Query         gi|254780589|ref|YP_003065002.1| hypothetical protein CLIBASIA_02380 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 239
No_of_seqs    189 out of 410
Neff          4.2 
Searched_HMMs 39220
Date          Sun May 29 21:38:18 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780589.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 COG3034 Uncharacterized protei 100.0       0       0  509.7  15.9  235    1-237     1-236 (298)
  2 pfam03734 YkuD L,D-transpeptid  99.6 6.4E-15 1.6E-19  112.4   8.9  103   52-168     2-115 (122)
  3 PRK06132 hypothetical protein;  98.6 9.3E-07 2.4E-11   62.1  10.5   99   46-169    53-161 (365)
  4 PRK10260 hypothetical protein;  98.6 4.9E-07 1.2E-11   63.8   8.4  101   54-169   101-227 (306)
  5 PRK10190 hypothetical protein;  98.5 5.3E-07 1.3E-11   63.6   8.2  101   54-169    98-224 (310)
  6 COG3786 Uncharacterized protei  98.4 2.1E-06 5.4E-11   59.9   9.2  105   65-169    58-209 (217)
  7 COG1376 ErfK Uncharacterized p  97.8 0.00012 3.1E-09   49.0   7.4  108   56-169    95-222 (232)
  8 PRK12472 hypothetical protein;  97.7 0.00037 9.4E-09   46.1   8.5  103   47-169    52-159 (512)
  9 pfam10908 DUF2778 Protein of u  93.2    0.18 4.6E-06   29.5   4.8   81   92-181    19-118 (121)
 10 TIGR03352 VI_chp_3 type VI sec  87.1    0.29 7.5E-06   28.2   1.4   53    4-57      2-54  (146)
 11 PRK10594 hypothetical protein;  86.4     2.3   6E-05   22.6   5.7  120   52-186   375-577 (615)
 12 PRK12696 flgH flagellar basal   85.2    0.79   2E-05   25.5   2.8   23    1-24      1-23  (238)
 13 TIGR02522 pilus_cpaD pilus (Ca  83.1     2.7   7E-05   22.2   4.8   49    7-69      2-51  (211)
 14 COG2989 Uncharacterized protei  82.7     2.3 5.9E-05   22.6   4.3   48  138-186   449-523 (561)
 15 PRK09967 putative outer membra  82.6     2.2 5.6E-05   22.8   4.2  127    1-184     1-132 (160)
 16 COG3521 Predicted component of  81.9     1.3 3.2E-05   24.3   2.7   99    1-118     1-112 (159)
 17 PRK09578 periplasmic multidrug  80.7     4.1  0.0001   21.1   5.0   91    2-109     6-96  (385)
 18 PRK12407 flgH flagellar basal   76.2       2 5.1E-05   23.1   2.3   20    4-23      1-20  (220)
 19 PRK09859 multidrug efflux syst  75.7     5.1 0.00013   20.5   4.3   92    1-109     1-94  (385)
 20 COG2134 Cdh CDP-diacylglycerol  74.8     7.1 0.00018   19.6   5.4  136    1-150     1-148 (252)
 21 COG3065 Slp Starvation-inducib  74.5     4.6 0.00012   20.8   3.8   65    1-66      5-77  (191)
 22 TIGR00752 slp outer membrane l  72.4     8.2 0.00021   19.3   4.7   63    5-67      4-74  (190)
 23 pfam12262 Lipase_bact_N Bacter  72.3     3.7 9.4E-05   21.4   2.8   24    1-24      1-24  (269)
 24 PRK11548 hypothetical protein;  69.6     9.4 0.00024   18.9   7.9   87    1-90      1-99  (113)
 25 TIGR02747 TraV type IV conjuga  66.2     3.4 8.8E-05   21.6   1.6   22    1-22      1-23  (174)
 26 COG5633 Predicted periplasmic   65.4      11 0.00029   18.4   5.4   80    5-90      4-83  (123)
 27 pfam02402 Lysis_col Lysis prot  64.2     2.9 7.4E-05   22.0   1.0   22    1-22      1-22  (46)
 28 PRK10760 murein hydrolase B; P  62.9     5.5 0.00014   20.3   2.2   22    3-24      1-22  (357)
 29 pfam06474 MLTD_N MLTD_N.        61.9     8.4 0.00021   19.2   3.0   19   12-30      9-27  (93)
 30 TIGR02544 III_secr_YscJ type I  60.3      10 0.00026   18.6   3.2   45    4-48      2-46  (203)
 31 PRK10533 putative lipoprotein;  60.2     6.5 0.00017   19.9   2.2   23    1-23      1-23  (171)
 32 PRK00022 lolB outer membrane l  55.6      17 0.00043   17.3   6.6   94    4-108     3-103 (203)
 33 PRK10866 outer membrane protei  55.2     8.7 0.00022   19.1   2.1   22    2-23      3-24  (243)
 34 TIGR02722 lp_ uncharacterized   54.5      12 0.00031   18.2   2.7   27    6-32      6-32  (215)
 35 TIGR03502 lipase_Pla1_cef extr  54.2      12 0.00031   18.2   2.7   21    1-21      1-21  (792)
 36 PRK11627 hypothetical protein;  54.0     9.3 0.00024   18.9   2.1   23    1-24      1-23  (192)
 37 PRK10781 rcsF outer membrane l  54.0     9.8 0.00025   18.8   2.2   20    3-23      1-20  (133)
 38 PRK06052 5-methyltetrahydropte  53.6      18 0.00047   17.1   5.0   35   93-131   103-138 (343)
 39 PRK02944 OxaA-like protein pre  52.7      15 0.00038   17.6   3.0   22    1-22      1-24  (255)
 40 PRK03095 prsA peptidylprolyl i  52.4      11 0.00029   18.4   2.4   23    1-23      1-23  (287)
 41 PRK13835 conjugal transfer pro  52.4      13 0.00034   17.9   2.7   24    3-26      1-24  (144)
 42 TIGR03302 OM_YfiO outer membra  49.9      20 0.00052   16.8   3.3   20    4-23      2-21  (235)
 43 pfam07901 DUF1672 Protein of u  49.3      17 0.00042   17.4   2.8   21    1-22      1-21  (304)
 44 PRK09810 entericidin A; Provis  47.3      15 0.00038   17.6   2.3   25    1-25      1-25  (41)
 45 TIGR01433 CyoA ubiquinol oxida  47.1      16 0.00042   17.4   2.5   30    7-36      1-30  (228)
 46 PRK09837 copper/silver efflux   47.0      22 0.00055   16.7   3.1   32    4-36      3-34  (460)
 47 pfam10543 ORF6N ORF6N domain.   46.1      10 0.00026   18.7   1.3   52  150-202     8-63  (87)
 48 PRK10523 lipoprotein involved   46.1      24 0.00061   16.4   6.3   73    1-82      2-77  (234)
 49 COG4851 CamS Protein involved   45.6      15 0.00039   17.6   2.1   23    1-23      1-23  (382)
 50 PRK04792 tolB translocation pr  43.8      23 0.00059   16.5   2.8   21    1-21      1-21  (450)
 51 TIGR02607 antidote_HigA addict  43.2      18 0.00046   17.1   2.2   29  190-219    52-80  (81)
 52 TIGR00668 apaH bis(5'-nucleosy  42.7     7.3 0.00019   19.6   0.1   33   71-110   214-246 (280)
 53 PRK10449 heat-inducible protei  42.3      18 0.00045   17.2   2.0   35  137-174    77-112 (140)
 54 KOG3935 consensus               41.8      10 0.00026   18.6   0.8   19  197-215   409-427 (446)
 55 pfam08139 LPAM_1 Prokaryotic m  41.5      19 0.00049   17.0   2.1   20    4-23      2-21  (26)
 56 PRK01326 prsA foldase protein   41.3      20 0.00052   16.8   2.2   23    1-23      1-25  (310)
 57 PRK13731 conjugal transfer sur  41.1      29 0.00073   15.9   3.9   98    1-127     3-101 (243)
 58 PRK00249 flgH flagellar basal   41.1      25 0.00065   16.2   2.7   23    1-23      1-23  (231)
 59 COG2980 RlpB Rare lipoprotein   39.8      30 0.00077   15.8   5.9   79    1-79      1-100 (178)
 60 PRK12698 flgH flagellar basal   39.4      24  0.0006   16.4   2.3   11  137-147   148-158 (224)
 61 COG3056 Uncharacterized lipopr  38.9      22 0.00056   16.6   2.1   18  148-165   162-179 (204)
 62 PRK11063 metQ DL-methionine tr  38.5      27 0.00068   16.1   2.4   24    1-24      3-28  (271)
 63 COG4314 NosL Predicted lipopro  38.3      27  0.0007   16.0   2.5   21    3-23      2-22  (176)
 64 COG5645 Predicted periplasmic   38.1      17 0.00044   17.2   1.5   28    3-30      1-28  (80)
 65 TIGR02733 desat_CrtD C-3',4' d  38.0      18 0.00046   17.1   1.5   70   33-111   305-381 (499)
 66 PRK11023 hypothetical protein;  37.7      25 0.00064   16.2   2.2   21    1-21      1-21  (191)
 67 PRK11459 multidrug resistance   37.6      32 0.00083   15.6   3.0   22    1-22      1-25  (478)
 68 COG3093 VapI Plasmid maintenan  37.5      26 0.00066   16.2   2.3   30  192-222    57-86  (104)
 69 KOG3135 consensus               37.4      25 0.00063   16.3   2.2   54  100-157   107-173 (203)
 70 KOG3413 consensus               37.4      30 0.00076   15.8   2.6   59   78-146    72-130 (156)
 71 pfam05590 DUF769 Xylella fasti  36.7      32 0.00081   15.6   2.6   31    3-33      5-35  (279)
 72 pfam08085 Entericidin Enterici  36.6      25 0.00064   16.2   2.1   23    1-23      1-25  (42)
 73 COG3417 FlgN Collagen-binding   36.5      32  0.0008   15.6   2.6   19    3-21      4-22  (200)
 74 PRK03002 prsA peptidylprolyl i  35.5      28 0.00072   15.9   2.2   22    1-22      1-24  (285)
 75 pfam04288 MukE MukE-like famil  35.4      16 0.00041   17.4   1.0  104   98-213    57-201 (227)
 76 pfam07269 consensus             35.0      29 0.00073   15.9   2.2   20    4-25      2-21  (55)
 77 TIGR02887 spore_ger_x_C germin  34.6      28 0.00071   16.0   2.0   20    4-23      3-22  (400)
 78 PRK05256 condesin subunit E; P  34.3      17 0.00045   17.2   1.0   57  156-213   142-208 (230)
 79 COG3133 SlyB Outer membrane li  33.9      33 0.00084   15.5   2.3   26    1-26      1-26  (154)
 80 COG4669 EscJ Type III secretor  33.7      38 0.00096   15.2   2.9   68  120-196   127-202 (246)
 81 PRK11138 outer membrane protei  32.9      39 0.00099   15.1   2.7   23    1-23      1-24  (394)
 82 TIGR02422 protocat_beta protoc  32.7      14 0.00035   17.9   0.2   76   28-108    40-127 (224)
 83 PRK11397 dacD D-alanyl-D-alani  32.1      40   0.001   15.0   3.6   14    1-14      3-16  (390)
 84 TIGR03431 PhnD phosphonate ABC  31.9      33 0.00084   15.5   2.1   22    1-22      1-22  (288)
 85 COG5461 Type IV pili component  31.0      42  0.0011   14.9   4.1   45    7-65     11-55  (224)
 86 PRK02998 prsA peptidylprolyl i  30.8      42  0.0011   14.9   3.2   26    1-26      1-29  (283)
 87 COG2143 Thioredoxin-related pr  30.7      42  0.0011   14.9   4.3   51    1-59      1-51  (182)
 88 PRK02201 putative inner membra  30.7      40   0.001   15.0   2.3   19    4-22     37-55  (392)
 89 COG3095 MukE Uncharacterized p  30.6      22 0.00055   16.6   0.9   14   98-111    64-77  (238)
 90 smart00095 TR_THY Transthyreti  30.5      42  0.0011   14.8   5.8   44   63-109    24-67  (121)
 91 PRK10965 multicopper oxidase;   30.0      43  0.0011   14.8   4.3   19    1-19      1-19  (530)
 92 PRK10796 LPS-assembly lipoprot  29.8      44  0.0011   14.8   7.5   78    1-79      1-103 (196)
 93 PRK12701 flgH flagellar basal   29.5      44  0.0011   14.7   3.2   22    1-22      1-22  (230)
 94 pfam07615 Ykof YKOF-related Fa  29.2      42  0.0011   14.9   2.2   60  153-225     9-71  (81)
 95 PRK09915 putative outer membra  29.2      45  0.0011   14.7   2.9   23    1-23      6-28  (488)
 96 PRK11189 lipoprotein NlpI; Pro  28.9      45  0.0012   14.7   3.5   40    1-40      1-44  (297)
 97 PRK10783 mltD membrane-bound l  28.6      44  0.0011   14.8   2.2   22    1-25      1-22  (449)
 98 pfam09476 Pilus_CpaD Pilus bio  28.5      46  0.0012   14.6   2.8   42    9-66      2-43  (200)
 99 PRK04405 prsA peptidylprolyl i  28.5      36 0.00092   15.3   1.8   23    1-23      5-28  (298)
100 KOG0749 consensus               28.4      22 0.00056   16.6   0.7   64   15-82     16-86  (298)
101 PRK13859 type IV secretion sys  28.0      43  0.0011   14.8   2.1   23    4-28      2-24  (55)
102 TIGR03525 GldK gliding motilit  27.8      43  0.0011   14.8   2.0   19    4-22      2-20  (449)
103 COG5510 Predicted small secret  27.7      37 0.00094   15.2   1.7   23    1-23      1-26  (44)
104 pfam00820 Lipoprotein_1 Borrel  27.7      47  0.0012   14.6   4.9   58    4-82      2-60  (273)
105 TIGR03112 6_pyr_pter_rel 6-pyr  27.4      48  0.0012   14.5   4.2   61  143-211    22-89  (113)
106 PRK11251 DNA-binding transcrip  27.3      45  0.0011   14.7   2.1   33   11-48     10-42  (109)
107 TIGR01819 F420_cofD LPPG:Fo 2-  26.9      23 0.00059   16.5   0.6   50   85-147     4-55  (359)
108 pfam06604 consensus             26.8      49  0.0013   14.5   2.9   18    6-23      8-25  (181)
109 PRK13883 conjugal transfer pro  26.4      50  0.0013   14.4   3.1   31  104-136   112-145 (156)
110 PRK10672 rare lipoprotein A; P  26.4      50  0.0013   14.4   2.8   22    1-23      1-22  (369)
111 TIGR00784 citMHS citrate trans  26.0      16 0.00042   17.4  -0.3   16  118-133   268-283 (439)
112 PRK12788 flgH flagellar basal   25.9      51  0.0013   14.3   2.6   19    3-22      1-19  (231)
113 PRK13733 conjugal transfer pro  25.5      11 0.00027   18.6  -1.4   25    1-25      1-25  (171)
114 KOG4824 consensus               25.0      53  0.0014   14.3   2.1   35    1-35      6-40  (224)
115 PRK13616 lipoprotein LpqB; Pro  24.9      39 0.00099   15.1   1.4   20    2-21      5-24  (590)
116 TIGR03659 IsdE heme ABC transp  24.7      54  0.0014   14.2   2.8   19    6-24      6-24  (289)
117 KOG0884 consensus               24.3      42  0.0011   14.9   1.5   24  134-159    59-93  (161)
118 PRK10510 putative outer membra  24.3      55  0.0014   14.2   2.3   49  134-182   139-187 (219)
119 PRK13736 conjugal transfer pro  24.2      55  0.0014   14.2   2.2   23  150-172   128-150 (245)
120 TIGR00693 thiE thiamine-phosph  24.0      56  0.0014   14.1   4.9   59  152-224     2-71  (210)
121 TIGR00212 hemC porphobilinogen  23.7      38 0.00096   15.2   1.2   19   92-110   236-254 (312)
122 PRK02463 OxaA-like protein pre  23.2      58  0.0015   14.0   2.6   16    8-23     13-28  (307)
123 TIGR02824 quinone_pig3 putativ  22.7      21 0.00053   16.8  -0.3   74   99-180   112-196 (334)
124 TIGR01626 ytfJ_HI0045 conserve  22.6      59  0.0015   14.0   2.3   53    1-67      1-53  (184)
125 KOG2100 consensus               22.5      59  0.0015   14.0   3.7   37  140-186   685-722 (755)
126 KOG2292 consensus               22.3      23 0.00059   16.5  -0.2   51   86-137   624-687 (751)
127 COG3009 Uncharacterized protei  22.2      60  0.0015   13.9   2.0   15    8-22      5-19  (190)
128 pfam07172 GRP Glycine rich pro  22.0      35 0.00089   15.4   0.7   12    1-12      1-12  (91)
129 pfam02157 Man-6-P_recep Cation  21.6      38 0.00098   15.1   0.9  133   75-219    71-248 (278)
130 COG4939 Major membrane immunog  21.6      62  0.0016   13.8   1.9   23    1-23      1-23  (147)
131 pfam08345 YscJ_FliF_C Flagella  21.5      62  0.0016   13.8   3.2   34  153-186   127-162 (162)
132 PRK09250 fructose-bisphosphate  21.0      64  0.0016   13.8   3.2   54  124-185   138-201 (348)
133 PRK12389 glutamate-1-semialdeh  20.8      64  0.0016   13.7   3.0   12  150-161   276-287 (429)
134 COG2605 Predicted kinase relat  20.7      58  0.0015   14.0   1.6   35  154-188   262-303 (333)
135 PRK13908 putative recombinatio  20.5      45  0.0012   14.7   1.0   32  139-170   157-203 (204)
136 pfam05643 DUF799 Putative bact  20.3      66  0.0017   13.7   2.1   19    4-22      2-20  (215)
137 COG3317 NlpB Uncharacterized l  20.3      66  0.0017   13.7   2.5   21    2-22      3-23  (342)
138 PRK12450 foldase protein PrsA;  20.1      57  0.0015   14.0   1.5   12   11-22     15-26  (309)
139 TIGR03300 assembly_YfgL outer   20.1      67  0.0017   13.6   3.5   18    5-22      2-19  (377)

