRK-T-----SHIVEQVRIR  577 (692)
Q Consensus       543 E~VsIRdlr~IlEaLad~a~~~kD-~-----~~LtE~VR~a  577 (692)
                      -++|+|=-+.|+.+++.|+.-+-- .     .+|+|.+|++
T Consensus         7 kQ~PLRl~paiy~Aia~wA~de~RSiNaQIE~lL~E~lrq~   47 (63)
T COG4877           7 KQFPLRLEPAIYAAIAQWAEDEFRSINAQIEILLKEALRQR   47 (63)
T ss_pred             CCCCEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             86772147899999999977777656689999999999982


No 84 
>KOG0776 consensus
Probab=39.38  E-value=23  Score=14.53  Aligned_cols=19  Identities=26%  Similarity=0.349  Sum_probs=10.3

Q ss_pred             HHHHHHHH-HHHHHHHHHHH
Q ss_conf             99999999-99899986520
Q gi|254780512|r  568 SHIVEQVR-IRMAQQICGDL  586 (692)
Q Consensus       568 ~~LtE~VR-~aL~R~I~~~~  586 (692)
                      +.+-+|-| .+|.-|++...
T Consensus       264 e~~~~yGR~lGL~fQvvDDi  283 (384)
T KOG0776         264 EAAFEYGRCLGLAFQVVDDI  283 (384)
T ss_pred             HHHHHHHHHHHHHHHHHHCC
T ss_conf             99999988889899986214


No 85 
>PRK10643 DNA-binding transcriptional regulator BasR; Provisional
Probab=39.30  E-value=12  Score=16.77  Aligned_cols=103  Identities=7%  Similarity=0.042  Sum_probs=59.4

Q ss_pred             EECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCC--CCH------H
Q ss_conf             70588999999999999879998729999999999766648999986311599899999999999749--865------4
Q gi|254780512|r  477 PIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEH--VSI------R  548 (692)
Q Consensus       477 vvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~--VsI------R  548 (692)
                      +||....+...+.+.+.++..+-.+....+.-++.+++..|.+|  ++.-.+|-..=.++++++-++.  +||      .
T Consensus         5 lVEDd~~~~~~l~~~L~~~g~~V~~a~~~~ea~~~~~~~~~Dlv--ilDi~lp~~~G~~l~~~ir~~~~~~pII~lt~~~   82 (222)
T PRK10643          5 IVEDDTLLLQGLILAAQTEGYACDGVSTAREAEQSLESGHYSLV--VLDLGLPDEDGLHFLARIRQKKYTLPVLILTARD   82 (222)
T ss_pred             EEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCEE--EEECCCCCCCCHHHHHHHHHCCCCCCEEEEECCC
T ss_conf             99288999999999999789999998999999999974899899--9968889986226899998348998899982103


Q ss_pred             HHHHHHHHHH----HHHCCCCCHHHHHHHHHHHHHHH
Q ss_conf             6999999998----75335799899999999998999
Q gi|254780512|r  549 NLPLILESIA----EVAPHSRKTSHIVEQVRIRMAQQ  581 (692)
Q Consensus       549 dlr~IlEaLa----d~a~~~kD~~~LtE~VR~aL~R~  581 (692)
                      +.....+++-    |+-.+--++..|...+|..++|+
T Consensus        83 ~~~~~~~~l~~GAddyi~KP~~~~eL~ari~~~lrr~  119 (222)
T PRK10643         83 TLEDRIAGLDVGADDYLVKPFALEELHARIRALLRRH  119 (222)
T ss_pred             CHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHC
T ss_conf             6788999997599776438876899999999997032


No 86 
>PRK07586 hypothetical protein; Validated
Probab=39.13  E-value=20  Score=15.01  Aligned_cols=20  Identities=15%  Similarity=0.313  Sum_probs=14.6

Q ss_pred             CCCCHHHHHHHHHHHHHCCC
Q ss_conf             15998999999999997498
Q gi|254780512|r  526 SHISYSGIQAVLKLLLAEHV  545 (692)
Q Consensus       526 ~~v~l~~i~~VLq~LL~E~V  545 (692)
                      ..++...+.+.+++++.|.-
T Consensus       335 ~~l~p~~~~~~l~~~lp~~~  354 (514)
T PRK07586        335 GALTPEAVAQAIAALLPENA  354 (514)
T ss_pred             CCCCHHHHHHHHHHHCCCCE
T ss_conf             99899999999998779986


No 87 
>PRK11199 tyrA bifunctional chorismate mutase/prephenate dehydrogenase; Provisional
Probab=38.84  E-value=24  Score=14.47  Aligned_cols=65  Identities=15%  Similarity=0.101  Sum_probs=33.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHH---HHHHHHHHHHHHHH
Q ss_conf             999999766648999986311599899999999999749865469999999987533579989---99999999989998
Q gi|254780512|r  506 KNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIRNLPLILESIAEVAPHSRKTS---HIVEQVRIRMAQQI  582 (692)
Q Consensus       506 q~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad~a~~~kD~~---~LtE~VR~aL~R~I  582 (692)
                      -.++.++-..+|.|-.+.. -  .-..-.++++++.+.      ....+|-+     ..+|-+   ..=|.||.-++.+.
T Consensus       289 L~mvgRlfaQdp~LYadI~-~--~n~~~~~vi~~~~~~------~~~l~~lv-----~~~Dk~~Fi~~F~~v~~~Fgd~~  354 (374)
T PRK11199        289 LAMVGRLFAQDPQLYADII-M--SSEENLALIKRYYQR------FGEALELL-----EQGDKQAFIDSFEKVEHWFGDYA  354 (374)
T ss_pred             HHHHHHHHCCCHHHHHHHH-H--CCHHHHHHHHHHHHH------HHHHHHHH-----HCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             9999988668989999999-8--194479999999999------99999999-----85899999999999999999878


Q ss_pred             HH
Q ss_conf             65
Q gi|254780512|r  583 CG  584 (692)
Q Consensus       583 ~~  584 (692)
                      .+
T Consensus       355 ~~  356 (374)
T PRK11199        355 EQ  356 (374)
T ss_pred             HH
T ss_conf             99


No 88 
>PRK10582 cytochrome o ubiquinol oxidase subunit IV; Provisional
Probab=38.45  E-value=24  Score=14.43  Aligned_cols=25  Identities=28%  Similarity=0.628  Sum_probs=19.4

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             3269999999999999998864575
Q gi|254780512|r  119 GDFVIGLVVFMILITINFIVITKGA  143 (692)
Q Consensus       119 gn~vvG~viF~Il~ivqfiVItkGa  143 (692)
                      .+|++|++.-+|||++-|-++-.|+
T Consensus        16 ksY~iGFvLsviLT~ipF~lVm~~~   40 (109)
T PRK10582         16 KTYMTGFILSIILTVIPFWMVMTGA   40 (109)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             9999999999999999999998076


No 89 
>pfam07185 DUF1404 Protein of unknown function (DUF1404). This family consists of several archaeal proteins of around 180 residues in length. Members of this family seem to be found exclusively in Sulfolobus tokodaii and Sulfolobus solfataricus. The function of this family is unknown.
Probab=38.45  E-value=24  Score=14.43  Aligned_cols=35  Identities=34%  Similarity=0.543  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             88899999997399889999998999864578885
Q gi|254780512|r  218 IVGGIVIGCFRYDMSIHHAADVFVRLSVGDGLVSQ  252 (692)
Q Consensus       218 iigG~~iG~~q~gm~~~eA~~~Yt~LTIGDGLVsQ  252 (692)
                      ++||+.+|..-++|+...-...+.+-.+||-..|-
T Consensus        86 ~~gGil~Gss~~~m~~~~Ki~Lf~lwM~~Ds~lsi  120 (167)
T pfam07185        86 LLGGILIGSSIRAMSLVFKITLFALWMIGDTLLSI  120 (167)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999734528888899999999999998999999


No 90 
>pfam00690 Cation_ATPase_N Cation transporter/ATPase, N-terminus. Members of this families are involved in Na+/K+, H+/K+, Ca++ and Mg++ transport.
Probab=38.35  E-value=23  Score=14.54  Aligned_cols=17  Identities=47%  Similarity=0.698  Sum_probs=7.3

Q ss_pred             HHHCCCCCHHHHHHHHHH
Q ss_conf             876489998999999999
Q gi|254780512|r  168 DLSSGLIEEEEAKRRRKE  185 (692)
Q Consensus       168 Dl~aG~I~~~eA~~rR~~  185 (692)
                      |...|+ +.+||.+||+.
T Consensus        16 ~~~~GL-s~~~~~~r~~~   32 (69)
T pfam00690        16 DLEKGL-TEAEAEERLEK   32 (69)
T ss_pred             CCCCCC-CHHHHHHHHHH
T ss_conf             944487-99999999998


No 91 
>TIGR02044 CueR Cu(I)-responsive transcriptional regulator; InterPro: IPR011789    This entry represents the copper-, silver- and gold- (I) responsive transcriptional activator of the gamma proteobacterial copper efflux system . This protein is a member of the MerR family of transcriptional activators and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X7-Cys. This family also lacks a conserved cysteine at the N-terminal end of the dimerization helix which is required for the binding of divalent metals such as zinc; here it is replaced by a serine residue .; GO: 0003677 DNA binding, 0005507 copper ion binding, 0016563 transcription activator activity, 0045941 positive regulation of transcription.
Probab=37.82  E-value=16  Score=15.82  Aligned_cols=24  Identities=33%  Similarity=0.686  Sum_probs=17.3

Q ss_pred             HHHHHHHHHHHCCCCCCEEEEECCCCCCCEEEE
Q ss_conf             999999999809878832445437789871699
Q gi|254780512|r  384 SKIRRKFAVQYGFIVPEIKVTTDISLPEKGYTI  416 (692)
Q Consensus       384 ~~iRk~la~elG~~iP~IrIrDn~~L~~~~Y~I  416 (692)
                      +.+|  ++++-|++.|++|       .++.||-
T Consensus        15 K~IR--~YE~kGLi~Pp~R-------se~GYR~   38 (127)
T TIGR02044        15 KSIR--YYEEKGLIPPPLR-------SEGGYRT   38 (127)
T ss_pred             HHHH--HHHHHCCCCCCCC-------CCCCCCC
T ss_conf             8898--8776326799886-------8888856


No 92 
>cd01678 PFL1 Pyruvate formate lyase 1. Pyruvate formate lyase catalyzes a key step in anaerobic glycolysis, the conversion of pyruvate and CoenzymeA to formate and acetylCoA. The PFL mechanism involves an unusual radical cleavage of pyruvate in which two cysteines and one glycine form radicals that are required for catalysis. PFL has a ten-stranded alpha/beta barrel domain that is structurally similar to those of all three ribonucleotide reductase (RNR) classes as well as benzylsuccinate synthase and B12-independent glycerol dehydratase.
Probab=37.27  E-value=25  Score=14.30  Aligned_cols=40  Identities=20%  Similarity=0.089  Sum_probs=26.8

Q ss_pred             CCCCHHHHHHHHHHHHHHHHC-CCCCCEEEEECCCCCCCEE
Q ss_conf             755268899999999999809-8788324454377898716
Q gi|254780512|r  375 SQEDLFLRVSKIRRKFAVQYG-FIVPEIKVTTDISLPEKGY  414 (692)
Q Consensus       375 ~~~~L~~rI~~iRk~la~elG-~~iP~IrIrDn~~L~~~~Y  414 (692)
                      .|.++.....-+--+...++| .+=|.+.+|-+..+|.+-+
T Consensus       331 DG~davN~lSy~~L~tl~~lg~~pqPnltVr~s~~~Pe~F~  371 (738)
T cd01678         331 DGRSLVTKTSFRFLNTLYNLGPAPEPNLTVLWSEKLPENFK  371 (738)
T ss_pred             CCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEECCCCCHHHH
T ss_conf             67765689999999999961558999779997798979999


No 93 
>COG2374 Predicted extracellular nuclease [General function prediction only]
Probab=36.99  E-value=25  Score=14.27  Aligned_cols=25  Identities=12%  Similarity=0.138  Sum_probs=16.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999999999987999872999999
Q gi|254780512|r  483 VVLTHLSEVIRNNLSQLLSYKDVKN  507 (692)
Q Consensus       483 ViatHl~evir~~a~ellg~qEvq~  507 (692)
                      +=-.|+...+.+...+.+|.-|+++
T Consensus       502 ~Q~~k~v~ai~~ldaDV~GL~Eien  526 (798)
T COG2374         502 RQRAKIVTAILTLDADVLGLMEIEN  526 (798)
T ss_pred             HHHHHHHHHHHHCCHHHHEEEEEEC
T ss_conf             8778888888612401210235520


No 94 
>PRK00972 tetrahydromethanopterin S-methyltransferase subunit E; Provisional
Probab=36.98  E-value=25  Score=14.27  Aligned_cols=18  Identities=22%  Similarity=0.287  Sum_probs=8.1

Q ss_pred             CCCHHHHHHHHHHHHHHH
Q ss_conf             786478999999999999
Q gi|254780512|r  304 PNLPAFPFIMLGGFFACA  321 (692)
Q Consensus       304 PGmP~~~Fl~la~~l~~~  321 (692)
                      =++|.+.=+.+++..+.+
T Consensus        82 ~~~~~ilAi~~Gs~vaa~   99 (293)
T PRK00972         82 FGLNPLLAIIVGSLVAAF   99 (293)
T ss_pred             CCCCHHHHHHHHHHHHHH
T ss_conf             584099999998899999


No 95 
>TIGR02262 benz_CoA_lig benzoate-CoA ligase family; InterPro: IPR011957    Characterised members of this protein family include benzoate-CoA ligase, 4-hydroxybenzoate-CoA ligase, 2-aminobenzoate-CoA ligase, etc. Members are related to fatty acid and acetate CoA ligases..
Probab=36.87  E-value=25  Score=14.26  Aligned_cols=113  Identities=19%  Similarity=0.287  Sum_probs=74.4

Q ss_pred             CCCCCEEEEEECC----EEEEEEEECCCCEEEECCCC----------CCCCCCCCEEE-------------------CCC
Q ss_conf             7898716999748----24534884178341330588----------87678874101-------------------476
Q gi|254780512|r  408 SLPEKGYTIRVYG----TTVAISELRVGEVLVILGSG----------QKPTFPGDEVK-------------------EPA  454 (692)
Q Consensus       408 ~L~~~~Y~I~I~G----v~va~gei~~~~lLai~~~~----------~~~~l~G~~~~-------------------eP~  454 (692)
                      .-|-..|+|++-|    .+|+.||+  |.|++--|+.          ....+.|..||                   |=-
T Consensus       343 G~PVPGY~~rL~~ed~G~~vA~Ge~--GeL~v~GPSSA~~YWn~R~Ksr~TF~G~WTrsGDKY~r~~dG~YtYaGR~DDm  420 (520)
T TIGR02262       343 GKPVPGYRLRLVGEDGGQDVADGEV--GELLVSGPSSAAGYWNNREKSRATFEGEWTRSGDKYVRNDDGVYTYAGRTDDM  420 (520)
T ss_pred             CCCCCCCEEEEECCCCCCCCCCCCC--CCEEECCCCCCCCCCCCHHHHHCCCCCCCCCCCCCEEECCCCEEEEECCCCCC
T ss_conf             7548873688742778861137766--62046377545567988146132378895224871036378506870244352


Q ss_pred             CCCCEEECCHHHHHHHHHCCCEEECHHHH----------------------HH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             68830343978845888289907058899----------------------99-99999999879998729999999999
Q gi|254780512|r  455 FGMPAFAIMESFSDDLRRQGFHPIDNLAV----------------------VL-THLSEVIRNNLSQLLSYKDVKNLISR  511 (692)
Q Consensus       455 fgl~A~WI~~~~~~~a~~~G~tvvdp~~V----------------------ia-tHl~evir~~a~ellg~qEvq~LLd~  511 (692)
                      |.--.+||+|-.-|.|-..--.|++++-|                      +. +-+.+-||.|..+.|+-         
T Consensus       421 lKVSGIyVSPfEvE~AL~~H~~VLEAAVvg~~D~~GL~KPKAFvVL~~G~~~~~~al~~~LK~hvK~~laP---------  491 (520)
T TIGR02262       421 LKVSGIYVSPFEVESALIAHPAVLEAAVVGVEDEDGLIKPKAFVVLRPGADIDNEALETELKEHVKDKLAP---------  491 (520)
T ss_pred             EEECCEEECCHHHHHHHHCCHHHCEEEECCCCCCCCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHCCC---------
T ss_conf             35524167817999885135122204215874888871771158507887645134489999999763178---------


Q ss_pred             HHHHHH---HHHHHHHHCCCCHHHHHH
Q ss_conf             766648---999986311599899999
Q gi|254780512|r  512 LDPEYQ---KLAEETCSSHISYSGIQA  535 (692)
Q Consensus       512 L~~~~P---~LV~Elvp~~v~l~~i~~  535 (692)
                        =+||   +.|+|| ||. +-|.|||
T Consensus       492 --yKYPRwi~~vd~L-PKT-AtGKiQR  514 (520)
T TIGR02262       492 --YKYPRWIEFVDDL-PKT-ATGKIQR  514 (520)
T ss_pred             --CCCCCCEEEECCC-CCC-CCCHHHH
T ss_conf             --6388514444078-886-4511331


No 96 
>KOG0023 consensus
Probab=36.75  E-value=23  Score=14.63  Aligned_cols=42  Identities=10%  Similarity=0.123  Sum_probs=20.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCC
Q ss_conf             2999999999976664899998631159989999999999974986
Q gi|254780512|r  501 SYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVS  546 (692)
Q Consensus       501 g~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~Vs  546 (692)
                      +|.|||++||-..+..   ++--+ ++++++.+..+++|+.+-.|-
T Consensus       306 ~~ket~E~Ldf~a~~~---ik~~I-E~v~~~~v~~a~erm~kgdV~  347 (360)
T KOG0023         306 SRKETQEALDFVARGL---IKSPI-ELVKLSEVNEAYERMEKGDVR  347 (360)
T ss_pred             CHHHHHHHHHHHHCCC---CCCCE-EEEEHHHHHHHHHHHHHCCEE
T ss_conf             4887999999997178---86746-997542778999998716701


No 97 
>PRK06276 acetolactate synthase catalytic subunit; Reviewed
Probab=36.32  E-value=26  Score=14.20  Aligned_cols=38  Identities=26%  Similarity=0.350  Sum_probs=25.0

Q ss_pred             HHCCCCHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHH
Q ss_conf             973998899999989998---------64578885158999873310
Q gi|254780512|r  227 FRYDMSIHHAADVFVRLS---------VGDGLVSQVPALIISLSAAF  264 (692)
Q Consensus       227 ~q~gm~~~eA~~~Yt~LT---------IGDGLVsQIPaLliS~aaGi  264 (692)
                      ..|-...+-|+.-|+..|         -|=|.-.-++++.-+-..++
T Consensus        44 ~rhE~~A~~aAdgYaR~tgk~gv~~~t~GPG~~N~~~gv~~A~~~~~   90 (586)
T PRK06276         44 TRHEQAAAHAADGYARASGKVGVCVATSGPGATNLVTGIATAYADSS   90 (586)
T ss_pred             ECCHHHHHHHHHHHHHHHCCCEEEEECCCCHHHHHHHHHHHHHHHCC
T ss_conf             48789999999999999799889998367359999999999998599


No 98 
>PRK06965 acetolactate synthase 3 catalytic subunit; Validated
Probab=36.31  E-value=26  Score=14.20  Aligned_cols=38  Identities=24%  Similarity=0.404  Sum_probs=25.8

Q ss_pred             HHCCCCHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHH
Q ss_conf             973998899999989998---------64578885158999873310
Q gi|254780512|r  227 FRYDMSIHHAADVFVRLS---------VGDGLVSQVPALIISLSAAF  264 (692)
Q Consensus       227 ~q~gm~~~eA~~~Yt~LT---------IGDGLVsQIPaLliS~aaGi  264 (692)
                      ..|-...+-|+.-|+..|         -|=|..+-+.++.-+-+.++
T Consensus        65 ~rhE~~A~~mAdgYaR~tg~~gv~~~t~GPG~~N~~~gia~A~~d~~  111 (587)
T PRK06965         65 VRHEQAAVHAADGYARATGKVGVALVTSGPGVTNAVTGIATAYMDSI  111 (587)
T ss_pred             ECCHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHHHHCC
T ss_conf             49689999999999999699889997567049999999999997499


No 99 
>KOG0495 consensus
Probab=36.22  E-value=17  Score=15.63  Aligned_cols=110  Identities=20%  Similarity=0.272  Sum_probs=68.1

Q ss_pred             HCCCEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf             28990705889999999999998799987299999999997666489---------999863115998999999999997
Q gi|254780512|r  472 RQGFHPIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQK---------LAEETCSSHISYSGIQAVLKLLLA  542 (692)
Q Consensus       472 ~~G~tvvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~---------LV~Elvp~~v~l~~i~~VLq~LL~  542 (692)
                      ..|-|++||-..+ |.|.-++..+..++-.++-.+.||-.+.+.+|+         -+||+ ..+++      |-|+|..
T Consensus       238 vtgqtvvDpkgYL-tdL~sm~p~~~~dl~DikKaR~lLKSvretnP~hp~gWIAsArLEEv-agKl~------~Ar~~I~  309 (913)
T KOG0495         238 VTGQTVVDPKGYL-TDLNSMIPTSGGDLEDIKKARLLLKSVRETNPKHPPGWIASARLEEV-AGKLS------VARNLIM  309 (913)
T ss_pred             CCCCCCCCCHHHH-HHHHHCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH-HHHHH------HHHHHHH
T ss_conf             7877520716777-68875277766767889999999999985399998067889899988-63789------9999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHH---HHHHHHHHHH---CCCCEEEEEEECHHHHHHH
Q ss_conf             4986546999999998753357998999999999---9899986520---7788489998887899999
Q gi|254780512|r  543 EHVSIRNLPLILESIAEVAPHSRKTSHIVEQVRI---RMAQQICGDL---APTGILNILKLGNHWDMIF  605 (692)
Q Consensus       543 E~VsIRdlr~IlEaLad~a~~~kD~~~LtE~VR~---aL~R~I~~~~---~~~g~L~vi~L~p~lE~~l  605 (692)
                      +|             -+-+++.  -+...|.+|-   ..++.|+.+-   .|.. ...|.=..++|+..
T Consensus       310 ~G-------------Ce~cprS--eDvWLEaiRLhp~d~aK~vvA~Avr~~P~S-v~lW~kA~dLE~~~  362 (913)
T KOG0495         310 KG-------------CEECPRS--EDVWLEAIRLHPPDVAKTVVANAVRFLPTS-VRLWLKAADLESDT  362 (913)
T ss_pred             HH-------------HHHCCCH--HHHHHHHHHCCCHHHHHHHHHHHHHHCCCC-HHHHHHHHHHHHHH
T ss_conf             88-------------7638842--889999974498687889999998738977-53453497556678


No 100
>COG4800 Predicted transcriptional regulator with an HTH domain [Transcription]
Probab=35.99  E-value=26  Score=14.16  Aligned_cols=104  Identities=13%  Similarity=0.167  Sum_probs=59.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             99999999976664899998631159989999999999974986546999999998753357998999999999989998
Q gi|254780512|r  503 KDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIRNLPLILESIAEVAPHSRKTSHIVEQVRIRMAQQI  582 (692)
Q Consensus       503 qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad~a~~~kD~~~LtE~VR~aL~R~I  582 (692)
                      .+.|.+++.+.-+..+..+-   .-+|++.+-++||.   ..--+.+++.|+.|+-++-.++.--..-.=..|..|-.--
T Consensus        19 ~~l~~~l~Elglt~~eFak~---anIP~StLYKil~G---~dpr~~tl~~I~ktir~~ek~en~~fiA~IAAR~vL~~i~   92 (170)
T COG4800          19 SCLQKLLDELGLTPSEFAKR---ANIPLSTLYKILKG---SDPRYDTLTRIFKTIRSYEKKENIGFIALIAARYVLEEIK   92 (170)
T ss_pred             HHHHHHHHHCCCCHHHHHHH---CCCCHHHHHHHHHC---CCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEHHHHHHHHH
T ss_conf             99999999819998999887---09989999999817---9965778999999999887504778466534488998887


Q ss_pred             HHHHCCCCEEEEEEE--CHHHHHHHHHHHHCC
Q ss_conf             652077884899988--878999999983037
Q gi|254780512|r  583 CGDLAPTGILNILKL--GNHWDMIFYQAIQRD  612 (692)
Q Consensus       583 ~~~~~~~g~L~vi~L--~p~lE~~l~~~i~~t  612 (692)
                      ..+-.=+|.+..+--  ...+|+.+..++|..
T Consensus        93 ~~kk~i~gk~~~ireYpa~slEeaIvAaVrAE  124 (170)
T COG4800          93 FGKKGINGKSYLIREYPASSLEEAIVAAVRAE  124 (170)
T ss_pred             HHHCCCCCCEEEEEECCCCCHHHHHHHHHHHH
T ss_conf             60103367336887436452899999999863


No 101
>PRK06531 yajC preprotein translocase subunit YajC; Validated
Probab=35.71  E-value=26  Score=14.13  Aligned_cols=28  Identities=11%  Similarity=0.234  Sum_probs=13.8

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             8647899999999999999886443222210
Q gi|254780512|r  305 NLPAFPFIMLGGFFACAGFYVPYKNELQRLA  335 (692)
Q Consensus       305 GmP~~~Fl~la~~l~~~a~~~~r~~~~~~~~  335 (692)
                      |||.+.++.   ++.++.|++.|.++++..+
T Consensus         2 ~~~~iim~v---v~~~~~ffmiRpQkK~qke   29 (120)
T PRK06531          2 GFPTIIMFV---VMLGLIFFMQRQQKKQAQE   29 (120)
T ss_pred             CCHHHHHHH---HHHHHHHHEECHHHHHHHH
T ss_conf             822899999---9999998603748899999


No 102
>COG3265 GntK Gluconate kinase [Carbohydrate transport and metabolism]
Probab=35.49  E-value=27  Score=14.11  Aligned_cols=80  Identities=14%  Similarity=0.180  Sum_probs=36.1

Q ss_pred             HCCCCHHH--HHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHC-CCCEEEEEEECHHHHHHHHHHHHCCCCCCCC
Q ss_conf             74986546--99999999875335799899999999998999865207-7884899988878999999983037778846
Q gi|254780512|r  542 AEHVSIRN--LPLILESIAEVAPHSRKTSHIVEQVRIRMAQQICGDLA-PTGILNILKLGNHWDMIFYQAIQRDSKGECV  618 (692)
Q Consensus       542 ~E~VsIRd--lr~IlEaLad~a~~~kD~~~LtE~VR~aL~R~I~~~~~-~~g~L~vi~L~p~lE~~l~~~i~~t~~G~~~  618 (692)
                      ..|+|+.|  .-.=||++.+|+.........+=-+=.+|+|+--.++- ..+.+.-+-|+...|-.+. .+ +.-+|.| 
T Consensus        39 ~~GiPL~DdDR~pWL~~l~~~~~~~~~~~~~~vi~CSALKr~YRD~LR~~~~~~~Fv~L~g~~~~i~~-Rm-~~R~gHF-  115 (161)
T COG3265          39 SAGIPLNDDDRWPWLEALGDAAASLAQKNKHVVIACSALKRSYRDLLREANPGLRFVYLDGDFDLILE-RM-KARKGHF-  115 (161)
T ss_pred             HCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEECHHHHHHHHHHHHCCCCCEEEEEECCCHHHHHH-HH-HHCCCCC-
T ss_conf             27998984112479999999999864279816996278878899998545997389996388999999-98-7605677-


Q ss_pred             CCCCCHHHH
Q ss_conf             456698899
Q gi|254780512|r  619 DFNVEPRAV  627 (692)
Q Consensus       619 ~l~l~P~~~  627 (692)
                         |.++++
T Consensus       116 ---M~~~ll  121 (161)
T COG3265         116 ---MPASLL  121 (161)
T ss_pred             ---CCHHHH
T ss_conf             ---888999


No 103
>TIGR03282 methan_mark_13 putative methanogenesis marker 13 metalloprotein. Members of this protein family, to date, are found in a completed prokaryotic genome if and only if the species is one of the archaeal methanogens. The exact function is unknown, but likely is linked to methanogenesis or a process closely connected to it. This metal cluster-binding family is related to nitrogenase structural protein NifD and accessory protein NifE, among others.
Probab=35.45  E-value=27  Score=14.10  Aligned_cols=16  Identities=19%  Similarity=0.054  Sum_probs=9.6

Q ss_pred             HHHHHHHHHHHHHCCC
Q ss_conf             8999999999997498
Q gi|254780512|r  530 YSGIQAVLKLLLAEHV  545 (692)
Q Consensus       530 l~~i~~VLq~LL~E~V  545 (692)
                      ...+.+.|..|++|+=
T Consensus       174 k~~va~~l~e~~~~gk  189 (352)
T TIGR03282       174 KHKVAKRLVDLIQEGK  189 (352)
T ss_pred             HHHHHHHHHHHHHCCC
T ss_conf             9999999999997478


No 104
>TIGR02457 TreS_Cterm trehalose synthase-fused probable maltokinase; InterPro: IPR012811   Three pathways exist for the biosynthesis of trehalose, an osmoprotectant that in some species is also a precursor of certain cell wall glycolipids. Trehalose synthase, TreS, can interconvert maltose and trehalose, but while the equilibrium favours trehalose, physiological concentrations of trehalose may be much greater than that of maltose, and TreS may act largely in its degradation. This entry describes a domain found only as a C-terminal fusion to TreS proteins. The most closely related proteins outside this family, Pep2 of Streptomyces coelicolor and Mak1 of Actinoplanes missouriensis, have known maltokinase activity. We suggest this domain acts as a maltokinase and helps drive conversion of trehalose to maltose..
Probab=35.28  E-value=27  Score=14.08  Aligned_cols=62  Identities=21%  Similarity=0.380  Sum_probs=47.5

Q ss_pred             CCCCHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCEEEEEECCEEEEEEEECCCCEEEECCCCCCCCCCCCEEE
Q ss_conf             75526889999999999980987883244543778987169997482453488417834133058887678874101
Q gi|254780512|r  375 SQEDLFLRVSKIRRKFAVQYGFIVPEIKVTTDISLPEKGYTIRVYGTTVAISELRVGEVLVILGSGQKPTFPGDEVK  451 (692)
Q Consensus       375 ~~~~L~~rI~~iRk~la~elG~~iP~IrIrDn~~L~~~~Y~I~I~Gv~va~gei~~~~lLai~~~~~~~~l~G~~~~  451 (692)
                      +...+.+++...|+++++.+-=+.|.         .-+.-.|+|+      |.++-|+.|...++....+++|+|-+
T Consensus       378 ~~r~~a~~L~~~r~~L~~~l~~l~~~---------~~d~l~iR~H------GDFhLGQvL~~~~D~~lIDFEGEPar  439 (568)
T TIGR02457       378 AARALADKLLAQRKELAAHLRALVKR---------EIDGLKIRIH------GDFHLGQVLVVQDDAVLIDFEGEPAR  439 (568)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH---------HHCCCEEEEC------CCCCCCEEEEECCCEEEEECCCCCCC
T ss_conf             66999999999989999998553167---------6195111000------34314415666084789614889888


No 105
>TIGR03006 pepcterm_polyde polysaccharide deactylase family protein, PEP-CTERM locus subfamily; InterPro: IPR014344   Members of this entry belong to the family of polysaccharide deacetylases. All are found in species that encode the PEP-CTERM/exosortase system and are predicted to act in protein sorting in a number of Gram-negative bacteria, they are also found near the gene coding region for the EpsH homologue that is the putative exosortase gene..
Probab=35.13  E-value=18  Score=15.34  Aligned_cols=17  Identities=12%  Similarity=0.292  Sum_probs=9.0

Q ss_pred             HHHHHHHHHHHHHHHHH
Q ss_conf             99997666489999863
Q gi|254780512|r  508 LISRLDPEYQKLAEETC  524 (692)
Q Consensus       508 LLd~L~~~~P~LV~Elv  524 (692)
                      .|.++.++||+||++++
T Consensus        54 tLGWvAERyP~LVr~Iv   70 (274)
T TIGR03006        54 TLGWVAERYPELVRRIV   70 (274)
T ss_pred             ECCHHHHCCHHHHHHHH
T ss_conf             40347540528899999


No 106
>COG4214 XylH ABC-type xylose transport system, permease component [Carbohydrate transport and metabolism]
Probab=34.78  E-value=27  Score=14.03  Aligned_cols=57  Identities=25%  Similarity=0.276  Sum_probs=30.7

Q ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHCCC
Q ss_conf             875145013269999999999999998864575146665545442037603454787876489
Q gi|254780512|r  111 GFSSLVMSGDFVIGLVVFMILITINFIVITKGATRIAEVGARFTLDAIPGKQMAIDADLSSGL  173 (692)
Q Consensus       111 aFG~fVvggn~vvG~viF~Il~ivqfiVItkGa~RvaEV~ARFtLDamPGKQMaIDaDl~aG~  173 (692)
                      .|++.--..-=+.|+++=++++.+=|-+.|+|.=    -++|=-  .-==.|+|+-.=+.-|+
T Consensus        14 ~~~~~~~~n~r~~~ml~al~~I~lfF~~~T~g~~----l~p~Nl--~NL~~Q~S~i~imA~GM   70 (394)
T COG4214          14 RFGRLKSLNLRVYGMLIALALIMLFFQILTGGVF----LSPRNL--SNLLRQNSIIGILALGM   70 (394)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEE----ECCCHH--HHHHHHHHHHHHHHHCC
T ss_conf             6898874216799999999999999997069768----523118--99998646999997350


No 107
>PRK08978 acetolactate synthase 2 catalytic subunit; Reviewed
Probab=34.76  E-value=27  Score=14.03  Aligned_cols=36  Identities=22%  Similarity=0.243  Sum_probs=20.4

Q ss_pred             HCCCCHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHH
Q ss_conf             73998899999989998---------6457888515899987331
Q gi|254780512|r  228 RYDMSIHHAADVFVRLS---------VGDGLVSQVPALIISLSAA  263 (692)
Q Consensus       228 q~gm~~~eA~~~Yt~LT---------IGDGLVsQIPaLliS~aaG  263 (692)
                      .|--..+-|+.-|+.+|         -|=|.-.-++++.-+-..+
T Consensus        45 rhE~~A~~~AdgYar~tg~~gv~~~t~GPG~~N~~~gl~~A~~~~   89 (548)
T PRK08978         45 RHEQGAAMAAIGYARATGKVGVCIATSGPGATNLITGLADALLDS   89 (548)
T ss_pred             CCHHHHHHHHHHHHHHHCCCEEEEECCCCHHHHHHHHHHHHHHHC
T ss_conf             878999999999999969988999756701999999999999849


No 108
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=34.67  E-value=27  Score=14.02  Aligned_cols=56  Identities=13%  Similarity=0.002  Sum_probs=41.7

Q ss_pred             CCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             599899999999999749865469999999987533579989999999999899986520
Q gi|254780512|r  527 HISYSGIQAVLKLLLAEHVSIRNLPLILESIAEVAPHSRKTSHIVEQVRIRMAQQICGDL  586 (692)
Q Consensus       527 ~v~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad~a~~~kD~~~LtE~VR~aL~R~I~~~~  586 (692)
                      ....+.++.+.++|++.+|+=.=.+.|++.+    ....|.+...++++..|.+.|....
T Consensus       130 ~~~~~~~~~l~~~L~~~gv~~~~~~~l~~~~----~~~~~~~~~~~~l~~~L~~~i~~~~  185 (282)
T TIGR03499       130 LQRDPEGAKLYERLEEAGVSEELARELLEKL----PERADAESAWRWLREALENMLPVKP  185 (282)
T ss_pred             CCCCHHHHHHHHHHHHCCCCHHHHHHHHHHH----HHCCCHHHHHHHHHHHHHHHCCCCC
T ss_conf             4588689999999998699999999999974----6029978999999999996477788


No 109
>PRK09424 pntA NAD(P) transhydrogenase subunit alpha; Provisional
Probab=34.51  E-value=27  Score=14.07  Aligned_cols=23  Identities=30%  Similarity=0.287  Sum_probs=15.3

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             58899999999999987999872
Q gi|254780512|r  479 DNLAVVLTHLSEVIRNNLSQLLS  501 (692)
Q Consensus       479 dp~~ViatHl~evir~~a~ellg  501 (692)
                      |-++-+.+|=++..-+|...||.
T Consensus       314 nlps~~~~~aS~lya~Ni~~~l~  336 (510)
T PRK09424        314 DLPSRLPTQSSQLYGTNLVNLLK  336 (510)
T ss_pred             CHHCCCHHHHHHHHHHHHHHHHH
T ss_conf             51103778999999999999999


No 110
>smart00337 BCL BCL (B-Cell lymphoma); contains BH1, BH2 regions. (BH1, BH2, (BH3 (one helix only)) and not BH4(one helix only)). Involved in apoptosis regulation
Probab=33.90  E-value=28  Score=13.93  Aligned_cols=77  Identities=9%  Similarity=0.154  Sum_probs=42.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCC-----CCHHHHHHHHHHHHHCC-CCHHHHHHHH---HHHHHHHCCCCCHHHHHHHHHH
Q ss_conf             9999997666489999863115-----99899999999999749-8654699999---9998753357998999999999
Q gi|254780512|r  506 KNLISRLDPEYQKLAEETCSSH-----ISYSGIQAVLKLLLAEH-VSIRNLPLIL---ESIAEVAPHSRKTSHIVEQVRI  576 (692)
Q Consensus       506 q~LLd~L~~~~P~LV~Elvp~~-----v~l~~i~~VLq~LL~E~-VsIRdlr~Il---EaLad~a~~~kD~~~LtE~VR~  576 (692)
                      +++-|.++++||.+.+++..+.     -....+.+|.+.+.++| +.=--...++   -.++.++.+...++ +.+.+=.
T Consensus         2 r~vgdele~~~~~~f~~~~~~l~i~~~~a~~~f~~Va~elF~dG~inWGRIval~~F~~~la~~~~~~~~~~-~v~~i~~   80 (100)
T smart00337        2 RRVGDELNKRYERAFSSFSAQLHVTPGTAIELFGEVATELFSDGNINWGRVVALLSFGGALAVKLVQKEDPD-LVSRLAS   80 (100)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCH-HHHHHHH
T ss_conf             068899999989999999987089955289999999999982699669999999999999999999849940-8999999


Q ss_pred             HHHHHHH
Q ss_conf             9899986
Q gi|254780512|r  577 RMAQQIC  583 (692)
Q Consensus       577 aL~R~I~  583 (692)
                      -+.++|.
T Consensus        81 ~~~~~l~   87 (100)
T smart00337       81 WLSEFLR   87 (100)
T ss_pred             HHHHHHH
T ss_conf             9999999


No 111
>PRK09546 zntB zinc transporter; Reviewed
Probab=33.73  E-value=28  Score=13.91  Aligned_cols=100  Identities=15%  Similarity=0.253  Sum_probs=51.4

Q ss_pred             HHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCC
Q ss_conf             84588828990705889999999999998799987299999999997666489999863115998999999999997498
Q gi|254780512|r  466 FSDDLRRQGFHPIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHV  545 (692)
Q Consensus       466 ~~~~a~~~G~tvvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~V  545 (692)
                      -++.. ..|-...++.+.++ |+.+-+..+..+++.  +...-+|.+|..   +.++-.|   .-+++.++=|.+++=+=
T Consensus       130 vr~~l-~~g~gp~s~~~~L~-~L~d~l~d~~~~~v~--~L~~~ld~lEd~---vl~~~~~---~r~~L~~lRR~~i~LRR  199 (327)
T PRK09546        130 VVSDL-QEGTGPTDCGGWLV-DVCDALTDHASEFIE--QLHDKIIDLEDN---LLDQQIP---PRGFLALLRKQLIVMRR  199 (327)
T ss_pred             HHHHH-HCCCCCCCHHHHHH-HHHHHHHHHHHHHHH--HHHHHHHHHHHH---HHCCCCC---HHHHHHHHHHHHHHHHH
T ss_conf             99999-83999999899999-999999999999999--999999998888---7505771---14489999999999999


Q ss_pred             CHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHH
Q ss_conf             65469999999987533579989999999999899
Q gi|254780512|r  546 SIRNLPLILESIAEVAPHSRKTSHIVEQVRIRMAQ  580 (692)
Q Consensus       546 sIRdlr~IlEaLad~a~~~kD~~~LtE~VR~aL~R  580 (692)
                      .+...|-.++.|..     .++..+.+..|..|+.
T Consensus       200 ~l~Pqr~~l~~L~~-----~~~~~l~~~~~~~lrd  229 (327)
T PRK09546        200 YMAPQRDVYARLAS-----ERLPWMSDDDRRRMQD  229 (327)
T ss_pred             HHHHHHHHHHHHHH-----CCCCCCCHHHHHHHHH
T ss_conf             88779999999972-----6875589678899999


No 112
>PRK10034 fructuronate transporter; Provisional
Probab=33.65  E-value=28  Score=13.90  Aligned_cols=84  Identities=12%  Similarity=0.208  Sum_probs=52.9

Q ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             99999999999999513770454200489999999998554888889884377776326789998751450132699999
Q gi|254780512|r   47 ASSIALSILILMVALWIEKPLEFSSFPTVLLIVTIIRLSLNIATTRAILSFGHEGYGAAGGIIAGFSSLVMSGDFVIGLV  126 (692)
Q Consensus        47 ~~ni~~s~lil~~~l~~~~pl~fs~FPslLL~~TlfRL~LniasTRlIL~~g~~g~~~AG~vI~aFG~fVvggn~vvG~v  126 (692)
                      .+=++++++++++.     -..+..|-++++.+-+.-+..-+..+..+           ..+.+.||+-.-    -+|++
T Consensus         8 ~~~~~I~~li~li~-----k~KlhpFlaLli~ai~~gl~~G~~~~~~~-----------~~i~~GfG~tlg----~igii   67 (447)
T PRK10034          8 WVVFGIGLMLVLNL-----KFKINSMVALLVAALSVGMLAGMDLMSLL-----------HTMKAGFGNTLG----ELAII   67 (447)
T ss_pred             HHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHCCCCHHHHH-----------HHHHHHHHHHHH----HHHHH
T ss_conf             99999999999999-----98562999999999999998399989999-----------999988888889----99999


Q ss_pred             HHHHHHHHHHHHHHCCCCHHHHHH
Q ss_conf             999999999988645751466655
Q gi|254780512|r  127 VFMILITINFIVITKGATRIAEVG  150 (692)
Q Consensus       127 iF~Il~ivqfiVItkGa~RvaEV~  150 (692)
                      |.+=-++=+++--|-||+|+|+-=
T Consensus        68 I~lG~iiG~~Le~SGaa~~iA~~~   91 (447)
T PRK10034         68 VVFGAVIGKLMVDSGAAHQIAHTL   91 (447)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHH
T ss_conf             999999999999838199999999


No 113
>pfam08302 tRNA_lig_CPD Fungal tRNA ligase phosphodiesterase domain. This domain is found in fungal tRNA ligases and has cyclic phosphodiesterase activity. tRNA ligases are enzymes required for the splicing of precursor tRNA molecules containing introns.
Probab=33.57  E-value=17  Score=15.61  Aligned_cols=13  Identities=15%  Similarity=0.248  Sum_probs=5.2

Q ss_pred             CCHHHHHHHHHHH
Q ss_conf             6988999999999
Q gi|254780512|r  622 VEPRAVEMFSENA  634 (692)
Q Consensus       622 l~P~~~~~l~~~i  634 (692)
                      +-|...+.|+++.
T Consensus       212 VKP~eSNdLL~rw  224 (255)
T pfam08302       212 VKPKESNDLLKRW  224 (255)
T ss_pred             CCCCHHHHHHHHH
T ss_conf             8820389999999


No 114
>TIGR01931 cysJ sulfite reductase [NADPH] flavoprotein, alpha-component; InterPro: IPR010199   This entry describes an NADPH-dependent sulphite reductase flavoprotein subunit. Most members of the proteins of this entry are found in Cys biosynthesis gene clusters. The closest homologues are designated as subunits nitrate reductase.; GO: 0004783 sulfite reductase (NADPH) activity, 0000103 sulfate assimilation, 0019344 cysteine biosynthetic process.
Probab=33.57  E-value=15  Score=15.95  Aligned_cols=49  Identities=14%  Similarity=0.133  Sum_probs=35.7

Q ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHH---HHHHHHHHHHHHHCCCCCHHHHH
Q ss_conf             666489999863115998999999999997498654---69999999987533579989999
Q gi|254780512|r  513 DPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIR---NLPLILESIAEVAPHSRKTSHIV  571 (692)
Q Consensus       513 ~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIR---dlr~IlEaLad~a~~~kD~~~Lt  571 (692)
                      =++.|+||++++ +.+.+.         -.|.|.|.   ++++|.|+|..+-.-|+++-.|.
T Consensus       301 ~~Ndp~LV~~iL-~~L~~~---------~~~~Vt~~KQ~~~~~l~~AL~~~fELT~~t~~~~  352 (628)
T TIGR01931       301 YKNDPALVKEIL-ELLNLD---------PDEKVTVGKQGKVIPLKEALISHFELTQLTKPLV  352 (628)
T ss_pred             CCCCHHHHHHHH-HHCCCC---------CCCEEEECCCCCEEHHHHHHHHCCCHHCCCHHHH
T ss_conf             488989999999-970889---------6660686246764148898640576010487899


No 115
>pfam02901 PFL Pyruvate formate lyase.
Probab=33.16  E-value=29  Score=13.84  Aligned_cols=41  Identities=17%  Similarity=0.114  Sum_probs=32.2

Q ss_pred             CCCCHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCEEE
Q ss_conf             75526889999999999980987883244543778987169
Q gi|254780512|r  375 SQEDLFLRVSKIRRKFAVQYGFIVPEIKVTTDISLPEKGYT  415 (692)
Q Consensus       375 ~~~~L~~rI~~iRk~la~elG~~iP~IrIrDn~~L~~~~Y~  415 (692)
                      .|.+....++-+-=+-+.++-.+=|.+.+|-+.++|+.-++
T Consensus       344 dG~da~n~ls~~~L~a~~~l~~~~P~l~vr~~~~~p~~f~~  384 (645)
T pfam02901       344 DGRDAVNELSYLILEALDNLPLPQPNLTVRWSKKLPEEFLK  384 (645)
T ss_pred             CCCCCCCHHHHHHHHHHHHCCCCCCCEEEEECCCCCHHHHH
T ss_conf             88754478899999999865999997799988999999999


No 116
>PRK10365 transcriptional regulatory protein ZraR; Provisional
Probab=32.86  E-value=29  Score=13.81  Aligned_cols=22  Identities=5%  Similarity=0.155  Sum_probs=9.8

Q ss_pred             HHEEEECCCCCCHHHHHHHHHH
Q ss_conf             1026623774305899999876
Q gi|254780512|r  263 AFLVSRTTSKGSTNTAIVEQLS  284 (692)
Q Consensus       263 GiiVTRvss~~~lg~~i~~Ql~  284 (692)
                      .++++=+.-.+.-|-++.+++-
T Consensus        51 DlvllD~~mp~~~Gl~lL~~l~   72 (441)
T PRK10365         51 DLVLCDVRMAEMDGIATLKEIK   72 (441)
T ss_pred             CEEEECCCCCCCCHHHHHHHHH
T ss_conf             9999889999998999999998


No 117
>PTZ00210 UDP-GlcNAc-dependent glycosyltransferase; Provisional
Probab=32.78  E-value=22  Score=14.69  Aligned_cols=24  Identities=13%  Similarity=0.133  Sum_probs=15.2

Q ss_pred             HHHHHHHHHHHCCCCCCEEEEECC
Q ss_conf             999999999809878832445437
Q gi|254780512|r  384 SKIRRKFAVQYGFIVPEIKVTTDI  407 (692)
Q Consensus       384 ~~iRk~la~elG~~iP~IrIrDn~  407 (692)
                      +.-||++...-=...|++--|.|-
T Consensus        94 R~~rR~lQR~Tcw~y~gVAtr~Nn  117 (382)
T PTZ00210         94 RSRRRDLQRQTCWKYSGVATRSNN  117 (382)
T ss_pred             HHHHHHHHHHHHHCCCCCEEECCC
T ss_conf             888888766334136411011368


No 118
>pfam04352 ProQ ProQ/FINO family. This family includes ProQ, which is required for full activation of the osmoprotectant transporter, ProQ, in Escherichia coli. This family includes several bacterial fertility inhibition (FINO) proteins. The conjugative transfer of F-like plasmids is repressed by FinO, an RNA binding protein. FinO interacts with the F-plasmid encoded traJ mRNA and its antisense RNA, FinP, stabilising FinP against endonucleolytic degradation and facilitating sense-antisense RNA recognition.
Probab=32.41  E-value=30  Score=13.76  Aligned_cols=100  Identities=13%  Similarity=0.131  Sum_probs=56.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH-HHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHH
Q ss_conf             9999999999766648999986-311599899999999999749865469999999987533579989999999999899
Q gi|254780512|r  502 YKDVKNLISRLDPEYQKLAEET-CSSHISYSGIQAVLKLLLAEHVSIRNLPLILESIAEVAPHSRKTSHIVEQVRIRMAQ  580 (692)
Q Consensus       502 ~qEvq~LLd~L~~~~P~LV~El-vp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad~a~~~kD~~~LtE~VR~aL~R  580 (692)
                      ++.++..++.|.+.+|.+-.+- -++.+-+|..+++++.+=.+++|-                        ..+|.+|+.
T Consensus         3 ~~~~~~~i~~L~~~fP~~F~~~~~~kPLkIGI~~dl~~~~~~~~ls~------------------------~~lr~Al~~   58 (114)
T pfam04352         3 LDPVKEAIAKLKERFPLLFPDNGAPKPLKIGIFEDLAADLKDDELSK------------------------TELRRALRA   58 (114)
T ss_pred             CCCHHHHHHHHHHHCHHHCCCCCCCCCCCCCHHHHHHHHHHCCCCCH------------------------HHHHHHHHH
T ss_conf             89699999999986867509899988850579999997720158899------------------------999999999


Q ss_pred             HHHH-HHCCCCEEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             9865-20778848999888789999999830377788464566988999999999999999
Q gi|254780512|r  581 QICG-DLAPTGILNILKLGNHWDMIFYQAIQRDSKGECVDFNVEPRAVEMFSENATNSIRQ  640 (692)
Q Consensus       581 ~I~~-~~~~~g~L~vi~L~p~lE~~l~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~~~~~  640 (692)
                      +-.. +|              +..+..++.|.+-+|.... .++++..+.-...+.+..++
T Consensus        59 yt~s~rY--------------l~~~~~ga~R~DL~G~p~g-~Vt~e~~~~A~~~l~~~~~~  104 (114)
T pfam04352        59 YTRSWRY--------------LAAVKEGAPRVDLDGNPVG-AVTAEEAQHAQKRLAERKAK  104 (114)
T ss_pred             HHCCHHH--------------HHHHHCCCEEECCCCCCCC-CCCHHHHHHHHHHHHHHHHH
T ss_conf             9888989--------------9998679936899999878-27999999999999999999


No 119
>PRK11269 glyoxylate carboligase; Provisional
Probab=32.37  E-value=30  Score=13.75  Aligned_cols=38  Identities=16%  Similarity=0.161  Sum_probs=26.0

Q ss_pred             HHCCCCHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHH
Q ss_conf             973998899999989998----------64578885158999873310
Q gi|254780512|r  227 FRYDMSIHHAADVFVRLS----------VGDGLVSQVPALIISLSAAF  264 (692)
Q Consensus       227 ~q~gm~~~eA~~~Yt~LT----------IGDGLVsQIPaLliS~aaGi  264 (692)
                      ..|-...+-++.-|+.+|          .|=|.-.-+.+|.-+.+.++
T Consensus        48 ~rhE~~A~~mAdgyaR~t~G~~gV~~~t~GPG~tN~~tgl~~A~~d~~   95 (591)
T PRK11269         48 ARHVEGASHMAEGYTRAKAGNIGVCIGTSGPAGTDMITGLYSASADSI   95 (591)
T ss_pred             ECCHHHHHHHHHHHHHHHCCCEEEEEECCCHHHHHHHHHHHHHHHCCC
T ss_conf             496899999999999861898099995776189999999999984099


No 120
>TIGR01051 topA_bact DNA topoisomerase I; InterPro: IPR005733   DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis , . DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA .   Type I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA.     This entry describes topoisomerase I from bacteria, which is more closely related to archaeal than to eukaryotic topoisomerase I . Topoisomerase I is the major enzyme for relaxing negatively supercoiled DNA, and its presence is balanced by reverse gyrase, which can introduce negative supercoils. Prokaryotic topoisomerase I folds in an unusual way to give 4 distinct domains, enclosing a hole large enough to accommodate a double-stranded DNA segment. A tyrosine at the active site, which lies at the interface of 2 domains, is involved in transient breakage of a DNA strand, and the formation of a covalent protein-DNA intermediate through a 5-phosphotyrosine linkage. The structure reveals a plausible mechanism by which this and related enzymes could catalyse the passage of one DNA strand through a transient break in another strand . Topoisomerase I require Mg2+ as a cofactor for catalysis to take place.    More information about this protein can be found at Protein of the Month: DNA Topoisomerase .; GO: 0003677 DNA binding, 0003917 DNA topoisomerase type I activity, 0006265 DNA topological change, 0006268 DNA unwinding during replication, 0005694 chromosome.
Probab=32.00  E-value=19  Score=15.16  Aligned_cols=21  Identities=10%  Similarity=0.483  Sum_probs=8.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999999879998729999999
Q gi|254780512|r  488 LSEVIRNNLSQLLSYKDVKNL  508 (692)
Q Consensus       488 l~evir~~a~ellg~qEvq~L  508 (692)
                      ++..|..|-++++..+-|..|
T Consensus       568 V~~~Le~hF~~~Vd~~FTA~M  588 (688)
T TIGR01051       568 VTDLLEKHFGELVDYDFTAKM  588 (688)
T ss_pred             HHHHHHHHCCCCCCCHHHHHH
T ss_conf             999988642643355023764