No 1  
>COG3034 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=100.00  E-value=0  Score=509.73  Aligned_cols=235  Identities=41%  Similarity=0.682  Sum_probs=218.9

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCC-CCCCCCCCCCCHHHHHHHHHCCCCCCCCEEEEEECCCCEEEEEEECCCCCEEEEEE
Q ss_conf             94046899999999860466533-22234446755456777775187757847999983786999986078896689998
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHSR-SLIDKAEHPLSENLIISMQKKRTSPFHPTVIRIFKNENILEIWKRNVDAEYVLLKE   79 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~~-~~~~~~~~pl~~~~~~~~~~~~~~~~~pi~Irv~K~e~~Lel~~~~~~g~~~l~kt   79 (239)
                      |....+.++..++.+++.|.... ....+...+.+..+.+.++.+++..+++++|||||+|++|||| .+.++.|+++++
T Consensus         1 ~~~~~~~~~~~~~~~~~~c~~~gl~~~~~~~~~~s~~l~~k~~~k~~~~~~~~lv~i~K~e~~Lel~-~~~~~~yk~~~s   79 (298)
T COG3034           1 MLFVLLKAALILAELLALCLSQGLLLVGKDKYFWSSELPVKNEAKGLYREKVVLVRIFKEERKLELY-EKDGNIYKLLRS   79 (298)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHCCCHHCCCCCCCCHHHHHHHHHHHHCCCCCCEEEEEECCCCCEEHH-HCCCCHHHHHHC
T ss_conf             9177899999999999999860211104664332088888654120245685699973256632021-147853123220


Q ss_pred             EEECCCCCCCCCHHCCCCCCCCCEEEEEEECCCCCCCCCCEEEECCCCCHHHHHCCCCCCCEEECCCCCCCCCEEECHHH
Q ss_conf             65213238988701017874750799984012587576521420799898899729998826871677866718706466
Q gi|254780589|r   80 YKICAWSGTFGPKIETGDEQAPEGFYYIGWNNLNPNSKYFLSINIGFPNEFDKAHNRTGADLMIHGECASAGCYAMNNKQ  159 (239)
Q Consensus        80 Y~Ic~~sg~lGpK~~eGD~kTPEG~Y~i~~~~~np~S~y~ls~~i~YPN~~Dr~~grtG~~I~IHG~~~S~GC~amtd~~  159 (239)
                      |+||+|||++|||.+|||+|||||||.|+++++||||.||+|++|+|||++|+++||||++|||||.|+|.||++|||++
T Consensus        80 y~i~~~sg~lGpK~~EGD~ktPEGfY~l~~~~~~pds~Y~~s~~i~YPN~yD~a~grtG~~ImIHG~~~s~g~y~~~~a~  159 (298)
T COG3034          80 YKICLWSGKLGPKQREGDLKTPEGFYRLTRKQLNPDSYYYLSINIGYPNAYDKALGRTGGGIMIHGACLSDGCYSMTDAQ  159 (298)
T ss_pred             CCEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCCCHHHEEEEECCCCHHHHHCCCCCCCEEEECCCCCCCCCCHHHHH
T ss_conf             43343148888622236778984478831123687551123675048986788628788825994265788855105666


Q ss_pred             HHHHHHHHHHHHHHCCCCCEEEEEECCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHCCCCEEEEECCEEEECCCC
Q ss_conf             999999999999750856111699555689889875425867378985356888999858973279727668944888
Q gi|254780589|r  160 MQEIYAIVRDSLRGNMQSHIQIQAFPFRMTSKNMQLYQNNPNYSFWNMLKLGHDYFEKNHQEPFIQIINKQYVFFKGQ  237 (239)
Q Consensus       160 i~EIy~~v~~a~~~~gQ~~~~v~~~Pfrmt~~n~~~~~~~~~~~FW~~Lk~gyd~Fe~~~~~p~v~v~~~~Yvf~~~~  237 (239)
                      |+|||.++++||.+ ||..++|+++|||||.+||.+|+++++++||++||+|||+||.|+.||.|+||+|||||+.+.
T Consensus       160 i~~i~~~~a~a~~~-~q~~~~~~~~~f~m~~~nm~~~~~~~~~~fw~~lk~gyd~fe~t~~~p~v~v~~~~yv~~~~~  236 (298)
T COG3034         160 IDEIYGCVAKALQG-GQESVQVVADPFRMTIENMVRHRLSPLFSFWKALKPGYDNFEVTFYPPTVSVCDGRYVFSFPT  236 (298)
T ss_pred             HHHHHHHHHHHCCC-CCEEEEEEECCCCCCHHHHHHHHHCHHHHHHHHHCCCCCCEEEEECCCCEEECCCEEEECCCC
T ss_conf             88898899997136-764689874461366789998751526589998344563001340599646437678844544


No 2  
>pfam03734 YkuD L,D-transpeptidase catalytic domain. This family of proteins are found in a range of bacteria. It has been shown that this domain can act as an L,D-transpeptidase that gives rise to an alternative pathway for peptidoglycan cross-linking. This gives bacteria resistance to beta-lactam antibiotics that inhibit PBPs which usually carry out the cross-linking reaction. The conserved region contains a conserved histidine and cysteine, with the cysteine thought to be an active site residue. Several members of this family contain peptidoglycan binding domains. The molecular structure of YkuD protein shows this domain has a novel tertiary fold consisting of a beta-sandwich with two mixed sheets, one containing five strands and the other, six strands. The two beta-sheets form a cradle capped by an alpha-helix. This family was formerly called the ErfK/YbiS/YcfS/YnhG family, but is now named after the first protein of known structure.
Probab=99.59  E-value=6.4e-15  Score=112.42  Aligned_cols=103  Identities=25%  Similarity=0.354  Sum_probs=87.5

Q ss_pred             EEEEEECCCCEE-EEEEECCCCCEEEEEEEEECCCCCCCCCHHCCCCCCCCCEEEEEEECCCCCCCCCCEEEECCCCCHH
Q ss_conf             799998378699-9986078896689998652132389887010178747507999840125875765214207998988
Q gi|254780589|r   52 TVIRIFKNENIL-EIWKRNVDAEYVLLKEYKICAWSGTFGPKIETGDEQAPEGFYYIGWNNLNPNSKYFLSINIGFPNEF  130 (239)
Q Consensus        52 i~Irv~K~e~~L-el~~~~~~g~~~l~ktY~Ic~~sg~lGpK~~eGD~kTPEG~Y~i~~~~~np~S~y~ls~~i~YPN~~  130 (239)
                      ..|.|.++++.| .+|..+     +++++|+|+.|         ++|.+||+|.|.|..+..+|.+..+.+....|++..
T Consensus         2 ~~I~Vd~~~~~l~~~~~~g-----~~v~~~~vs~G---------~~~~~TP~G~~~i~~k~~~~~~~~~~~~~~~~~~~~   67 (122)
T pfam03734         2 RVIVVDLSEQRLLLLYENG-----KLVLTYPVSVG---------RGDTPTPLGTFTITEKVENPTWAPGPGNGLGYVKFL   67 (122)
T ss_pred             CEEEEECCCCEEEEEEECC-----EEEEEEEEEEC---------CCCCCCCCCEEEEEEEEECCCCCCCCCCCCCCCCCC
T ss_conf             2999989438999997599-----99999778858---------899988665699899875884578675554687655


Q ss_pred             HHHCCCCCCCEEECCC----------CCCCCCEEECHHHHHHHHHHHH
Q ss_conf             9972999882687167----------7866718706466999999999
Q gi|254780589|r  131 DKAHNRTGADLMIHGE----------CASAGCYAMNNKQMQEIYAIVR  168 (239)
Q Consensus       131 Dr~~grtG~~I~IHG~----------~~S~GC~amtd~~i~EIy~~v~  168 (239)
                      .......+++|+|||+          +.|+|||+|.|+++++||..+.
T Consensus        68 ~~~~~~~~~~i~iH~~~~~~~~~~g~~~ShGCIrl~~~d~~~l~~~v~  115 (122)
T pfam03734        68 DPWAFPNGGGIYIHGTGTPDLFSGGAPRSHGCIRLSNEDAKELYDWVL  115 (122)
T ss_pred             CEEEECCCCCEEEECCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCC
T ss_conf             246872798438966888842247984677601579999999997099


No 3  
>PRK06132 hypothetical protein; Provisional
Probab=98.58  E-value=9.3e-07  Score=62.10  Aligned_cols=99  Identities=21%  Similarity=0.374  Sum_probs=75.5

Q ss_pred             CCCCCCEEEEEECCCCEEEEEEECCCCCEEEEEEEEECCCCCCCCCHHCCCCCCCCCEEEEEEECCCCCCCCCCEEEECC
Q ss_conf             77578479999837869999860788966899986521323898870101787475079998401258757652142079
Q gi|254780589|r   46 TSPFHPTVIRIFKNENILEIWKRNVDAEYVLLKEYKICAWSGTFGPKIETGDEQAPEGFYYIGWNNLNPNSKYFLSINIG  125 (239)
Q Consensus        46 ~~~~~pi~Irv~K~e~~Lel~~~~~~g~~~l~ktY~Ic~~sg~lGpK~~eGD~kTPEG~Y~i~~~~~np~S~y~ls~~i~  125 (239)
                      ..+..|+.|.|..+++.+.+|..+     .++.+-+|+.  |.-|       .-||.|.|.|..+..+-.|+.|      
T Consensus        53 ~~p~gp~~i~vsl~~Q~~~~y~~~-----~~i~~s~vst--G~~g-------~~TP~G~F~i~~K~~~h~S~~Y------  112 (365)
T PRK06132         53 RKPQGPLVIVVSLTEQRLYVYDNG-----ILIAVSTVST--GKRG-------HETPTGVFSILQKDKDHRSNIY------  112 (365)
T ss_pred             CCCCCCEEEEEECCCEEEEEEECC-----EEEEEEEECC--CCCC-------CCCCCEEEEEEECCCCCCCCCC------
T ss_conf             789888899998320089999899-----8999988425--8888-------8788616788870241235665------


Q ss_pred             CCCHHHHH-----CCCCCCCEEECCCC-----CCCCCEEECHHHHHHHHHHHHH
Q ss_conf             98988997-----29998826871677-----8667187064669999999999
Q gi|254780589|r  126 FPNEFDKA-----HNRTGADLMIHGEC-----ASAGCYAMNNKQMQEIYAIVRD  169 (239)
Q Consensus       126 YPN~~Dr~-----~grtG~~I~IHG~~-----~S~GC~amtd~~i~EIy~~v~~  169 (239)
                           |-+     .--|-++|.+||..     .|+|||.|-.+--+-+|.+.+-
T Consensus       113 -----~~ApMP~~~rlt~~GialH~g~lpgypaSHGCirlP~~fA~~lf~~t~~  161 (365)
T PRK06132        113 -----SNAPMPYMQRLTWSGIALHAGNLPGYPASHGCVRLPMAFAKKLFGWTRM  161 (365)
T ss_pred             -----CCCCCCCEEEECCCEEEEECCCCCCCCCCCCCCCCCHHHHHHHHCCCCC
T ss_conf             -----7888864798516637971366799877676456978999998551458


No 4  
>PRK10260 hypothetical protein; Provisional
Probab=98.55  E-value=4.9e-07  Score=63.83  Aligned_cols=101  Identities=20%  Similarity=0.277  Sum_probs=69.6

Q ss_pred             EEEECCCCEEEEEEECCCCCEEEEEEEEECCCCCCCCCHHCCCCCCCCCE-EEEEEECCCCCCCCCC--EEEE-------
Q ss_conf             99983786999986078896689998652132389887010178747507-9998401258757652--1420-------
Q gi|254780589|r   54 IRIFKNENILEIWKRNVDAEYVLLKEYKICAWSGTFGPKIETGDEQAPEG-FYYIGWNNLNPNSKYF--LSIN-------  123 (239)
Q Consensus        54 Irv~K~e~~Lel~~~~~~g~~~l~ktY~Ic~~sg~lGpK~~eGD~kTPEG-~Y~i~~~~~np~S~y~--ls~~-------  123 (239)
                      |.|--.|.+|.-|-.+.+    .+-+|||..  |..|       ..||.| ...|+.+..||  .|+  -|+.       
T Consensus       101 IVINlaEmRLYYfp~~~~----~V~t~PVGI--Gr~g-------~~TPlg~~t~I~~K~~~P--tW~pp~sir~e~~~~G  165 (306)
T PRK10260        101 IVINSAEMRLYYYPKGTN----TVIVLPIGI--GQLG-------KDTPINWTTKVERKKAGP--TWTPTAKMHAEYRAAG  165 (306)
T ss_pred             EEEECHHHEEEEECCCCC----EEEEEEEEC--CCCC-------CCCCCCCEEEEEECCCCC--CCCCCHHHHHHHHHCC
T ss_conf             698532424478438998----699982443--6688-------878876417999725799--8889878889999729


Q ss_pred             C----CCC----CHHHHHCCCCCCCEEECCCC--------CCCCCEEECHHHHHHHHHHHHH
Q ss_conf             7----998----98899729998826871677--------8667187064669999999999
Q gi|254780589|r  124 I----GFP----NEFDKAHNRTGADLMIHGEC--------ASAGCYAMNNKQMQEIYAIVRD  169 (239)
Q Consensus       124 i----~YP----N~~Dr~~grtG~~I~IHG~~--------~S~GC~amtd~~i~EIy~~v~~  169 (239)
                      .    -.|    |+.-...=+.|....|||+.        +|+|||.|.+++|+++|..|.-
T Consensus       166 ~~LP~vvPpGPdNPLG~~Al~l~~~YlIHGTN~p~gIG~rvS~GCIRl~peDI~~Lf~~V~v  227 (306)
T PRK10260        166 EPLPAVVPAGPDNPMGLYALYIGRLYAIHGTNANFGIGLRVSHGCVRLRNEDIKFLFEKVPV  227 (306)
T ss_pred             CCCCCCCCCCCCCCHHHHHHHHCCCEEEECCCCCCCCCCCCCCCEECCCHHHHHHHHHCCCC
T ss_conf             98876689999896646777627840577789987513201687512375719999950999


No 5  
>PRK10190 hypothetical protein; Provisional
Probab=98.53  E-value=5.3e-07  Score=63.60  Aligned_cols=101  Identities=19%  Similarity=0.284  Sum_probs=69.2

Q ss_pred             EEEECCCCEEEEEEECCCCCEEEEEEEEECCCCCCCCCHHCCCCCCCCCE-EEEEEECCCCCCCCCC--EEE-------E
Q ss_conf             99983786999986078896689998652132389887010178747507-9998401258757652--142-------0
Q gi|254780589|r   54 IRIFKNENILEIWKRNVDAEYVLLKEYKICAWSGTFGPKIETGDEQAPEG-FYYIGWNNLNPNSKYF--LSI-------N  123 (239)
Q Consensus        54 Irv~K~e~~Lel~~~~~~g~~~l~ktY~Ic~~sg~lGpK~~eGD~kTPEG-~Y~i~~~~~np~S~y~--ls~-------~  123 (239)
                      |.|--.|.+|..|..+.+    .+.+|||..  |..|       ..||+| +-.|..+.-||  .|+  -|+       +
T Consensus        98 IVINlaEmRLYYfp~~~~----~V~t~PIGI--Gr~g-------~~TP~g~~t~i~~K~~nP--tW~Pp~sir~e~~~~G  162 (310)
T PRK10190         98 IVVNVAEMRLYYYPPDSN----TVEVFPIGI--GQAG-------RETPRNWVTTVERKQEAP--TWTPTPNTRREYAKRG  162 (310)
T ss_pred             EEEEHHHHEEEEECCCCC----EEEEEEEEC--CCCC-------CCCCCCCEEEEEECCCCC--CCCCCHHHHHHHHHCC
T ss_conf             487603502378559998----799971464--6588-------878887548998625699--8779777889999719


Q ss_pred             CC----CC----CHHHHHCCCCCCCEEECCCC--------CCCCCEEECHHHHHHHHHHHHH
Q ss_conf             79----98----98899729998826871677--------8667187064669999999999
Q gi|254780589|r  124 IG----FP----NEFDKAHNRTGADLMIHGEC--------ASAGCYAMNNKQMQEIYAIVRD  169 (239)
Q Consensus       124 i~----YP----N~~Dr~~grtG~~I~IHG~~--------~S~GC~amtd~~i~EIy~~v~~  169 (239)
                      ..    .|    |+.-...=+.|....|||+.        +|+|||.|.+++|+++|..|.-
T Consensus       163 ~~LP~vvP~GPdNPLG~~Al~l~~~YlIHGTN~p~gIG~rvS~GCIRl~peDI~~Lf~~V~v  224 (310)
T PRK10190        163 ESLPAFVPAGPDNPMGLYAIYIGRLYAIHGTNANFGIGLRVSQGCIRLRNDDIKYLFDNVPV  224 (310)
T ss_pred             CCCCCCCCCCCCCCHHHHHHHHCCCEEEECCCCCCCCCCHHCCCCCCCCHHHHHHHHHCCCC
T ss_conf             98877779999895777888627860687889997502110687514487869999842999


No 6  
>COG3786 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=98.44  E-value=2.1e-06  Score=59.90  Aligned_cols=105  Identities=17%  Similarity=0.306  Sum_probs=71.3