No 121
>TIGR00801 ncs2 uracil-xanthine permease; InterPro: IPR006042 A number of transport proteins which are involved in the uptake of xanthine or uracil are evolutionary related . They are proteins of from 430 to 595 residues that seem to contain 12 transmembrane domains.; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane.
Probab=31.85  E-value=30  Score=13.69  Aligned_cols=71  Identities=17%  Similarity=0.254  Sum_probs=41.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHEEEECCCCCCHHHHHHH-HHH--CCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHH
Q ss_conf             6457888515899987331026623774305899999-876--1864899999999998615786478999999999999
Q gi|254780512|r  245 VGDGLVSQVPALIISLSAAFLVSRTTSKGSTNTAIVE-QLS--HYPRALLISAFFMIVLSVMPNLPAFPFIMLGGFFACA  321 (692)
Q Consensus       245 IGDGLVsQIPaLliS~aaGiiVTRvss~~~lg~~i~~-Ql~--~~p~aL~iaa~~l~~lglvPGmP~~~Fl~la~~l~~~  321 (692)
                      -||||.+-|.++.=|.          -...+++-++= |++  .+..+...+|.++.+||++|=+=-+.-..=+..+++.
T Consensus       325 ladGl~~~~~gl~g~~----------P~Ttf~qN~Gv~~lT~v~sr~V~~~~avil~~lG~~pK~aAl~~~IP~~VlGG~  394 (480)
T TIGR00801       325 LADGLATLLAGLVGGF----------PNTTFAQNIGVIALTRVASRYVIVGAAVILIALGFVPKIAALITSIPSPVLGGA  394 (480)
T ss_pred             EHHHHHHHHHHHHCCC----------CCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHH
T ss_conf             1004999998884268----------976013423022024555405788899999998777899999962576113135


Q ss_pred             HHHH
Q ss_conf             9988
Q gi|254780512|r  322 GFYV  325 (692)
Q Consensus       322 a~~~  325 (692)
                      ...+
T Consensus       395 ~~~m  398 (480)
T TIGR00801       395 SIVM  398 (480)
T ss_pred             HHHH
T ss_conf             8999


No 122
>pfam09552 RE_BstXI BstXI restriction endonuclease. This family includes the BstXI (recognizes and cleaves CCANNNNN^NTGG) restriction endonuclease.
Probab=31.73  E-value=22  Score=14.78  Aligned_cols=30  Identities=20%  Similarity=0.191  Sum_probs=17.3

Q ss_pred             HHHHCCCCCCEEEEECCCCCCCEEEEEECCEEEE
Q ss_conf             9980987883244543778987169997482453
Q gi|254780512|r  391 AVQYGFIVPEIKVTTDISLPEKGYTIRVYGTTVA  424 (692)
Q Consensus       391 a~elG~~iP~IrIrDn~~L~~~~Y~I~I~Gv~va  424 (692)
                      ..+|-+.=|.+|..|-    -++|.-+|.|..-.
T Consensus       104 ~~gL~~T~p~vr~~d~----gG~yv~ri~gtt~E  133 (287)
T pfam09552       104 VRGLKKTGPIVRSKDV----GGHYVLRLSGTTNE  133 (287)
T ss_pred             HCCCCCCCCCEECCCC----CCEEEEEEECCCHH
T ss_conf             1046567873222676----44266664245433


No 123
>PRK13435 response regulator; Provisional
Probab=31.61  E-value=11  Score=17.09  Aligned_cols=66  Identities=9%  Similarity=0.075  Sum_probs=38.8

Q ss_pred             EEECHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHCCCCHH-HHHHHHHHHHHC
Q ss_conf             07058899999999999987999872-999999999976664899998631159989-999999999974
Q gi|254780512|r  476 HPIDNLAVVLTHLSEVIRNNLSQLLS-YKDVKNLISRLDPEYQKLAEETCSSHISYS-GIQAVLKLLLAE  543 (692)
Q Consensus       476 tvvdp~~ViatHl~evir~~a~ellg-~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~-~i~~VLq~LL~E  543 (692)
                      -+||-...++..+.+.++++-++-.+ -.....-++.+++..|.++  ++-=.+|-+ .-.+++|+|-++
T Consensus         5 LIVEDe~~i~~~l~~~L~~~G~~vv~~A~~~~eAl~~~~~~~PDlv--llDi~LpdG~~G~e~~r~l~~~   72 (141)
T PRK13435          5 LIVEDEALIALELEKLLEEAGHQVVGIASTSEQALALGRRAQPDVA--LVDIRLADGPTGVEVARRLSID   72 (141)
T ss_pred             EEECCCHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCCEE--EECCCCCCCCCHHHHHHHHHHC
T ss_conf             9989989999999999998799799975999999999765999899--9788789999899999999875


No 124
>pfam00262 Calreticulin Calreticulin family.
Probab=31.56  E-value=30  Score=13.66  Aligned_cols=50  Identities=20%  Similarity=0.162  Sum_probs=32.6

Q ss_pred             CCCEEEEEECCEEEEEEEECCCCEEEECCCCCCCCCCCCEEECCCCCCCEEECCHHHH
Q ss_conf             9871699974824534884178341330588876788741014766883034397884
Q gi|254780512|r  410 PEKGYTIRVYGTTVAISELRVGEVLVILGSGQKPTFPGDEVKEPAFGMPAFAIMESFS  467 (692)
Q Consensus       410 ~~~~Y~I~I~Gv~va~gei~~~~lLai~~~~~~~~l~G~~~~eP~fgl~A~WI~~~~~  467 (692)
                      +.|+|.|+|+|..+.+|.+.-+.-    +    +-.+-.+..||.-.-|+-|.+.+.-
T Consensus       165 pdntfei~IDg~~~~~GsL~~df~----P----p~~pPk~I~DP~d~KP~DWdd~~~I  214 (359)
T pfam00262       165 PDNTFEILIDGEVVKSGSLLEDFD----P----PFNPPKEIPDPTDKKPEDWDDREKI  214 (359)
T ss_pred             CCCEEEEEECCEEEECCCCHHHCC----C----CCCCCCCCCCCCCCCCCCCCCHHCC
T ss_conf             898089998887853364242156----6----6798022688010586553001017


No 125
>COG3965 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]
Probab=31.40  E-value=31  Score=13.64  Aligned_cols=170  Identities=22%  Similarity=0.165  Sum_probs=78.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEEEECC--CCCC----HHHHHHHH
Q ss_conf             99999999988899999997399889999998999864578885158999873310266237--7430----58999998
Q gi|254780512|r  209 ASIIITAINIVGGIVIGCFRYDMSIHHAADVFVRLSVGDGLVSQVPALIISLSAAFLVSRTT--SKGS----TNTAIVEQ  282 (692)
Q Consensus       209 AgiiI~~iNiigG~~iG~~q~gm~~~eA~~~Yt~LTIGDGLVsQIPaLliS~aaGiiVTRvs--s~~~----lg~~i~~Q  282 (692)
                      .++.++.|=-.-|++.|.+.+.|+.           |=||.-|-+-+.+.+.+  +.|||--  ++.+    +|--.   
T Consensus        24 ~Si~~tvi~A~~GIi~GL~~gS~~I-----------iFDGvYSl~da~mtlls--L~vsrli~~~p~~~RF~~Gfwh---   87 (314)
T COG3965          24 ISIAGTVIFAAFGIIWGLLSGSMSI-----------IFDGVYSLIDAGMTLLS--LLVSRLIAKDPRDARFPYGFWH---   87 (314)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCEEE-----------EECCHHHHHHHHHHHHH--HHHHHHHCCCCCCCCCCCCHHH---
T ss_conf             9999999999999999998266588-----------86018999999999999--9999996049975656765010---


Q ss_pred             HHCCCHHHHHHHHHHHHHH-----------------HCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHH---
Q ss_conf             7618648999999999986-----------------1578647899999999999999886443222210---0110---
Q gi|254780512|r  283 LSHYPRALLISAFFMIVLS-----------------VMPNLPAFPFIMLGGFFACAGFYVPYKNELQRLA---KVAQ---  339 (692)
Q Consensus       283 l~~~p~aL~iaa~~l~~lg-----------------lvPGmP~~~Fl~la~~l~~~a~~~~r~~~~~~~~---~~~~---  339 (692)
                        -+|-+|.+-+.++.++.                 +.||.-...-+.-...|+..+|+++|.++.-+..   .+..   
T Consensus        88 --lEplvL~ing~ll~ll~lyAlinAl~~l~dGGR~v~~~~ai~yt~~s~~~Ca~~~~~~~r~nrr~~s~lIald~kqW~  165 (314)
T COG3965          88 --LEPLVLAINGTLLALLCLYALINALGSLLDGGREVEPGHAIAYTLVSVTGCAAIAWKLRRLNRRLKSPLIALDTKQWL  165 (314)
T ss_pred             --HHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
T ss_conf             --000576421289999999999999999863983214028899999999999999999976500378840015888999


Q ss_pred             --------------CCCCCCCCCCCCCHHHCCCCCHHHHC--CCCCCC-----------CCCCCCCHHHHHHHHHHHHHH
Q ss_conf             --------------00235667675300100246012210--111112-----------345755268899999999999
Q gi|254780512|r  340 --------------IQEASKQNQHSAQLNFITSGVELVLG--SLVSNR-----------LLSSQEDLFLRVSKIRRKFAV  392 (692)
Q Consensus       340 --------------~~~~~~~~~~~~~~~~~~~~i~l~lg--~li~l~-----------~~~~~~~L~~rI~~iRk~la~  392 (692)
                                    ....-..+...+ ...-.||.-+.+-  +.+++-           ..-...++.++|.+.-.++.+
T Consensus       166 Mst~lS~al~VaF~~a~~l~~T~~a~-l~~Y~DPmvlaL~~~v~IplPlg~vk~al~eiLlmtP~el~q~ies~~~~~v~  244 (314)
T COG3965         166 MSTCLSAALFVAFAAAWLLAGTKFAH-LVVYADPMVLALVCLVFIPLPLGTVKSALREILLMTPNELQQSIESHAHEIVE  244 (314)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCHHH-HHCCCCHHHHHHHHHHEEECCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
T ss_conf             99889999999999999864684225-30014789999997824624487899999999951937889999999999999


Q ss_pred             HHCCC
Q ss_conf             80987
Q gi|254780512|r  393 QYGFI  397 (692)
Q Consensus       393 elG~~  397 (692)
                      ++||+
T Consensus       245 k~~f~  249 (314)
T COG3965         245 KYGFP  249 (314)
T ss_pred             HHCCC
T ss_conf             86585


No 126
>pfam01008 IF-2B Initiation factor 2 subunit family. This family includes initiation factor 2B alpha, beta and delta subunits from eukaryotes, initiation factor 2B subunits 1 and 2 from archaebacteria and some proteins of unknown function from prokaryotes. Initiation factor 2 binds to Met-tRNA, GTP and the small ribosomal subunit. Members of this family have also been characterized as 5-methylthioribose- 1-phosphate isomerases, an enzyme of the methionine salvage pathway. The crystal structure of Ypr118w, a non-essential, low-copy number gene product from Saccharomyces cerevisiae, reveals a dimeric protein with two domains and a putative active site cleft.
Probab=30.90  E-value=31  Score=13.58  Aligned_cols=148  Identities=14%  Similarity=0.117  Sum_probs=79.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             99999997666489999863115998999999999997498654699999999875335799899999999998999865
Q gi|254780512|r  505 VKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIRNLPLILESIAEVAPHSRKTSHIVEQVRIRMAQQICG  584 (692)
Q Consensus       505 vq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad~a~~~kD~~~LtE~VR~aL~R~I~~  584 (692)
                      .+.+.+.+++.--.|.+- -|..++++...+-+++.+.|--+=.+..-+-+.+.+++..--+  . .+..+.+++.+=+.
T Consensus        28 ~~~l~~~l~~~~~~L~~a-RPt~v~l~nai~~~~~~i~~~~~~~~~~~~k~~l~~~~~~~~~--e-~~~a~~~Ia~~a~~  103 (281)
T pfam01008        28 VAELKEQLRSAIEFLISA-RPTAVSLGNAIDRLLRIISELHSSSDVEEAKESLIEAADEFID--E-IEEARRKIGAIAAE  103 (281)
T ss_pred             HHHHHHHHHHHHHHHHHC-CCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHH--H-HHHHHHHHHHHHHH
T ss_conf             899999999999999866-9975029999999999998456689999999999999999999--9-99999999999997


Q ss_pred             HHCCCCEEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEECHHHHHHHHH
Q ss_conf             207788489998887899999998303777884645669889999999999999999956998799828335489999
Q gi|254780512|r  585 DLAPTGILNILKLGNHWDMIFYQAIQRDSKGECVDFNVEPRAVEMFSENATNSIRQYIDKGIPLTIVTLPEIRSYIRM  662 (692)
Q Consensus       585 ~~~~~g~L~vi~L~p~lE~~l~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~~~~~~~~~g~~pVLl~s~~iRr~lr~  662 (692)
                      .+.++.++=...-+...+..++.+.++..+-.-  +..|   .+...+. +.-...+...|.+..+++-..+...+++
T Consensus       104 ~I~~g~~ILT~~~S~tv~~~l~~A~~~gk~f~V--~v~E---srP~~~G-~~~a~~L~~~gI~~t~i~dsa~~~~m~~  175 (281)
T pfam01008       104 LIKDGDTILTHCNSGTVLGVLRAAHKEGKRFRV--IVTE---SRPRLQG-RLTAKELVQAGIPVTLITDSAVGYVMQE  175 (281)
T ss_pred             HCCCCCEEEEECCHHHHHHHHHHHHHCCCEEEE--EEEC---CCCCCCH-HHHHHHHHHCCCCCEEEEHHHHHHHHHH
T ss_conf             748998899756828999999999985990799--9966---8974013-8999999857999689605389998501


No 127
>PRK10472 low affinity gluconate transporter; Provisional
Probab=30.59  E-value=31  Score=13.55  Aligned_cols=86  Identities=13%  Similarity=0.133  Sum_probs=53.7

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCHHHH
Q ss_conf             99999999999999995137704542004899999999985548888898843777763267899987514501326999
Q gi|254780512|r   45 GLASSIALSILILMVALWIEKPLEFSSFPTVLLIVTIIRLSLNIATTRAILSFGHEGYGAAGGIIAGFSSLVMSGDFVIG  124 (692)
Q Consensus        45 ~~~~ni~~s~lil~~~l~~~~pl~fs~FPslLL~~TlfRL~LniasTRlIL~~g~~g~~~AG~vI~aFG~fVvggn~vvG  124 (692)
                      ++.+=.+++++++++.     -..+..|-++++.+-..-|..-...+..+           ..+-+.||+-.    --+|
T Consensus         7 ll~~~~~I~~li~li~-----k~KlhpFlaLli~a~~~Gl~~G~~~~~i~-----------~~i~~GfG~tl----g~ig   66 (445)
T PRK10472          7 VLTAVGSVLLLLFLVM-----KARMHAFVALMVVSMGAGLFSGMPLDKIA-----------ATMEKGMGGTL----GFLA   66 (445)
T ss_pred             HHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHCCCCHHHHH-----------HHHHHHHHHHH----HHHH
T ss_conf             9999999999999999-----99650999999999999997199989999-----------99998788888----8999


Q ss_pred             HHHHHHHHHHHHHHHHCCCCHHHHHH
Q ss_conf             99999999999988645751466655
Q gi|254780512|r  125 LVVFMILITINFIVITKGATRIAEVG  150 (692)
Q Consensus       125 ~viF~Il~ivqfiVItkGa~RvaEV~  150 (692)
                      ++|.+=-++=+++-.+-||+|+|+-=
T Consensus        67 iiI~lG~~iG~~L~~SGaa~~ia~~~   92 (445)
T PRK10472         67 VVVALGAMFGKILHETGAVDQIAVKM   92 (445)
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHH
T ss_conf             99999999999999859599999999


No 128
>PRK07064 hypothetical protein; Provisional
Probab=30.45  E-value=32  Score=13.53  Aligned_cols=38  Identities=29%  Similarity=0.321  Sum_probs=28.8

Q ss_pred             HHCCCCHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHH
Q ss_conf             973998899999989998---------64578885158999873310
Q gi|254780512|r  227 FRYDMSIHHAADVFVRLS---------VGDGLVSQVPALIISLSAAF  264 (692)
Q Consensus       227 ~q~gm~~~eA~~~Yt~LT---------IGDGLVsQIPaLliS~aaGi  264 (692)
                      ..|-...+-++.-|+..|         -|=|.-.-++++.-+-+.++
T Consensus        47 ~~hE~~A~~~Adgyar~tg~~gv~~~t~GpG~~N~~~~v~~A~~~~~   93 (544)
T PRK07064         47 ARGEAGAVNMADAHARVSGGLGVALTSTGTGAGNAAGALVEALTAGT   93 (544)
T ss_pred             ECCHHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHHHHCC
T ss_conf             39789999999999999799889998055479989999999986688


No 129
>COG1184 GCD2 Translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Probab=30.43  E-value=32  Score=13.53  Aligned_cols=170  Identities=14%  Similarity=0.148  Sum_probs=100.5

Q ss_pred             EECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHH
Q ss_conf             70588999999999999879998729999999999766648999986311599899999999999749865469999999
Q gi|254780512|r  477 PIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIRNLPLILES  556 (692)
Q Consensus       477 vvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEa  556 (692)
                      -++.+..++--..++++.++...=- ..+..+.+.++...-.|++. .|..+|++.+.+.+.+ ....=..-|.+..+..
T Consensus        17 ~i~Ga~~ia~~~~eal~~~~~~~~~-~~~~~l~~~i~~~~~~L~k~-~P~~~Sl~n~~r~v~~-~~~~~~~~~~~~~~~~   93 (301)
T COG1184          17 EIRGASWIAIAAAEALEILASDSQA-PTVEELIDAIRELSETLVKA-RPTAVSLGNLIRFVLR-DSSGGDKENRRQSLIK   93 (301)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHHHHHHC-CCCCEEHHHHHHHHHH-CCCCCCHHHHHHHHHH
T ss_conf             2036689999999999998630355-53899999999988889862-8860249999999986-0565544567899998


Q ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCC--HHHHHHHHHHH
Q ss_conf             9875335799899999999998999865207788489998887899999998303777884645669--88999999999
Q gi|254780512|r  557 IAEVAPHSRKTSHIVEQVRIRMAQQICGDLAPTGILNILKLGNHWDMIFYQAIQRDSKGECVDFNVE--PRAVEMFSENA  634 (692)
Q Consensus       557 Lad~a~~~kD~~~LtE~VR~aL~R~I~~~~~~~g~L~vi~L~p~lE~~l~~~i~~t~~G~~~~l~l~--P~~~~~l~~~i  634 (692)
                      .+      ++-....|..++.++-.=..+..+..++-....+....+.+..+-.....  +.=+..|  |...      =
T Consensus        94 ~~------~~~i~~~~~a~~~ia~~~a~~i~dg~vIlTh~~S~~v~~~l~~A~~~~k~--~~V~VtESRP~~e------G  159 (301)
T COG1184          94 AA------QEFIDRVEKAKERIAEIGAERIHDGDVILTHSFSKTVLEVLKTAADRGKR--FKVIVTESRPRGE------G  159 (301)
T ss_pred             HH------HHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCHHHHHHHHHHHHCCCC--EEEEEECCCCCCH------H
T ss_conf             68------99999999988789999886245898799834718999999986641885--4999972788623------7


Q ss_pred             HHHHHHHHHCCCCEEEEECHHHHHHHHHH
Q ss_conf             99999999569987998283354899999
Q gi|254780512|r  635 TNSIRQYIDKGIPLTIVTLPEIRSYIRMI  663 (692)
Q Consensus       635 ~~~~~~~~~~g~~pVLl~s~~iRr~lr~l  663 (692)
                      +.-.+.+.+.|.++.+++-...+.++++-
T Consensus       160 ~~~ak~L~~~gI~~~~I~Dsa~~~~~~~v  188 (301)
T COG1184         160 RIMAKELRQSGIPVTVIVDSAVGAFMSRV  188 (301)
T ss_pred             HHHHHHHHHCCCCEEEEECHHHHHHHHHC
T ss_conf             99999999749955998515889999748


No 130
>PRK08527 acetolactate synthase 3 catalytic subunit; Validated
Probab=30.38  E-value=32  Score=13.52  Aligned_cols=38  Identities=29%  Similarity=0.422  Sum_probs=27.7

Q ss_pred             HHCCCCHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHH
Q ss_conf             973998899999989998---------64578885158999873310
Q gi|254780512|r  227 FRYDMSIHHAADVFVRLS---------VGDGLVSQVPALIISLSAAF  264 (692)
Q Consensus       227 ~q~gm~~~eA~~~Yt~LT---------IGDGLVsQIPaLliS~aaGi  264 (692)
                      ..|-.+.+-++.-|+..|         -|=|.-.-++++.-+-+.+.
T Consensus        48 ~~hE~~A~~mAdgyar~tg~~gv~~~t~GpG~~N~~~~i~~A~~~~~   94 (560)
T PRK08527         48 VRHEQAAVHAADGYARASGKVGVAIVTSGPGFTNAVTGLATAYMDSI   94 (560)
T ss_pred             ECCHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHHHHCC
T ss_conf             39689999999999999789989997536589999999999997599


No 131
>TIGR02797 exbB tonB-system energizer ExbB; InterPro: IPR014164   This entry describes ExbB proteins, part of the MotA/TolQ/ExbB protein family. The paired proteins MotA and MotB, TolQ and TolR, and ExbB and ExbD harness the proton-motive force to drive the flagellar motor, energize the Tol-Pal system, or energize TonB, respectively. Tol-Pal and TonB are both active at the outer membrane. Genomes may have many different TonB-dependent receptors, of which many of those characterised are involved in siderophore transport across the outer membrane..
Probab=30.35  E-value=27  Score=14.09  Aligned_cols=35  Identities=9%  Similarity=0.109  Sum_probs=17.7

Q ss_pred             CCHHHHHH--HHHCCCEEECHHHHHHHHHHHHHHHHH
Q ss_conf             39788458--882899070588999999999999879
Q gi|254780512|r  462 IMESFSDD--LRRQGFHPIDNLAVVLTHLSEVIRNNL  496 (692)
Q Consensus       462 I~~~~~~~--a~~~G~tvvdp~~ViatHl~evir~~a  496 (692)
                      +.|.-.|-  |-+.|..-==|.-||.-|+.+-+..|-
T Consensus       161 VAPGIAEALLATA~GLVAAIPAVvIYN~faR~i~~y~  197 (213)
T TIGR02797       161 VAPGIAEALLATALGLVAAIPAVVIYNVFARSIAGYR  197 (213)
T ss_pred             ECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             3523789999999889988548988865875699999


No 132
>TIGR02025 BchH magnesium chelatase, H subunit; InterPro: IPR011771    This entry represents the H subunit of the magnesium chelatase complex responsible for magnesium insertion into the protoporphyrin IX ring in the biosynthesis of both chlorophyll and bacteriochlorophyll. In chlorophyll-utilizing species, this gene is known as ChlH, while in bacteriochlorophyll-utilizing spoecies it is called BchH. Subunit H is the largest (~140kDa) of the three subunits (the others being BchD/ChlD and BchI/ChlI), and is known to bind protoporphyrin IX. Subunit H is homologous to the CobN subunit of cobaltochelatase and by anology with that enzyme, subunit H is believed to also bind the magnesium ion which is inserted into the ring. In conjunction with the hydrolysis of ATP by subunits I and D, a conformation change is believed to happen in subunit H causing the magnesium ion insertion into the distorted protoporphyrin ring .; GO: 0016851 magnesium chelatase activity, 0015995 chlorophyll biosynthetic process.
Probab=30.34  E-value=14  Score=16.17  Aligned_cols=15  Identities=20%  Similarity=0.319  Sum_probs=7.6

Q ss_pred             HHHHHHHHHHHHHHH
Q ss_conf             999999999766648
Q gi|254780512|r  503 KDVKNLISRLDPEYQ  517 (692)
Q Consensus       503 qEvq~LLd~L~~~~P  517 (692)
                      ++-|.|+..-+++.+
T Consensus       727 ~~LkeLi~~yr~~~~  741 (1384)
T TIGR02025       727 RELKELIAEYRELPS  741 (1384)
T ss_pred             HHHHHHHHHHCCCCC
T ss_conf             999999998403770


No 133
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=29.94  E-value=32  Score=13.47  Aligned_cols=76  Identities=14%  Similarity=0.044  Sum_probs=42.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHH
Q ss_conf             99999999997666489999863115998999999999997498654699999999875335799899999999998999
Q gi|254780512|r  502 YKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIRNLPLILESIAEVAPHSRKTSHIVEQVRIRMAQQ  581 (692)
Q Consensus       502 ~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad~a~~~kD~~~LtE~VR~aL~R~  581 (692)
                      ++|.+.|=+.++.....+..+-. . ......+.+.++|++.|++=.=.+.|++.+    ....++...-.+++..|.+.
T Consensus       125 ~~El~~lr~~l~~~~~~~~~~~~-~-~~~p~~~~l~~~L~~~Gvs~~la~~l~~~~----~~~~~~~~~~~~l~~~L~~~  198 (412)
T PRK05703        125 RKELAELKELLEHQLSMLAWEKL-E-RIPPEFAKLYKRLKESGLSPEIADKLLKLL----LEDMNPREAWRYLLELLANM  198 (412)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCC-C-CCCHHHHHHHHHHHHCCCCHHHHHHHHHHH----HHCCCHHHHHHHHHHHHHHH
T ss_conf             99999999999999864101222-3-488789999999998699999999999986----64289799999999999975


Q ss_pred             HH
Q ss_conf             86
Q gi|254780512|r  582 IC  583 (692)
Q Consensus       582 I~  583 (692)
                      |-
T Consensus       199 l~  200 (412)
T PRK05703        199 LP  200 (412)
T ss_pred             CC
T ss_conf             78


No 134
>PRK04040 adenylate kinase; Provisional
Probab=29.86  E-value=22  Score=14.74  Aligned_cols=117  Identities=15%  Similarity=0.129  Sum_probs=44.9