Q ss_pred             EEEECCCCCEEEEEEEEECCCCCCCCCHHCCCCCCCCCEEEEEEECC---CCCCC--------------------CCCEE
Q ss_conf             98607889668999865213238988701017874750799984012---58757--------------------65214
Q gi|254780589|r   65 IWKRNVDAEYVLLKEYKICAWSGTFGPKIETGDEQAPEGFYYIGWNN---LNPNS--------------------KYFLS  121 (239)
Q Consensus        65 l~~~~~~g~~~l~ktY~Ic~~sg~lGpK~~eGD~kTPEG~Y~i~~~~---~np~S--------------------~y~ls  121 (239)
                      .+++++.+-+.+-.+++-..|+++.-++.+|||.+||+|.|.+....   -||.+                    .|...
T Consensus        58 ~~~k~~a~~~~~~~~~~~aiGk~G~s~~krEGd~aTP~gv~rll~~fg~~pnpgT~Lp~~~v~p~~~Wc~~~~dp~YNr~  137 (217)
T COG3786          58 PYQKTRAGWQPLKRVFTCAIGKAGISPAKREGDGATPLGVYRLLSGFGQAPNPGTKLPYTAVGPNDGWCDAPNDPNYNRP  137 (217)
T ss_pred             CCCCCCCCEEECCEEEEEEECCCCCCHHHCCCCCCCCCEEEEEEEEEEECCCCCCCCEEEECCCCCCCCCCCCCCCCCCC
T ss_conf             43416532034124677665266657132058999961367774334504799764414742788603079998566887


Q ss_pred             EECCCCCHHHHHC-------------------C-CCCCCEEECCCC----CCCCCEEECHHHHHHHHHHHHH
Q ss_conf             2079989889972-------------------9-998826871677----8667187064669999999999
Q gi|254780589|r  122 INIGFPNEFDKAH-------------------N-RTGADLMIHGEC----ASAGCYAMNNKQMQEIYAIVRD  169 (239)
Q Consensus       122 ~~i~YPN~~Dr~~-------------------g-rtG~~I~IHG~~----~S~GC~amtd~~i~EIy~~v~~  169 (239)
                      -.+.|+-..++..                   - -.||.|+.|=..    -|.||+|+++..+.+|-...+.
T Consensus       138 v~~pf~as~eem~r~d~~Yd~~~vm~~N~~~~~~G~GSAIFfHlarpgy~pT~GCVAi~~a~l~~iL~~~~~  209 (217)
T COG3786         138 VECPFSASHEEMLRIDSLYDYCVVMDWNIAPRKRGKGSAIFFHLARPGYEPTEGCVAISAATLVRILRWLRP  209 (217)
T ss_pred             CCCCCCCCHHHHCCCCCCEEEEEEEECCCCCCCCCCCCEEEEEECCCCCCCCCCEEEECHHHHHHHHHHCCC
T ss_conf             547788467886147560237999741457777897216999964899999776576368879999986498


No 7  
>COG1376 ErfK Uncharacterized protein conserved in bacteria [Function unknown]
Probab=97.78  E-value=0.00012  Score=48.99  Aligned_cols=108  Identities=15%  Similarity=0.170  Sum_probs=63.6

Q ss_pred             EECCCCEEEEEEECCCCCEEEEEEEEECCCCCCCC---C----HHCCCCCCCCCEEEEEEECCC-CCCCCCCEEEECCCC
Q ss_conf             98378699998607889668999865213238988---7----010178747507999840125-875765214207998
Q gi|254780589|r   56 IFKNENILEIWKRNVDAEYVLLKEYKICAWSGTFG---P----KIETGDEQAPEGFYYIGWNNL-NPNSKYFLSINIGFP  127 (239)
Q Consensus        56 v~K~e~~Lel~~~~~~g~~~l~ktY~Ic~~sg~lG---p----K~~eGD~kTPEG~Y~i~~~~~-np~S~y~ls~~i~YP  127 (239)
                      +++.+.++..+....+    ....|+|..+...+.   .    -.+++..-||.|.|.+..+.- ...+..  -+.-+..
T Consensus        95 ~~~~~~~~~~~~~~~~----~~~~~~v~~g~~~~~~~~~~~vs~~~~~p~~Tp~g~~~~~~~~~~~~~~~~--~~~~~p~  168 (232)
T COG1376          95 VVDTGLRLLYLVDDSG----TAQRYPVGIGKEGLDWPGTAKVSRGKEGPTWTPTGEFIVREKKGGFYMPNS--GVPPGPN  168 (232)
T ss_pred             ECCCCCEEEEEECCCC----CEEEEEEEECCCCCCCCCEEEEECCCCCCCCCCCCEEEEECCCCCCCCCCC--CCCCCCC
T ss_conf             5167635899835888----169998875872320253378756764797278855785034534443266--6688898


Q ss_pred             CHHH-HHCC---CCCCCEEECCCC--------CCCCCEEECHHHHHHHHHHHHH
Q ss_conf             9889-9729---998826871677--------8667187064669999999999
Q gi|254780589|r  128 NEFD-KAHN---RTGADLMIHGEC--------ASAGCYAMNNKQMQEIYAIVRD  169 (239)
Q Consensus       128 N~~D-r~~g---rtG~~I~IHG~~--------~S~GC~amtd~~i~EIy~~v~~  169 (239)
                      |.+- .-..   ..+....|||+.        .|+|||.|+|+++.++|..|..
T Consensus       169 np~G~~y~~~~~~~~~~y~IHgt~~~~~iG~~~ShGCIRL~n~Da~~ly~~v~~  222 (232)
T COG1376         169 NPLGALYAVRSSPSDTGYGIHGTPEPASIGKAVSHGCIRLSNQDAKDLYNRVPV  222 (232)
T ss_pred             CCCCCEEEEEECCCCCEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCC
T ss_conf             975520357404788507886887767778625887671774889999835899


No 8  
>PRK12472 hypothetical protein; Provisional
Probab=97.67  E-value=0.00037  Score=46.07  Aligned_cols=103  Identities=17%  Similarity=0.225  Sum_probs=71.0

Q ss_pred             CCCCCEEEEEECCCCEEEEEEECCCCCEEEEEEEEECCCCCCCCCHHCCCCCCCCCEEEEEEECCCCCCCCCCEEEECCC
Q ss_conf             75784799998378699998607889668999865213238988701017874750799984012587576521420799
Q gi|254780589|r   47 SPFHPTVIRIFKNENILEIWKRNVDAEYVLLKEYKICAWSGTFGPKIETGDEQAPEGFYYIGWNNLNPNSKYFLSINIGF  126 (239)
Q Consensus        47 ~~~~pi~Irv~K~e~~Lel~~~~~~g~~~l~ktY~Ic~~sg~lGpK~~eGD~kTPEG~Y~i~~~~~np~S~y~ls~~i~Y  126 (239)
                      ..+.||++.|--++.++.+|..+  |   ++..-||+.  |..|       +-||-|+|.|-.+...-.|.-|-    +-
T Consensus        52 ~~gePi~aiVSi~~Q~vt~YDa~--G---~~~~apVST--G~~G-------~~TP~GVFsiiqK~k~HrSniY~----~A  113 (512)
T PRK12472         52 EAGEPIMAIVSIKSQQVTLYDAD--G---WILRAPVST--GTTG-------RETPAGVFAIVEKDKDHHSTMYD----DA  113 (512)
T ss_pred             CCCCCEEEEEEECCCEEEEECCC--C---EEEECCCCC--CCCC-------CCCCCEEEEEEECCCHHHHCCCC----CC
T ss_conf             68996599998513268998168--7---289655347--8777-------87775345664215202203347----88


Q ss_pred             CCHHHHHCCCCCCCEEECCCC-----CCCCCEEECHHHHHHHHHHHHH
Q ss_conf             898899729998826871677-----8667187064669999999999
Q gi|254780589|r  127 PNEFDKAHNRTGADLMIHGEC-----ASAGCYAMNNKQMQEIYAIVRD  169 (239)
Q Consensus       127 PN~~Dr~~grtG~~I~IHG~~-----~S~GC~amtd~~i~EIy~~v~~  169 (239)
                      |-+|-  +--|=++|-+||..     .|+||+.|--.--+-+|.+.+-
T Consensus       114 ~MP~M--QRiTWsGiALH~G~lPGYpASHGCvRmP~~FA~~lf~~T~~  159 (512)
T PRK12472        114 WMPNM--QRITWNGVALHGGPLPGYAASHGCVRMPYGFAEKLFDKTRI  159 (512)
T ss_pred             CCCCE--EEEEECCEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHCCC
T ss_conf             87500--01212122321677899867676242765899987400026


No 9  
>pfam10908 DUF2778 Protein of unknown function (DUF2778). This is a bacterial family of uncharacterized proteins.
Probab=93.23  E-value=0.18  Score=29.47  Aligned_cols=81  Identities=17%  Similarity=0.204  Sum_probs=50.5

Q ss_pred             HHCCCCCCCCCEEEEEEECCCCCCCCCCEEEECC-CCCHHH-----HHCCCCCCCEEECCCC-------------CCCCC
Q ss_conf             0101787475079998401258757652142079-989889-----9729998826871677-------------86671
Q gi|254780589|r   92 KIETGDEQAPEGFYYIGWNNLNPNSKYFLSINIG-FPNEFD-----KAHNRTGADLMIHGEC-------------ASAGC  152 (239)
Q Consensus        92 K~~eGD~kTPEG~Y~i~~~~~np~S~y~ls~~i~-YPN~~D-----r~~grtG~~I~IHG~~-------------~S~GC  152 (239)
                      -.....+-||-|.|+|..|    .|.+++.--+. -++..+     +..+..+...||||.-             .|.||
T Consensus        19 ~~v~~~GpiPpg~Y~IvdR----~sgg~~~~~~~~~~d~~~wfalyr~dg~idd~t~i~gv~Rg~FRLHP~G~~G~S~GC   94 (121)
T pfam10908        19 VAVRMVGPTPPGTYYIVDR----ESGGRLGRLRDLILDLGEWFALYRDDGKIDDETLFHGVERGAFRLHPVGPRGDSNGC   94 (121)
T ss_pred             CCCCCCCCCCCCEEEEEEC----CCCCCCHHHHHHHCCCCCCEEEECCCCCCCCCEEECCEECCCEEECCCCCCCCCCCC
T ss_conf             0156778999950698876----777732245443035430024550578757513661310163675268888665877


Q ss_pred             EEECHHHHHHHHHHHHHHHHHCCCCCEEE
Q ss_conf             87064669999999999997508561116
Q gi|254780589|r  153 YAMNNKQMQEIYAIVRDSLRGNMQSHIQI  181 (239)
Q Consensus       153 ~amtd~~i~EIy~~v~~a~~~~gQ~~~~v  181 (239)
                      |.+.|..   =|..++.++..  ++.+.|
T Consensus        95 IT~~~~~---~F~~~r~~l~~--~~~v~V  118 (121)
T pfam10908        95 ITFKDYA---RFLRARKFLES--KRLVVV  118 (121)
T ss_pred             EEECCHH---HHHHHHHHCCC--CCCEEC
T ss_conf             7766889---99999981566--653668


No 10 
>TIGR03352 VI_chp_3 type VI secretion lipoprotein, VC_A0113 family. Work by Mougous, et al. (2006), describes IAHP-related loci as a type VI secretion system (PMID:16763151). This protein family is associated with type VI secretion loci, although not treated explicitly by Mougous, et al.
Probab=87.05  E-value=0.29  Score=28.18  Aligned_cols=53  Identities=19%  Similarity=0.394  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCEEEEEE
Q ss_conf             468999999998604665332223444675545677777518775784799998
Q gi|254780589|r    4 RYNILLFALFIFLNGCHHSRSLIDKAEHPLSENLIISMQKKRTSPFHPTVIRIF   57 (239)
Q Consensus         4 R~~~Llfal~i~L~gc~~~~~~~~~~~~pl~~~~~~~~~~~~~~~~~pi~Irv~   57 (239)
                      |+.++++ ++++|+||+++..........+.-..-..+-.......+|+.||||
T Consensus         2 r~~~~l~-~~lllagC~s~~~~~~~~~v~l~l~a~~~lNpd~~G~p~PvvVrvy   54 (146)
T TIGR03352         2 RFAVLLA-ACLLLAGCSSAPPPKEPTYVTLTLTAAPDVNPDEDGRASPVVVRVY   54 (146)
T ss_pred             CEEHHHH-HHHHHHHCCCCCCCCCCCEEEEEEEECCCCCCCCCCCCCCEEEEEE
T ss_conf             0755899-9999853259999888748999999568869798999357599999


No 11 
>PRK10594 hypothetical protein; Provisional
Probab=86.35  E-value=2.3  Score=22.61  Aligned_cols=120  Identities=16%  Similarity=0.257  Sum_probs=66.1

Q ss_pred             EEEEEECCCCEEEEEEECCCCCEEEEEEEEECCCCCCCCCHHCCCCCCCCCEEEEEEECCCCCCCCCCEEE---------
Q ss_conf             79999837869999860788966899986521323898870101787475079998401258757652142---------
Q gi|254780589|r   52 TVIRIFKNENILEIWKRNVDAEYVLLKEYKICAWSGTFGPKIETGDEQAPEGFYYIGWNNLNPNSKYFLSI---------  122 (239)
Q Consensus        52 i~Irv~K~e~~Lel~~~~~~g~~~l~ktY~Ic~~sg~lGpK~~eGD~kTPEG~Y~i~~~~~np~S~y~ls~---------  122 (239)
                      -.|.|-=-+-.|++|..+.     ++-+-+|.-     | |   -|++||+=--.|+.--+||.=.-..|+         
T Consensus       375 ~~IlVNIP~y~L~~~~~G~-----~v~~srVIV-----G-k---p~r~TPifss~I~~vV~NP~W~VP~SI~rkDiLPkl  440 (615)
T PRK10594        375 TGIMVNIPAYSLVYYQNGN-----QVLDSRVIV-----G-R---PDRKTPMMSSALNNVVVNPPWNVPPTLARKDILPKV  440 (615)
T ss_pred             CEEEEECCCCEEEEEECCC-----EEEEEEEEE-----C-C---CCCCCHHHHCCCCEEEECCCCCCCHHHHHHHHHHHH
T ss_conf             6589984640589898893-----899875685-----5-7---888882011210089978998897618888765775


Q ss_pred             --------------ECCC-----------------CCHH----------HHHCCC------CCCCEEECCCCC-------
Q ss_conf             --------------0799-----------------8988----------997299------988268716778-------
Q gi|254780589|r  123 --------------NIGF-----------------PNEF----------DKAHNR------TGADLMIHGECA-------  148 (239)
Q Consensus       123 --------------~i~Y-----------------PN~~----------Dr~~gr------tG~~I~IHG~~~-------  148 (239)
                                    --++                 |+.+          +-+.|+      ....|.+|.++.       
T Consensus       441 ~~dP~YL~~~~~~V~~g~~~~~~vdp~~IdW~~~~~~~fpYrlrQ~PG~~NALGrvKF~FPN~~sIYLHDTP~k~LF~r~  520 (615)
T PRK10594        441 RNDPGYLERHGYTVMRGWNSAEAIDPWQVDWSTITPSNLPFRFQQAPGARNSLGRYKFNMPSSDAIYLHDTPNHNLFQRD  520 (615)
T ss_pred             HHCHHHHHHCCEEEEECCCCCEECCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCEEEECCCCCCEECCCCCCHHHHCCC
T ss_conf             43868898799299866888735470324722257566865788699998867035884479986413689985774878


Q ss_pred             ----CCCCEEECHHHHHHHHHH---------HHHHHHHCCCC-------CEEEEEECC
Q ss_conf             ----667187064669999999---------99999750856-------111699555
Q gi|254780589|r  149 ----SAGCYAMNNKQMQEIYAI---------VRDSLRGNMQS-------HIQIQAFPF  186 (239)
Q Consensus       149 ----S~GC~amtd~~i~EIy~~---------v~~a~~~~gQ~-------~~~v~~~Pf  186 (239)
                          |+|||.+.+..-.--|.+         +.++++. |+.       .++||+.=+
T Consensus       521 ~RAfSsGCVRVe~p~eLA~~LL~~~gw~~~ri~~~l~~-g~t~~v~L~~~IPV~l~Y~  577 (615)
T PRK10594        521 IRALSSGCVRVNKASDLANMLLQDAGWNDARISDALKQ-GDTRYVNIRQRIPVNLYYL  577 (615)
T ss_pred             CCCCCCCCEECCCHHHHHHHHHHCCCCCHHHHHHHHHC-CCEEEEECCCCCCEEEEEE
T ss_conf             64247770341899999999975359999999999856-9857976699788899998


No 12 
>PRK12696 flgH flagellar basal body L-ring protein; Reviewed
Probab=85.23  E-value=0.79  Score=25.53  Aligned_cols=23  Identities=22%  Similarity=0.507  Sum_probs=14.6

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             940468999999998604665332
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHSRS   24 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~~~   24 (239)
                      |.+| ++++++++++|+||.....
T Consensus         1 mm~~-~l~~~~~~~~L~GC~~~~~   23 (238)
T PRK12696          1 MIRK-LLAASCAVLLLSGCNAARQ   23 (238)
T ss_pred             CHHH-HHHHHHHHHHHHCCCCCCC
T ss_conf             9589-9999999999516568888


No 13 
>TIGR02522 pilus_cpaD pilus (Caulobacter type) biogenesis lipoprotein CpaD; InterPro: IPR013361    Proteins in this entry consist of a pilus biogenesis protein, CpaD, from Caulobacter, and homologues in other bacteria, including three in the root nodule bacterium Bradyrhizobium japonicum. The molecular function of the homologues is not known..
Probab=83.07  E-value=2.7  Score=22.18  Aligned_cols=49  Identities=18%  Similarity=0.398  Sum_probs=29.8

Q ss_pred             HHHHHHHHHHCCCCCCC-CCCCCCCCCCCHHHHHHHHHCCCCCCCCEEEEEECCCCEEEEEEEC
Q ss_conf             99999999860466533-2223444675545677777518775784799998378699998607
Q gi|254780589|r    7 ILLFALFIFLNGCHHSR-SLIDKAEHPLSENLIISMQKKRTSPFHPTVIRIFKNENILEIWKRN   69 (239)
Q Consensus         7 ~Llfal~i~L~gc~~~~-~~~~~~~~pl~~~~~~~~~~~~~~~~~pi~Irv~K~e~~Lel~~~~   69 (239)
                      +++.++++.|+||.... ...            ..+...+.....||+|+  .++..++|....
T Consensus         2 ~~~~a~~~~LagC~~~~P~~~------------~~~~p~d~~~~~PI~v~--~~~~~~~l~v~~   51 (211)
T TIGR02522         2 VLLLALTALLAGCASTDPEID------------VGALPDDYRQRHPIAVQ--EESKSIDLLVAP   51 (211)
T ss_pred             HHHHHHHHHHHHCCCCCCCCC------------CCCCCCCCCCCCCCEEC--CCCEEEEEEECC
T ss_conf             789889999753058887555------------34323453458873551--177013455448


No 14 
>COG2989 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=82.71  E-value=2.3  Score=22.64  Aligned_cols=48  Identities=15%  Similarity=0.339  Sum_probs=33.7

Q ss_pred             CCCEEECCCCC-----------CCCCEEECHHHHHHHHHH---------HHHHHHHCCC-------CCEEEEEECC
Q ss_conf             88268716778-----------667187064669999999---------9999975085-------6111699555
Q gi|254780589|r  138 GADLMIHGECA-----------SAGCYAMNNKQMQEIYAI---------VRDSLRGNMQ-------SHIQIQAFPF  186 (239)
Q Consensus       138 G~~I~IHG~~~-----------S~GC~amtd~~i~EIy~~---------v~~a~~~~gQ-------~~~~v~~~Pf  186 (239)
                      -..|..|-+++           |+||+.+-|..=---+.|         +.+.|+. |+       ..|+||++=|
T Consensus       449 ~~aIYmHDTP~kslF~r~mRalSsGCVRvq~~rdla~~lL~d~Gws~~~v~~~ik~-g~t~~i~v~~~vPVyl~Y~  523 (561)
T COG2989         449 SHAIYLHDTPSKSLFNRDMRALSSGCVRVQKPRDLANALLKDPGWSVDRVEETLKS-GKTTPIKVRQPVPVYLYYF  523 (561)
T ss_pred             CCCEEEECCCCHHHHHHHHHHHCCCCEEECCHHHHHHHHHHCCCCCHHHHHHHHCC-CCCEEEECCCCCCEEEEEE
T ss_conf             76235206861555665777753585574488999999985579888998767416-8840200377786799999


No 15 
>PRK09967 putative outer membrane lipoprotein; Provisional
Probab=82.63  E-value=2.2  Score=22.78  Aligned_cols=127  Identities=16%  Similarity=0.201  Sum_probs=62.7

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCEEEEEECCCCEEEEEEECCCCCEEEEEEE
Q ss_conf             94046899999999860466533222344467554567777751877578479999837869999860788966899986
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHSRSLIDKAEHPLSENLIISMQKKRTSPFHPTVIRIFKNENILEIWKRNVDAEYVLLKEY   80 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~~~~~~~~~~pl~~~~~~~~~~~~~~~~~pi~Irv~K~e~~Lel~~~~~~g~~~l~ktY   80 (239)
                      |.+++|..++.++++|+||+...       .++.+..+..+..-+...                     .++-       
T Consensus         1 m~k~~~~~~l~~~l~lsgC~s~~-------~~~t~~~~~~~~~~~~~~---------------------t~~~-------   45 (160)
T PRK09967          1 MIKHLVAPLIFTSLILTGCQSPQ-------GKFTPEQVAAMQSYGFTE---------------------SAGD-------   45 (160)
T ss_pred             CHHHHHHHHHHHHHHHHHCCCCC-------CCCCHHHHHHHHHCCCCC---------------------CCCC-------
T ss_conf             90789999999999998458999-------998989988887437522---------------------3543-------


Q ss_pred             EECCCCCCCCCHHCCCCCCCCCEEEE-EEECCCCCCCCCCEEEECCCCCHHHHHCCCCCCCEEECCCCCCCCCEEECHHH
Q ss_conf             52132389887010178747507999-84012587576521420799898899729998826871677866718706466
Q gi|254780589|r   81 KICAWSGTFGPKIETGDEQAPEGFYY-IGWNNLNPNSKYFLSINIGFPNEFDKAHNRTGADLMIHGECASAGCYAMNNKQ  159 (239)
Q Consensus        81 ~Ic~~sg~lGpK~~eGD~kTPEG~Y~-i~~~~~np~S~y~ls~~i~YPN~~Dr~~grtG~~I~IHG~~~S~GC~amtd~~  159 (239)
                          |.-++           |+-+|+ .+...++|.+.--|.      ......+..+...|-|.|-+-+.|--+- |..
T Consensus        46 ----~~~g~-----------~d~V~Fd~d~~~L~~~s~~~L~------~~A~~L~~~p~~~v~I~GHTD~~G~~~y-N~~  103 (160)
T PRK09967         46 ----WSLGL-----------SDAILFAKNDYKLLPESQQQIQ------TMAAKLASTGLTHARMDGHTDNYGEDSY-NEG  103 (160)
T ss_pred             ----CCCCC-----------CCCEEECCCCCCCCHHHHHHHH------HHHHHHHHCCCCEEEEEEECCCCCCHHH-HHH
T ss_conf             ----14489-----------9837926995011998999999------9999999789962999874799899899-999


Q ss_pred             HHHHHH-HHHHHHHHCC-CCC--EEEEEE
Q ss_conf             999999-9999997508-561--116995
Q gi|254780589|r  160 MQEIYA-IVRDSLRGNM-QSH--IQIQAF  184 (239)
Q Consensus       160 i~EIy~-~v~~a~~~~g-Q~~--~~v~~~  184 (239)
                      ..|-=+ -|.++|..+| -+.  +.+.-|
T Consensus       104 LS~rRA~aV~~~l~~~g~i~~~ri~~~g~  132 (160)
T PRK09967        104 LSLKRANVVADAWAMGGQIPRSNLTTQGL  132 (160)
T ss_pred             HHHHHHHHHHHHHHHCCCCCCCEEEEEEC
T ss_conf             99999999999998537854435899964


No 16 
>COG3521 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and    vesicular transport]
Probab=81.87  E-value=1.3  Score=24.28  Aligned_cols=99  Identities=22%  Similarity=0.381  Sum_probs=44.8

Q ss_pred             CCC--HHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHCCC-----CCCCCEEEEEE--CCCCEEEEEEECCC
Q ss_conf             940--4689999999986046653322234446755456777775187-----75784799998--37869999860788
Q gi|254780589|r    1 MTN--RYNILLFALFIFLNGCHHSRSLIDKAEHPLSENLIISMQKKRT-----SPFHPTVIRIF--KNENILEIWKRNVD   71 (239)
Q Consensus         1 M~~--R~~~Llfal~i~L~gc~~~~~~~~~~~~pl~~~~~~~~~~~~~-----~~~~pi~Irv~--K~e~~Lel~~~~~~   71 (239)
                      |..  +.+.++|++++ ++||+++...     .|...-.+...+..++     ...+|+.||+|  |++...        
T Consensus         1 M~~~~~a~~~l~al~~-~sgCsss~~~-----~pp~~l~l~l~a~~~~Np~~~g~a~Pl~VrlyeLk~d~~F--------   66 (159)
T COG3521           1 MNSSRKAVLALFALLV-LSGCSSSKPL-----LPPSRLDLTLTAAPDLNPNANGEAAPLEVRLYELKDDSKF--------   66 (159)
T ss_pred             CCHHHHHHHHHHHHHH-HHHHCCCCCC-----CCCCEEEEEEEECCCCCCCCCCCCCCEEEEEEEECCCCCC--------
T ss_conf             9425778999999998-5241258877-----8971888999706876989778836639999997686544--------


Q ss_pred             CCEEEEEEEEE--CCCCCCCCCHHCCCCC--CCCCEEEEEEECCCCCCCCC
Q ss_conf             96689998652--1323898870101787--47507999840125875765
Q gi|254780589|r   72 AEYVLLKEYKI--CAWSGTFGPKIETGDE--QAPEGFYYIGWNNLNPNSKY  118 (239)
Q Consensus        72 g~~~l~ktY~I--c~~sg~lGpK~~eGD~--kTPEG~Y~i~~~~~np~S~y  118 (239)
                         . -..|.-  |...-.||.-...-|-  -.|-.++.+++. ++.+.+|
T Consensus        67 ---~-~adY~~l~~~~~~tLg~dlv~~~e~~L~Pge~k~l~~~-l~e~t~~  112 (159)
T COG3521          67 ---L-SADYDQLASDLKSTLGGDLVDVDEYILLPGETKTLSRT-LDEQTRA  112 (159)
T ss_pred             ---C-CCCHHHHHCCCCHHCCCCCCCCEEEEECCCCEEEECCC-CCCCCEE
T ss_conf             ---5-44436650562000052200113689759830770578-5635446


No 17 
>PRK09578 periplasmic multidrug efflux lipoprotein precursor; Reviewed
Probab=80.65  E-value=4.1  Score=21.12  Aligned_cols=91  Identities=14%  Similarity=0.173  Sum_probs=41.1

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCEEEEEECCCCEEEEEEECCCCCEEEEEEEE
Q ss_conf             40468999999998604665332223444675545677777518775784799998378699998607889668999865
Q gi|254780589|r    2 TNRYNILLFALFIFLNGCHHSRSLIDKAEHPLSENLIISMQKKRTSPFHPTVIRIFKNENILEIWKRNVDAEYVLLKEYK   81 (239)
Q Consensus         2 ~~R~~~Llfal~i~L~gc~~~~~~~~~~~~pl~~~~~~~~~~~~~~~~~pi~Irv~K~e~~Lel~~~~~~g~~~l~ktY~   81 (239)
                      ++|+.+++|+++++|+||+...... ..+.|.+ -.+...+...+...- -+.=.....+..+|--+- +|+   +..-.
T Consensus         6 r~~~~l~~l~~~~~L~gC~~~~~~~-~~~~~~~-V~v~~v~~~~~~~~~-~~~G~v~a~~~v~l~~~v-~G~---v~~v~   78 (385)
T PRK09578          6 RRRLALAALVAAFALAGCGKGDSDA-AAEAPRE-ATVVTVRPTSVPMTV-ELPGRLDAYRQAEVRARV-AGI---VTART   78 (385)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCC-CCCCCCE-EEEEEEEEECCCEEE-EEEEEEEEEEEEEEEEEC-CEE---EEEEE
T ss_conf             7999999999999981679998787-8999960-389998773322699-999999987999999664-469---99998


Q ss_pred             ECCCCCCCCCHHCCCCCCCCCEEEEEEE
Q ss_conf             2132389887010178747507999840
Q gi|254780589|r   82 ICAWSGTFGPKIETGDEQAPEGFYYIGW  109 (239)
Q Consensus        82 Ic~~sg~lGpK~~eGD~kTPEG~Y~i~~  109 (239)
                      +     ..|+..+.||.     ...|+.
T Consensus        79 v-----~~Gd~V~kGq~-----La~lD~   96 (385)
T PRK09578         79 Y-----EEGQEVKQGAV-----LFRIDP   96 (385)
T ss_pred             E-----CCCCEECCCCE-----EEEECC
T ss_conf             0-----79998738988-----999853


No 18 
>PRK12407 flgH flagellar basal body L-ring protein; Reviewed
Probab=76.17  E-value=2  Score=23.06  Aligned_cols=20  Identities=20%  Similarity=0.487  Sum_probs=13.7

Q ss_pred             HHHHHHHHHHHHHCCCCCCC
Q ss_conf             46899999999860466533
Q gi|254780589|r    4 RYNILLFALFIFLNGCHHSR   23 (239)
Q Consensus         4 R~~~Llfal~i~L~gc~~~~   23 (239)
                      |.|+++.+++++|+||....
T Consensus         1 kr~l~l~~~~l~LsGC~~~~   20 (220)
T PRK12407          1 KRFLILTPMVLALCGCESPA   20 (220)
T ss_pred             CCCHHHHHHHHHHHCCCCCC
T ss_conf             91579999999973658888


No 19 
>PRK09859 multidrug efflux system protein MdtE; Provisional
Probab=75.70  E-value=5.1  Score=20.51  Aligned_cols=92  Identities=16%  Similarity=0.172  Sum_probs=39.1

Q ss_pred             CCCHHHHHHH--HHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCEEEEEECCCCEEEEEEECCCCCEEEEE
Q ss_conf             9404689999--99998604665332223444675545677777518775784799998378699998607889668999
Q gi|254780589|r    1 MTNRYNILLF--ALFIFLNGCHHSRSLIDKAEHPLSENLIISMQKKRTSPFHPTVIRIFKNENILEIWKRNVDAEYVLLK   78 (239)
Q Consensus         1 M~~R~~~Llf--al~i~L~gc~~~~~~~~~~~~pl~~~~~~~~~~~~~~~~~pi~Irv~K~e~~Lel~~~~~~g~~~l~k   78 (239)
                      |++|..+|+.  .+.++|+||..........  +.|+-.+............ -+.=.....++-+|.-+- +|+   +.
T Consensus         1 m~~k~~~li~ll~~~~lL~gC~~~~~~~~~~--~~p~V~v~~v~~~~~~~~~-~~~G~v~~~~~~~l~~~V-sG~---v~   73 (385)
T PRK09859          1 MNRRRKLLIPLLFCGAMLTACDDKSAENAAA--MTPEVGVVTLSPGSVNVLS-ELPGRTVPYEVAEIRPQV-GGI---II   73 (385)
T ss_pred             CCCHHHHHHHHHHHHHHHHCCCCCCCCCCCC--CCCCEEEEEEEEEEEEEEE-EEEEEEEEEEEEEEEEEC-CEE---EE
T ss_conf             9820678999999999995379997687899--9981489998675101589-987999962899998145-629---99


Q ss_pred             EEEECCCCCCCCCHHCCCCCCCCCEEEEEEE
Q ss_conf             8652132389887010178747507999840
Q gi|254780589|r   79 EYKICAWSGTFGPKIETGDEQAPEGFYYIGW  109 (239)
Q Consensus        79 tY~Ic~~sg~lGpK~~eGD~kTPEG~Y~i~~  109 (239)
                      .-++     ..|+..++||.     ...|+.
T Consensus        74 ~~~v-----~~Gd~VkkGq~-----La~LD~   94 (385)
T PRK09859         74 KRNF-----IEGDKVNQGDS-----LYQIDP   94 (385)
T ss_pred             EEEC-----CCCCEEECCCE-----EEEECC
T ss_conf             9983-----89998848988-----998284


No 20 
>COG2134 Cdh CDP-diacylglycerol pyrophosphatase [Lipid metabolism]
Probab=74.82  E-value=7.1  Score=19.63  Aligned_cols=136  Identities=19%  Similarity=0.211  Sum_probs=68.1

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCC-CHHHHHHHHHCCCC---CCCCEEEEEECCCCEEEEEEECCC-CCEE
Q ss_conf             940468999999998604665332223444675-54567777751877---578479999837869999860788-9668
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHSRSLIDKAEHPL-SENLIISMQKKRTS---PFHPTVIRIFKNENILEIWKRNVD-AEYV   75 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~~~~~~~~~~pl-~~~~~~~~~~~~~~---~~~pi~Irv~K~e~~Lel~~~~~~-g~~~   75 (239)
                      |+++.++++.++++.+.+. .......+.+.|- --+++...-.-++.   -.+|-.  -.|+..---|+|...| -.|-
T Consensus         1 mkka~~L~l~~i~I~~~ag-a~i~~~~~~~npdaLwKIV~e~C~p~~~~~~~paPCa--eV~~~AG~av~Kd~~gPlQyL   77 (252)
T COG2134           1 MKKAGYLFLVGIVIAVLAG-ALIAYKLRPNNPDALWKIVHERCLPNYQQNQNPAPCA--EVKPQAGYAVLKDRNGPLQYL   77 (252)
T ss_pred             CCEEEHHHHHHHHHHHHCC-CCEEEECCCCCHHHHHHHHHHHCCCCHHCCCCCCCCE--EECCCCCEEEEECCCCCCEEE
T ss_conf             9501014999999999626-5157545999848999999987076610159999863--645877648881368970157


Q ss_pred             EEEEEEECCCCCCCCCHHCCCCCCCCCEEEE-------EEECCCCCCCCCCEEEECCCCCHHHHHCCCCCCCEEECCCCC
Q ss_conf             9998652132389887010178747507999-------840125875765214207998988997299988268716778
Q gi|254780589|r   76 LLKEYKICAWSGTFGPKIETGDEQAPEGFYY-------IGWNNLNPNSKYFLSINIGFPNEFDKAHNRTGADLMIHGECA  148 (239)
Q Consensus        76 l~ktY~Ic~~sg~lGpK~~eGD~kTPEG~Y~-------i~~~~~np~S~y~ls~~i~YPN~~Dr~~grtG~~I~IHG~~~  148 (239)
                      |+-+|+|   +|--.|-..|  --||-=||-       ++.+.-||-...-.|+.||=      ..|||-..+-||=+|.
T Consensus        78 LmPt~rI---tGiE~P~L~e--~atpNyf~~AWqAR~fms~kyg~~ipd~dvsLaINs------k~gRtQdqlHIHISCi  146 (252)
T COG2134          78 LMPTARI---TGIESPLLLE--PATPNYFYLAWQARDFMSKKYGNPIPDSDVSLAINS------KNGRTQDQLHIHISCI  146 (252)
T ss_pred             EEEEECC---CCCCCHHHCC--CCCCCHHHHHHHHHHHHHHHHCCCCCCCCEEEEECC------CCCCCCCCEEEEEEEC
T ss_conf             7300114---6776734407--788648999998888999971899996012888647------6686543158999845