Q ss_pred             CCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEECHHHHHHH
Q ss_conf             15998999999999997498654699999999875335799899999999998999865207788489998887899999
Q gi|254780512|r  526 SHISYSGIQAVLKLLLAEHVSIRNLPLILESIAEVAPHSRKTSHIVEQVRIRMAQQICGDLAPTGILNILKLGNHWDMIF  605 (692)
Q Consensus       526 ~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad~a~~~kD~~~LtE~VR~aL~R~I~~~~~~~g~L~vi~L~p~lE~~l  605 (692)
                      +++|+. .|+=||++..|+|.=  +..=--.++|--+..|.|.--    =..|-....+.+.|+.   .+.+..+-++.+
T Consensus        56 RkL~~~-~q~~lQ~~Aa~~I~~--~~~~~~ViIDTHa~Iktp~Gy----lpGLP~~Vl~~L~P~~---ivlieA~P~eIl  125 (189)
T PRK04040         56 RKLPLE-EQKELQREAAERIAE--MAGEGPVIVDTHATIKTPGGY----LPGLPEWVLEELNPDV---IVLIEADPDEIL  125 (189)
T ss_pred             CCCCHH-HHHHHHHHHHHHHHH--HCCCCCEEEECCCCCCCCCCC----CCCCCHHHHHHCCCCE---EEEEECCHHHHH
T ss_conf             479999-999999999999998--357872899445200268867----7899899998669988---999975889999


Q ss_pred             HHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHH-HHHHCCCCEEEEECHH
Q ss_conf             9983037778846456698899999999999999-9995699879982833
Q gi|254780512|r  606 YQAIQRDSKGECVDFNVEPRAVEMFSENATNSIR-QYIDKGIPLTIVTLPE  655 (692)
Q Consensus       606 ~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~~~~-~~~~~g~~pVLl~s~~  655 (692)
                      ....+.+....  + ..+++..+.-++--+.... -....|.+.-++-+.+
T Consensus       126 ~RR~~D~tR~R--D-~es~~~I~~hq~~nR~~a~ayavltga~Vkiv~N~e  173 (189)
T PRK04040        126 MRRLRDPTRRR--D-VETEESIEEHQEMNRAAAMAYAVLTGATVKIVENHE  173 (189)
T ss_pred             HHHHCCCCCCC--C-CCCHHHHHHHHHHHHHHHHHHHHHHCCEEEEEECCC
T ss_conf             98842556689--8-788999999999999999999997398489997899


No 135
>TIGR00786 dctM TRAP transporter, DctM subunit; InterPro: IPR004681   DctM subunit Tripartite ATP-independent Periplasmic Transporter (TRAP-T) family permeases generally consist of three components, and these systems have so far been found in a diverse range of prokaryotes, both bacteria and archaea, but not in eukaryotes .    Only one member of the family has been both sequenced and functionally characterised. This system is the DctPQM system of Rhodobacter capsulatus . DctP is a periplasmic dicarboxylate (malate, fumarate, succinate) binding receptor that is biochemically well-characterised. DctQ is an integral cytoplasmic membrane protein with 4 putative transmembrane a-helical spanners (TMSs). DctM is a second integral cytoplasmic membrane protein with 12 putative TMSs. These proteins have been shown to be both necessary and sufficient for the proton motive force-dependent uptake of dicarboxylates into R. capsulatus.   A conserved family of immunogenic extracytoplasmic proteins is shown to be invariably associated with TRAP systems that contain a large DctQM fusion protein. All of the currently known archaeal systems are of this type. TRAP transporters are a widespread and ancient type of solute uptake system that transport a potentially diverse range of solutes and most likely evolved by the addition of auxiliary proteins to a single secondary transporter .  ; GO: 0016021 integral to membrane.
Probab=29.78  E-value=32  Score=13.45  Aligned_cols=219  Identities=15%  Similarity=0.211  Sum_probs=116.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH--HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             000100134589999999999996038478999999999--999999999995137704542004899999999985548
Q gi|254780512|r   11 SNDRNHLHDFAFSFCIVLIICILFLPIPTVLLDVGLASS--IALSILILMVALWIEKPLEFSSFPTVLLIVTIIRLSLNI   88 (692)
Q Consensus        11 ~~~~~~~~d~~~~~~~~~ii~~~iiPlP~~llD~~~~~n--i~~s~lil~~~l~~~~pl~fs~FPslLL~~TlfRL~Lni   88 (692)
                      .++++.-.|.+.+.-.=+-..=.++|  |=..=+.++.-  -..|+-=|..+         ..+|-+|+...+.-...++
T Consensus       115 m~~~GYp~~~a~g~i~~sg~ig~lIP--PSi~~Iiygv~~~~~vSi~~LF~A---------G~~PG~L~al~~m~~~~~~  183 (421)
T TIGR00786       115 MTKAGYPKAFAAGVIAASGIIGLLIP--PSIVMIIYGVASIAGVSIAKLFIA---------GILPGLLLALSLMLTIWFV  183 (421)
T ss_pred             HHHCCCCHHHHHHHHHHHHHHHCCCC--CHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHH
T ss_conf             97368898887799997886201147--708999999876765439999999---------7488999999999999999


Q ss_pred             HHHHHHHHCCCCC----CCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCHHHHH
Q ss_conf             8888988437777----632678999875145013269999999999999998864575146665545442037603454
Q gi|254780512|r   89 ATTRAILSFGHEG----YGAAGGIIAGFSSLVMSGDFVIGLVVFMILITINFIVITKGATRIAEVGARFTLDAIPGKQMA  164 (692)
Q Consensus        89 asTRlIL~~g~~g----~~~AG~vI~aFG~fVvggn~vvG~viF~Il~ivqfiVItkGa~RvaEV~ARFtLDamPGKQMa  164 (692)
                      |.+|---..-.+-    .+---++-++|++-+        -..++|+.|+=.                            
T Consensus       184 A~r~~~~~~~~~~evr~~a~~~q~~~~~~~s~--------waL~Lpv~iIgG----------------------------  227 (421)
T TIGR00786       184 AKRLGYPRAEADAEVRRKASLRQRLRAFRKSI--------WALLLPVLIIGG----------------------------  227 (421)
T ss_pred             HHHCCCCCCCCCCHHCCCCCHHHHHHHHHHHH--------HHHHHHHHHHHH----------------------------
T ss_conf             97518999878813304677899999998655--------799999999999----------------------------


Q ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHH-HHHCCCCHHHHHHHHHHH
Q ss_conf             7878764899989999999999865222201220134530105899999999988899999-997399889999998999
Q gi|254780512|r  165 IDADLSSGLIEEEEAKRRRKELEEESAFFGAMDGASKFVRGDAIASIIITAINIVGGIVIG-CFRYDMSIHHAADVFVRL  243 (692)
Q Consensus       165 IDaDl~aG~I~~~eA~~rR~~l~~Es~fyGaMDGA~KFVkGDAiAgiiI~~iNiigG~~iG-~~q~gm~~~eA~~~Yt~L  243 (692)
                          ++.|+-|+-||=                                  .+-.++.+++| ..+++|.+.+..+..-- 
T Consensus       228 ----i~~GifTPTEaa----------------------------------ava~~Yal~ls~~~yr~lt~k~l~~~~l~-  268 (421)
T TIGR00786       228 ----IFSGIFTPTEAA----------------------------------AVAAVYALILSTFVYRELTLKSLCDVLLE-  268 (421)
T ss_pred             ----HHHHHCCHHHHH----------------------------------HHHHHHHHHHHHHHHHHCCHHHHHHHHHH-
T ss_conf             ----888632688999----------------------------------99999999999999842359999999999-


Q ss_pred             HHHHHHHHHHHHHHHHHHHH--HEEEECCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Q ss_conf             86457888515899987331--0266237743058999998761864899999999998615786478999999999
Q gi|254780512|r  244 SVGDGLVSQVPALIISLSAA--FLVSRTTSKGSTNTAIVEQLSHYPRALLISAFFMIVLSVMPNLPAFPFIMLGGFF  318 (692)
Q Consensus       244 TIGDGLVsQIPaLliS~aaG--iiVTRvss~~~lg~~i~~Ql~~~p~aL~iaa~~l~~lglvPGmP~~~Fl~la~~l  318 (692)
                         =.-.+=+=.|+++.|++  -..|+..-.+.+++-+.+-..+.-.-+.+.-.+++..|++..++-..|+..-..+
T Consensus       269 ---s~~~~s~v~li~~~a~~~~~~~~~~~~P~~~~~~l~~~~~sp~~~l~~~n~~Ll~~G~fmD~~~~~l~~~P~l~  342 (421)
T TIGR00786       269 ---SLRTTSMVLLIIAGATVFSWLLTHEQIPQRLADLLAAAISSPIVFLIIINILLLIVGMFMDLTPAILILTPILL  342 (421)
T ss_pred             ---HHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
T ss_conf             ---88999999999999998777862302479999999721767049999999999984021156689999850699


No 136
>TIGR02434 CobF precorrin-6A synthase (deacetylating); InterPro: IPR012797   Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase . In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase .    There are at least two distinct cobalamin biosynthetic pathways in bacteria :  Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway ; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis ; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii shermanii.     Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) . There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans.   This entry represents CobF precorrin-6A synthase (2.1.1.152 from EC), a pathway-specific enzyme in the aerobic pathway. After precorrin-4 is methylated at C-11 by CobM to produce precorrin-5, the extruded acyl group is then removed in the subsequent step, which also sees a methyl group added at C-1 in a reaction catalysed by CobF. The product of this reaction is precorrin-6A, which is subsequently reduced by an NADH-dependent reductase to precorrin-6B . This entry identifies CobF in high GC Gram-positive, alphaproteobacteria and pseudomonas-related species..
Probab=29.77  E-value=32  Score=13.45  Aligned_cols=10  Identities=20%  Similarity=0.674  Sum_probs=5.5

Q ss_pred             HHHHHHHHHH
Q ss_conf             9899986520
Q gi|254780512|r  577 RMAQQICGDL  586 (692)
Q Consensus       577 aL~R~I~~~~  586 (692)
                      +|+|+||++|
T Consensus        44 ~lRr~I~~r~   53 (259)
T TIGR02434        44 ELRREICERY   53 (259)
T ss_pred             HHHHHHHHHH
T ss_conf             9999999871


No 137
>pfam00681 Plectin Plectin repeat. This family includes repeats from plectin, desmoplakin, envoplakin and bullous pemphigoid antigen.
Probab=29.41  E-value=33  Score=13.41  Aligned_cols=32  Identities=22%  Similarity=0.451  Sum_probs=27.3

Q ss_pred             HHHCCCCHHHHHHHHHHHCCCCCHHHHHHHHH
Q ss_conf             44203760345478787648999899999999
Q gi|254780512|r  153 FTLDAIPGKQMAIDADLSSGLIEEEEAKRRRK  184 (692)
Q Consensus       153 FtLDamPGKQMaIDaDl~aG~I~~~eA~~rR~  184 (692)
                      +-.|-.-|+.|+++--++.|+||++-|++-.+
T Consensus        12 GiidP~tg~rlsv~~A~~~glid~~~a~~L~~   43 (45)
T pfam00681        12 GIIDPETGERLSVEEAVRRGLIDPETAQKLLE   43 (45)
T ss_pred             CCCCCCCCCEECHHHHHHCCCCCHHHHHHHHH
T ss_conf             82789999881899999969949999999996


No 138
>pfam07680 DoxA TQO small subunit DoxA. Thiosulphate:quinone oxidoreductase (TQO) is one of the early steps in elemental sulphur oxidation. A novel TQO enzyme was purified from the thermo-acidophilic archaeon Acidianus ambivalens and shown to consist of a large subunit (DoxD) and a smaller subunit (DoxA). The DoxD- and DoxA-like two subunits are fused together in a single polypeptide in terminal quinol oxidase from Bacteroides thetaiotaomicron.
Probab=28.42  E-value=33  Score=13.36  Aligned_cols=30  Identities=27%  Similarity=0.655  Sum_probs=21.3

Q ss_pred             HHCCCCC-----CEEEEECCCCCCCEEEEEECCEE
Q ss_conf             8098788-----32445437789871699974824
Q gi|254780512|r  393 QYGFIVP-----EIKVTTDISLPEKGYTIRVYGTT  422 (692)
Q Consensus       393 elG~~iP-----~IrIrDn~~L~~~~Y~I~I~Gv~  422 (692)
                      .+|+.+|     .+.+..+..|++++|.+++...-
T Consensus        89 ~~gl~vpLGskAti~L~l~~~Lp~GtY~lkL~d~s  123 (133)
T pfam07680        89 GHGLVVPLGSEATITLNLPMHLPPGTYEVKLYDPA  123 (133)
T ss_pred             CCEEEEECCCCEEEEECCCCCCCCCEEEEEEECCC
T ss_conf             60299974784599953887679964999997478


No 139
>pfam02447 GntP_permease GntP family permease. This is a family of integral membrane permeases that are involved in gluconate uptake. E. coli contains several members of this family including GntU a low affinity transporter and GntT, a high affinity transporter.
Probab=28.38  E-value=34  Score=13.28  Aligned_cols=84  Identities=19%  Similarity=0.322  Sum_probs=39.4

Q ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             99999999999999513770454200489999999998554888889884377776326789998751450132699999
Q gi|254780512|r   47 ASSIALSILILMVALWIEKPLEFSSFPTVLLIVTIIRLSLNIATTRAILSFGHEGYGAAGGIIAGFSSLVMSGDFVIGLV  126 (692)
Q Consensus        47 ~~ni~~s~lil~~~l~~~~pl~fs~FPslLL~~TlfRL~LniasTRlIL~~g~~g~~~AG~vI~aFG~fVvggn~vvG~v  126 (692)
                      .+=+++.++++++.-     .....|-++++.+-++-|.....-+..+=           .+-+.||+-.-    -+|++
T Consensus         5 ~~~i~I~~li~li~k-----~KlhpFlaLl~~s~~~gl~~G~~~~~~~~-----------~i~~GfG~tlg----~igiv   64 (441)
T pfam02447         5 IVAIGVILLLLLIIK-----FKVNPFVALLLVSLGVGLASGMPLDKVVK-----------SIEAGFGGTLG----SLAII   64 (441)
T ss_pred             HHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHCCCCHHHHHH-----------HHHHHHHHHHH----HHHHH
T ss_conf             999999999999999-----82229999999999999972999999999-----------99998989989----99999


Q ss_pred             HHHHHHHHHHHHHHCCCCHHHHHH
Q ss_conf             999999999988645751466655
Q gi|254780512|r  127 VFMILITINFIVITKGATRIAEVG  150 (692)
Q Consensus       127 iF~Il~ivqfiVItkGa~RvaEV~  150 (692)
                      |.+=-++=+++--|.||+|+|+.-
T Consensus        65 I~lG~iiG~~Le~SGaa~~IA~~i   88 (441)
T pfam02447        65 IGLGAMLGKLLADSGGAERIATTL   88 (441)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHH
T ss_conf             999999999999839199999999


No 140
>pfam11630 DUF3254 Protein of unknown function (DUF3254). This family of proteins is most likely a family of anti-lipopolysaccharide factor proteins however this cannot be confirmed.
Probab=28.35  E-value=34  Score=13.28  Aligned_cols=13  Identities=8%  Similarity=0.317  Sum_probs=5.4

Q ss_pred             HHHHHHHHHHHHH
Q ss_conf             9987299999999
Q gi|254780512|r  497 SQLLSYKDVKNLI  509 (692)
Q Consensus       497 ~ellg~qEvq~LL  509 (692)
                      +.|++.+|.+.+|
T Consensus        84 ~gLiTeedA~~wL   96 (97)
T pfam11630        84 AGLITEEEANAWL   96 (97)
T ss_pred             CCCCCHHHHHHHH
T ss_conf             4886598998864


No 141
>PRK10921 twin-arginine protein translocation system subunit TatC; Provisional
Probab=28.02  E-value=35  Score=13.24  Aligned_cols=68  Identities=19%  Similarity=0.208  Sum_probs=42.8

Q ss_pred             HHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEEEECCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCC
Q ss_conf             97399889999998999864578885158999873310266237743058999998761864899999999998615786
Q gi|254780512|r  227 FRYDMSIHHAADVFVRLSVGDGLVSQVPALIISLSAAFLVSRTTSKGSTNTAIVEQLSHYPRALLISAFFMIVLSVMPNL  306 (692)
Q Consensus       227 ~q~gm~~~eA~~~Yt~LTIGDGLVsQIPaLliS~aaGiiVTRvss~~~lg~~i~~Ql~~~p~aL~iaa~~l~~lglvPGm  306 (692)
                      .+--.++++=.+....+..+=|++=|+|-+++-.+--=++|            .+++.++.|-.++...++ +.-+=|.=
T Consensus       145 ~~~~~~i~~y~~f~~~~~l~fGl~FqlPli~~~L~~~glv~------------~~~l~~~Rr~~~v~~~il-aA~iTPpD  211 (255)
T PRK10921        145 VQVSTDIASYLSFVMALFMAFGVSFEVPVAIVLLCWMGITT------------PEDLRKKRPYVLVGAFVV-GMLLTPPD  211 (255)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC------------HHHHHHHHHHHHHHHHHH-HHHCCCCC
T ss_conf             56435099999999999999999999899999999917889------------999998739998999999-97358993


Q ss_pred             H
Q ss_conf             4
Q gi|254780512|r  307 P  307 (692)
Q Consensus       307 P  307 (692)
                      |
T Consensus       212 ~  212 (255)
T PRK10921        212 V  212 (255)
T ss_pred             H
T ss_conf             7


No 142
>COG4714 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]
Probab=27.78  E-value=22  Score=14.75  Aligned_cols=24  Identities=17%  Similarity=0.251  Sum_probs=15.9

Q ss_pred             CCCHHHHHHHHHHHHHH-HHHHHHH
Q ss_conf             78647899999999999-9998864
Q gi|254780512|r  304 PNLPAFPFIMLGGFFAC-AGFYVPY  327 (692)
Q Consensus       304 PGmP~~~Fl~la~~l~~-~a~~~~r  327 (692)
                      -|||....+-+++++.+ ..|-...
T Consensus         3 ~~f~~~il~~l~A~L~c~ss~~v~~   27 (303)
T COG4714           3 MGFRMKILIKLTALLLCGSSWHVNA   27 (303)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             5347899999999997437664047


No 143
>cd04889 ACT_PDH-BS-like C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate. Included in this CD is the C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional  chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli do not contain an ACT domain. Also included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem A
Probab=27.68  E-value=22  Score=14.71  Aligned_cols=27  Identities=19%  Similarity=0.316  Sum_probs=21.2

Q ss_pred             CHHHHHHHHHHHHHCCCCHHHHHHHHHH
Q ss_conf             9899999999999749865469999999
Q gi|254780512|r  529 SYSGIQAVLKLLLAEHVSIRNLPLILES  556 (692)
Q Consensus       529 ~l~~i~~VLq~LL~E~VsIRdlr~IlEa  556 (692)
                      -.|++.+|.+-|-+++|+||++ +|.|+
T Consensus         8 rpG~L~~v~~~L~~~~InI~al-si~dt   34 (56)
T cd04889           8 KPGRLAEVTEILAEAGINIKAI-SIAET   34 (56)
T ss_pred             CCCHHHHHHHHHHHCCCCEEEE-EEECC
T ss_conf             9851999999999879987997-62025


No 144
>PRK11083 DNA-binding response regulator CreB; Provisional
Probab=27.62  E-value=29  Score=13.82  Aligned_cols=105  Identities=9%  Similarity=0.059  Sum_probs=67.1

Q ss_pred             CEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH--CCCCH-----
Q ss_conf             90705889999999999998799987299999999997666489999863115998999999999997--49865-----
Q gi|254780512|r  475 FHPIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLA--EHVSI-----  547 (692)
Q Consensus       475 ~tvvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~--E~VsI-----  547 (692)
                      .-+||....+...+.+.++.+-++.....+.+.-++.+++..|.||  ++--.+|-..=.++++.+=+  ..+||     
T Consensus         6 ILiVEDd~~l~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~Dlv--ilDi~LP~~~G~~l~~~iR~~~~~~pII~lta   83 (229)
T PRK11083          6 ILLVEDEQAIADTLVYALQSEGFTVEWFERGLPALDKLRQQPPDLV--ILDVGLPDISGFELCRQLRAFHPALPVIFLTA   83 (229)
T ss_pred             EEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCEE--EECCCCCCCCHHHHHHHHHHHCCCCEEEEEEC
T ss_conf             9999699999999999999889999998999999999971899899--97388999876889999997089972999836


Q ss_pred             -HHHHHHHHHH---H-HHHCCCCCHHHHHHHHHHHHHHH
Q ss_conf             -4699999999---8-75335799899999999998999
Q gi|254780512|r  548 -RNLPLILESI---A-EVAPHSRKTSHIVEQVRIRMAQQ  581 (692)
Q Consensus       548 -Rdlr~IlEaL---a-d~a~~~kD~~~LtE~VR~aL~R~  581 (692)
                       .+....++++   | ||-.+-=++..|...+|..|+|.
T Consensus        84 ~~~~~d~i~~l~~GADDYl~KPf~~~EL~aRi~a~lrR~  122 (229)
T PRK11083         84 RSDEVDRLVGLEIGADDYVAKPFSPREVAARVRTILRRV  122 (229)
T ss_pred             CCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHH
T ss_conf             789899999997599877308742899999999999764


No 145
>pfam05977 DUF894 Bacterial protein of unknown function (DUF894). This family consists of several bacterial proteins, many of which are annotated as putative transmembrane transport proteins.
Probab=27.42  E-value=35  Score=13.16  Aligned_cols=30  Identities=20%  Similarity=0.494  Sum_probs=18.4

Q ss_pred             CCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Q ss_conf             763267899987514501326999999999999
Q gi|254780512|r  101 GYGAAGGIIAGFSSLVMSGDFVIGLVVFMILIT  133 (692)
Q Consensus       101 g~~~AG~vI~aFG~fVvggn~vvG~viF~Il~i  133 (692)
                      ||+-+|=+|.+||.   +.-|.+-.+-|+-++.
T Consensus       155 GPAlgG~Lia~~G~---~~~F~lnAlSyl~~i~  184 (524)
T pfam05977       155 GPALGGLLVAAFGA---ATAFAVNALSYFAVIV  184 (524)
T ss_pred             HHHHHHHHHHHHHH---HHHHHHHHHHHHHHHH
T ss_conf             88999999997726---9999999999999999


No 146
>PRK01636 ccrB camphor resistance protein CrcB; Provisional
Probab=27.31  E-value=36  Score=13.15  Aligned_cols=40  Identities=20%  Similarity=0.395  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999998889999999739988999999899986457888
Q gi|254780512|r  211 IIITAINIVGGIVIGCFRYDMSIHHAADVFVRLSVGDGLVS  251 (692)
Q Consensus       211 iiI~~iNiigG~~iG~~q~gm~~~eA~~~Yt~LTIGDGLVs  251 (692)
                      +=..+||++|-+.+|.... .-.....+.+..+-+|-|...
T Consensus        19 ~~Tf~vNv~G~FliGll~~-l~~~~~~~~~~~l~l~TGf~G   58 (118)
T PRK01636         19 LDIFVANVVAAFLLGLTTS-LFKKDKISQYVHLMIGTGIMG   58 (118)
T ss_pred             HHHHHHHHHHHHHHHHHHH-HHHHCCCCHHHHHHHHHHHHC
T ss_conf             9999999999999999999-998177999999999976605


No 147
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=27.21  E-value=35  Score=13.21  Aligned_cols=36  Identities=14%  Similarity=0.094  Sum_probs=20.5

Q ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999999998615786478999999999999998864
Q gi|254780512|r  292 ISAFFMIVLSVMPNLPAFPFIMLGGFFACAGFYVPY  327 (692)
Q Consensus       292 iaa~~l~~lglvPGmP~~~Fl~la~~l~~~a~~~~r  327 (692)
                      .++--+..+++=||.-.|.++.+..+++.++++.++
T Consensus         4 ~a~~~~~~l~~n~~~~iw~~i~F~il~~il~kf~~~   39 (173)
T PRK13460          4 LAAKGLSLLDVNPGLVVWTLVTFLVVVLVLKKFAWD   39 (173)
T ss_pred             HHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             570567758898779999999999999999999688


No 148
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=27.20  E-value=36  Score=13.14  Aligned_cols=20  Identities=15%  Similarity=0.159  Sum_probs=9.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q ss_conf             89999999999899986520
Q gi|254780512|r  567 TSHIVEQVRIRMAQQICGDL  586 (692)
Q Consensus       567 ~~~LtE~VR~aL~R~I~~~~  586 (692)
                      ...-.|.-|..+-..|..+.
T Consensus       132 a~~~~e~~~a~~ea~L~~ki  151 (204)
T PRK09174        132 AKAKAEAERAEIEASLEKKL  151 (204)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999999999999999


No 149
>pfam05628 Borrelia_P13 Borrelia membrane protein P13. This family consists of P13 proteins from Borrelia species. P13 is a 13kDa integral membrane protein which is post-translationally processed at both ends and modified by an unknown mechanism.
Probab=27.10  E-value=18  Score=15.35  Aligned_cols=23  Identities=39%  Similarity=0.756  Sum_probs=8.8

Q ss_pred             HHCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             53010589999999998889999
Q gi|254780512|r  202 FVRGDAIASIIITAINIVGGIVI  224 (692)
Q Consensus       202 FVkGDAiAgiiI~~iNiigG~~i  224 (692)
                      ||+||-|-|-.+.--|++|+..+
T Consensus        61 fvQGDyiGGg~vLGf~~lG~~L~   83 (165)
T pfam05628        61 FVQGDYIGGGAVLGFQLLGGILI   83 (165)
T ss_pred             HCCCCEECCCEEEEHHHHHHHHH
T ss_conf             20154436722554577766886


No 150
>PRK10161 transcriptional regulator PhoB; Provisional
Probab=26.80  E-value=19  Score=15.27  Aligned_cols=105  Identities=13%  Similarity=0.130  Sum_probs=69.0

Q ss_pred             CEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHC----CCCH---
Q ss_conf             907058899999999999987999872999999999976664899998631159989999999999974----9865---
Q gi|254780512|r  475 FHPIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAE----HVSI---  547 (692)
Q Consensus       475 ~tvvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E----~VsI---  547 (692)
                      .-+||...-+...+.+.++++-++-..-.+.+..++.+++.+|.|+  ++.-.+|-..=-++++.+=++    .+||   
T Consensus         5 ILiVEDd~~l~~~l~~~L~~~g~~v~~a~~g~~a~~~l~~~~~Dli--ilDi~lP~~dG~~~~~~ir~~~~~~~~PII~l   82 (229)
T PRK10161          5 ILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPWPDLI--LLDWMLPGGSGIQFIKHLKRESMTRDIPVVML   82 (229)
T ss_pred             EEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHCCCCCEE--EEECCCCCCCCHHHHHHHHHCCCCCCCCEEEE
T ss_conf             9999599999999999999779999998999999999852899899--99789988763358788775024689758999


Q ss_pred             ------HHHHHHHHHH-HHHHCCCCCHHHHHHHHHHHHHHH
Q ss_conf             ------4699999999-875335799899999999998999
Q gi|254780512|r  548 ------RNLPLILESI-AEVAPHSRKTSHIVEQVRIRMAQQ  581 (692)
Q Consensus       548 ------Rdlr~IlEaL-ad~a~~~kD~~~LtE~VR~aL~R~  581 (692)
                            .|...=||.= -||-.+-=++..|...+|..|+|.
T Consensus        83 ta~~~~~d~v~gl~~GADDYl~KPf~~~EL~aRi~a~lrR~  123 (229)
T PRK10161         83 TARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMRRI  123 (229)
T ss_pred             ECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHC
T ss_conf             55666577999987698765208999899999999997123


No 151
>PRK09552 mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase; Reviewed
Probab=26.70  E-value=36  Score=13.08  Aligned_cols=28  Identities=11%  Similarity=0.122  Sum_probs=11.4

Q ss_pred             EEEEECHHHHHHHHHHHHHHCCCCCEEE
Q ss_conf             7998283354899999886448981894
Q gi|254780512|r  648 LTIVTLPEIRSYIRMILERNFPSLAVLS  675 (692)
Q Consensus       648 pVLl~s~~iRr~lr~lle~~~p~l~VLS  675 (692)
                      |+.++|..++++++.++++..+..++.|
T Consensus        91 p~~IvS~G~d~~I~~~L~~~~~~~~I~a  118 (219)
T PRK09552         91 SFYVISGGMDFFVYPLLQGLIPKEQIYC  118 (219)
T ss_pred             CEEEECCCCHHHHHHHHHHCCCCCCEEE
T ss_conf             7999879946999999996088774896


No 152
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=26.67  E-value=36  Score=13.07  Aligned_cols=47  Identities=21%  Similarity=0.323  Sum_probs=31.2

Q ss_pred             HHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             999999999749865469999999987533579989999999999899986
Q gi|254780512|r  533 IQAVLKLLLAEHVSIRNLPLILESIAEVAPHSRKTSHIVEQVRIRMAQQIC  583 (692)
Q Consensus       533 i~~VLq~LL~E~VsIRdlr~IlEaLad~a~~~kD~~~LtE~VR~aL~R~I~  583 (692)
                      -..++|+|++.+++=.-.+.++|.+    +...|.+..-+.++..|.+.+-
T Consensus       118 ~~~l~~~L~~~g~~~~la~~l~~~l----~~~~~~~~~~~~~~~~l~~~l~  164 (404)
T PRK06995        118 RGALFRHLLAAGFSAQLVRMLLENL----PAGDDAQAAMDWARSVLASNLP  164 (404)
T ss_pred             HHHHHHHHHHCCCCHHHHHHHHHHC----CCCCCHHHHHHHHHHHHHHHCC
T ss_conf             9999999998799999999999847----0338978999999999997466


No 153
>pfam07514 TraI_2 Putative helicase. Some members of this family have been annotated as helicases.
Probab=26.47  E-value=37  Score=13.05  Aligned_cols=21  Identities=10%  Similarity=0.132  Sum_probs=12.0

Q ss_pred             HHHHHHHHHHCCCCCCEEEEE
Q ss_conf             999999998098788324454
Q gi|254780512|r  385 KIRRKFAVQYGFIVPEIKVTT  405 (692)
Q Consensus       385 ~iRk~la~elG~~iP~IrIrD  405 (692)
                      ..=-.+..|+|=++-.++|.+
T Consensus       107 v~~aaL~HDiGK~~~Dl~V~~  127 (326)
T pfam07514       107 AFYAALLHDLGKPLVDLEVED  127 (326)
T ss_pred             HHHHHHHHHCCCCEEEEEEEE
T ss_conf             999999724167400268993


No 154
>PRK02944 OxaA-like protein precursor; Validated
Probab=26.37  E-value=37  Score=13.03  Aligned_cols=88  Identities=13%  Similarity=0.341  Sum_probs=47.7

Q ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH----CCCCHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCCHHHHHH
Q ss_conf             78999875145013269999999999999998864----57514666554544203760345478787648999899999
Q gi|254780512|r  106 GGIIAGFSSLVMSGDFVIGLVVFMILITINFIVIT----KGATRIAEVGARFTLDAIPGKQMAIDADLSSGLIEEEEAKR  181 (692)
Q Consensus       106 G~vI~aFG~fVvggn~vvG~viF~Il~ivqfiVIt----kGa~RvaEV~ARFtLDamPGKQMaIDaDl~aG~I~~~eA~~  181 (692)
                      .+.|+-|++ ..||||.+++++|.|++=+=.+-.+    |-+.|..|.         --+-=.|.+..++.  |+++-++
T Consensus        45 ~~~i~~~a~-~~g~~yGlaIIl~TiiVRlillPL~~kq~ks~~kMq~l---------qPe~~~Iq~Ky~~k--d~~~~qk  112 (255)
T PRK02944         45 SQLITYFAN-LFGSNYGLAIIVVTLLIRLAILPLMIKQTKSTKAMQAL---------QPEMVKLKEKYSSK--DQATQQK  112 (255)
T ss_pred             HHHHHHHHH-HCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------CHHHHHHHHHHCCC--CHHHHHH
T ss_conf             999999998-64971999999999999999998899999999999884---------86799999986589--7678999


Q ss_pred             HHH---HHHHHHCCCCCCCCHHHHHCCHHHHHHHHHHHHH
Q ss_conf             999---9986522220122013453010589999999998
Q gi|254780512|r  182 RRK---ELEEESAFFGAMDGASKFVRGDAIASIIITAINI  218 (692)
Q Consensus       182 rR~---~l~~Es~fyGaMDGA~KFVkGDAiAgiiI~~iNi  218 (692)
                      ..+   ++-+|..       .+=      .+|++-.+|.+
T Consensus       113 ~qqE~~~Lykk~g-------vnP------~~GCLP~LIQ~  139 (255)
T PRK02944        113 LQQEMMQLYQKNG-------VNP------LAGCLPIFIQM  139 (255)
T ss_pred             HHHHHHHHHHHCC-------CCC------HHHHHHHHHHH
T ss_conf             9999999999839-------994------68889999999


No 155
>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional
Probab=26.21  E-value=37  Score=13.01  Aligned_cols=24  Identities=0%  Similarity=0.040  Sum_probs=9.4

Q ss_pred             HHHHEEEECCCCCCHHHHHHHHHH
Q ss_conf             331026623774305899999876
Q gi|254780512|r  261 SAAFLVSRTTSKGSTNTAIVEQLS  284 (692)
Q Consensus       261 aaGiiVTRvss~~~lg~~i~~Ql~  284 (692)
                      .-.++++-..-.+--|-++.+++-
T Consensus        48 ~~DlvllDi~mP~~~Glell~~ir   71 (457)
T PRK11361         48 HPDVVLMDIRMPEMDGIKALKEMR   71 (457)
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHH
T ss_conf             989999828799999999999998


No 156
>pfam05313 Pox_P21 Poxvirus P21 membrane protein. The P21 membrane protein of vaccinia virus, encoded by the A17L (or A18L) gene, has been reported to localize on the inner of the two membranes of the intracellular mature virus (IMV). It has also been shown that P21 acts as a membrane anchor for the externally located fusion protein P14 (A27L gene).
Probab=25.96  E-value=37  Score=12.98  Aligned_cols=74  Identities=12%  Similarity=0.307  Sum_probs=56.2

Q ss_pred             HHHHHHHHHHHHHEEEECCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHCC---CCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             51589998733102662377430589999987618648999999999986157---864789999999999999988644
Q gi|254780512|r  252 QVPALIISLSAAFLVSRTTSKGSTNTAIVEQLSHYPRALLISAFFMIVLSVMP---NLPAFPFIMLGGFFACAGFYVPYK  328 (692)
Q Consensus       252 QIPaLliS~aaGiiVTRvss~~~lg~~i~~Ql~~~p~aL~iaa~~l~~lglvP---GmP~~~Fl~la~~l~~~a~~~~r~  328 (692)
                      -.|||.|.-+..+=..+.++..+.|-.|.         ...++.+...+--+.   |+-++....++.+++.-++.+.|.
T Consensus        94 P~PsLVIaYCl~~qi~~~~~~~~vgMsIv---------cv~~sivti~~~svs~S~~a~ti~yiiL~vLf~~Yafnit~~  164 (190)
T pfam05313        94 PFPSLVIAYCLSMQIINPGNGNTIGMSIL---------CVLASIVTIYVTSVSASKTAYTISYIILAVLFCIYAFNITRI  164 (190)
T ss_pred             CCHHHHHHHHHHHHEECCCCCCCHHHHHH---------HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             73199999999872046888761017799---------999999999987521312689999999999999998631040


Q ss_pred             HHHHHH
Q ss_conf             322221
Q gi|254780512|r  329 NELQRL  334 (692)
Q Consensus       329 ~~~~~~  334 (692)
                      ...+..
T Consensus       165 ~~~~s~  170 (190)
T pfam05313       165 SKVRSS  170 (190)
T ss_pred             HHHCCC
T ss_conf             121257


No 157
>TIGR01389 recQ ATP-dependent DNA helicase RecQ; InterPro: IPR006293   The ATP-dependent DNA helicase RecQ (3.6.1 from EC) is involved in genome maintenance . All homologues tested to date unwind paired DNA, translocating in a 3' to 5' direction and several have a preference for forked or 4-way DNA structures (e.g. Holliday junctions) or for G-quartet DNA. The yeast protein, Sgs1, is present in numerous foci that coincide with sites of de novo synthesis DNA, such as the replication fork, and protein levels peak during S-phase.    A model has been proposed for Sgs1p action in the S-phase checkpoint response, both as a 'sensor' for damage during replication and a 'resolvase' for structures that arise at paused forks, such as the four-way 'chickenfoot' structure. The action of Sgs1p may serve to maintain the proper amount and integrity of ss DNA that is necessary for the binding of RPA (replication protein A, the eukaryotic ss DNA-binding protein)DNA pol complexes. Sgs1p would thus function by detecting (or resolving) aberrant DNA structures, and would thus contribute to the full activation of the DNA-dependent protein kinase, Mec1p and the effector kinase, Rad53p. Its ability to bind both the large subunit of RPA and the RecA-like protein Rad51p, place it in a unique position to resolve inappropriate fork structures that can occur when either the leading or lagging strand synthesis is stalled. Thus, RecQ helicases integrate checkpoint activation and checkpoint response. ; GO: 0004003 ATP-dependent DNA helicase activity, 0006310 DNA recombination, 0009432 SOS response.
Probab=25.86  E-value=38  Score=12.97  Aligned_cols=111  Identities=12%  Similarity=0.164  Sum_probs=49.5

Q ss_pred             CCCCHHHHHHHHHHHHHHHCCCCCHHH--------HHHHHHHHHHHHHHHHHCCCCEEEEEEECHHHHHHHHHHHHCCCC
Q ss_conf             498654699999999875335799899--------999999998999865207788489998887899999998303777
Q gi|254780512|r  543 EHVSIRNLPLILESIAEVAPHSRKTSH--------IVEQVRIRMAQQICGDLAPTGILNILKLGNHWDMIFYQAIQRDSK  614 (692)
Q Consensus       543 E~VsIRdlr~IlEaLad~a~~~kD~~~--------LtE~VR~aL~R~I~~~~~~~g~L~vi~L~p~lE~~l~~~i~~t~~  614 (692)
                      -+.|-+..+.++.+|+--+=-+.|++.        ++|.+|+=|+..+-=...+....+      +-.-.--+++|++.+
T Consensus       454 ~~~~~~~w~~li~~Li~~g~L~~~~~~GrPy~aL~~~~~~~~vl~~e~~V~l~~~k~~~------~~~GraGGGmrr~~~  527 (607)
T TIGR01389       454 KDLSQKEWRSLIDQLIAEGYLTENDEQGRPYSALQLTEAARKVLKNEVEVLLRPKKVVR------KEDGRAGGGMRRTAQ  527 (607)
T ss_pred             CCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCHHHHHCCCHHHHCCCCCCCC------CCCCCCCCCHHHHHH
T ss_conf             67972789999988866246530645678652345651124454033110003310233------457875763012222


Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHHHH-HCCCCEEEEECHHHHHHHHHHHH
Q ss_conf             8846456698899999999999999999-56998799828335489999988
Q gi|254780512|r  615 GECVDFNVEPRAVEMFSENATNSIRQYI-DKGIPLTIVTLPEIRSYIRMILE  665 (692)
Q Consensus       615 G~~~~l~l~P~~~~~l~~~i~~~~~~~~-~~g~~pVLl~s~~iRr~lr~lle  665 (692)
                      ...  +...++. +.|-+++++.-.++. ..|.||.++=+..   -|+.|.|
T Consensus       528 ~~~--l~~~~d~-~~LF~~Lr~lR~~~A~~~~VPPYvIF~D~---TL~E~ae  573 (607)
T TIGR01389       528 QKE--LSVEVDD-LALFEALRELRKELAQEENVPPYVIFSDS---TLREMAE  573 (607)
T ss_pred             HHC--CCCCHHH-HHHHHHHHHHHHHHHHHCCCCCEEECCCH---HHHHHHH
T ss_conf             300--1244045-89999999999999986489928981845---7999997


No 158
>COG1536 FliG Flagellar motor switch protein [Cell motility and secretion]
Probab=25.84  E-value=38  Score=12.97  Aligned_cols=45  Identities=27%  Similarity=0.342  Sum_probs=28.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHH----HHHHHHHHHCC
Q ss_conf             7299999999997666489999863115998999----99999999749
Q gi|254780512|r  500 LSYKDVKNLISRLDPEYQKLAEETCSSHISYSGI----QAVLKLLLAEH  544 (692)
Q Consensus       500 lg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i----~~VLq~LL~E~  544 (692)
                      +.+..-+.++|.++...|++.+++..+.-....+    .+.+|+||+|-
T Consensus       214 ~d~~~e~~il~~l~~~~~~la~~I~~kmF~Fedi~~ldd~~iq~lL~~v  262 (339)
T COG1536         214 LDRGTEKTILESLEEEDPELAEEIKEKMFVFEDIVLLDDRSIQRLLREV  262 (339)
T ss_pred             CCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHC
T ss_conf             4466899999987632887899999987219988745689999999873


No 159
>TIGR01522 ATPase-IIA2_Ca calcium-transporting P-type ATPase, PMR1-type; InterPro: IPR006413   This family describes the P-type ATPase responsible for translocating calcium ions across the golgi membrane of fungi and animals , , and is of particular importance in the sarcoplasmic reticulum of skeletal and cardiac muscle in vertebrates . The calcium P-type ATPases have been characterised as Type IIA based on a phylogenetic analysis which distinguishes this group from the Type IIB PMCA calcium pump  represented by IPR006408 from INTERPRO. ; GO: 0005388 calcium-transporting ATPase activity, 0006816 calcium ion transport, 0016021 integral to membrane.
Probab=25.84  E-value=24  Score=14.42  Aligned_cols=143  Identities=13%  Similarity=0.148  Sum_probs=70.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH----------------HHCCCCHH
Q ss_conf             99999999987999872999999999976664899998631159989999999999----------------97498654
Q gi|254780512|r  485 LTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLL----------------LAEHVSIR  548 (692)
Q Consensus       485 atHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~L----------------L~E~VsIR  548 (692)
                      +-|=+..++++++.|+|.-==-.|++.+             ....+..+++-.+|-                +.++=++-
T Consensus       364 ~lCNna~~~~~a~~llG~ptd~ALie~~-------------~~fgL~D~r~t~~r~~E~pFsS~rK~M~v~~~~~~~~~~  430 (856)
T TIGR01522       364 NLCNNAKFRNEADTLLGNPTDVALIELL-------------EKFGLEDLRETYKRVAEVPFSSERKWMAVKVVTDSKEMV  430 (856)
T ss_pred             HHHCCHHHCCCHHHCCCCHHHHHHHHHH-------------HHCCCCCCCCCCCEEECCCCCCCCCEEEEEEEECCCCEE
T ss_conf             4202202201012005873579999999-------------864898742100023213668644013566661787478


Q ss_pred             HHHHHHHHHHHHHCCCCCHHHH-HHHHHHHHHHHHHHHHCC--CCEEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCHH
Q ss_conf             6999999998753357998999-999999989998652077--8848999888789999999830377788464566988
Q gi|254780512|r  549 NLPLILESIAEVAPHSRKTSHI-VEQVRIRMAQQICGDLAP--TGILNILKLGNHWDMIFYQAIQRDSKGECVDFNVEPR  625 (692)
Q Consensus       549 dlr~IlEaLad~a~~~kD~~~L-tE~VR~aL~R~I~~~~~~--~g~L~vi~L~p~lE~~l~~~i~~t~~G~~~~l~l~P~  625 (692)
                      -++.=.|-+++|+..-.+-+-- |+..-++.+..|.+.-+.  ..-|+++-+....+.-|-      =.|= .. -.||-
T Consensus       431 f~KGA~E~v~~yc~~Y~~~dG~kt~~Lt~~~k~~~~~~~~~Ma~~GLRv~A~A~~~~~~L~------F~GL-~G-~~DPP  502 (856)
T TIGR01522       431 FVKGAYEQVLKYCTYYLKKDGKKTEELTEEQKEKIQEEAAEMASEGLRVIAFASGTEKDLV------FLGL-VG-INDPP  502 (856)
T ss_pred             EEECCHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCE------EEEE-EC-CCCCC
T ss_conf             8607510123345454405784115778999999989876320066646656522568715------7610-02-65922


Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCEEEEEC
Q ss_conf             9999999999999999956998799828
Q gi|254780512|r  626 AVEMFSENATNSIRQYIDKGIPLTIVTL  653 (692)
Q Consensus       626 ~~~~l~~~i~~~~~~~~~~g~~pVLl~s  653 (692)
                      +     -+++++++++...|...+.+|-
T Consensus       503 R-----p~V~~Av~~L~~gGV~v~MITG  525 (856)
T TIGR01522       503 R-----PDVKEAVERLLTGGVRVIMITG  525 (856)
T ss_pred             C-----CCCHHHHHHHHHCCCEEEEECC
T ss_conf             4-----8626899998428918999818


No 160
>TIGR00175 mito_nad_idh isocitrate dehydrogenase, NAD-dependent; InterPro: IPR004434 Several NAD- or NADP-dependent dehydrogenases, including 3-isopropylmalate dehydrogenase, tartrate dehydrogenase, and the multimeric forms of isocitrate dehydrogenase, share a nucleotide binding domain unrelated to that of lactate dehydrogenase and its homologs. These enzymes dehydrogenate their substates at a H-C-OH site adjacent to a H-C-COOH site; the latter carbon, now adjacent to a carbonyl group, readily decarboxylates.   Mitochondrial NAD-dependent isocitrate dehydrogenases (IDH) resemble prokaryotic NADP-dependent IDH and 3-isopropylmalate dehydrogenase (an NAD-dependent enzyme) more closely than they resemble eukaryotic NADP-dependent IDH. The mitochondrial NAD-dependent isocitrate dehydrogenase is believed to be an alpha(2)-beta-gamma heterotetramer. All subunits are homologous and belog to this group.     The NADP-dependent IDH of Thermus thermophilus strain HB8 resembles these NAD-dependent IDH, except for the residues involved in cofactor specificity, much more closely than it resembles other prokaryotic NADP-dependent IDH, including that of Thermus aquaticus. ; GO: 0004449 isocitrate dehydrogenase (NAD+) activity, 0006099 tricarboxylic acid cycle, 0005739 mitochondrion.
Probab=25.71  E-value=37  Score=13.05  Aligned_cols=24  Identities=21%  Similarity=0.202  Sum_probs=13.5

Q ss_pred             EECHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             705889999999999998799987
Q gi|254780512|r  477 PIDNLAVVLTHLSEVIRNNLSQLL  500 (692)
Q Consensus       477 vvdp~~ViatHl~evir~~a~ell  500 (692)
                      ||++.-|++..-+|=|-|+|-||=
T Consensus       143 VVESlK~iT~~~seRIA~yAFeyA  166 (348)
T TIGR00175       143 VVESLKVITREKSERIARYAFEYA  166 (348)
T ss_pred             EEEECHHHHHHHHHHHHHHHHHHH
T ss_conf             256102010245788999999999


No 161
>COG5592 Uncharacterized conserved protein [Function unknown]
Probab=25.70  E-value=38  Score=12.95  Aligned_cols=88  Identities=17%  Similarity=0.111  Sum_probs=58.6

Q ss_pred             HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH----CCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             9997666489999863115998999999999997----498654699999999875335799899999999998999865
Q gi|254780512|r  509 ISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLA----EHVSIRNLPLILESIAEVAPHSRKTSHIVEQVRIRMAQQICG  584 (692)
Q Consensus       509 Ld~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~----E~VsIRdlr~IlEaLad~a~~~kD~~~LtE~VR~aL~R~I~~  584 (692)
                      ++.+.+.+-.+ +|.+  .-|...=.++.+.-..    |+=+|+|.....|++++.-.+.++|+..-|+++.-.+-..-|
T Consensus        37 ~~k~~k~h~e~-Ee~i--lF~v~Vd~~~ed~~~fkdt~~~~~i~~DHkliE~l~tnlik~kR~~k~~e~~p~fyK~LtdH  113 (171)
T COG5592          37 NEKLGKDHVEL-EEKI--LFPVIVDADMEDLYVFKDTPEVDRIKNDHKLIETLATNLIKWKRPDKIKERVPLFYKTLTDH  113 (171)
T ss_pred             HHHHHHHHHHH-HHHH--HHHHCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHC
T ss_conf             89875437889-8876--20210351798877541352233767458999999999986314258899999999999973


Q ss_pred             HHCCCCEEEEEEECHHHHHH
Q ss_conf             20778848999888789999
Q gi|254780512|r  585 DLAPTGILNILKLGNHWDMI  604 (692)
Q Consensus       585 ~~~~~g~L~vi~L~p~lE~~  604 (692)
                      ..+.++.+.     |.|+..
T Consensus       114 n~aEE~~If-----Prvks~  128 (171)
T COG5592         114 NLAEEEYIF-----PRVKSL  128 (171)
T ss_pred             CCCCCCHHH-----HHHHHH
T ss_conf             444310255-----888860


No 162
>COG4171 SapC ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]
Probab=25.57  E-value=38  Score=12.93  Aligned_cols=48  Identities=23%  Similarity=0.388  Sum_probs=22.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999999998889999999739988999999899986457888515899987
Q gi|254780512|r  209 ASIIITAINIVGGIVIGCFRYDMSIHHAADVFVRLSVGDGLVSQVPALIISL  260 (692)
Q Consensus       209 AgiiI~~iNiigG~~iG~~q~gm~~~eA~~~Yt~LTIGDGLVsQIPaLliS~  260 (692)
                      +.+++++.-.+-|..+|++ -|++-|  ...-.+=-|=|-+.| |||||+++
T Consensus       101 ~allvt~~a~l~g~~lGi~-AG~t~g--l~s~~lnHilDt~lS-iPsLLlAi  148 (296)
T COG4171         101 GALLVTLAATICGGVLGIF-AGATHG--LRSAVLNHILDTLLS-IPSLLLAI  148 (296)
T ss_pred             HHHHHHHHHHHHHHHHHHH-HHHHHH--HHHHHHHHHHHHHHH-HHHHHHHH
T ss_conf             3999999999999999999-977777--899999999999973-58999999


No 163
>COG3167 PilO Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=25.57  E-value=38  Score=12.93  Aligned_cols=35  Identities=20%  Similarity=0.304  Sum_probs=20.8

Q ss_pred             CCCCHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHH
Q ss_conf             5786478999999999-9999988644322221001
Q gi|254780512|r  303 MPNLPAFPFIMLGGFF-ACAGFYVPYKNELQRLAKV  337 (692)
Q Consensus       303 vPGmP~~~Fl~la~~l-~~~a~~~~r~~~~~~~~~~  337 (692)
                      -|--|.+.|..+++++ .++||+...+.+.++.+..
T Consensus        19 Wpl~~rlv~~lL~~~~V~~lGy~f~~s~k~eel~~~   54 (211)
T COG3167          19 WPLAPRLVFCLLAVAAVLGLGYAFYLSGKLEELEEL   54 (211)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHH
T ss_conf             200379999999999999999999854078889999


No 164
>PRK03612 spermidine synthase; Provisional
Probab=25.46  E-value=38  Score=12.92  Aligned_cols=48  Identities=8%  Similarity=0.060  Sum_probs=25.9

Q ss_pred             EEEECCC---CCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHCC--CCHHHHHHH
Q ss_conf             2662377---430589999987618648999999999986157--864789999
Q gi|254780512|r  265 LVSRTTS---KGSTNTAIVEQLSHYPRALLISAFFMIVLSVMP--NLPAFPFIM  313 (692)
Q Consensus       265 iVTRvss---~~~lg~~i~~Ql~~~p~aL~iaa~~l~~lglvP--GmP~~~Fl~  313 (692)
                      +++|.-.   +.+.+..+++ +.+.-..=.+.|++++.|-++|  |+..-.|+.
T Consensus       130 Ll~rl~~~~~~~~~~~~vg~-v~a~DylGaliGsl~f~flLlP~lGl~~~~~l~  182 (516)
T PRK03612        130 LLMRILQRGRDAHAGHNVAT-VLAADYLGALVGGLAFPFLLLPRLGLLRTAALT  182 (516)
T ss_pred             HHHHHHHHHCHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999986220022246788-886764678899999999998763267899999


No 165
>pfam09922 DUF2154 Predicted membrane protein (DUF2154). This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=25.42  E-value=38  Score=12.91  Aligned_cols=66  Identities=20%  Similarity=0.209  Sum_probs=34.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHEEEECCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             86457888515899987331026623774305899999876186489999999999861578647899999999999999
Q gi|254780512|r  244 SVGDGLVSQVPALIISLSAAFLVSRTTSKGSTNTAIVEQLSHYPRALLISAFFMIVLSVMPNLPAFPFIMLGGFFACAGF  323 (692)
Q Consensus       244 TIGDGLVsQIPaLliS~aaGiiVTRvss~~~lg~~i~~Ql~~~p~aL~iaa~~l~~lglvPGmP~~~Fl~la~~l~~~a~  323 (692)
                      ..|...+--+|.+++-+.-=....|   .  .         .....+++.|++++++.+++ +|.+-++.. +++.++++
T Consensus        21 ~~~~~~~l~~~l~li~~G~~~~~~~---~--~---------~~g~il~~iG~~~l~~~l~~-~~~~~~~~~-~~lI~~gi   84 (233)
T pfam09922        21 NPGSLFLLIWGLLLIYLGYYRLKKR---H--F---------KLGNFLLIIGLILLLFSLLS-NNAVIFFWP-AALIYLGI   84 (233)
T ss_pred             CCCHHHHHHHHHHHHHEEEEEEECC---C--C---------CCCHHHHHHHHHHHHHHHHH-HHHHHHHHH-HHHHHHHH
T ss_conf             5407899999999631034787514---5--3---------34565999999999999971-589999999-99999989