Q ss_pred             CC
Q ss_conf             66
Q gi|254780589|r  149 SA  150 (239)
Q Consensus       149 S~  150 (239)
                      |-
T Consensus       147 sp  148 (252)
T COG2134         147 SP  148 (252)
T ss_pred             CH
T ss_conf             90


No 21 
>COG3065 Slp Starvation-inducible outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]
Probab=74.49  E-value=4.6  Score=20.82  Aligned_cols=65  Identities=22%  Similarity=0.235  Sum_probs=30.1

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCH-HHHHHHHHCCCCCCCCEE-------EEEECCCCEEEEE
Q ss_conf             94046899999999860466533222344467554-567777751877578479-------9998378699998
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHSRSLIDKAEHPLSE-NLIISMQKKRTSPFHPTV-------IRIFKNENILEIW   66 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~~~~~~~~~~pl~~-~~~~~~~~~~~~~~~pi~-------Irv~K~e~~Lel~   66 (239)
                      |+...-.|+.+++++|+||.+......+.. |.+. ++...+...+...++++.       +..-|..-.||+-
T Consensus         5 m~~~~~~l~~~laflLsgC~tiPk~l~g~~-~~s~~s~~~~~~~~~~~~gq~aR~GGkVvnv~n~~~rTrlEi~   77 (191)
T COG3065           5 MNMKKGALIGTLAFLLSGCVTIPKALKGES-PTSQQSLVRVMSQPQLYVGQQARFGGKVVNVINQKGRTRLEIA   77 (191)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHCCCC-CCCHHHEEEECCCCCCCCCCEEEECCEEEEEECCCCCEEEEEE
T ss_conf             764799999999999763035783126899-7422201100257765204423517689987627895699999


No 22 
>TIGR00752 slp outer membrane lipoprotein, Slp family; InterPro: IPR004658 Slp superfamily members are present in the Gram-negative gamma proteobacteria Escherichia coli (which also contains a close paralog), Haemophilus influenzae and Pasteurella multocida and Vibrio cholerae. The known members of the family to date share a motif LX[GA]C near the N-terminus, which is compatible with the possibility that the protein is modified into a lipoprotein with Cys as the new N-terminus. Slp from E. coli is known to be a lipoprotein of the outer membrane and to be expressed in response to carbon starvation.; GO: 0019867 outer membrane.
Probab=72.38  E-value=8.2  Score=19.27  Aligned_cols=63  Identities=22%  Similarity=0.310  Sum_probs=38.7

Q ss_pred             HHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHH-HCCCCCCCCE-------EEEEECCCCEEEEEE
Q ss_conf             68999999998604665332223444675545677777-5187757847-------999983786999986
Q gi|254780589|r    5 YNILLFALFIFLNGCHHSRSLIDKAEHPLSENLIISMQ-KKRTSPFHPT-------VIRIFKNENILEIWK   67 (239)
Q Consensus         5 ~~~Llfal~i~L~gc~~~~~~~~~~~~pl~~~~~~~~~-~~~~~~~~pi-------~Irv~K~e~~Lel~~   67 (239)
                      .-+|+.++++.|+||.+......+.++|.+-+...... +..+..+..+       -+.+-|.+-+||+-.
T Consensus         4 ~g~l~~~l~f~L~gC~~~P~~ikg~~qP~~~~s~v~v~~qp~lyvg~~aRfGGKvvnv~~~~~~T~lEi~~   74 (190)
T TIGR00752         4 KGLLITALAFLLTGCIAVPKAIKGERQPFSQKSYVEVSSQPLLYVGQEARFGGKVVNVTNLKNKTKLEILS   74 (190)
T ss_pred             HHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHEECCCCCEEECCEEEECCEEEEEEECCCCEEEEEEE
T ss_conf             14568889988753146742345567986200232110799723110575377599987648870589987


No 23 
>pfam12262 Lipase_bact_N Bacterial virulence factor lipase N-terminal. This domain family is found in bacteria, and is typically between 258 and 271 amino acids in length. There are two conserved sequence motifs: DGT and DGWST. This family is the N-terminal region of bacterial virulence factor lipase. The N-terminal region contains a potential signalling sequence.
Probab=72.30  E-value=3.7  Score=21.41  Aligned_cols=24  Identities=29%  Similarity=0.602  Sum_probs=20.1

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             940468999999998604665332
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHSRS   24 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~~~   24 (239)
                      |++.++.++++.++.|+||.+...
T Consensus         1 MKk~~l~~~i~SAL~LaGCg~~s~   24 (269)
T pfam12262         1 MKKKFLALLLASALLLAGCGDDTE   24 (269)
T ss_pred             CCHHHHHHHHHHHHHHCCCCCCCC
T ss_conf             924799999999864111579965


No 24 
>PRK11548 hypothetical protein; Provisional
Probab=69.58  E-value=9.4  Score=18.89  Aligned_cols=87  Identities=13%  Similarity=0.204  Sum_probs=50.0

Q ss_pred             CCCHHHHHHHH-HHHHHCCCCCCCCCCCCCC----CCCCHHHHHHHHHCCCC-------CCCCEEEEEECCCCEEEEEEE
Q ss_conf             94046899999-9998604665332223444----67554567777751877-------578479999837869999860
Q gi|254780589|r    1 MTNRYNILLFA-LFIFLNGCHHSRSLIDKAE----HPLSENLIISMQKKRTS-------PFHPTVIRIFKNENILEIWKR   68 (239)
Q Consensus         1 M~~R~~~Llfa-l~i~L~gc~~~~~~~~~~~----~pl~~~~~~~~~~~~~~-------~~~pi~Irv~K~e~~Lel~~~   68 (239)
                      |+.+.+...+. ++++|+||+......-+..    .-+..+.+.++ ..||+       .++|++.-.|..+|--.+|..
T Consensus         1 m~~k~l~~a~ll~~lllsgCS~~~~~vYk~dI~QGN~i~~~~v~~L-~~GMTk~QV~~iLGtP~l~d~F~~~rWdYvy~~   79 (113)
T PRK11548          1 MRCKTLTAAAAVLLMLTAGCSTLERVVYRPDINQGNYLTPNDVAKI-RVGMTQQQVAYALGTPMMSDPFGTNTWFYVFRQ   79 (113)
T ss_pred             CCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHH-CCCCCHHHHHHHCCCCCCCCCCCCCCEEEEEEE
T ss_conf             9257889999999999801157877565765575676699999876-189999999987189632388788746999999


Q ss_pred             CCCCCEEEEEEEEECCCCCCCC
Q ss_conf             7889668999865213238988
Q gi|254780589|r   69 NVDAEYVLLKEYKICAWSGTFG   90 (239)
Q Consensus        69 ~~~g~~~l~ktY~Ic~~sg~lG   90 (239)
                      ..++.  ......+..++-.-|
T Consensus        80 ~~g~~--~~~~~~ltl~Fd~~~   99 (113)
T PRK11548         80 QPGHE--KVTQQTLTLTFNSSG   99 (113)
T ss_pred             ECCCC--CEEEEEEEEEECCCC
T ss_conf             60898--358889999983999


No 25 
>TIGR02747 TraV type IV conjugative transfer system protein TraV; InterPro: IPR014118   This entry includes TraV, which is a component of conjugative type IV secretion system. TraV is an outer membrane lipoprotein that is believed to interact with the secretin TraK , , . The alignment contains three conserved cysteines in the N-terminal half..
Probab=66.18  E-value=3.4  Score=21.57  Aligned_cols=22  Identities=36%  Similarity=0.578  Sum_probs=14.3

Q ss_pred             CCCHHHHHHHHHH-HHHCCCCCC
Q ss_conf             9404689999999-986046653
Q gi|254780589|r    1 MTNRYNILLFALF-IFLNGCHHS   22 (239)
Q Consensus         1 M~~R~~~Llfal~-i~L~gc~~~   22 (239)
                      |+++.++++++++ ++|.||++.
T Consensus         1 Mmr~~~L~~~~~~~f~LtGCsa~   23 (174)
T TIGR02747         1 MMRLKVLLLLACVAFLLTGCSAS   23 (174)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHH
T ss_conf             90678999999998720025774


No 26 
>COG5633 Predicted periplasmic lipoprotein [General function prediction only]
Probab=65.41  E-value=11  Score=18.37  Aligned_cols=80  Identities=15%  Similarity=0.250  Sum_probs=42.5

Q ss_pred             HHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCEEEEEECCCCEEEEEEECCCCCEEEEEEEEECC
Q ss_conf             68999999998604665332223444675545677777518775784799998378699998607889668999865213
Q gi|254780589|r    5 YNILLFALFIFLNGCHHSRSLIDKAEHPLSENLIISMQKKRTSPFHPTVIRIFKNENILEIWKRNVDAEYVLLKEYKICA   84 (239)
Q Consensus         5 ~~~Llfal~i~L~gc~~~~~~~~~~~~pl~~~~~~~~~~~~~~~~~pi~Irv~K~e~~Lel~~~~~~g~~~l~ktY~Ic~   84 (239)
                      +++ ++..+++|.||.+......-.++.+.-..  ..-.++++...|.++.+.-+.+...+-+++....-.  -+|++ -
T Consensus         4 ~~~-~~l~~~lLvGCsS~~~i~~~~~q~vvm~~--s~l~~~Isae~~~l~~sd~~~~~~s~l~N~~q~pv~--v~Yrf-Y   77 (123)
T COG5633           4 LCL-LSLALLLLVGCSSHQEILVNDEQSVVMET--SVLIAGISAEKPVLSESDGQPSASSVLKNKRQEPVT--VHYRF-Y   77 (123)
T ss_pred             EHH-HHHHHHHHHCCCCCCCCCCCCCCEEEECC--CCEECCCCCCCCEEEEECCCCCEEEEEECCCCCCEE--EEEEE-E
T ss_conf             038-99999994204788775225502034035--513414130587026631532115897515568638--99999-9


Q ss_pred             CCCCCC
Q ss_conf             238988
Q gi|254780589|r   85 WSGTFG   90 (239)
Q Consensus        85 ~sg~lG   90 (239)
                      |.-..|
T Consensus        78 WYD~~G   83 (123)
T COG5633          78 WYDAQG   83 (123)
T ss_pred             EECCCC
T ss_conf             982888


No 27 
>pfam02402 Lysis_col Lysis protein. These small bacterial proteins are required for colicin release and partial cell lysis. This family contains lysis proteins for several different forms of colicin. Bacillus subtilis lytA has been included in this family, the similarity is not highly significant, however it is also a short protein, that is involved in secretion of other proteins (Bateman A pers. obs.).
Probab=64.21  E-value=2.9  Score=22.04  Aligned_cols=22  Identities=23%  Similarity=0.425  Sum_probs=18.6

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCC
Q ss_conf             9404689999999986046653
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHS   22 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~   22 (239)
                      |+++.++.+|.+.++|+||+..
T Consensus         1 Mkki~~~~i~~~~~~L~aCQaN   22 (46)
T pfam02402         1 MKKILFIGILLLTVLLSACQAN   22 (46)
T ss_pred             CCEEEEHHHHHHHHHHHHHHHH
T ss_conf             9242013999999999985550


No 28 
>PRK10760 murein hydrolase B; Provisional
Probab=62.86  E-value=5.5  Score=20.32  Aligned_cols=22  Identities=27%  Similarity=0.623  Sum_probs=17.3

Q ss_pred             CHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             0468999999998604665332
Q gi|254780589|r    3 NRYNILLFALFIFLNGCHHSRS   24 (239)
Q Consensus         3 ~R~~~Llfal~i~L~gc~~~~~   24 (239)
                      +|.|+.++.++++|++|++...
T Consensus         1 ~r~~~~~~~~~~~l~~css~p~   22 (357)
T PRK10760          1 KRRYVTLLPLFVLLAACSSKPK   22 (357)
T ss_pred             CCCHHHHHHHHHHHHHHCCCCC
T ss_conf             9404868999999998518999


No 29 
>pfam06474 MLTD_N MLTD_N.
Probab=61.90  E-value=8.4  Score=19.18  Aligned_cols=19  Identities=16%  Similarity=0.487  Sum_probs=11.5

Q ss_pred             HHHHHCCCCCCCCCCCCCC
Q ss_conf             9998604665332223444
Q gi|254780589|r   12 LFIFLNGCHHSRSLIDKAE   30 (239)
Q Consensus        12 l~i~L~gc~~~~~~~~~~~   30 (239)
                      ++++|+||+.+........
T Consensus         9 ~alLLaGCQst~~~~~~t~   27 (93)
T pfam06474         9 AALLLVGCQSTQAVSSTTS   27 (93)
T ss_pred             HHHHHHHHCCCCCCCCCCC
T ss_conf             9999998137999999877


No 30 
>TIGR02544 III_secr_YscJ type III secretion apparatus lipoprotein, YscJ/HrcJ family; InterPro: IPR003282 Secretion of virulence factors in Gram-negative bacteria involves transportation of the protein across two membranes to reach the cell exterior. There have been four secretion systems described in animal enteropathogens such as Salmonella and Yersinia, with further sequence similarities in plant pathogens like Ralstonia and Erwinia.   The type III secretion system is of great interest as it is used to transport virulence factors from the pathogen directly into the host cell  and is only triggered when the bacterium comes into close contact with the host. The protein subunits of the system are very similar to those of bacterial flagellar biosynthesis . However, while the latter forms a ring structure to allow secretion of flagellin and is an integral part of the flagellum itself, type III subunits in the outer membrane translocate secreted proteins through a channel-like structure.    One of the outer membrane protein subunit families, termed "K" here for nomenclature purposes, aids in the structural assembly of the invasion complex . It is also described as a lipoprotein. Members of this family include the Salmonella PrgK and SsaJ genes, MxiJ from Shigella, YscJ from Yersinia, and from the plant enteropathogens NolT (Rhizobium) and HrcJ Erwinia). The flagellar M-ring protein FliF also shares a low level of similarity, presumably due to evolution of the type III secretion system from the flagellar biosynthetic pathway.; GO: 0009306 protein secretion.
Probab=60.29  E-value=10  Score=18.65  Aligned_cols=45  Identities=18%  Similarity=0.402  Sum_probs=31.4

Q ss_pred             HHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCC
Q ss_conf             468999999998604665332223444675545677777518775
Q gi|254780589|r    4 RYNILLFALFIFLNGCHHSRSLIDKAEHPLSENLIISMQKKRTSP   48 (239)
Q Consensus         4 R~~~Llfal~i~L~gc~~~~~~~~~~~~pl~~~~~~~~~~~~~~~   48 (239)
                      |..++++.++++|+||....-..+.-..-=..+.++.+..+|+..
T Consensus         2 ~~~~~~~~l~llL~GC~~~~~Ly~gL~e~eANe~lA~L~~~gI~A   46 (203)
T TIGR02544         2 RRKLLLLLLLLLLTGCKVDLELYSGLSEREANEMLALLMRHGIDA   46 (203)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHHCCCCE
T ss_conf             358899999999717874056504789878999999999669834


No 31 
>PRK10533 putative lipoprotein; Provisional
Probab=60.20  E-value=6.5  Score=19.88  Aligned_cols=23  Identities=22%  Similarity=0.335  Sum_probs=20.4

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCC
Q ss_conf             94046899999999860466533
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHSR   23 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~~   23 (239)
                      |++..+.|++.++++|++|....
T Consensus         1 Mr~~~~~ll~PlallLSACttV~   23 (171)
T PRK10533          1 MRYSKLALLLPCALLLSACTTVT   23 (171)
T ss_pred             CCCCHHHHHHHHHHHHHHHCCCC
T ss_conf             98620389999999998722476


No 32 
>PRK00022 lolB outer membrane lipoprotein LolB; Provisional
Probab=55.56  E-value=17  Score=17.30  Aligned_cols=94  Identities=17%  Similarity=0.168  Sum_probs=38.5

Q ss_pred             HHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCH---HHHHHH-HHCCCCCCCCEEEEEECC-CCEEEEEEECCCCCEEEEE
Q ss_conf             46899999999860466533222344467554---567777-751877578479999837-8699998607889668999
Q gi|254780589|r    4 RYNILLFALFIFLNGCHHSRSLIDKAEHPLSE---NLIISM-QKKRTSPFHPTVIRIFKN-ENILEIWKRNVDAEYVLLK   78 (239)
Q Consensus         4 R~~~Llfal~i~L~gc~~~~~~~~~~~~pl~~---~~~~~~-~~~~~~~~~pi~Irv~K~-e~~Lel~~~~~~g~~~l~k   78 (239)
                      |.+.+++..+++|+||............+...   +-...+ ....-.....+.|+--++ .+-=--|.+. +.      
T Consensus         3 r~~~~l~~~~llLsgCat~p~~~~~~~~~~~~~w~~~q~~l~~l~~w~~~Gkiav~~~~~~~sa~f~W~q~-~~------   75 (203)
T PRK00022          3 RLLRLLPLAALLLAGCASLPPPKGPGKSPTSPQWQQHQQQLQQIQQYQARGRFAYISPQQRVSGRFDWQQQ-GD------   75 (203)
T ss_pred             HHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCEEEEEEEEEECCCCEEEEEEEEEEC-CC------
T ss_conf             63899999999986614899988877775667499999999734234884689998788547899999975-98------


Q ss_pred             EEEECCCCCCCCCHHC--CCCCCCCCEEEEEE
Q ss_conf             8652132389887010--17874750799984
Q gi|254780589|r   79 EYKICAWSGTFGPKIE--TGDEQAPEGFYYIG  108 (239)
Q Consensus        79 tY~Ic~~sg~lGpK~~--eGD~kTPEG~Y~i~  108 (239)
                      +|.|.+ +|++|--..  +||   |.|..-.+
T Consensus        76 ~~~i~L-~~pLG~~~~~i~~~---~~~~~L~~  103 (203)
T PRK00022         76 RYRLLL-TSPLGSTELELTGR---PGGATLED  103 (203)
T ss_pred             EEEEEE-EECCCCEEEEEEEC---CCEEEEEE
T ss_conf             169999-80266549999987---99799997


No 33 
>PRK10866 outer membrane protein assembly complex subunit YfiO; Provisional
Probab=55.15  E-value=8.7  Score=19.09  Aligned_cols=22  Identities=32%  Similarity=0.609  Sum_probs=16.2

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCC
Q ss_conf             4046899999999860466533
Q gi|254780589|r    2 TNRYNILLFALFIFLNGCHHSR   23 (239)
Q Consensus         2 ~~R~~~Llfal~i~L~gc~~~~   23 (239)
                      +++.++++.+++++|+||++..
T Consensus         3 ~~k~l~~~~~l~l~l~gCs~~~   24 (243)
T PRK10866          3 RMKYLVAAATLSLFLAGCSGSK   24 (243)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCC
T ss_conf             5899999999999998768998


No 34 
>TIGR02722 lp_ uncharacterized lipoprotein; InterPro: IPR014094   Members of this protein family are restricted to the Proteobacteria, and all are predicted lipoproteins. In genomes that contain the thiK gene for the salvage enzyme thiamin kinase, the member of this family is encoded nearby..
Probab=54.48  E-value=12  Score=18.22  Aligned_cols=27  Identities=30%  Similarity=0.512  Sum_probs=16.7

Q ss_pred             HHHHHHHHHHHCCCCCCCCCCCCCCCC
Q ss_conf             899999999860466533222344467
Q gi|254780589|r    6 NILLFALFIFLNGCHHSRSLIDKAEHP   32 (239)
Q Consensus         6 ~~Llfal~i~L~gc~~~~~~~~~~~~p   32 (239)
                      ++++++++++|+||......+..++.|
T Consensus         6 l~~~~~~Al~L~GC~~~~~~y~~~~~~   32 (215)
T TIGR02722         6 LIFVALLALLLSGCVSQRVAYTDATDP   32 (215)
T ss_pred             HHHHHHHHHHHHCCCCCCCCCCCCCCC
T ss_conf             899999999985468872665688756


No 35 
>TIGR03502 lipase_Pla1_cef extracellular lipase, Pla-1/cef family. Members of this protein family are bacterial lipoproteins largely from the Gammaproteobacteria. Characterized members are expressed in extracellularly and have esterase activity. Members include the lipase Pla-1 from Aeromonas hydrophila (AF092033) and CHO cell elongation factor (cef) from Vibrio hollisae
Probab=54.17  E-value=12  Score=18.20  Aligned_cols=21  Identities=29%  Similarity=0.293  Sum_probs=18.6

Q ss_pred             CCCHHHHHHHHHHHHHCCCCC
Q ss_conf             940468999999998604665
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHH   21 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~   21 (239)
                      |++.++.+.++.++.|+||.+
T Consensus         1 MKk~~l~~~iasal~LagCGg   21 (792)
T TIGR03502         1 MKKLLLSLAIASALGLAGCGD   21 (792)
T ss_pred             CCHHHHHHHHHHHHHHHCCCC
T ss_conf             933789999999875004578


No 36 
>PRK11627 hypothetical protein; Provisional
Probab=54.03  E-value=9.3  Score=18.93  Aligned_cols=23  Identities=26%  Similarity=0.498  Sum_probs=14.7

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             940468999999998604665332
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHSRS   24 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~~~   24 (239)
                      |.++.++.+++ +++|+||+.+..
T Consensus         1 ~mkk~~~~l~a-~~lL~gCas~p~   23 (192)
T PRK11627          1 MLKKILFPLVA-LFMLAGCATPPT   23 (192)
T ss_pred             CHHHHHHHHHH-HHHHHHHCCCCC
T ss_conf             92879999999-999986069976


No 37 
>PRK10781 rcsF outer membrane lipoprotein; Reviewed
Probab=54.00  E-value=9.8  Score=18.79  Aligned_cols=20  Identities=25%  Similarity=0.383  Sum_probs=12.4

Q ss_pred             CHHHHHHHHHHHHHCCCCCCC
Q ss_conf             046899999999860466533
Q gi|254780589|r    3 NRYNILLFALFIFLNGCHHSR   23 (239)
Q Consensus         3 ~R~~~Llfal~i~L~gc~~~~   23 (239)
                      +|++.+.| ++++|+||..-.
T Consensus         1 MR~lpi~l-lal~ltGCs~l~   20 (133)
T PRK10781          1 MRALPICL-LALMLTGCSMLS   20 (133)
T ss_pred             CCHHHHHH-HHHHHHCCCCCC
T ss_conf             92089999-999984313445


No 38 
>PRK06052 5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase; Provisional
Probab=53.62  E-value=18  Score=17.11  Aligned_cols=35  Identities=9%  Similarity=0.125  Sum_probs=18.8

Q ss_pred             HCCCCCCCCCEEEEEEECCCCCCCCCCEEEECC-CCCHHH
Q ss_conf             101787475079998401258757652142079-989889
Q gi|254780589|r   93 IETGDEQAPEGFYYIGWNNLNPNSKYFLSINIG-FPNEFD  131 (239)
Q Consensus        93 ~~eGD~kTPEG~Y~i~~~~~np~S~y~ls~~i~-YPN~~D  131 (239)
                      .+|--++|++=.--|+    .|-.-|+..|+-. |-..++
T Consensus       103 yke~~g~tl~VRVCVt----GP~eLY~~~FG~t~y~Di~~  138 (343)
T PRK06052        103 YKEETGETLEVRVCVT----GPTELYLQEFGGTRYTDIYL  138 (343)
T ss_pred             HHHHCCCCCCEEEEEC----CCHHHHHHHHCCCHHHHHHH
T ss_conf             8885088550799944----82799999848820899999


No 39 
>PRK02944 OxaA-like protein precursor; Validated
Probab=52.67  E-value=15  Score=17.64  Aligned_cols=22  Identities=32%  Similarity=0.677  Sum_probs=14.9

Q ss_pred             CCCHHHHHHH--HHHHHHCCCCCC
Q ss_conf             9404689999--999986046653
Q gi|254780589|r    1 MTNRYNILLF--ALFIFLNGCHHS   22 (239)
Q Consensus         1 M~~R~~~Llf--al~i~L~gc~~~   22 (239)
                      |++|+.+++.  +++++|+||...
T Consensus         1 mkk~~~~~~~~~~~~~~lsgC~~~   24 (255)
T PRK02944          1 MKKKLGLLAMVVALMAILAGCSEV   24 (255)
T ss_pred             CCHHHHHHHHHHHHHHHHHCCCCC
T ss_conf             928999999999999999624688


No 40 
>PRK03095 prsA peptidylprolyl isomerase; Reviewed
Probab=52.37  E-value=11  Score=18.35  Aligned_cols=23  Identities=26%  Similarity=0.271  Sum_probs=16.5

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCC
Q ss_conf             94046899999999860466533
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHSR   23 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~~   23 (239)
                      |+...+.+..+.++.|+||+.+.
T Consensus         1 MKK~~la~~~~svl~LaaC~~~~   23 (287)
T PRK03095          1 MKKAMLALAATSVIALSACGTSS   23 (287)
T ss_pred             CCHHHHHHHHHHHHHHHHCCCCC
T ss_conf             90789999999999998516899


No 41 
>PRK13835 conjugal transfer protein TrbH; Provisional
Probab=52.37  E-value=13  Score=17.92  Aligned_cols=24  Identities=21%  Similarity=0.372  Sum_probs=17.0

Q ss_pred             CHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             046899999999860466533222
Q gi|254780589|r    3 NRYNILLFALFIFLNGCHHSRSLI   26 (239)
Q Consensus         3 ~R~~~Llfal~i~L~gc~~~~~~~   26 (239)
                      +|.+++++.+.++|+||+.+....
T Consensus         1 mr~ll~~~i~a~~lsgCqta~dgl   24 (144)
T PRK13835          1 MRRLLAACILALLLSGCQTATDGL   24 (144)
T ss_pred             CHHHHHHHHHHHHHHHCCCCCCCC
T ss_conf             955999999999864041368864


No 42 
>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).
Probab=49.93  E-value=20  Score=16.84  Aligned_cols=20  Identities=40%  Similarity=0.770  Sum_probs=13.8

Q ss_pred             HHHHHHHHHHHHHCCCCCCC
Q ss_conf             46899999999860466533
Q gi|254780589|r    4 RYNILLFALFIFLNGCHHSR   23 (239)
Q Consensus         4 R~~~Llfal~i~L~gc~~~~   23 (239)
                      +.++++++++++|+||++..
T Consensus         2 ~~~~~~~~~~~~l~sCs~~~   21 (235)
T TIGR03302         2 LLLILLLALLLLLAGCSSKK   21 (235)
T ss_pred             HHHHHHHHHHHHHHHCCCCC
T ss_conf             79999999999998738997


No 43 
>pfam07901 DUF1672 Protein of unknown function (DUF1672). This family is composed of hypothetical bacterial proteins of unknown function.
Probab=49.34  E-value=17  Score=17.36  Aligned_cols=21  Identities=24%  Similarity=0.496  Sum_probs=14.0

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCC
Q ss_conf             9404689999999986046653
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHS   22 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~   22 (239)
                      |+.+ .+++++++++|.||...
T Consensus         1 MkK~-i~~il~~~llL~GCs~m   21 (304)
T pfam07901         1 MRKL-IKLILIATLLLSGCSTT   21 (304)
T ss_pred             CCHH-HHHHHHHHHHHCCCCCC
T ss_conf             9018-99999999997133445


No 44 
>PRK09810 entericidin A; Provisional
Probab=47.31  E-value=15  Score=17.63  Aligned_cols=25  Identities=28%  Similarity=0.603  Sum_probs=17.9

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             9404689999999986046653322
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHSRSL   25 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~~~~   25 (239)
                      |.+|...|++-...+|.||+.+...
T Consensus         1 mmkrli~lil~~~~ll~gcntargf   25 (41)
T PRK09810          1 MMKRLIVLVLLASTLLTGCNTARGF   25 (41)
T ss_pred             CHHHHHHHHHHHHHHHHCCCCCCCC
T ss_conf             9389999999999998256212212


No 45 
>TIGR01433 CyoA ubiquinol oxidase, subunit II; InterPro: IPR006333   Members of this domain catalyze the oxidation of ubiquinol with the concomitant reduction of molecular oxygen to water. This acts as the terminal electron acceptor in the respiratory chain. Subunit II is responsible for binding and oxidation of the ubiquinone substrate. This sequence is closely related to QoxA, which oxidizes quinol in Gram-positive bacteria but which is in complex with subunits which utilise cytochrome a in the reduction of molecular oxygen. Slightly more distantly related is subunit II of cytochrome c oxidase which uses cytochrome c as the oxidant . ; GO: 0016682 oxidoreductase activity acting on diphenols and related substances as donors oxygen as acceptor, 0006118 electron transport, 0016020 membrane.
Probab=47.13  E-value=16  Score=17.40  Aligned_cols=30  Identities=27%  Similarity=0.376  Sum_probs=16.9

Q ss_pred             HHHHHHHHHHCCCCCCCCCCCCCCCCCCHH
Q ss_conf             999999998604665332223444675545
Q gi|254780589|r    7 ILLFALFIFLNGCHHSRSLIDKAEHPLSEN   36 (239)
Q Consensus         7 ~Llfal~i~L~gc~~~~~~~~~~~~pl~~~   36 (239)
                      ++++++.++|+||+...-...+..--+..+
T Consensus         1 L~~~~~~~lLsGCNn~~LL~PkG~ig~eer   30 (228)
T TIGR01433         1 LSLILASLLLSGCNNLVLLDPKGQIGLEER   30 (228)
T ss_pred             CHHHHHHHHHHCCCCCCCCCCCCCEEHHHH
T ss_conf             857789998612567655388886530246


No 46 
>PRK09837 copper/silver efflux system outer membrane protein CusC; Provisional
Probab=47.00  E-value=22  Score=16.67  Aligned_cols=32  Identities=19%  Similarity=0.454  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHH
Q ss_conf             468999999998604665332223444675545
Q gi|254780589|r    4 RYNILLFALFIFLNGCHHSRSLIDKAEHPLSEN   36 (239)
Q Consensus         4 R~~~Llfal~i~L~gc~~~~~~~~~~~~pl~~~   36 (239)
                      ++-+|.++++++|+||... ....++..|+|..
T Consensus         3 ~~rll~l~~~l~L~gC~~~-P~y~~P~~~~p~~   34 (460)
T PRK09837          3 PCKLLPFCVALALTGCSLA-PDYQRPAMPVPQQ   34 (460)
T ss_pred             HHHHHHHHHHHHHCCCCCC-CCCCCCCCCCCCC
T ss_conf             5789999999998247789-9999969998642


No 47 
>pfam10543 ORF6N ORF6N domain. This domain was identified by Iyer and colleagues.
Probab=46.15  E-value=10  Score=18.71  Aligned_cols=52  Identities=15%  Similarity=0.382  Sum_probs=41.2

Q ss_pred             CCCEEECHHHHHHHHHH----HHHHHHHCCCCCEEEEEECCCCCHHHHHHHHCCCCH
Q ss_conf             67187064669999999----999997508561116995556898898754258673
Q gi|254780589|r  150 AGCYAMNNKQMQEIYAI----VRDSLRGNMQSHIQIQAFPFRMTSKNMQLYQNNPNY  202 (239)
Q Consensus       150 ~GC~amtd~~i~EIy~~----v~~a~~~~gQ~~~~v~~~Pfrmt~~n~~~~~~~~~~  202 (239)
                      .|+=.|||.+++|+|..    +..+++.+ +..|+--.+=|..|.+.++..+.....
T Consensus         8 rgqrV~t~~~LA~lyg~~t~~i~~~~~rN-~~RF~eg~~~F~L~~~E~~~l~~~~~~   63 (87)
T pfam10543         8 RGQRVMTDEDLAELYGVETGTINQAFKRN-RDRFPEGKFYFELTGEELKELRSQFVT   63 (87)
T ss_pred             CCEEEEEHHHHHHHHCCCHHHHHHHHHHH-HHHCCCCCEEEEECHHHHHHHHHHHCC
T ss_conf             89689778999999596857999999985-764778747999638999999986130


No 48 
>PRK10523 lipoprotein involved with copper homeostasis and adhesion; Provisional
Probab=46.06  E-value=24  Score=16.38  Aligned_cols=73  Identities=19%  Similarity=0.195  Sum_probs=33.8

Q ss_pred             CCCHHHHHHHH-HHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCEEEEEECC--CCEEEEEEECCCCCEEEE
Q ss_conf             94046899999-999860466533222344467554567777751877578479999837--869999860788966899
Q gi|254780589|r    1 MTNRYNILLFA-LFIFLNGCHHSRSLIDKAEHPLSENLIISMQKKRTSPFHPTVIRIFKN--ENILEIWKRNVDAEYVLL   77 (239)
Q Consensus         1 M~~R~~~Llfa-l~i~L~gc~~~~~~~~~~~~pl~~~~~~~~~~~~~~~~~pi~Irv~K~--e~~Lel~~~~~~g~~~l~   77 (239)
                      |++..+.++++ -++.|.||+.....  ...+|.....+..|.+   + ..-++=..+=+  +-.|.||   .||.|.+-
T Consensus         2 mkk~~~~~~~a~g~~~l~GC~~r~~~--~~~~~~~~~~lkpm~q---s-f~GvLPCADCsGI~ttL~L~---~DGtfvl~   72 (234)
T PRK10523          2 MKKAILTALAAVGLFALMGCNNRAEV--DTLSPAQAAELKPMQQ---S-WRGVLPCADCEGIDTSLFLE---KDGTWVMN   72 (234)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCC--CCCCCCHHHCCCCHHH---H-HCCEEECCCCCCCEEEEEEC---CCCCEEEE
T ss_conf             05899999999999987634665434--6667532202670335---5-34602034667843589986---89878977


Q ss_pred             EEEEE
Q ss_conf             98652
Q gi|254780589|r   78 KEYKI   82 (239)
Q Consensus        78 ktY~I   82 (239)
                      .+|-=
T Consensus        73 ~~YlG   77 (234)
T PRK10523         73 ERYLG   77 (234)
T ss_pred             EEEEC
T ss_conf             78704


No 49 
>COG4851 CamS Protein involved in sex pheromone biosynthesis [General function prediction only]
Probab=45.63  E-value=15  Score=17.56  Aligned_cols=23  Identities=26%  Similarity=0.378  Sum_probs=18.9

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCC
Q ss_conf             94046899999999860466533
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHSR   23 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~~   23 (239)
                      |++...+++.|+.++|+||.+-.
T Consensus         1 Mkktl~i~~ta~vliLs~C~~~~   23 (382)
T COG4851           1 MKKTLGIAATASVLILSGCFPFV   23 (382)
T ss_pred             CCHHHHHHHHHHHHHHHHCCCCC
T ss_conf             94015589999999986116766


No 50 
>PRK04792 tolB translocation protein TolB; Provisional
Probab=43.77  E-value=23  Score=16.48  Aligned_cols=21  Identities=24%  Similarity=0.374  Sum_probs=15.0

Q ss_pred             CCCHHHHHHHHHHHHHCCCCC
Q ss_conf             940468999999998604665
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHH   21 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~   21 (239)
                      |.+|+++.+|.++++++.+..
T Consensus         1 M~k~~~~~l~lll~~~s~~A~   21 (450)
T PRK04792          1 MLKRLILGLFVLLLSFSQVAN   21 (450)
T ss_pred             CCHHHHHHHHHHHHHHHHHHE
T ss_conf             938999999999998657520