Q ss_pred             HH
Q ss_conf             88
Q gi|254780512|r  324 YV  325 (692)
Q Consensus       324 ~~  325 (692)
                      ..
T Consensus        85 ~~   86 (233)
T pfam09922        85 NL   86 (233)
T ss_pred             HH
T ss_conf             85


No 166
>COG3827 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.38  E-value=38  Score=12.91  Aligned_cols=18  Identities=28%  Similarity=0.307  Sum_probs=13.0

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q ss_conf             999976664899998631
Q gi|254780512|r  508 LISRLDPEYQKLAEETCS  525 (692)
Q Consensus       508 LLd~L~~~~P~LV~Elvp  525 (692)
                      |-|||.++-|.|||++|-
T Consensus       202 LqdWLDkNLPtLVErLVr  219 (231)
T COG3827         202 LQDWLDKNLPTLVERLVR  219 (231)
T ss_pred             HHHHHHCCCHHHHHHHHH
T ss_conf             999998133599999999


No 167
>TIGR03085 conserved hypothetical protein TIGR03085. This family, like Pfam family pfam07398 and TIGRFAMs family TIGR030834, belongs to the larger set of probable enzymes defined in family TIGR03083. Members are found primarily in the Actinobacteria (Mycobacterium, Streptomyces, etc.). The family is uncharacterized.
Probab=25.37  E-value=38  Score=12.91  Aligned_cols=16  Identities=6%  Similarity=0.208  Sum_probs=6.3

Q ss_pred             CCCHHHHHHHHHHHHH
Q ss_conf             6698899999999999
Q gi|254780512|r  621 NVEPRAVEMFSENATN  636 (692)
Q Consensus       621 ~l~P~~~~~l~~~i~~  636 (692)
                      .++|+..+.+-..++.
T Consensus       116 ~l~~~~~~~Lw~~l~~  131 (199)
T TIGR03085       116 ELPPEHRDALWDALRK  131 (199)
T ss_pred             CCCHHHHHHHHHHHHH
T ss_conf             6998999999999887


No 168
>PRK11056 hypothetical protein; Provisional
Probab=25.31  E-value=38  Score=12.90  Aligned_cols=65  Identities=29%  Similarity=0.327  Sum_probs=33.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHCCCCCCCHHHHHHHHHHH
Q ss_conf             8999999999999999999995137704542004899999999985---54888889884377776326789998751
Q gi|254780512|r   40 VLLDVGLASSIALSILILMVALWIEKPLEFSSFPTVLLIVTIIRLS---LNIATTRAILSFGHEGYGAAGGIIAGFSS  114 (692)
Q Consensus        40 ~llD~~~~~ni~~s~lil~~~l~~~~pl~fs~FPslLL~~TlfRL~---LniasTRlIL~~g~~g~~~AG~vI~aFG~  114 (692)
                      .+|-+...+++..+.-    +++. +...||.||-+=|+.+...|-   ||-+-     .+|-...++|-=.+..||.
T Consensus        12 LlLaliaGl~~na~~s----~Lf~-s~VpFSiFP~IaLvlavyclyq~Yl~~~m-----~eg~p~~a~acFflG~f~y   79 (120)
T PRK11056         12 LLLALIAGLSINGTFA----ALFS-SIVPFSVFPLIALVLAVYCLYQRYLNRPM-----PEGLPGLAAACFFLGVFLY   79 (120)
T ss_pred             HHHHHHHHHHHHHHHH----HHHC-CCCCCHHHHHHHHHHHHHHHHHHHHCCCC-----CCCCHHHHHHHHHHHHHHH
T ss_conf             6999999885003269----9871-65510778999999999999999946888-----7777289999999999999


No 169
>TIGR02418 acolac_catab acetolactate synthase, catabolic; InterPro: IPR012782    Acetolactate synthase is a thiamin pyrophosphate-dependent enzyme that combines two molecules of pyruvate to yield 2-acetolactate with the release of CO2. It exists in two distinct forms that have different properties, though they are clearly related , . The biosynthetic form, found in plants, fungi and bacteria, is involved in the biosynthesis of branched-chain amino acids and contains non-catalytic FAD. The catabolic form is found only in some bacteria, participates in butanediol fermentation, and does not contain FAD.   This entry represents the catabolic form of acetolactate synthase, generally found in species that posses acetolactate decarboxylase, which is often encoded in the same operon. The enzyme is thought to be a homotetramer, though this has not conclusively been shown. Each monomer consists of three distinct domains, designated, starting from the N-terminus, as alpha, beta and gamma . The core of the alpha and gamma domains is a six-stranded parallel beta sheet surrounded by alpha helices, while the the beta domain forms a double Rossman fold. The thiamin pyrophosphate cofactor has an unusual conformation that has not been seen in other enzymes using this cofactor, including the biosynthetic form of acetolactate synthase. The active site is located in a funnel at the dimer interface, bordered by residues from all three domains.; GO: 0000287 magnesium ion binding, 0003984 acetolactate synthase activity, 0030976 thiamin pyrophosphate binding, 0050660 FAD binding.
Probab=25.20  E-value=39  Score=12.88  Aligned_cols=46  Identities=17%  Similarity=0.255  Sum_probs=37.4

Q ss_pred             HHEEEECCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Q ss_conf             102662377430589999987618648999999999986157864789999999
Q gi|254780512|r  263 AFLVSRTTSKGSTNTAIVEQLSHYPRALLISAFFMIVLSVMPNLPAFPFIMLGG  316 (692)
Q Consensus       263 GiiVTRvss~~~lg~~i~~Ql~~~p~aL~iaa~~l~~lglvPGmP~~~Fl~la~  316 (692)
                      =|||||=-.+.-+-.+..+=|++.|-+-..++|        ||-=.++--++-|
T Consensus        43 ~lIv~RHEqNAaFMAqavGRlTGkpGV~lvTSG--------PG~sNL~TGl~TA   88 (553)
T TIGR02418        43 ELIVVRHEQNAAFMAQAVGRLTGKPGVALVTSG--------PGVSNLVTGLLTA   88 (553)
T ss_pred             EEEECCCHHHHHHHHHHHHHHCCCCCEEEEECC--------CCHHHHHHHHHEE
T ss_conf             154132214589999998630599865998068--------8814467433101


No 170
>TIGR00739 yajC preprotein translocase, YajC subunit; InterPro: IPR003849   This entry describes proteins of unknown function..
Probab=25.02  E-value=39  Score=12.86  Aligned_cols=27  Identities=19%  Similarity=0.118  Sum_probs=12.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999999999999998864432222100
Q gi|254780512|r  310 PFIMLGGFFACAGFYVPYKNELQRLAK  336 (692)
Q Consensus       310 ~Fl~la~~l~~~a~~~~r~~~~~~~~~  336 (692)
                      +++++...++..+|.+.|.++++..+.
T Consensus         5 ~l~~lv~~~~~FYFl~~RPQ~K~~k~~   31 (86)
T TIGR00739         5 TLLPLVLIFLIFYFLIIRPQRKRRKAH   31 (86)
T ss_pred             HHHHHHHHHHHHHHHHCCHHHHHHHHH
T ss_conf             589999999999997049779888988


No 171
>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=24.85  E-value=39  Score=12.84  Aligned_cols=46  Identities=15%  Similarity=0.270  Sum_probs=33.9

Q ss_pred             CHHHHCCCCCCC---CCCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEEE
Q ss_conf             012210111112---3457552688999999999998098788324454
Q gi|254780512|r  360 VELVLGSLVSNR---LLSSQEDLFLRVSKIRRKFAVQYGFIVPEIKVTT  405 (692)
Q Consensus       360 i~l~lg~li~l~---~~~~~~~L~~rI~~iRk~la~elG~~iP~IrIrD  405 (692)
                      +--+-||-+..+   ...|.--|..+|..+|.++|+.|++.+-.|.|+-
T Consensus        86 ~~~~~gy~~~N~D~tiia~~PKl~P~i~~mR~~iA~~L~i~~d~vnvKA  134 (159)
T TIGR00151        86 LVKEKGYRIGNVDVTIIAQRPKLAPHIEAMRENIAELLGIPLDQVNVKA  134 (159)
T ss_pred             HHHHCCCCEEEEEEEEEECCCCCCCCHHHHHHHHHHHHCCCCCCEEEEE
T ss_conf             9985588045689999731898622268999999888468702113258


No 172
>PRK12360 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=24.83  E-value=39  Score=12.84  Aligned_cols=57  Identities=11%  Similarity=0.218  Sum_probs=45.6

Q ss_pred             CEEECCHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHH
Q ss_conf             3034397884588828990705889999999999998799987--------29999999999766
Q gi|254780512|r  458 PAFAIMESFSDDLRRQGFHPIDNLAVVLTHLSEVIRNNLSQLL--------SYKDVKNLISRLDP  514 (692)
Q Consensus       458 ~A~WI~~~~~~~a~~~G~tvvdp~~ViatHl~evir~~a~ell--------g~qEvq~LLd~L~~  514 (692)
                      .|.-++|+.+++|+..|.+++|..==+.+.+...+++++.+=.        +..|++.++.+...
T Consensus        75 rAHGv~~~~~~~a~~~g~~viDaTCP~V~kvh~~v~~~~~~Gy~viiiG~~~HpEv~gi~g~~~~  139 (281)
T PRK12360         75 RSHGVSKKVYKDLTDKGLEVIDATCPFVKKIQNIVEEYYNKGYKIIIVGDPNHPEVIGINGWCND  139 (281)
T ss_pred             ECCCCCHHHHHHHHHCCCCEECCCCCCHHHHHHHHHHHHHCCCEEEEECCCCCHHHHHHCCCCCC
T ss_conf             89999989999999659987705181057999999999978997999716898776522135898


No 173
>TIGR00992 3a0901s03IAP75 chloroplast envelope protein translocase, IAP75 family; InterPro: IPR005689   Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accompished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex loacted at the inner membrane . The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane.   This entry represents Toc750, a core component of the Toc complex. This protein is deeply embedded in the outer membrane and forms the voltage-dependent translocation channel . Toc75 itself appears to be capable of at least some discrimination between substrate and non-substrate proteins, with recognition based on based on both conformational and electrostatic interactions. ; GO: 0015450 P-P-bond-hydrolysis-driven protein transmembrane transporter activity, 0006886 intracellular protein transport, 0009707 chloroplast outer membrane.
Probab=24.78  E-value=39  Score=12.83  Aligned_cols=95  Identities=19%  Similarity=0.252  Sum_probs=64.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHHHCCCC-CHHHHHHHHHHHHHH
Q ss_conf             9999999997666489999863115998999999999997-49865469999999987533579-989999999999899
Q gi|254780512|r  503 KDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLA-EHVSIRNLPLILESIAEVAPHSR-KTSHIVEQVRIRMAQ  580 (692)
Q Consensus       503 qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~-E~VsIRdlr~IlEaLad~a~~~k-D~~~LtE~VR~aL~R  580 (692)
                      ||--....+++++|-.=+++--|+.+|-.-.-+|.+.|-. .+|+.|.|..|.+++-+|-..+- |..+.+..       
T Consensus       213 ~~~~~f~~~l~~~~~~~~~~a~~~lLP~~V~~E~~~~~~~q~~~~~R~LQ~~~~~v~~WY~~~GY~~AQVV~~-------  285 (768)
T TIGR00992       213 KEKLEFTRRLEKRYKRRIAEARPCLLPQEVVDEVFGMLYGQGKVSARLLQEIRDRVQEWYHNEGYALAQVVNF-------  285 (768)
T ss_pred             CCCEEEEHHHHHHHCCHHHCCCCCCCCHHHHHHHHHHHHCCCEECHHHHHHHHHHHHHHHHHCCCEEEEEECC-------
T ss_conf             1231110001111011013056554873678899987540551006777778888863110057507787346-------


Q ss_pred             HHHHHHCCCCEEEEEEECHHHHHHHHH
Q ss_conf             986520778848999888789999999
Q gi|254780512|r  581 QICGDLAPTGILNILKLGNHWDMIFYQ  607 (692)
Q Consensus       581 ~I~~~~~~~g~L~vi~L~p~lE~~l~~  607 (692)
                         .++.-+|..-+...+-.+|++-.+
T Consensus       286 ---g~~~~~G~V~~~v~EG~~~~l~~~  309 (768)
T TIGR00992       286 ---GNLNTDGEVVLEVVEGDITNLQIQ  309 (768)
T ss_pred             ---CCCCCCCEEEEEEECCCEEEEEEE
T ss_conf             ---763776518999964712167899


No 174
>pfam01638 HxlR HxlR-like helix-turn-helix. HxlR, a member of this family, is a DNA-binding protein that acts as a positive regulator of the formaldehyde-inducible hxlAB operon in Bacillus subtilis.
Probab=24.72  E-value=39  Score=12.82  Aligned_cols=53  Identities=17%  Similarity=0.213  Sum_probs=40.1

Q ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHH-------------------HHHHHHHHHHHHHCCCCCH
Q ss_conf             666489999863115998999999999997498654-------------------6999999998753357998
Q gi|254780512|r  513 DPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIR-------------------NLPLILESIAEVAPHSRKT  567 (692)
Q Consensus       513 ~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIR-------------------dlr~IlEaLad~a~~~kD~  567 (692)
                      ..++.++-++ +|. +|-..+++-|+.|-++|+=-|                   ++..++++|.+|+.+--|+
T Consensus        18 ~~rF~el~~~-l~g-is~~vLs~rLk~L~~~gli~r~~~~~~p~~~eY~LT~~G~~l~pvl~~l~~W~~~~~~~   89 (90)
T pfam01638        18 PKRFSELKRA-LPG-ISQKMLTQRLRELEQDGIINREVYPEVPPKVEYSLTEKGRSLEPILQAMCDWGEEYLEP   89 (90)
T ss_pred             CCCHHHHHHH-CCC-CCHHHHHHHHHHHHHCCCEEEEECCCCCCCEEEEECCCHHHHHHHHHHHHHHHHHHHCC
T ss_conf             9889999977-657-69899999999999889937645699999368743907878999999999999998754


No 175
>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]
Probab=24.33  E-value=29  Score=13.82  Aligned_cols=30  Identities=13%  Similarity=0.096  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHH
Q ss_conf             489999863115998999999999997498654
Q gi|254780512|r  516 YQKLAEETCSSHISYSGIQAVLKLLLAEHVSIR  548 (692)
Q Consensus       516 ~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIR  548 (692)
                      .++--+++  +++|.- .|+-||.+-.++++=.
T Consensus        49 lve~rD~~--Rklp~e-~Q~~lq~~Aa~rI~~~   78 (189)
T COG2019          49 LVEHRDEM--RKLPLE-NQRELQAEAAKRIAEM   78 (189)
T ss_pred             CCCCHHHH--HCCCHH-HHHHHHHHHHHHHHHH
T ss_conf             72028988--529888-9999999999999974


No 176
>TIGR02249 integrase_gron integron integrase; InterPro: IPR011946    Members of this family are integrases associated with integrons (and super-integrons), which are systems for incorporating and expressing cassettes of laterally transferred DNA. Incorporation occurs at an attI site. A super-integron, as in Vibrio sp., may include over 100 cassettes. This family belongs to the phage integrase family that also includes recombinases XerC (IPR011931 from INTERPRO) and XerD (IPR011932 from INTERPRO), which are bacterial housekeeping proteins. Within this family of integron integrases, some are designated by class, e.g. IntI4, a class 4 integron integrase from Vibrio cholerae N16961.; GO: 0003677 DNA binding, 0006310 DNA recombination, 0015074 DNA integration.
Probab=24.04  E-value=40  Score=12.73  Aligned_cols=49  Identities=27%  Similarity=0.352  Sum_probs=19.4

Q ss_pred             CEEECCHHHHHHHHHCCCE-EECHHHH---HHHHHHHHH--HHHHHHHHHHHHHH
Q ss_conf             3034397884588828990-7058899---999999999--98799987299999
Q gi|254780512|r  458 PAFAIMESFSDDLRRQGFH-PIDNLAV---VLTHLSEVI--RNNLSQLLSYKDVK  506 (692)
Q Consensus       458 ~A~WI~~~~~~~a~~~G~t-vvdp~~V---iatHl~evi--r~~a~ellg~qEvq  506 (692)
                      ...-+...-|..++.+|+. .+.|-|.   .||||=|.=  =|-..|+||..||+
T Consensus       243 ~e~~~QRav~~Av~~AGI~KpvTcHTLRHSFATHLLe~G~DIRTVQelLGHsDVk  297 (320)
T TIGR02249       243 DEKTIQRAVRRAVERAGIEKPVTCHTLRHSFATHLLESGADIRTVQELLGHSDVK  297 (320)
T ss_pred             CCCHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCCC
T ss_conf             7004328999999957898867887421224430565177367898861788422


No 177
>TIGR02812 fadR_gamma fatty acid metabolism transcriptional regulator FadR; InterPro: IPR014178   Members of this entry are transcriptional regulators of fatty acid metabolism (FadR), including both biosynthesis and beta-oxidation reactions, which are found exclusively in a subset of Gammaproteobacteria with strictly one copy per genome. Proteins have an N-terminal DNA-binding domain and a less well conserved C-terminal long chain acyl-CoA-binding domain. FadR when expressed in Escherichia coli shows differences in regulatory response and fatty acid binding profiles. All members of this entry are expected to have the same function.; GO: 0000062 acyl-CoA binding, 0003677 DNA binding, 0003700 transcription factor activity, 0019217 regulation of fatty acid metabolic process.
Probab=23.99  E-value=41  Score=12.72  Aligned_cols=168  Identities=20%  Similarity=0.214  Sum_probs=77.4

Q ss_pred             CCEEECCHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHH-HHHHHHHH-------------HHHHHH----HHHHHH
Q ss_conf             830343978845888289907058899999999999987999-87299999-------------999997----666489
Q gi|254780512|r  457 MPAFAIMESFSDDLRRQGFHPIDNLAVVLTHLSEVIRNNLSQ-LLSYKDVK-------------NLISRL----DPEYQK  518 (692)
Q Consensus       457 l~A~WI~~~~~~~a~~~G~tvvdp~~ViatHl~evir~~a~e-llg~qEvq-------------~LLd~L----~~~~P~  518 (692)
                      .|..=|-|+.||-+|.=|.|        -|=|.|||.|=|-+ =|++|.=|             ++||.|    .++.|.
T Consensus        24 FPPGSiLPAERELsElIGVT--------RTTLREVLQRLARDGWLTIQHGKPTKVNnfWETSGLNILeTL~~LD~~~~P~   95 (275)
T TIGR02812        24 FPPGSILPAERELSELIGVT--------RTTLREVLQRLARDGWLTIQHGKPTKVNNFWETSGLNILETLIRLDGESVPS   95 (275)
T ss_pred             CCCCCCCHHHHHHHHHCCCC--------CCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHCCCCCHHHHHHHHCCCCCCH
T ss_conf             46589872466575423766--------3037899988764113436588998627624302735789998618777707


Q ss_pred             HHHHHHHC--CCCHHHHHHHHHHHHH--CCCCHHHHHHHHHHH-------------------HHHHCCC--CCHHHHHHH
Q ss_conf             99986311--5998999999999997--498654699999999-------------------8753357--998999999
Q gi|254780512|r  519 LAEETCSS--HISYSGIQAVLKLLLA--EHVSIRNLPLILESI-------------------AEVAPHS--RKTSHIVEQ  573 (692)
Q Consensus       519 LV~Elvp~--~v~l~~i~~VLq~LL~--E~VsIRdlr~IlEaL-------------------ad~a~~~--kD~~~LtE~  573 (692)
                      ||++++.-  -+|.-=+-.=+|+==+  |++ |.+.-.=+|.|                   -..-+.+  +|+..--|-
T Consensus        96 l~dnLLSARTnIS~IYir~A~K~np~~~~~~-~~~VI~s~e~L~~~~s~~~F~~~SP~~~~~~~~l~d~~~~D~~~~~~I  174 (275)
T TIGR02812        96 LIDNLLSARTNISAIYIRAAFKNNPEESEEL-IENVIKSLEVLANAESFAEFVEASPLAEKVKKELEDTSKKDEEKREEI  174 (275)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHCCHHHHHHH-HHHHHHHHHHHHCCCCHHHHHHHCCHHHHHHHHHHCCCCCCHHHHHHH
T ss_conf             9999997764137788999862283568999-999999999983040179998508268999987420366576889999


Q ss_pred             HHHH----HHHHHHHHHC--CCCEEEEEEECHHHHHHHHHHHH--CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             9999----8999865207--78848999888789999999830--37778846456698899999999999999999569
Q gi|254780512|r  574 VRIR----MAQQICGDLA--PTGILNILKLGNHWDMIFYQAIQ--RDSKGECVDFNVEPRAVEMFSENATNSIRQYIDKG  645 (692)
Q Consensus       574 VR~a----L~R~I~~~~~--~~g~L~vi~L~p~lE~~l~~~i~--~t~~G~~~~l~l~P~~~~~l~~~i~~~~~~~~~~g  645 (692)
                      +|..    .=-++-|+++  -++.+.++.|.         +++  -+-=|.|  .=.+|+ +++|..+.-..+++....+
T Consensus       175 ~~A~~f~~fDY~lf~~LA~~SgN~iY~LILN---------glKglY~RiG~y--YF~~pe-aReLA~~FY~~L~~lc~~~  242 (275)
T TIGR02812       175 LRAEAFTEFDYQLFRGLAFASGNPIYGLILN---------GLKGLYTRIGLY--YFASPE-ARELALQFYKELQELCKAG  242 (275)
T ss_pred             HHHHHHHHHHHHHHHHHEECCCCCEEEEHCC---------HHHHHHHHHHHH--CCCCHH-HHHHHHHHHHHHHHHHHCC
T ss_conf             8787776988999874100137823330200---------101455555110--158878-8899999989999997205


No 178
>PRK09428 pssA phosphatidylserine synthase; Provisional
Probab=23.98  E-value=41  Score=12.72  Aligned_cols=13  Identities=38%  Similarity=0.662  Sum_probs=6.5

Q ss_pred             HHHHHHCCCCCCE
Q ss_conf             9999809878832
Q gi|254780512|r  389 KFAVQYGFIVPEI  401 (692)
Q Consensus       389 ~la~elG~~iP~I  401 (692)
                      .+..++|..+|-.
T Consensus       105 ~l~~~~~~~v~i~  117 (444)
T PRK09428        105 RMAQEYGHDVPVY  117 (444)
T ss_pred             HHHHHCCCCCCEE
T ss_conf             8998759975543


No 179
>COG2966 Uncharacterized conserved protein [Function unknown]
Probab=23.89  E-value=41  Score=12.71  Aligned_cols=27  Identities=19%  Similarity=0.433  Sum_probs=18.5

Q ss_pred             HHHCCCCCHHHHHHHHHHHHHHHCCCC
Q ss_conf             876489998999999999986522220
Q gi|254780512|r  168 DLSSGLIEEEEAKRRRKELEEESAFFG  194 (692)
Q Consensus       168 Dl~aG~I~~~eA~~rR~~l~~Es~fyG  194 (692)
                      +.-.|.++.|||+++=++++++..-|.
T Consensus        98 ~v~~~~~~~e~a~~~l~~i~~~~~~y~  124 (250)
T COG2966          98 AVEHGRLDLEEAHKKLDEIQKQPLRYS  124 (250)
T ss_pred             HHHCCCCCHHHHHHHHHHHHHCCCCCC
T ss_conf             998288779999999987650865566


No 180
>COG0761 lytB 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]
Probab=23.86  E-value=41  Score=12.71  Aligned_cols=40  Identities=13%  Similarity=0.312  Sum_probs=31.6

Q ss_pred             EEECCHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHH
Q ss_conf             0343978845888289907058899999999999987999
Q gi|254780512|r  459 AFAIMESFSDDLRRQGFHPIDNLAVVLTHLSEVIRNNLSQ  498 (692)
Q Consensus       459 A~WI~~~~~~~a~~~G~tvvdp~~ViatHl~evir~~a~e  498 (692)
                      |.-|+++-+++|+..|.+++|+.-=+.|-....+++|+.+
T Consensus        74 AHGVs~~v~~~a~~r~l~v~DATCPlVtKvh~~v~~~~~~  113 (294)
T COG0761          74 AHGVSPAVREEAKERGLKVIDATCPLVTKVHKEVERYARE  113 (294)
T ss_pred             CCCCCHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHC
T ss_conf             7999989999998779979946897516999999999858


No 181
>PTZ00134 40S ribosomal protein S18; Provisional
Probab=23.86  E-value=40  Score=12.79  Aligned_cols=75  Identities=19%  Similarity=0.149  Sum_probs=32.3

Q ss_pred             HHHHHHHHHHCCCCEEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEECHHH
Q ss_conf             98999865207788489998887899999998303777884645669889999999999999999956998799828335
Q gi|254780512|r  577 RMAQQICGDLAPTGILNILKLGNHWDMIFYQAIQRDSKGECVDFNVEPRAVEMFSENATNSIRQYIDKGIPLTIVTLPEI  656 (692)
Q Consensus       577 aL~R~I~~~~~~~g~L~vi~L~p~lE~~l~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~~~~~~~~~g~~pVLl~s~~i  656 (692)
                      +.+..||.+..=+..-.+=-|+.+=.+.|++.+....+     ..+ |++.-+-..        -...|.. --+++.++
T Consensus        41 ~~A~~Ic~~~gid~~~r~g~Lteeei~~i~~~I~~~~~-----~~i-P~w~~Nr~k--------D~~~G~~-~hlv~~dL  105 (154)
T PTZ00134         41 RFATVVCKQAGVDVTKRAGELTQEEINKIVAIISSPAQ-----FKI-PDWFLNRQK--------DVKEGKN-LHNTSNQL  105 (154)
T ss_pred             HHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHCCCCC-----CCC-CHHHHHHHH--------HHHHCCE-EEEECCHH
T ss_conf             99999999809894542164999999999999727210-----156-488765577--------7650631-24530128


Q ss_pred             HHHHHHHHHH
Q ss_conf             4899999886
Q gi|254780512|r  657 RSYIRMILER  666 (692)
Q Consensus       657 Rr~lr~lle~  666 (692)
                      |+.++.-+++
T Consensus       106 ~~~~~~dIkR  115 (154)
T PTZ00134        106 DSCLREDLER  115 (154)
T ss_pred             HHHHHHHHHH
T ss_conf             8999988999


No 182
>COG0745 OmpR Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=23.59  E-value=41  Score=12.67  Aligned_cols=103  Identities=10%  Similarity=0.034  Sum_probs=61.1