No 51 
>TIGR02607 antidote_HigA addiction module antidote protein, HigA family; InterPro: IPR013430    Proteins in this entry form a distinct group of helix-turn-helix proteins, which are strictly bacterial and nearly always shorter than 110 amino acids. They include the characterised member HigA, without which the killer protein HigB cannot be cloned. The hig (host inhibition of growth) system is noted to be unusual in that killer protein is encoded by the upstream member of the gene pair.; GO: 0003677 DNA binding.
Probab=43.17  E-value=18  Score=17.14  Aligned_cols=29  Identities=14%  Similarity=0.216  Sum_probs=20.0

Q ss_pred             HHHHHHHHCCCCHHHHHHHHHHHHHHHHHC
Q ss_conf             889875425867378985356888999858
Q gi|254780589|r  190 SKNMQLYQNNPNYSFWNMLKLGHDYFEKNH  219 (239)
Q Consensus       190 ~~n~~~~~~~~~~~FW~~Lk~gyd~Fe~~~  219 (239)
                      +-.+++.-. ..-+||-+|+..||.-+..+
T Consensus        52 ALRL~~~lG-~sp~~WLnlQ~~YDL~~a~~   80 (81)
T TIGR02607        52 ALRLAKALG-TSPEFWLNLQNAYDLWIAEQ   80 (81)
T ss_pred             HHHHHHHHC-CCHHHHHHHHHHHHHHHHHC
T ss_conf             999999738-98768998774899999841


No 52 
>TIGR00668 apaH bis(5'-nucleosyl)-tetraphosphatase (symmetrical); InterPro: IPR004617   Diadenosine 5',5"'-P1,P4-tetraphosphate (Ap4A) is a regulatory metabolite of stress conditions. It is hydrolyzed to two ADP by Bis(5'-nucleosyl)-tetraphosphatase (symmetrical) (3.6.1.41 from EC). Alternate names include diadenosine-tetraphosphatase and Ap4A hydrolase .; GO: 0008803 bis(5'-nucleosyl)-tetraphosphatase (symmetrical) activity.
Probab=42.65  E-value=7.3  Score=19.57  Aligned_cols=33  Identities=39%  Similarity=0.538  Sum_probs=24.9

Q ss_pred             CCCEEEEEEEEECCCCCCCCCHHCCCCCCCCCEEEEEEEC
Q ss_conf             8966899986521323898870101787475079998401
Q gi|254780589|r   71 DAEYVLLKEYKICAWSGTFGPKIETGDEQAPEGFYYIGWN  110 (239)
Q Consensus        71 ~g~~~l~ktY~Ic~~sg~lGpK~~eGD~kTPEG~Y~i~~~  110 (239)
                      +++  +.++|+|..     ||=.-=-|.-||+|+|.++++
T Consensus       214 ~~P--~~~~~~I~F-----GHWASL~~~~TP~gIYaLDTG  246 (280)
T TIGR00668       214 DNP--LYKEYSIVF-----GHWASLVDEGTPEGIYALDTG  246 (280)
T ss_pred             CCC--HHHCCCEEE-----EEEEECCCCCCCCCCCCCCCC
T ss_conf             863--222455033-----022311788788743213354


No 53 
>PRK10449 heat-inducible protein; Provisional
Probab=42.26  E-value=18  Score=17.18  Aligned_cols=35  Identities=17%  Similarity=0.428  Sum_probs=23.6

Q ss_pred             CCCCEEECCCCCCC-CCEEECHHHHHHHHHHHHHHHHHC
Q ss_conf             98826871677866-718706466999999999999750
Q gi|254780589|r  137 TGADLMIHGECASA-GCYAMNNKQMQEIYAIVRDSLRGN  174 (239)
Q Consensus       137 tG~~I~IHG~~~S~-GC~amtd~~i~EIy~~v~~a~~~~  174 (239)
                      .++.|.|.+--+|. .|   .|+++.++=..+-++|..+
T Consensus        77 ~~~~L~v~~lasT~m~C---~dp~l~~~E~~i~~~L~~~  112 (140)
T PRK10449         77 SDGELTVKGLAMTRMMC---ADPQLNELDNTISEMLKKG  112 (140)
T ss_pred             CCCEEEECHHHCCCCCC---CCHHHHHHHHHHHHHHHCC
T ss_conf             59879983011005468---9868999999999996247


No 54 
>KOG3935 consensus
Probab=41.80  E-value=10  Score=18.62  Aligned_cols=19  Identities=42%  Similarity=0.782  Sum_probs=16.1

Q ss_pred             HCCCCHHHHHHHHHHHHHH
Q ss_conf             2586737898535688899
Q gi|254780589|r  197 QNNPNYSFWNMLKLGHDYF  215 (239)
Q Consensus       197 ~~~~~~~FW~~Lk~gyd~F  215 (239)
                      +++.+|.||++||.|-.+.
T Consensus       409 ~n~DSynF~~~l~gGahhi  427 (446)
T KOG3935         409 QNSDSYNFWRQLKGGAHHI  427 (446)
T ss_pred             HCCCCHHHHHHHCCCCCEE
T ss_conf             6375077999852665346


No 55 
>pfam08139 LPAM_1 Prokaryotic membrane lipoprotein lipid attachment site. In prokaryotes, membrane lipoproteins are synthesized with a precursor signal peptide, which is cleaved by a specific lipoprotein signal peptidase (signal peptidase II). The peptidase recognizes a conserved sequence and cuts upstream of a cysteine residue to which a glyceride-fatty acid lipid is attached.
Probab=41.46  E-value=19  Score=16.97  Aligned_cols=20  Identities=25%  Similarity=0.593  Sum_probs=12.1

Q ss_pred             HHHHHHHHHHHHHCCCCCCC
Q ss_conf             46899999999860466533
Q gi|254780589|r    4 RYNILLFALFIFLNGCHHSR   23 (239)
Q Consensus         4 R~~~Llfal~i~L~gc~~~~   23 (239)
                      |.+++++++++.|+||++..
T Consensus         2 kk~~~l~~~~l~LagCas~~   21 (26)
T pfam08139         2 KKLLLLLLALLLLAGCASXX   21 (26)
T ss_pred             HHHHHHHHHHHHHHCCCCCC
T ss_conf             66999999999982332001


No 56 
>PRK01326 prsA foldase protein PrsA; Reviewed
Probab=41.26  E-value=20  Score=16.81  Aligned_cols=23  Identities=13%  Similarity=0.180  Sum_probs=15.6

Q ss_pred             CCCHHHHHHHH--HHHHHCCCCCCC
Q ss_conf             94046899999--999860466533
Q gi|254780589|r    1 MTNRYNILLFA--LFIFLNGCHHSR   23 (239)
Q Consensus         1 M~~R~~~Llfa--l~i~L~gc~~~~   23 (239)
                      |+.++++.+.+  .++.|+||+...
T Consensus         1 MKKKl~~~~~~~~svl~LaaCs~~~   25 (310)
T PRK01326          1 MKKKLIAGAVTLLSVATLAACSKTN   25 (310)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             9088999999999999998716999


No 57 
>PRK13731 conjugal transfer surface exclusion protein TraT; Provisional
Probab=41.08  E-value=29  Score=15.90  Aligned_cols=98  Identities=17%  Similarity=0.264  Sum_probs=49.7

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCEEEEEECCCCEEEEEEECCCCCEEEEEEE
Q ss_conf             94046899999999860466533222344467554567777751877578479999837869999860788966899986
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHSRSLIDKAEHPLSENLIISMQKKRTSPFHPTVIRIFKNENILEIWKRNVDAEYVLLKEY   80 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~~~~~~~~~~pl~~~~~~~~~~~~~~~~~pi~Irv~K~e~~Lel~~~~~~g~~~l~ktY   80 (239)
                      |++-++..+.+.+++|+||........+-+..+.    ..|+       +-|++.= .++|+..|=.+|..++-.     
T Consensus         3 ~kk~~~~~~~~~~l~lsGC~a~~tai~krnL~Vq----TkMS-------~TIfLdP-~s~ktVyv~vrNTS~~~~-----   65 (243)
T PRK13731          3 TKKLMMVALVSSTLALSGCGAMSTAIKKRNLEVK----TQMS-------ETIWLEP-ASERTVFLQIKNTSDKDM-----   65 (243)
T ss_pred             HHHHHHHHHHHHHHHHCCHHHHHHHHHHCCCCEE----CEEC-------CCEEECC-CCCCEEEEEEECCCCCCH-----
T ss_conf             3775799999999997156876778773575222----2000-------4388668-545579999851787724-----


Q ss_pred             EECCCCCCCCCHHCCCCCCCCCEEEEEEECCCCCCCCCC-EEEECCCC
Q ss_conf             521323898870101787475079998401258757652-14207998
Q gi|254780589|r   81 KICAWSGTFGPKIETGDEQAPEGFYYIGWNNLNPNSKYF-LSINIGFP  127 (239)
Q Consensus        81 ~Ic~~sg~lGpK~~eGD~kTPEG~Y~i~~~~~np~S~y~-ls~~i~YP  127 (239)
                            ..+.+|..+ +.++ .| |.|..   ||+..+| |.-|+=|-
T Consensus        66 ------~~l~~~i~~-~L~a-kG-Y~iv~---~P~~A~Y~LQaNVL~~  101 (243)
T PRK13731         66 ------SGLQGKIAD-AVKA-KG-YQVVT---SPDKAYYWIQANVLKA  101 (243)
T ss_pred             ------HHHHHHHHH-HHHH-CC-EEEEC---CHHHCEEEEEEEEHHC
T ss_conf             ------567899999-9985-89-09867---8657607727424023


No 58 
>PRK00249 flgH flagellar basal body L-ring protein; Reviewed
Probab=41.08  E-value=25  Score=16.23  Aligned_cols=23  Identities=26%  Similarity=0.452  Sum_probs=16.5

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCC
Q ss_conf             94046899999999860466533
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHSR   23 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~~   23 (239)
                      |.+..+.++++++++|+||....
T Consensus         1 ~~~~~~~~~~~~~~~LsgCa~~~   23 (231)
T PRK00249          1 MAMMLIALALLLLLLLSGCASIP   23 (231)
T ss_pred             CCCHHHHHHHHHHHHHHHCCCCC
T ss_conf             93389999999999987534899


No 59 
>COG2980 RlpB Rare lipoprotein B [Cell envelope biogenesis, outer membrane]
Probab=39.81  E-value=30  Score=15.78  Aligned_cols=79  Identities=18%  Similarity=0.224  Sum_probs=40.5

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCCCCC--------------CCCCCCCCHHHHHHHHHCCCC-----CCCCEEEE--EECC
Q ss_conf             94046899999999860466533222--------------344467554567777751877-----57847999--9837
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHSRSLI--------------DKAEHPLSENLIISMQKKRTS-----PFHPTVIR--IFKN   59 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~~~~~--------------~~~~~pl~~~~~~~~~~~~~~-----~~~pi~Ir--v~K~   59 (239)
                      |.+-..+++.+++.+|+||+.-....              .....|+.-.+...+...+..     .+.|++-.  +--.
T Consensus         1 M~~L~~~lL~~a~~~L~aCGFhLRg~~~ip~~l~~l~l~s~d~y~~l~r~vrr~L~~n~v~vv~~~~~~p~Lri~se~~~   80 (178)
T COG2980           1 MRKLKTLLLLAAVLLLAACGFHLRGTTQIPPELKTLSLESSDPYGPLTRAVRRQLRLNGVDVVDTAKDVPVLRILSESTS   80 (178)
T ss_pred             CCCHHHHHHHHHHHHHHHCCEEECCCCCCCCCHHHEEEECCCCCCHHHHHHHHHHHHCCCEEEECCCCCCEEEECCEECC
T ss_conf             90058999999999973345343178889941133155436898768999999999849645314778607886022215


Q ss_pred             CCEEEEEEECCCCCEEEEEE
Q ss_conf             86999986078896689998
Q gi|254780589|r   60 ENILEIWKRNVDAEYVLLKE   79 (239)
Q Consensus        60 e~~Lel~~~~~~g~~~l~kt   79 (239)
                      +++..+++++...+|.+.-+
T Consensus        81 ~~t~Si~~~gr~aEy~L~~~  100 (178)
T COG2980          81 QRTASIFRQGRAAEYQLTLT  100 (178)
T ss_pred             CCEEEEEHHHHHHHHHEEEE
T ss_conf             53278632146665612468


No 60 
>PRK12698 flgH flagellar basal body L-ring protein; Reviewed
Probab=39.35  E-value=24  Score=16.42  Aligned_cols=11  Identities=36%  Similarity=0.631  Sum_probs=8.2

Q ss_pred             CCCCEEECCCC
Q ss_conf             98826871677
Q gi|254780589|r  137 TGADLMIHGEC  147 (239)
Q Consensus       137 tG~~I~IHG~~  147 (239)
                      +.|.+.|+|.-
T Consensus       148 pNGNL~I~G~k  158 (224)
T PRK12698        148 PNGNLVIRGEK  158 (224)
T ss_pred             CCCCEEEEEEE
T ss_conf             69809999989


No 61 
>COG3056 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]
Probab=38.92  E-value=22  Score=16.59  Aligned_cols=18  Identities=11%  Similarity=0.482  Sum_probs=12.9

Q ss_pred             CCCCCEEECHHHHHHHHH
Q ss_conf             866718706466999999
Q gi|254780589|r  148 ASAGCYAMNNKQMQEIYA  165 (239)
Q Consensus       148 ~S~GC~amtd~~i~EIy~  165 (239)
                      +-.|-+.-+|++|+..-.
T Consensus       162 ~~~GafsAsN~eI~~vln  179 (204)
T COG3056         162 NVEGAFSASNDEIADVLN  179 (204)
T ss_pred             EEEEEEECCCHHHHHHHH
T ss_conf             666554058867999999


No 62 
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=38.48  E-value=27  Score=16.11  Aligned_cols=24  Identities=21%  Similarity=0.220  Sum_probs=15.6

Q ss_pred             CCCHHHHHHHHH--HHHHCCCCCCCC
Q ss_conf             940468999999--998604665332
Q gi|254780589|r    1 MTNRYNILLFAL--FIFLNGCHHSRS   24 (239)
Q Consensus         1 M~~R~~~Llfal--~i~L~gc~~~~~   24 (239)
                      |+++.|+++.++  ++.|+||+...+
T Consensus         3 ~~~k~~~~~~~l~~~l~l~gCg~~~~   28 (271)
T PRK11063          3 FKFKTFAAVGALIGSLALVGCGQDEK   28 (271)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCC
T ss_conf             02999999999999997500589856


No 63 
>COG4314 NosL Predicted lipoprotein involved in nitrous oxide reduction [Energy production and conversion]
Probab=38.28  E-value=27  Score=16.03  Aligned_cols=21  Identities=24%  Similarity=0.561  Sum_probs=14.9

Q ss_pred             CHHHHHHHHHHHHHCCCCCCC
Q ss_conf             046899999999860466533
Q gi|254780589|r    3 NRYNILLFALFIFLNGCHHSR   23 (239)
Q Consensus         3 ~R~~~Llfal~i~L~gc~~~~   23 (239)
                      +|.+++.++..++|+||..+.
T Consensus         2 kr~Lla~la~~~llAgC~~~e   22 (176)
T COG4314           2 KRTLLAILAVTALLAGCRQAE   22 (176)
T ss_pred             CHHHHHHHHHHHHHHHCCHHH
T ss_conf             403799999999987534311


No 64 
>COG5645 Predicted periplasmic lipoprotein [General function prediction only]
Probab=38.12  E-value=17  Score=17.23  Aligned_cols=28  Identities=29%  Similarity=0.421  Sum_probs=17.6

Q ss_pred             CHHHHHHHHHHHHHCCCCCCCCCCCCCC
Q ss_conf             0468999999998604665332223444
Q gi|254780589|r    3 NRYNILLFALFIFLNGCHHSRSLIDKAE   30 (239)
Q Consensus         3 ~R~~~Llfal~i~L~gc~~~~~~~~~~~   30 (239)
                      +|.+++.++..+.|+||++..+.....+
T Consensus         1 mr~i~l~l~v~lllSGC~SV~s~t~~~e   28 (80)
T COG5645           1 MRNILLSLMVLLLLSGCGSVISLTIPKE   28 (80)
T ss_pred             CCEEHHHHHHHHHHCCCCEEEEECCCCC
T ss_conf             9153278999998376410377426888


No 65 
>TIGR02733 desat_CrtD C-3',4' desaturase CrtD; InterPro: IPR014104   Members of this family are encoded by slr1293, a carotenoid biosynthesis protein which was shown to be the C-3',4' desaturase (CrtD) of myxoxanthophyll biosynthesis in Synechocystis sp. (strain PCC 6803), and close homologues (presumed to be functionally equivalent) from other cyanobacteria, where myxoxanthophyll biosynthesis is either known or expected. This enzyme can act on neurosporene and so presumably catalyses the first step that is committed to myxoxanthophyll..
Probab=38.03  E-value=18  Score=17.12  Aligned_cols=70  Identities=16%  Similarity=0.139  Sum_probs=36.2

Q ss_pred             CCHHHHHHHHHCCCCCCCCEEEEEECCCCEEEEEEECCCCCEEEEEEEEECCCCCCCCC-------HHCCCCCCCCCEEE
Q ss_conf             55456777775187757847999983786999986078896689998652132389887-------01017874750799
Q gi|254780589|r   33 LSENLIISMQKKRTSPFHPTVIRIFKNENILEIWKRNVDAEYVLLKEYKICAWSGTFGP-------KIETGDEQAPEGFY  105 (239)
Q Consensus        33 l~~~~~~~~~~~~~~~~~pi~Irv~K~e~~Lel~~~~~~g~~~l~ktY~Ic~~sg~lGp-------K~~eGD~kTPEG~Y  105 (239)
                      ++..=..+++..-...++=|+=-..|++..=.    +--++++.+-.+.     ||+|.       =-+|||+|+|.|.-
T Consensus       305 ~~~~Yr~Rl~~LP~pSGA~V~Y~gvk~~alP~----~cp~HlQf~~D~~-----GP~gENNSLFVSiS~egDGRAP~G~~  375 (499)
T TIGR02733       305 LPPGYRKRLKKLPEPSGAFVLYLGVKRAALPV----DCPPHLQFLSDHQ-----GPIGENNSLFVSISQEGDGRAPAGEA  375 (499)
T ss_pred             CCHHHHHHHHHCCCCCCEEEEEECCCHHHCCC----CCCCCCEEECCCC-----CCCCCCCCEEEEECCCCCCCCCCCCE
T ss_conf             66147999972778897288600013333777----7878604500788-----88200364027865786888775753