Q ss_pred             EECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH---HCCCC-------
Q ss_conf             70588999999999999879998729999999999766648999986311599899999999999---74986-------
Q gi|254780512|r  477 PIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLL---AEHVS-------  546 (692)
Q Consensus       477 vvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL---~E~Vs-------  546 (692)
                      ++|....+...+++.+.+.-++-....+-+.-++.++.. |.+|  ++--.+|-..=.+++|++=   ...+|       
T Consensus         5 iveDd~~i~~~l~~~L~~~G~~v~~~~~~~~a~~~~~~~-~dlv--iLD~~lP~~dG~~~~~~iR~~~~~~~PIi~Lta~   81 (229)
T COG0745           5 LVEDDPELAELLKEYLEEEGYEVDVAADGEEALEAAREQ-PDLV--LLDLMLPDLDGLELCRRLRAKKGSGPPIIVLTAR   81 (229)
T ss_pred             EEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHCC-CCEE--EEECCCCCCCHHHHHHHHHHCCCCCCCEEEEECC
T ss_conf             991888999999999987597899978989999997269-9999--9988999856899999998516899988999668


Q ss_pred             --HHHHHHHHHHHH-HHHCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             --546999999998-753357998999999999989998
Q gi|254780512|r  547 --IRNLPLILESIA-EVAPHSRKTSHIVEQVRIRMAQQI  582 (692)
Q Consensus       547 --IRdlr~IlEaLa-d~a~~~kD~~~LtE~VR~aL~R~I  582 (692)
                        ..|...-||+=| ||-.+-=+|..|...+|..|+|.-
T Consensus        82 ~~~~d~v~gl~~GADDYl~KPf~~~EL~ARi~a~lRR~~  120 (229)
T COG0745          82 DDEEDRVLGLEAGADDYLTKPFSPRELLARLRALLRRNA  120 (229)
T ss_pred             CCHHHHHHHHHCCCHHHCCCCCCHHHHHHHHHHHHCCCC
T ss_conf             728889999975634233488998999999999967365


No 183
>pfam10143 PhosphMutase 2,3-bisphosphoglycerate-independent phosphoglycerate mutase. Members of this family are found in various bacterial 2,3-bisphosphoglycerate-independent phosphoglycerate mutase enzymes, which catalyse the interconversion of 2-phosphoglycerate and 3-phosphoglycerate in the reaction: [2-phospho-D-glycerate + 2,3-diphosphoglycerate = 3-phospho-D-glycerate + 2,3-diphosphoglycerate].
Probab=23.55  E-value=41  Score=12.67  Aligned_cols=15  Identities=7%  Similarity=0.191  Sum_probs=7.0

Q ss_pred             HHHHHHHHHHHHHHC
Q ss_conf             899999999999809
Q gi|254780512|r  381 LRVSKIRRKFAVQYG  395 (692)
Q Consensus       381 ~rI~~iRk~la~elG  395 (692)
                      +.-+.+-+.+..++|
T Consensus        83 eea~~L~~~l~~~~~   97 (174)
T pfam10143        83 EEAAELIEALNEELG   97 (174)
T ss_pred             HHHHHHHHHHHHHCC
T ss_conf             999999999873459


No 184
>TIGR03333 salvage_mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase. Members of this family are the methionine salvage enzyme MnxX, a member of the HAD-superfamily hydrolases, subfamily IB (see TIGR01488). Members are found in Bacillus subtilis and related species, paired with MtnW (TIGR03332). In most species that recycle methionine from methylthioadenosine, the single protein MtnC replaces the MtnW/MtnX pair. In B. subtilis, mtnX was first known as ykrX.
Probab=23.51  E-value=41  Score=12.66  Aligned_cols=28  Identities=11%  Similarity=0.019  Sum_probs=11.2

Q ss_pred             EEEEECHHHHHHHHHHHHHHCCCCCEEE
Q ss_conf             7998283354899999886448981894
Q gi|254780512|r  648 LTIVTLPEIRSYIRMILERNFPSLAVLS  675 (692)
Q Consensus       648 pVLl~s~~iRr~lr~lle~~~p~l~VLS  675 (692)
                      |+.++|...+++++.+++...+..++.|
T Consensus        88 p~~IvS~G~d~~I~~lL~~~~~~~~i~a  115 (214)
T TIGR03333        88 PFYVISGGMDFFVYPLLEGIVEKDRIYC  115 (214)
T ss_pred             CEEEECCCCHHHHHHHHHHHCCCCCEEE
T ss_conf             7899869933899999996378766797


No 185
>cd04909 ACT_PDH-BS C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH). The C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback-inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional  chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli  do not contain an ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=23.37  E-value=32  Score=13.45  Aligned_cols=23  Identities=26%  Similarity=0.335  Sum_probs=18.6

Q ss_pred             HHHHHHHHHHHHHCCCCHHHHHH
Q ss_conf             89999999999974986546999
Q gi|254780512|r  530 YSGIQAVLKLLLAEHVSIRNLPL  552 (692)
Q Consensus       530 l~~i~~VLq~LL~E~VsIRdlr~  552 (692)
                      .|.+.+|.+-|-.+++||+|+..
T Consensus        12 pG~Ia~vt~~L~~~~IsI~nI~I   34 (69)
T cd04909          12 PGVIAEVTQILGDAGISIKNIEI   34 (69)
T ss_pred             CCHHHHHHHHHHHCCCCEEEEEE
T ss_conf             98699999999987987472487


No 186
>KOG1814 consensus
Probab=23.24  E-value=42  Score=12.62  Aligned_cols=73  Identities=11%  Similarity=0.165  Sum_probs=35.7

Q ss_pred             CCCCCCCEEECCHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHH
Q ss_conf             47668830343978845888289907058899999999999987999872999999999976664899998631159989
Q gi|254780512|r  452 EPAFGMPAFAIMESFSDDLRRQGFHPIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYS  531 (692)
Q Consensus       452 eP~fgl~A~WI~~~~~~~a~~~G~tvvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~  531 (692)
                      -|.|-+...|++++++-..-..                        |+-+..+.-++.|.|..++-..+.-+-|-.+.+.
T Consensus        91 pP~f~l~s~Wmn~~q~~~lc~~------------------------el~~i~~~~q~m~~l~~~~~s~l~~i~~~~lki~  146 (445)
T KOG1814          91 PPKFELKSYWMNPDQKSALCSK------------------------ELRLIEELNQMMDFLKESTISILNLIAPFELKII  146 (445)
T ss_pred             CCCEEEEHCCCCHHHHHHCCCH------------------------HHCCCEEHHHHHHHHHHHHHHHHHHCCCCEECCC
T ss_conf             9725610101587776411521------------------------2123100999999999989999874252100551


Q ss_pred             HHHHHHHHHHHCCCCHHH
Q ss_conf             999999999974986546
Q gi|254780512|r  532 GIQAVLKLLLAEHVSIRN  549 (692)
Q Consensus       532 ~i~~VLq~LL~E~VsIRd  549 (692)
                      .+ .+.+++-+-+=++-|
T Consensus       147 ~~-~~~~~~~~~~~~~~s  163 (445)
T KOG1814         147 SQ-KEFPALIRQGESIDS  163 (445)
T ss_pred             HH-HHCCCCCCCCCCHHH
T ss_conf             55-430221123557377


No 187
>TIGR02611 TIGR02611 conserved hypothetical protein TIGR02611; InterPro: IPR013434    Proteins in this entry are putative Actinobacterial proteins of about 150 amino acids in length, with three predicted transmembrane helices and an unusual motif with consensus sequence PGPGW..
Probab=23.10  E-value=42  Score=12.60  Aligned_cols=15  Identities=13%  Similarity=0.554  Sum_probs=7.5

Q ss_pred             HHHHHHHHHHHHHHC
Q ss_conf             899999999998615
Q gi|254780512|r  289 ALLISAFFMIVLSVM  303 (692)
Q Consensus       289 aL~iaa~~l~~lglv  303 (692)
                      .+.++|-+.+.+|+|
T Consensus        32 ~~lv~G~~V~~~GiI   46 (126)
T TIGR02611        32 LVLVVGLVVLVVGII   46 (126)
T ss_pred             HHHHHHHHHHHHHHH
T ss_conf             999999999887787


No 188
>PRK09821 inner membrane permease YgbN; Provisional
Probab=22.95  E-value=42  Score=12.58  Aligned_cols=89  Identities=17%  Similarity=0.204  Sum_probs=57.5

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCHHHH
Q ss_conf             99999999999999995137704542004899999999985548888898843777763267899987514501326999
Q gi|254780512|r   45 GLASSIALSILILMVALWIEKPLEFSSFPTVLLIVTIIRLSLNIATTRAILSFGHEGYGAAGGIIAGFSSLVMSGDFVIG  124 (692)
Q Consensus        45 ~~~~ni~~s~lil~~~l~~~~pl~fs~FPslLL~~TlfRL~LniasTRlIL~~g~~g~~~AG~vI~aFG~fVvggn~vvG  124 (692)
                      ++.+=+++.++++++.-     +....|=++++.+-.+-+..-.+.+..+           ..+-+.||+-.    --+|
T Consensus         7 lli~~~~I~~li~li~k-----~KlhpFlaLli~ai~~Gl~~G~~~~~ii-----------~~i~~GfG~tl----g~ig   66 (454)
T PRK09821          7 LCIALAGVILLLLLVIK-----AKVQPFVALLLVSLLVALAAGIPAGEVG-----------KVMTAGMGGVL----GSVT   66 (454)
T ss_pred             HHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHCCCCHHHHH-----------HHHHHHHHHHH----HHHH
T ss_conf             99999999999999999-----9650999999999999998399989999-----------99998788888----9999


Q ss_pred             HHHHHHHHHHHHHHHHCCCCHHHHHHHHH
Q ss_conf             99999999999988645751466655454
Q gi|254780512|r  125 LVVFMILITINFIVITKGATRIAEVGARF  153 (692)
Q Consensus       125 ~viF~Il~ivqfiVItkGa~RvaEV~ARF  153 (692)
                      ++|++=-++=+++-.+-||+|+|+--=|.
T Consensus        67 iiI~lG~~iG~~Le~SGaa~~ia~~~l~~   95 (454)
T PRK09821         67 IIIGLGAMLGRMIEHSGGAESLANYFTRK   95 (454)
T ss_pred             HHHHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_conf             99999999999999848099999999998


No 189
>cd07039 TPP_PYR_POX Pyrimidine (PYR) binding domain of POX. Thiamine pyrophosphate (TPP family), pyrimidine (PYR) binding domain of pyruvate oxidase (POX) subfamily. The PYR domain is found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. TPP binds in the cleft formed by a PYR domain and a PP domain. The PYR domain, binds the aminopyrimidine ring of TPP, the PP domain binds the diphosphate residue. The PYR and PP domains have a common fold, but do not share strong sequence conservation. The PP domain is not included in this sub-family. Most TPP-dependent enzymes have the PYR and PP domains on the same subunit although these domains can be alternatively arranged in the primary structure. TPP-dependent enzymes are multisubunit proteins, the smallest catalytic unit being a dimer-of-active sites. Lactobacillus plantarum POX is a homotetramer (dimer-of-homodimers), having two active sites per homodimer lying between PYR and PP domains of differ
Probab=22.77  E-value=43  Score=12.56  Aligned_cols=35  Identities=11%  Similarity=0.180  Sum_probs=29.1

Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             69999999987533579989999999999899986
Q gi|254780512|r  549 NLPLILESIAEVAPHSRKTSHIVEQVRIRMAQQIC  583 (692)
Q Consensus       549 dlr~IlEaLad~a~~~kD~~~LtE~VR~aL~R~I~  583 (692)
                      |...+++.+..|+.+-.+++.+.|.+|.+++...+
T Consensus       113 d~~~~~~~~tK~~~~v~~~~~~~~~~~~A~~~A~~  147 (164)
T cd07039         113 DLLALFKDVAVYNETVTSPEQLPELLDRAIRTAIA  147 (164)
T ss_pred             CHHHHHHHHHCEEEECCCHHHHHHHHHHHHHHHCC
T ss_conf             49999899745788859999999999999998540


No 190
>PRK13952 mscL large-conductance mechanosensitive channel; Provisional
Probab=22.66  E-value=43  Score=12.54  Aligned_cols=40  Identities=23%  Similarity=0.241  Sum_probs=20.7

Q ss_pred             CCCHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHCCCCHHH
Q ss_conf             2201345301058999999999888999999973998899
Q gi|254780512|r  196 MDGASKFVRGDAIASIIITAINIVGGIVIGCFRYDMSIHH  235 (692)
Q Consensus       196 MDGA~KFVkGDAiAgiiI~~iNiigG~~iG~~q~gm~~~e  235 (692)
                      +|=|--+|=|-|-..++=.+||=+=-=.||..-.|.+|++
T Consensus        17 iDLAVgVIIG~AF~~IV~slV~diimPlIg~l~G~~dfs~   56 (143)
T PRK13952         17 MDLAVGVIIGGAFGKIVDSLVNDLIMPIIGLITGGLDFSN   56 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHH
T ss_conf             9999999999999999999999889888987328888657


No 191
>KOG3120 consensus
Probab=22.53  E-value=43  Score=12.53  Aligned_cols=30  Identities=27%  Similarity=0.277  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf             899999999999749865469999999987
Q gi|254780512|r  530 YSGIQAVLKLLLAEHVSIRNLPLILESIAE  559 (692)
Q Consensus       530 l~~i~~VLq~LL~E~VsIRdlr~IlEaLad  559 (692)
                      ..-..+|+|.|=+.||++++++.++++|-.
T Consensus        56 ne~M~rv~k~Lheqgv~~~~ik~~~r~iP~   85 (256)
T KOG3120          56 NELMDRVFKELHEQGVRIAEIKQVLRSIPI   85 (256)
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHCCCC
T ss_conf             999999999998738899999999851889


No 192
>COG0598 CorA Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]
Probab=22.38  E-value=43  Score=12.51  Aligned_cols=91  Identities=11%  Similarity=0.122  Sum_probs=42.0

Q ss_pred             CCHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf             3978845888289907058899999999999987999872999999-999976664899998631159989999999999
Q gi|254780512|r  462 IMESFSDDLRRQGFHPIDNLAVVLTHLSEVIRNNLSQLLSYKDVKN-LISRLDPEYQKLAEETCSSHISYSGIQAVLKLL  540 (692)
Q Consensus       462 I~~~~~~~a~~~G~tvvdp~~ViatHl~evir~~a~ellg~qEvq~-LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~L  540 (692)
                      .-...+.+.+...+....+..++..-+.++..+++.-+=...+-.. +=|.+..+..+         -.+.++.+.=+.|
T Consensus       119 ~~~~vr~r~~~~~~~~~~~~~l~~~lld~i~d~~~~~le~i~~~~~~ie~~l~~~~~~---------~~l~~l~~l~~~l  189 (322)
T COG0598         119 AFDRVRERLEKGTLLTRGADELLYALLDAIVDNYFPVLEQIEDELEAIEDQLLASTTN---------EELERLGELRRSL  189 (322)
T ss_pred             HHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCH---------HHHHHHHHHHHHH
T ss_conf             0899999886135556788999999999999999999999999999999999736546---------8999999999999


Q ss_pred             HHCCCCHHHHHHHHHHHHHHH
Q ss_conf             974986546999999998753
Q gi|254780512|r  541 LAEHVSIRNLPLILESIAEVA  561 (692)
Q Consensus       541 L~E~VsIRdlr~IlEaLad~a  561 (692)
                      +.=+-++.+++.++-.+....
T Consensus       190 ~~lr~~l~~~~~~l~~l~~~~  210 (322)
T COG0598         190 VYLRRALAPLRDVLLRLARRP  210 (322)
T ss_pred             HHHHHHHHHHHHHHHHHHHCC
T ss_conf             999999877999999997437


No 193
>KOG0233 consensus
Probab=22.13  E-value=38  Score=12.95  Aligned_cols=30  Identities=27%  Similarity=0.483  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCHHHHHH
Q ss_conf             999999999888999999973998899999
Q gi|254780512|r  209 ASIIITAINIVGGIVIGCFRYDMSIHHAAD  238 (692)
Q Consensus       209 AgiiI~~iNiigG~~iG~~q~gm~~~eA~~  238 (692)
                      ||++.=+.|++-|+++|+.-.+-..+||.+
T Consensus       131 aGl~vG~~nl~cglavGIigs~aalaDA~n  160 (196)
T KOG0233         131 AGLIVGLCNLVCGLAVGIIGSGAALADAAN  160 (196)
T ss_pred             HHHHHHHHHHHHHHHHHHHCHHHHHHCCCC
T ss_conf             367888999874634400050556541568


No 194
>COG0239 CrcB Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]
Probab=22.07  E-value=44  Score=12.46  Aligned_cols=39  Identities=21%  Similarity=0.398  Sum_probs=21.5

Q ss_pred             HHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             999998889999999739988999999899986457888
Q gi|254780512|r  213 ITAINIVGGIVIGCFRYDMSIHHAADVFVRLSVGDGLVS  251 (692)
Q Consensus       213 I~~iNiigG~~iG~~q~gm~~~eA~~~Yt~LTIGDGLVs  251 (692)
                      ..+||++|.+.+|.+-.--......+.+..+-+|.|...
T Consensus        38 Tl~vNv~GsFllG~~~~~~~~~~~~~~~~~~~l~tGflG   76 (126)
T COG0239          38 TLLVNVVGSFLLGFLTALFAVRLISSEDWRLLLGTGFLG   76 (126)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCC
T ss_conf             999999999999999999861478849999999988712


No 195
>KOG2714 consensus
Probab=21.77  E-value=28  Score=13.88  Aligned_cols=28  Identities=21%  Similarity=0.434  Sum_probs=17.1

Q ss_pred             HHCCCCCHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             76489998999999999986522220122
Q gi|254780512|r  169 LSSGLIEEEEAKRRRKELEEESAFFGAMD  197 (692)
Q Consensus       169 l~aG~I~~~eA~~rR~~l~~Es~fyGaMD  197 (692)
                      ||.|-++..-+ .-++.+-+||.|||=-+
T Consensus        72 LRTg~L~~~g~-~~~~llhdEA~fYGl~~   99 (465)
T KOG2714          72 LRTGDLDASGV-FPERLLHDEAMFYGLTP   99 (465)
T ss_pred             HHCCCCCCCCC-CHHHHHHHHHHHCCCHH
T ss_conf             85178887657-41555544556608378


No 196
>pfam02776 TPP_enzyme_N Thiamine pyrophosphate enzyme, N-terminal TPP binding domain.
Probab=21.56  E-value=38  Score=12.90  Aligned_cols=36  Identities=11%  Similarity=0.204  Sum_probs=23.2

Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             699999999875335799899999999998999865
Q gi|254780512|r  549 NLPLILESIAEVAPHSRKTSHIVEQVRIRMAQQICG  584 (692)
Q Consensus       549 dlr~IlEaLad~a~~~kD~~~LtE~VR~aL~R~I~~  584 (692)
                      |...+++.+..|+.+-.+++.+.+.+|.+++.....
T Consensus       115 d~~~~~~~~tk~~~~v~~~~~~~~~i~~A~~~a~~~  150 (172)
T pfam02776       115 DQLALFRPVTKWAERVTSPDEIPEALDRAFRTALSG  150 (172)
T ss_pred             HHHCCCCCEEEEEEECCCHHHHHHHHHHHHHHHCCC
T ss_conf             554145660668888899999999999999998329


No 197
>TIGR00423 TIGR00423 conserved hypothetical protein TIGR00423; InterPro: IPR005244    This entry describes a family of conserved hypothetical proteins with no known function. .
Probab=21.46  E-value=30  Score=13.75  Aligned_cols=46  Identities=15%  Similarity=0.258  Sum_probs=26.5

Q ss_pred             HHHHHH---HHH-C-C-CCEEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             899986---520-7-7-884899988878999999983037778846456698899999999999
Q gi|254780512|r  578 MAQQIC---GDL-A-P-TGILNILKLGNHWDMIFYQAIQRDSKGECVDFNVEPRAVEMFSENATN  636 (692)
Q Consensus       578 L~R~I~---~~~-~-~-~g~L~vi~L~p~lE~~l~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~  636 (692)
                      ||..++   .++ + | +|+|-        |    ++|. .+.|+....-|+++.+..++..+..
T Consensus       264 lG~~~a~vAL~~GANDlGGTl~--------E----E~i~-~aAGA~~~~~~~~E~l~~~ik~~G~  315 (331)
T TIGR00423       264 LGLKLAQVALEFGANDLGGTLM--------E----ENIS-KAAGAKTGVGLEVEELIELIKDAGR  315 (331)
T ss_pred             HHHHHHHHHHHHCCCCCCCEEE--------E----EECC-CCCCCCCCCCCCHHHHHHHHHHHCC
T ss_conf             5478999999817743687578--------6----5321-1027888886788999999998488


No 198
>pfam07427 consensus
Probab=21.42  E-value=45  Score=12.37  Aligned_cols=23  Identities=13%  Similarity=0.148  Sum_probs=18.3

Q ss_pred             CCEEEEEECCEEEEEEEECCCCE
Q ss_conf             87169997482453488417834
Q gi|254780512|r  411 EKGYTIRVYGTTVAISELRVGEV  433 (692)
Q Consensus       411 ~~~Y~I~I~Gv~va~gei~~~~l  433 (692)
                      .-.|.|+++|+++++|+..-+..
T Consensus        36 ~v~y~v~mNgv~ig~G~~~~~~~   58 (126)
T pfam07427        36 GLKADIYMNGVKIGEGRILKGAT   58 (126)
T ss_pred             CEEEEEEECCEEEEEEEECCCEE
T ss_conf             42899999999986468602189


No 199
>KOG2716 consensus
Probab=21.34  E-value=44  Score=12.43  Aligned_cols=23  Identities=9%  Similarity=0.122  Sum_probs=10.0

Q ss_pred             HHCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             53357998999999999989998
Q gi|254780512|r  560 VAPHSRKTSHIVEQVRIRMAQQI  582 (692)
Q Consensus       560 ~a~~~kD~~~LtE~VR~aL~R~I  582 (692)
                      +.+..-|.....|.-+-++--+.
T Consensus       143 ~~p~~f~~~~~~e~~~d~l~i~f  165 (230)
T KOG2716         143 YPPNGFDFQEFNEEYSDKLDNYF  165 (230)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHH
T ss_conf             07898738898898778889787


No 200
>pfam01749 IBB Importin beta binding domain. This family consists of the importin alpha (karyopherin alpha), importin beta (karyopherin beta) binding domain. The domain mediates formation of the importin alpha beta complex; required for classical NLS import of proteins into the nucleus, through the nuclear pore complex and across the nuclear envelope. Also in the alignment is the NLS of importin alpha which overlaps with the IBB domain.
Probab=21.32  E-value=45  Score=12.36  Aligned_cols=10  Identities=50%  Similarity=0.906  Sum_probs=3.5

Q ss_pred             CHHHHHHHHH
Q ss_conf             9899999999
Q gi|254780512|r  175 EEEEAKRRRK  184 (692)
Q Consensus       175 ~~~eA~~rR~  184 (692)
                      |.+|.|+||.
T Consensus        19 d~~e~RrrR~   28 (97)
T pfam01749        19 DAEEMRRRRE   28 (97)
T ss_pred             CHHHHHHHHH
T ss_conf             8799987422


No 201
>COG5212 PDE1 Low-affinity cAMP phosphodiesterase [Signal transduction mechanisms]
Probab=21.10  E-value=28  Score=13.88  Aligned_cols=178  Identities=14%  Similarity=0.252  Sum_probs=100.9

Q ss_pred             CHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCEEEEEECCEEEEEEEECCCCEEEEC----CCCCCCCCCCCEEECC
Q ss_conf             268899999999999809878832445437789871699974824534884178341330----5888767887410147
Q gi|254780512|r  378 DLFLRVSKIRRKFAVQYGFIVPEIKVTTDISLPEKGYTIRVYGTTVAISELRVGEVLVIL----GSGQKPTFPGDEVKEP  453 (692)
Q Consensus       378 ~L~~rI~~iRk~la~elG~~iP~IrIrDn~~L~~~~Y~I~I~Gv~va~gei~~~~lLai~----~~~~~~~l~G~~~~eP  453 (692)
                      .|.+-|-.+||..+.++=  -|...  |   -..+.|+..+         ++|.+.+-..    ++...+.-.|..+-.|
T Consensus       146 gl~~tIDvL~khvFN~lv--WP~lt--~---~gs~~~~~qv---------v~P~~~~slt~t~l~~~pfpv~Hg~ktG~p  209 (356)
T COG5212         146 GLADTIDVLRKHVFNWLV--WPNLT--D---SGSGTYRMQV---------VRPAQSLSLTLTRLTGEPFPVSHGKKTGSP  209 (356)
T ss_pred             ECHHHHHHHHHHHHCCCC--CCCCC--C---CCCCEEEEEE---------ECHHHEEEEEEEEECCEEEECCCCCCCCCC
T ss_conf             240279999987510001--57744--1---4585488898---------473471055334402225641378666884


Q ss_pred             CCCCCEEECCHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHCCCCHHH
Q ss_conf             668830343978845888289907058899999999999987999872999999999976664899998-6311599899
Q gi|254780512|r  454 AFGMPAFAIMESFSDDLRRQGFHPIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEE-TCSSHISYSG  532 (692)
Q Consensus       454 ~fgl~A~WI~~~~~~~a~~~G~tvvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~E-lvp~~v~l~~  532 (692)
                      .+.  ...+=.+.+.+--..-+.-|+|..|=..-+.+.+-|..+|.+..|..+.+|  .+-++|.-+++ .+-..+++--
T Consensus       210 ~yS--s~~lfr~nkS~~~f~~fGDvepD~vese~ll~~~Wr~~ae~I~q~~Lkgil--iEcS~P~~~~~~~LfGH~~P~~  285 (356)
T COG5212         210 SYS--SMLLFRSNKSNEFFAYFGDVEPDDVESEKLLDTVWRKLAEKITQQQLKGIL--IECSYPNDVADNKLFGHMTPTW  285 (356)
T ss_pred             CCC--EEEEEECCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCEE--EEECCCCCCCHHHHHCCCCHHH
T ss_conf             421--489985378762489946878203210177999999998764687627169--9943899877567650568499


Q ss_pred             H---HHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHH-HHHHHHH
Q ss_conf             9---99999999749865469999999987533579989-9999999
Q gi|254780512|r  533 I---QAVLKLLLAEHVSIRNLPLILESIAEVAPHSRKTS-HIVEQVR  575 (692)
Q Consensus       533 i---~~VLq~LL~E~VsIRdlr~IlEaLad~a~~~kD~~-~LtE~VR  575 (692)
                      +   ...|+.|..++++.+-+..++.-+--+-.+..||. .+.|..|
T Consensus       286 L~nEL~~L~~l~~s~~~l~gL~vviTHiKs~p~q~~~pr~~ILeeL~  332 (356)
T COG5212         286 LLNELKKLEQLSGSGQPLKGLPVVITHIKSSPQQGQDPRKLILEELQ  332 (356)
T ss_pred             HHHHHHHHHHHHCCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHH
T ss_conf             99999999988625877789607888325860025788899999999


No 202
>cd06868 PX_HS1BP3 The phosphoinositide binding Phox Homology domain of HS1BP3. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions such as cell signaling, vesicular trafficking, protein sorting, and lipid modification, among others. Hematopoietic lineage cell-specific protein-1 (HS1) binding protein 3 (HS1BP3) associates with HS1 proteins through their SH3 domains, suggesting a role in mediating signaling. It has been reported that HS1BP3 might affect the IL-2 signaling pathway in hematopoietic lineage cells. Mutations in HS1BP3 may also be associated with familial Parkinson disease and essential tremor. HS1BP3 contains a PX domain, a leucine zipper, motifs similar to immunoreceptor tyrosine-based inhibitory motif and proline-rich regions. The PX domain interacts with PIs and plays a role in targeting proteins to PI-enriched membranes.
Probab=21.10  E-value=46  Score=12.32  Aligned_cols=18  Identities=17%  Similarity=0.385  Sum_probs=12.9

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q ss_conf             999999999766648999
Q gi|254780512|r  503 KDVKNLISRLDPEYQKLA  520 (692)
Q Consensus       503 qEvq~LLd~L~~~~P~LV  520 (692)
                      .|-..|-+.|.++||..+
T Consensus        54 sDF~~L~~~L~~~~p~~i   71 (120)
T cd06868          54 SEFEELYKKLSEKYPGTI   71 (120)
T ss_pred             HHHHHHHHHHHHHCCCCC
T ss_conf             999999999998788983


No 203
>TIGR02088 LEU3_arch isopropylmalate/isohomocitrate dehydrogenases; InterPro: IPR011828    This entry represents a group of archaeal decarboxylating dehydrogenases which include the leucine biosynthesis enzyme 3-isopropylmalate dehydrogenase (LeuB, LEU3) and the methanogenic cofactor CoB biosynthesis enzyme isohomocitrate dehydrogenase (AksF). Both of these have been characterised in Methanococcus janaschii . Sequences from the non-methanogenic archaea are also represented in this entry, presumably LeuB, although phylogenetic trees cannot establish which gene is which in the methanogens.; GO: 0003862 3-isopropylmalate dehydrogenase activity, 0051287 NAD binding, 0009098 leucine biosynthetic process.
Probab=21.03  E-value=39  Score=12.82  Aligned_cols=21  Identities=10%  Similarity=-0.012  Sum_probs=10.0

Q ss_pred             HHHHHHHHHHHHHCC--CCHHHH
Q ss_conf             899999999999749--865469
Q gi|254780512|r  530 YSGIQAVLKLLLAEH--VSIRNL  550 (692)
Q Consensus       530 l~~i~~VLq~LL~E~--VsIRdl  550 (692)
                      =+.+.+|+|.-.+..  |-.+|+
T Consensus       193 dgLF~~V~rEi~~~~g~ve~~d~  215 (350)
T TIGR02088       193 DGLFLEVCREIAKSYGEVEYEDY  215 (350)
T ss_pred             CCHHHHHHHHHHCCCCCEEHHHH
T ss_conf             63159999998517996413228


No 204
>PRK09468 ompR osmolarity response regulator; Provisional
Probab=21.01  E-value=39  Score=12.82  Aligned_cols=105  Identities=11%  Similarity=0.073  Sum_probs=50.6

Q ss_pred             EECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHC--CCCH------H
Q ss_conf             7058899999999999987999872999999999976664899998631159989999999999974--9865------4
Q gi|254780512|r  477 PIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAE--HVSI------R  548 (692)
Q Consensus       477 vvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E--~VsI------R  548 (692)
                      +||...-+..-+.+.++++-++-....+.+..++.++...|.||  ++.-.+|-..=.++++.+=+.  .+||      .
T Consensus        10 iVEDd~~~~~~l~~~L~~~g~~v~~a~~~~~a~~~~~~~~~Dlv--ilDi~lp~~dG~~l~~~iR~~~~~~pII~LTa~~   87 (239)
T PRK09468         10 VVDDDMRLRALLERYLTEQGFQVRSAANAEQMDRLLTRESFHLM--VLDLMLPGEDGLSICRRLRSQNNPTPIIMLTAKG   87 (239)
T ss_pred             EEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCEE--EECCCCCCCCCCHHHHHHHHHCCCCCEEEEECCC
T ss_conf             99099999999999999889999998999999999975899899--9878998888734677787505787789994667


Q ss_pred             HHHHHHHHH----HHHHCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             699999999----87533579989999999999899986
Q gi|254780512|r  549 NLPLILESI----AEVAPHSRKTSHIVEQVRIRMAQQIC  583 (692)
Q Consensus       549 dlr~IlEaL----ad~a~~~kD~~~LtE~VR~aL~R~I~  583 (692)
                      +.....+++    -||-.+-=++..|...||.-|+|+-.
T Consensus        88 ~~~d~i~~l~~GADDYi~KPf~~~EL~aRI~allrR~~~  126 (239)
T PRK09468         88 EEVDRIVGLEMGADDYLPKPFNPRELLARIRAVLRRQAP  126 (239)
T ss_pred             CHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHCCC
T ss_conf             878999999769868855899989999999999863234


No 205
>PRK08733 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=20.76  E-value=47  Score=12.27  Aligned_cols=43  Identities=14%  Similarity=0.101  Sum_probs=32.0

Q ss_pred             HCCCHHH--HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             6186489--999999999861578647899999999999999886443
Q gi|254780512|r  284 SHYPRAL--LISAFFMIVLSVMPNLPAFPFIMLGGFFACAGFYVPYKN  329 (692)
Q Consensus       284 ~~~p~aL--~iaa~~l~~lglvPGmP~~~Fl~la~~l~~~a~~~~r~~  329 (692)
                      +-+||=|  |+.-+++.+++.   +|.-....+|.++|.+.|.+.++.
T Consensus        13 ~l~Pkyw~~wl~~~~~~l~s~---LP~~~~~~lg~~lG~ll~~~~~~r   57 (306)
T PRK08733         13 LRNPKHWPMYLGLAVMVLAGR---LPWTLQRALGRGVGWVAMRLAGTR   57 (306)
T ss_pred             HCCCCHHHHHHHHHHHHHHHH---CCHHHHHHHHHHHHHHHHHHCCHH
T ss_conf             129646999999999999998---989999999999999999864358


No 206
>pfam06942 GlpM GlpM protein. This family consists of several bacterial GlpM membrane proteins. GlpM is a hydrophobic protein containing 109 amino acids. It is thought that GlpM may play a role in alginate biosynthesis in Pseudomonas aeruginosa.
Probab=20.71  E-value=47  Score=12.27  Aligned_cols=25  Identities=24%  Similarity=0.511  Sum_probs=17.3

Q ss_pred             HHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHH
Q ss_conf             98761864899999999998615786478999
Q gi|254780512|r  281 EQLSHYPRALLISAFFMIVLSVMPNLPAFPFI  312 (692)
Q Consensus       281 ~Ql~~~p~aL~iaa~~l~~lglvPGmP~~~Fl  312 (692)
                      =++++.+|..+++|       ++|=||++..+
T Consensus        13 IalLsksk~yYIAG-------LvPLFPTFALI   37 (107)
T pfam06942        13 IALLSKTKNFYIAG-------LVPLFPTFALI   37 (107)
T ss_pred             HHHHHHHHHHHHHH-------HCCCCCHHHHH
T ss_conf             99997001578765-------21113148898


No 207
>COG4769 Predicted membrane protein [Function unknown]
Probab=20.53  E-value=47  Score=12.24  Aligned_cols=92  Identities=18%  Similarity=0.242  Sum_probs=61.8

Q ss_pred             HHHHHCCCCHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHEEEECCC-------C-C-CHHHHHHHHHHCCCHHHH
Q ss_conf             99997399889999998999864578885---1589998733102662377-------4-3-058999998761864899
Q gi|254780512|r  224 IGCFRYDMSIHHAADVFVRLSVGDGLVSQ---VPALIISLSAAFLVSRTTS-------K-G-STNTAIVEQLSHYPRALL  291 (692)
Q Consensus       224 iG~~q~gm~~~eA~~~Yt~LTIGDGLVsQ---IPaLliS~aaGiiVTRvss-------~-~-~lg~~i~~Ql~~~p~aL~  291 (692)
                      +=+.-.-.++.+|+++-.+=.|+-.|++-   .|..+.|.|+|++-|=.-.       + . =+|-...+-+++|---|.
T Consensus        45 vlIa~~~l~~~~~~~~i~lr~il~AL~sGtlfs~~Fl~sfaG~i~S~L~m~~l~~f~~k~~S~lgiS~mGaF~hNl~QLi  124 (181)
T COG4769          45 VLIAFETLNFKDALQTILLRVILQALFSGTLFSPVFLYSFAGAILSTLFMYFLYQFGPKYLSLLGISVMGAFTHNLGQLI  124 (181)
T ss_pred             HHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEHHHHHHHHHHHHHHH
T ss_conf             87839864687999999999999999748622189999999999999999999976974274541116889998699999


Q ss_pred             HHHHHHHHHHHCCCCHHHHHHHHH
Q ss_conf             999999998615786478999999
Q gi|254780512|r  292 ISAFFMIVLSVMPNLPAFPFIMLG  315 (692)
Q Consensus       292 iaa~~l~~lglvPGmP~~~Fl~la  315 (692)
                      +++.+.+.-+..--+|.+.|+.+=
T Consensus       125 vas~Lv~~~~v~l~lPll~flGiv  148 (181)
T COG4769         125 VASFLVFTTSVMLYLPLLIFLGIV  148 (181)
T ss_pred             HHHHHHHCCHHHHHHHHHHHHHHH
T ss_conf             999998130699999999999999


No 208
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=20.37  E-value=47  Score=12.22  Aligned_cols=260  Identities=15%  Similarity=0.187  Sum_probs=117.6

Q ss_pred             HHHHHHHHHHCCCCCCEEEEECCCCCCCEEEEEECCEEEEEEEECCCCEEEECCCCCCCC-------CCCCEEECCCCCC
Q ss_conf             999999998098788324454377898716999748245348841783413305888767-------8874101476688
Q gi|254780512|r  385 KIRRKFAVQYGFIVPEIKVTTDISLPEKGYTIRVYGTTVAISELRVGEVLVILGSGQKPT-------FPGDEVKEPAFGM  457 (692)
Q Consensus       385 ~iRk~la~elG~~iP~IrIrDn~~L~~~~Y~I~I~Gv~va~gei~~~~lLai~~~~~~~~-------l~G~~~~eP~fgl  457 (692)
                      .-||+--.|+||.+|+-  .||--|.-.+|.=+.+.+...+.+ +-+.-+...++.....       ++-+-..-|+-|.
T Consensus       355 rsRK~~LVeyGFRLPSA--lDNRPL~feEf~~~~~q~i~VSAT-Pg~~E~e~s~~~vveQiIRPTGLlDP~ievRp~~~Q  431 (663)
T COG0556         355 RSRKQTLVEYGFRLPSA--LDNRPLKFEEFEAKIPQTIYVSAT-PGDYELEQSGGNVVEQIIRPTGLLDPEIEVRPTKGQ  431 (663)
T ss_pred             HHHHHHHHHHCCCCCCC--CCCCCCCHHHHHHHCCCEEEEECC-CCHHHHHHCCCCEEEEEECCCCCCCCCEEEECCCCC
T ss_conf             78888898715768611--137997779999745977999789-974877745584268872477888985265148774


Q ss_pred             CEEECCHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHCCCCHHHHH
Q ss_conf             30343978845888289907058899999999999987999872999999---999976664899998631159989999
Q gi|254780512|r  458 PAFAIMESFSDDLRRQGFHPIDNLAVVLTHLSEVIRNNLSQLLSYKDVKN---LISRLDPEYQKLAEETCSSHISYSGIQ  534 (692)
Q Consensus       458 ~A~WI~~~~~~~a~~~G~tvvdp~~ViatHl~evir~~a~ellg~qEvq~---LLd~L~~~~P~LV~Elvp~~v~l~~i~  534 (692)
                      ---.+. +-+...+...-+.|   ++++-.+.|-+..+..|+ |.. ++.   =+|.+++.  +++.++     -+|.+ 
T Consensus       432 vdDL~~-EI~~r~~~~eRvLV---TtLTKkmAEdLT~Yl~e~-gik-v~YlHSdidTlER~--eIirdL-----R~G~~-  497 (663)
T COG0556         432 VDDLLS-EIRKRVAKNERVLV---TTLTKKMAEDLTEYLKEL-GIK-VRYLHSDIDTLERV--EIIRDL-----RLGEF-  497 (663)
T ss_pred             HHHHHH-HHHHHHHCCCEEEE---EEEHHHHHHHHHHHHHHC-CCE-EEEEECCCHHHHHH--HHHHHH-----HCCCC-
T ss_conf             789999-99999964972999---843688899999999866-964-78642440389999--999997-----57787-


Q ss_pred             HHH--HHHHHCCCCH-----------------HHHHHHHHHHHHHHCCCCC-----HHHHHHHHHHHH-----HHHHHHH
Q ss_conf             999--9999749865-----------------4699999999875335799-----899999999998-----9998652
Q gi|254780512|r  535 AVL--KLLLAEHVSI-----------------RNLPLILESIAEVAPHSRK-----TSHIVEQVRIRM-----AQQICGD  585 (692)
Q Consensus       535 ~VL--q~LL~E~VsI-----------------Rdlr~IlEaLad~a~~~kD-----~~~LtE~VR~aL-----~R~I~~~  585 (692)
                      +||  =|||+||.-|                 |+-+....++.-.|.....     .+..|+..+.|+     +|+|-..
T Consensus       498 DvLVGINLLREGLDiPEVsLVAIlDADKeGFLRse~SLIQtIGRAARN~~GkvIlYAD~iT~sM~~Ai~ET~RRR~iQ~~  577 (663)
T COG0556         498 DVLVGINLLREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARNVNGKVILYADKITDSMQKAIDETERRREIQMA  577 (663)
T ss_pred             CEEEEEHHHHCCCCCCCEEEEEEEECCCCCCCCCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             48985013313478864557988606854443453259999878863579739997101149999999988889999999


Q ss_pred             HCC-CCEEEEEEECHHHHHHHHHHHHC-C--CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEECHHHHHHHH
Q ss_conf             077-88489998887899999998303-7--7788464566988999999999999999995699879982833548999
Q gi|254780512|r  586 LAP-TGILNILKLGNHWDMIFYQAIQR-D--SKGECVDFNVEPRAVEMFSENATNSIRQYIDKGIPLTIVTLPEIRSYIR  661 (692)
Q Consensus       586 ~~~-~g~L~vi~L~p~lE~~l~~~i~~-t--~~G~~~~l~l~P~~~~~l~~~i~~~~~~~~~~g~~pVLl~s~~iRr~lr  661 (692)
                      |.. +|..| -++--.+.+.+...... .  .......-.++++..++++..+...+.++...-.   .=-+..+|--+.
T Consensus       578 yN~~hgItP-~ti~K~i~d~l~~~~~~~~~~~~~~~~~~~~~~~e~~~~I~~Le~~M~~aA~~l~---FE~Aa~lRD~i~  653 (663)
T COG0556         578 YNEEHGITP-QTIKKKIRDILDGEYEEDEYKAKIEKKASKMSKKELEKLIKKLEKEMKEAAKNLE---FEEAARLRDEIK  653 (663)
T ss_pred             HHHHCCCCC-CCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCC---HHHHHHHHHHHH
T ss_conf             999669997-1220115666420110123332012222348989999999999999999998478---888999999999


Q ss_pred             HHHH
Q ss_conf             9988
Q gi|254780512|r  662 MILE  665 (692)
Q Consensus       662 ~lle  665 (692)
                      ++=+
T Consensus       654 ~L~~  657 (663)
T COG0556         654 ELKE  657 (663)
T ss_pred             HHHH
T ss_conf             9998


No 209
>PHA01633 putative glycosyl transferase group 1
Probab=20.25  E-value=28  Score=13.95  Aligned_cols=22  Identities=23%  Similarity=0.205  Sum_probs=13.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHCC
Q ss_conf             2662377430589999987618
Q gi|254780512|r  265 LVSRTTSKGSTNTAIVEQLSHY  286 (692)
Q Consensus       265 iVTRvss~~~lg~~i~~Ql~~~  286 (692)
                      +.-.-||-.|..++|.+-+-.+
T Consensus         6 ltmnyssi~nvaediaevlr~n   27 (335)
T PHA01633          6 LTMNYSSISNVSEDIAEVLREN   27 (335)
T ss_pred             EEECHHHHHHHHHHHHHHHHHC
T ss_conf             9840055541788999999728


No 210
>TIGR00631 uvrb excinuclease ABC, B subunit; InterPro: IPR004807 All proteins in this family for which functions are known are DNA helicases that function in the nucleotide excision repair and are endonucleases that make the 3' incision next to DNA damage. They are part of a pathway requiring UvrA, UvrB, UvrC, and UvrD homologs.; GO: 0009381 excinuclease ABC activity, 0006289 nucleotide-excision repair, 0005737 cytoplasm, 0009380 excinuclease repair complex.
Probab=20.22  E-value=27  Score=14.09  Aligned_cols=238  Identities=13%  Similarity=0.213  Sum_probs=118.2

Q ss_pred             HHHHHHHHHHCCCCCCEEEEECCCCCCCEEEEEECCEEEEEEEECCCCEEEECCC-CCCCCCCCCEEECCCCCC--CEEE
Q ss_conf             9999999980987883244543778987169997482453488417834133058-887678874101476688--3034
Q gi|254780512|r  385 KIRRKFAVQYGFIVPEIKVTTDISLPEKGYTIRVYGTTVAISELRVGEVLVILGS-GQKPTFPGDEVKEPAFGM--PAFA  461 (692)
Q Consensus       385 ~iRk~la~elG~~iP~IrIrDn~~L~~~~Y~I~I~Gv~va~gei~~~~lLai~~~-~~~~~l~G~~~~eP~fgl--~A~W  461 (692)
                      .-||+--.||||.+|+=  .||-=|+-.|+.=+++.+...+.+  ||.+=.=.++ .+.+.+     .=|+ |+  |-+-
T Consensus       356 ~SRK~~LVeYGFRLPSA--lDNRPLkfeEF~~~~~Q~vyVSAT--PG~~E~e~S~~~vvEQi-----iRPT-GLlDP~i~  425 (667)
T TIGR00631       356 RSRKQTLVEYGFRLPSA--LDNRPLKFEEFEERINQVVYVSAT--PGDYELEQSGGNVVEQI-----IRPT-GLLDPEIE  425 (667)
T ss_pred             HHHHHHHHHCCCCCCHH--CCCCCCCHHHHHHHCCCEEEEECC--CCHHHHHHHCCCEEEEE-----ECCC-CCCCCEEE
T ss_conf             67654332027753001--358789879999855988999638--85899973269158998-----7377-86488368


Q ss_pred             CCH----------HHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             397----------88458882899070588999999999999879998729--999999999766648999986311599
Q gi|254780512|r  462 IME----------SFSDDLRRQGFHPIDNLAVVLTHLSEVIRNNLSQLLSY--KDVKNLISRLDPEYQKLAEETCSSHIS  529 (692)
Q Consensus       462 I~~----------~~~~~a~~~G~tvvdp~~ViatHl~evir~~a~ellg~--qEvq~LLd~L~~~~P~LV~Elvp~~v~  529 (692)
                      |-|          +-+..++...=+.|.   .++-.|.|=|..+..|+ |+  .=...=+|.+++-.  ++.+|  |.=.
T Consensus       426 VRP~~gQvdDL~~EI~~R~~~~ERvLVT---TLTKkMAEdLTdYl~E~-Gikv~YLHSeIdt~ER~e--iirdL--R~G~  497 (667)
T TIGR00631       426 VRPTDGQVDDLLSEIRQRVARNERVLVT---TLTKKMAEDLTDYLKEL-GIKVRYLHSEIDTLERVE--IIRDL--RLGE  497 (667)
T ss_pred             EECCCCHHHHHHHHHHHHHHCCCCEEEE---EHHHHHHHHHHHHHHCC-CCEEEEECCHHHHHHHHH--HHHHH--CCCC
T ss_conf             8358515888899999999728948998---20167788999997058-837987145578999999--99984--4788


Q ss_pred             HHHHHHHHHHHHHCCCCH-----------------HHHHHHHHHHHHHHCCCCCH-----HHHHHHHHHHHH-----HHH
Q ss_conf             899999999999749865-----------------46999999998753357998-----999999999989-----998
Q gi|254780512|r  530 YSGIQAVLKLLLAEHVSI-----------------RNLPLILESIAEVAPHSRKT-----SHIVEQVRIRMA-----QQI  582 (692)
Q Consensus       530 l~~i~~VLq~LL~E~VsI-----------------Rdlr~IlEaLad~a~~~kD~-----~~LtE~VR~aL~-----R~I  582 (692)
                      .--+.-  =||||||.=|                 |+-|....||.-.|...+--     +..|+..+.|+.     |.|
T Consensus       498 fDVLVG--INLLREGLDlPEVSLVAILDADKEGFLRSerSLIQTIGRAARN~~G~VilYAD~iT~sM~~AI~ET~RRR~~  575 (667)
T TIGR00631       498 FDVLVG--INLLREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARNVNGKVILYADKITDSMQKAIEETERRRKI  575 (667)
T ss_pred             CEEEEE--CCHHHCCCCCHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHHHHHH
T ss_conf             408860--002002465114889976327888998663027889888752579659997287007899999987888999


Q ss_pred             HHHHCC-CCEEEEEEECHHHHHHHHHHHHC------CCCCC-------CCCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             652077-88489998887899999998303------77788-------464566988999999999999999995
Q gi|254780512|r  583 CGDLAP-TGILNILKLGNHWDMIFYQAIQR------DSKGE-------CVDFNVEPRAVEMFSENATNSIRQYID  643 (692)
Q Consensus       583 ~~~~~~-~g~L~vi~L~p~lE~~l~~~i~~------t~~G~-------~~~l~l~P~~~~~l~~~i~~~~~~~~~  643 (692)
                      =..|.. +|.-| =++.-++++.+......      ..+.+       ...-.+.++..+++++++...+.++..
T Consensus       576 Q~~YNe~HgItP-~ti~K~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~I~~Le~~M~~aA~  649 (667)
T TIGR00631       576 QIAYNEEHGITP-QTIRKKIKDILDIELKEKEDAAKKKKKGKVAEEPAEDASDLSEKELKKLIKQLEKEMKQAAR  649 (667)
T ss_pred             HHHHHHHCCCCC-CCCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHCCHHHCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             999997538978-85405688877777644455555320231122210313208987999999999999999997


No 211
>PRK10429 melibiose:sodium symporter; Provisional
Probab=20.19  E-value=48  Score=12.19  Aligned_cols=37  Identities=19%  Similarity=0.298  Sum_probs=23.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHH
Q ss_conf             7299999999997666489999863115998999999
Q gi|254780512|r  500 LSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAV  536 (692)
Q Consensus       500 lg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~V  536 (692)
                      |+++..+++.++|++++.+...|-+.--+|++.+.+|
T Consensus       435 L~~~~~~eI~~~L~~rr~~~~~~~~~~~~~~~~~~~~  471 (473)
T PRK10429        435 LNGDMLRKIQIHLLDKYRKVPPEPVHPDIPVGAVSDV  471 (473)
T ss_pred             CCHHHHHHHHHHHHHHHHHCCCCCCCCCCCEEEECCC
T ss_conf             8899999999999999850899999999874410346


No 212
>COG2322 Predicted membrane protein [Function unknown]
Probab=20.17  E-value=48  Score=12.19  Aligned_cols=17  Identities=29%  Similarity=0.290  Sum_probs=6.6

Q ss_pred             HHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999886
Q gi|254780512|r  310 PFIMLGGFFACAGFYVP  326 (692)
Q Consensus       310 ~Fl~la~~l~~~a~~~~  326 (692)
                      +|..++..+..+||+.-
T Consensus        51 i~~~~s~~~llag~~~I   67 (177)
T COG2322          51 IFNSLSFIFLLAGWRLI   67 (177)
T ss_pred             HHHHHHHHHHHHHHHHH
T ss_conf             99999999999999999


No 213
>TIGR01980 sufB FeS assembly protein SufB; InterPro: IPR010231   Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron. These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] . FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems.   The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins , . It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly .   The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA . SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA , acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets.   In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins . Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen .   This entry represents SufB, which is part of the SUF system and forms a complex with SufBCD.; GO: 0005515 protein binding, 0016226 iron-sulfur cluster assembly.
Probab=20.07  E-value=48  Score=12.17  Aligned_cols=43  Identities=23%  Similarity=0.274  Sum_probs=29.0

Q ss_pred             EECCHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC-CCHH
Q ss_conf             34397884588828990705889999999999998799987299999999997666489999863115-9989
Q gi|254780512|r  460 FAIMESFSDDLRRQGFHPIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSH-ISYS  531 (692)
Q Consensus       460 ~WI~~~~~~~a~~~G~tvvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~-v~l~  531 (692)
                      --|-...|++++..|.-..|-.+.|                             ++||+||||=.-++ +|+.
T Consensus       131 EviY~~~Ke~L~~~GVIF~d~d~Al-----------------------------~~YPdLVKeYF~~v~VPp~  174 (469)
T TIGR01980       131 EVIYHNIKEDLEEKGVIFCDMDTAL-----------------------------KEYPDLVKEYFGKVCVPPS  174 (469)
T ss_pred             EEEECCCHHHHHHCCEEECCHHHHH-----------------------------HHCHHHHHHHCCCCCCCCC
T ss_conf             4462220467562987863859986-----------------------------5172567866270025876


No 214
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=20.04  E-value=48  Score=12.17  Aligned_cols=31  Identities=19%  Similarity=0.453  Sum_probs=11.8

Q ss_pred             EEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCHHHHH
Q ss_conf             8999888789999999830377788464566988999
Q gi|254780512|r  592 LNILKLGNHWDMIFYQAIQRDSKGECVDFNVEPRAVE  628 (692)
Q Consensus       592 L~vi~L~p~lE~~l~~~i~~t~~G~~~~l~l~P~~~~  628 (692)
                      +..+-|+.+.|. +.+.+.+ -.|.|    |.|++++
T Consensus       100 v~fv~L~g~~~~-i~~Rl~~-R~gHF----Mp~~LL~  130 (176)
T PRK09825        100 VHFLWLDGDYET-ILARMQR-RAGHF----MPPDLLQ  130 (176)
T ss_pred             EEEEEEECCHHH-HHHHHHH-CCCCC----CCHHHHH
T ss_conf             799997189999-9999974-60379----9979999


Done!