Q ss_pred             EEEECC
Q ss_conf             984012
Q gi|254780589|r  106 YIGWNN  111 (239)
Q Consensus       106 ~i~~~~  111 (239)
                      +|-...
T Consensus       376 TlIAS~  381 (499)
T TIGR02733       376 TLIASS  381 (499)
T ss_pred             EEEEEE
T ss_conf             678742


No 66 
>PRK11023 hypothetical protein; Provisional
Probab=37.71  E-value=25  Score=16.25  Aligned_cols=21  Identities=19%  Similarity=0.384  Sum_probs=15.5

Q ss_pred             CCCHHHHHHHHHHHHHCCCCC
Q ss_conf             940468999999998604665
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHH   21 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~   21 (239)
                      |+.-..++++.++++|+||.+
T Consensus         1 mk~~~~l~~l~~~~~L~GC~~   21 (191)
T PRK11023          1 MKALSPLAVLISALLLQGCVA   21 (191)
T ss_pred             CCHHHHHHHHHHHHHHCCCHH
T ss_conf             944889999999999726823


No 67 
>PRK11459 multidrug resistance outer membrane protein MdtQ; Provisional
Probab=37.65  E-value=32  Score=15.57  Aligned_cols=22  Identities=32%  Similarity=0.523  Sum_probs=14.4

Q ss_pred             CCCHHHHHH---HHHHHHHCCCCCC
Q ss_conf             940468999---9999986046653
Q gi|254780589|r    1 MTNRYNILL---FALFIFLNGCHHS   22 (239)
Q Consensus         1 M~~R~~~Ll---fal~i~L~gc~~~   22 (239)
                      |+++.|+-.   ++++++|+||...
T Consensus         1 ~~~~~f~~~~a~l~~~llLaGCa~~   25 (478)
T PRK11459          1 MNRDSFYAATASLPLFILLAGCAPM   25 (478)
T ss_pred             CCCCCHHHHHHHHHHHHHHHCCCCC
T ss_conf             9974058889999999998378899


No 68 
>COG3093 VapI Plasmid maintenance system antidote protein [General function prediction only]
Probab=37.50  E-value=26  Score=16.17  Aligned_cols=30  Identities=17%  Similarity=0.252  Sum_probs=21.4

Q ss_pred             HHHHHHCCCCHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             9875425867378985356888999858973
Q gi|254780589|r  192 NMQLYQNNPNYSFWNMLKLGHDYFEKNHQEP  222 (239)
Q Consensus       192 n~~~~~~~~~~~FW~~Lk~gyd~Fe~~~~~p  222 (239)
                      .+++. ....-+||.+|+..||.-+....+-
T Consensus        57 rL~k~-fGtspefWlNlQ~~ydL~~~~~~~~   86 (104)
T COG3093          57 RLAKV-FGTSPEFWLNLQNAYDLWEAENAVR   86 (104)
T ss_pred             HHHHH-HCCCHHHHHHHHHHHHHHHHHCCHH
T ss_conf             99999-2998999999999988999971425


No 69 
>KOG3135 consensus
Probab=37.40  E-value=25  Score=16.28  Aligned_cols=54  Identities=19%  Similarity=0.329  Sum_probs=31.7

Q ss_pred             CCCEEEEEEECC--------CCCCCCC----CEEEECCCCCHHHHHCCCCCCCEEECCCC-CCCCCEEECH
Q ss_conf             750799984012--------5875765----21420799898899729998826871677-8667187064
Q gi|254780589|r  100 APEGFYYIGWNN--------LNPNSKY----FLSINIGFPNEFDKAHNRTGADLMIHGEC-ASAGCYAMNN  157 (239)
Q Consensus       100 TPEG~Y~i~~~~--------~np~S~y----~ls~~i~YPN~~Dr~~grtG~~I~IHG~~-~S~GC~amtd  157 (239)
                      -|-|++.-+..+        ++--|..    -+...|||-|.+--.-.-.-    |||.| |-+||||=.|
T Consensus       107 K~AG~F~Stgs~gGgqE~talta~t~LvHHGmifVPlGYkn~~a~m~~me~----V~Ggsp~GAGt~Ag~D  173 (203)
T KOG3135         107 KPAGIFVSTGSQGGGQETTALTAITQLVHHGMIFVPLGYKNFGAEMFEMEE----VHGGSPWGAGTFAGID  173 (203)
T ss_pred             CCEEEEEECCCCCCCHHHHHHHHHHHHHHCCEEEEECCCCHHHHHHHHHHC----CCCCCCCCCCEEECCC
T ss_conf             730489852677885486899999999865528985141045554421321----3588987774034587


No 70 
>KOG3413 consensus
Probab=37.40  E-value=30  Score=15.79  Aligned_cols=59  Identities=22%  Similarity=0.404  Sum_probs=39.0

Q ss_pred             EEEEECCCCCCCCCHHCCCCCCCCCEEEEEEECCCCCCCCCCEEEECCCCCHHHHHCCCCCCCEEECCC
Q ss_conf             986521323898870101787475079998401258757652142079989889972999882687167
Q gi|254780589|r   78 KEYKICAWSGTFGPKIETGDEQAPEGFYYIGWNNLNPNSKYFLSINIGFPNEFDKAHNRTGADLMIHGE  146 (239)
Q Consensus        78 ktY~Ic~~sg~lGpK~~eGD~kTPEG~Y~i~~~~~np~S~y~ls~~i~YPN~~Dr~~grtG~~I~IHG~  146 (239)
                      ..|.|....|-|-=|.  |    --|.|-|+..  .||-+-.||=+++=|+.||-.+  .|..|-.|-.
T Consensus        72 ~~~Dv~y~~GVLTl~l--g----~~GTYViNKQ--~PnkQIWlSSP~SGPkryD~~~--~~~Wiy~r~g  130 (156)
T KOG3413          72 EGFDVDYADGVLTLKL--G----SVGTYVINKQ--PPNKQIWLSSPVSGPKRYDLCR--AGEWIYLRDG  130 (156)
T ss_pred             CCCCCCCCCCEEEEEE--C----CCEEEEECCC--CCCCEEEEECCCCCCCCCCCCC--CCCEEEECCC
T ss_conf             6666320565389973--6----8435886378--9754046538888973222015--6745883387


No 71 
>pfam05590 DUF769 Xylella fastidiosa protein of unknown function (DUF769). This family consists of several uncharacterized hypothetical proteins of unknown function from Xylella fastidiosa, the organism that causes Pierce's disease in plants.
Probab=36.70  E-value=32  Score=15.62  Aligned_cols=31  Identities=23%  Similarity=0.485  Sum_probs=20.6

Q ss_pred             CHHHHHHHHHHHHHCCCCCCCCCCCCCCCCC
Q ss_conf             0468999999998604665332223444675
Q gi|254780589|r    3 NRYNILLFALFIFLNGCHHSRSLIDKAEHPL   33 (239)
Q Consensus         3 ~R~~~Llfal~i~L~gc~~~~~~~~~~~~pl   33 (239)
                      -|+...++|..++|+||++..-+..+...|.
T Consensus         5 prL~~SllaAslLLagCSsgPpIDsrTGKPM   35 (279)
T pfam05590         5 PRLSCSLLAASLLLAGCSSGPPIDSRTGKPM   35 (279)
T ss_pred             CCHHHHHHHHHHHHHCCCCCCCCCCCCCCCC
T ss_conf             6401699999999723788998667779843


No 72 
>pfam08085 Entericidin Entericidin EcnA/B family. This family consists of the entericidin antidote/toxin peptides. The entericidin locus is activated in stationary phase under high osmolarity conditions by rho-S and simultaneously repressed by the osmoregulatory EnvZ/OmpR signal transduction pathway. The entericidin locus encodes tandem paralogous genes (ecnAB) and directs the synthesis of two small cell-envelope lipoproteins which can maintain plasmids in bacterial population by means of post-segregational killing.
Probab=36.61  E-value=25  Score=16.24  Aligned_cols=23  Identities=30%  Similarity=0.508  Sum_probs=12.2

Q ss_pred             CCCHHHHHHH--HHHHHHCCCCCCC
Q ss_conf             9404689999--9999860466533
Q gi|254780589|r    1 MTNRYNILLF--ALFIFLNGCHHSR   23 (239)
Q Consensus         1 M~~R~~~Llf--al~i~L~gc~~~~   23 (239)
                      |+++..+++.  .+++.|+||+...
T Consensus         1 Mk~~~~~~~~l~~~~~~lagCNTv~   25 (42)
T pfam08085         1 MKKLIALLLALLLLALVLAGCNTVA   25 (42)
T ss_pred             CHHHHHHHHHHHHHHHHHHCCHHHH
T ss_conf             9236999999999999986122211


No 73 
>COG3417 FlgN Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]
Probab=36.53  E-value=32  Score=15.64  Aligned_cols=19  Identities=26%  Similarity=0.583  Sum_probs=13.0

Q ss_pred             CHHHHHHHHHHHHHCCCCC
Q ss_conf             0468999999998604665
Q gi|254780589|r    3 NRYNILLFALFIFLNGCHH   21 (239)
Q Consensus         3 ~R~~~Llfal~i~L~gc~~   21 (239)
                      ++.+..++.++++|+||..
T Consensus         4 ~k~~~~il~~al~l~GCs~   22 (200)
T COG3417           4 MKIYASILLLALFLSGCSS   22 (200)
T ss_pred             HHHHHHHHHHHHHHHHCCC
T ss_conf             7999999999999841136


No 74 
>PRK03002 prsA peptidylprolyl isomerase; Reviewed
Probab=35.45  E-value=28  Score=15.94  Aligned_cols=22  Identities=23%  Similarity=0.534  Sum_probs=15.4

Q ss_pred             CCCHHHHHHHHHH--HHHCCCCCC
Q ss_conf             9404689999999--986046653
Q gi|254780589|r    1 MTNRYNILLFALF--IFLNGCHHS   22 (239)
Q Consensus         1 M~~R~~~Llfal~--i~L~gc~~~   22 (239)
                      |++++++++.+++  +.|+||+..
T Consensus         1 mkkK~i~~~~~~~svl~LaaC~~~   24 (285)
T PRK03002          1 MRGKHIFIITALISILMLSACGQK   24 (285)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             960189999999999999984579


No 75 
>pfam04288 MukE MukE-like family. Bacterial protein involved in chromosome partitioning, MukE
Probab=35.40  E-value=16  Score=17.42  Aligned_cols=104  Identities=24%  Similarity=0.377  Sum_probs=52.7

Q ss_pred             CCCCCEEEEEEECCCCCCCCCCEEEECCCCCHHHHHCCC------------CCCCEEECCC-------------------
Q ss_conf             747507999840125875765214207998988997299------------9882687167-------------------
Q gi|254780589|r   98 EQAPEGFYYIGWNNLNPNSKYFLSINIGFPNEFDKAHNR------------TGADLMIHGE-------------------  146 (239)
Q Consensus        98 ~kTPEG~Y~i~~~~~np~S~y~ls~~i~YPN~~Dr~~gr------------tG~~I~IHG~-------------------  146 (239)
                      .++|||||++-++.     .  .-++.+-=|+.|-.-|+            .-.+||.+..                   
T Consensus        57 i~apEgffYLrPr~-----t--tlIprsvLSELdMlvGkvLc~LyLsperLa~~gift~qeL~deLl~l~dE~kllklv~  129 (227)
T pfam04288        57 IRAPEGFFYLRPRS-----T--TLINRSVLSELDMLVGKVLCYLYLSPERLAHEGIFTNQELYDELLTLADEKKLLKLVN  129 (227)
T ss_pred             EECCCCEEEECCCC-----C--CCCCHHHHHHHHHHHHHHHHHHCCCHHHHHCCCEEEHHHHHHHHHHHHCHHHHHHHHH
T ss_conf             97687427865665-----5--7532766448888998899997069989605881218999999997415799999982


Q ss_pred             CCCCCCEEECHHHHHHHHHHHHHHHHHCCCCC--EE-E--EEECCCCCHHHH-----HHHHCCCCHHHHHHHHHHHH
Q ss_conf             78667187064669999999999997508561--11-6--995556898898-----75425867378985356888
Q gi|254780589|r  147 CASAGCYAMNNKQMQEIYAIVRDSLRGNMQSH--IQ-I--QAFPFRMTSKNM-----QLYQNNPNYSFWNMLKLGHD  213 (239)
Q Consensus       147 ~~S~GC~amtd~~i~EIy~~v~~a~~~~gQ~~--~~-v--~~~Pfrmt~~n~-----~~~~~~~~~~FW~~Lk~gyd  213 (239)
                      ..+.|    ||-+.+-|..=|+.+|+.= ++-  |+ +  ..=-||.|++-+     .|.-++|.-+--+....|+-
T Consensus       130 ~R~~g----sDlD~~Kl~ekvr~sLrrL-rRlgmI~~l~~d~~kF~iteAvfRF~advR~~~d~~eaq~RlIrdGea  201 (227)
T pfam04288       130 NRSSG----SDLDRQKLFEKVRTSLRRL-RRLGMVITIGDNSGKFRITESVFRFGADVRLGDDPREAQLRLIRDGEA  201 (227)
T ss_pred             CCCCC----CHHHHHHHHHHHHHHHHHH-HHCCCEEEECCCCCEEEECHHHHHCCCCCCCCCCHHHHHHHHHHCCCE
T ss_conf             66886----5230999999999999999-854533312366660774178886055234678867999998852764


No 76 
>pfam07269 consensus
Probab=34.98  E-value=29  Score=15.90  Aligned_cols=20  Identities=40%  Similarity=0.811  Sum_probs=11.7

Q ss_pred             HHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             4689999999986046653322
Q gi|254780589|r    4 RYNILLFALFIFLNGCHHSRSL   25 (239)
Q Consensus         4 R~~~Llfal~i~L~gc~~~~~~   25 (239)
                      +.++|++.++  |+||+.++..
T Consensus         2 Ky~ll~l~l~--LAgC~T~d~l   21 (55)
T pfam07269         2 KYCLLLLILA--LAGCQTNDVL   21 (55)
T ss_pred             HHHHHHHHHH--HHHCCCCCCC
T ss_conf             0149999999--8751146711


No 77 
>TIGR02887 spore_ger_x_C germination protein, Ger(x)C family; InterPro: IPR008844 The GerAA, -AB, and -AC proteins of the Bacillus subtilis spore are required for the germination response to L-alanine as the sole germinant. Members of GerAC family are thought to be located in the inner spore membrane. Although the function of this family is unclear, they are likely to encode the components of the germination apparatus that respond directly to this germinant, mediating the spore's response .; GO: 0009847 spore germination, 0016020 membrane.
Probab=34.56  E-value=28  Score=15.98  Aligned_cols=20  Identities=30%  Similarity=0.602  Sum_probs=12.7

Q ss_pred             HHHHHHHHHHHHHCCCCCCC
Q ss_conf             46899999999860466533
Q gi|254780589|r    4 RYNILLFALFIFLNGCHHSR   23 (239)
Q Consensus         4 R~~~Llfal~i~L~gc~~~~   23 (239)
                      +.++++++++++|+||-...
T Consensus         3 ~~~~~~~~~~~lL~GCwd~~   22 (400)
T TIGR02887         3 LKILLLILALLLLTGCWDKR   22 (400)
T ss_pred             HHHHHHHHHHHHHCCCCCCH
T ss_conf             66789999999832665620


No 78 
>PRK05256 condesin subunit E; Provisional
Probab=34.32  E-value=17  Score=17.23  Aligned_cols=57  Identities=19%  Similarity=0.279  Sum_probs=30.0

Q ss_pred             CHHHHHHHHHHHHHHHHHCCCCC--EE-E--EEECCCCCHHHH-----HHHHCCCCHHHHHHHHHHHH
Q ss_conf             64669999999999997508561--11-6--995556898898-----75425867378985356888
Q gi|254780589|r  156 NNKQMQEIYAIVRDSLRGNMQSH--IQ-I--QAFPFRMTSKNM-----QLYQNNPNYSFWNMLKLGHD  213 (239)
Q Consensus       156 td~~i~EIy~~v~~a~~~~gQ~~--~~-v--~~~Pfrmt~~n~-----~~~~~~~~~~FW~~Lk~gyd  213 (239)
                      ||-+.+-|..=|+.+|+.= ++-  |+ +  ..=-|+.|++-+     .|.-+++.-+--+..++|+-
T Consensus       142 sDlD~~Kl~ekvr~sL~rL-~Rlg~I~~l~~d~~kf~it~AvfRF~a~vR~~dd~~Eaq~RLIrdGea  208 (230)
T PRK05256        142 SDLDRQKLQEKVRTSLRRL-RRLGMVWFMGHDSSKFRITESVFRFGADVRSGDDPREAQLRLIRDGEA  208 (230)
T ss_pred             CHHHHHHHHHHHHHHHHHH-HHHHHHHHHCCCCCEEEECHHHHHHCCCCCCCCCHHHHHHHHHHCCCC
T ss_conf             4442999999999999999-872179885066440553278886044123568866899999862661


No 79 
>COG3133 SlyB Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]
Probab=33.92  E-value=33  Score=15.53  Aligned_cols=26  Identities=19%  Similarity=0.299  Sum_probs=20.3

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             94046899999999860466533222
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHSRSLI   26 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~~~~~   26 (239)
                      |++..+.+...+++.|.||......+
T Consensus         1 M~k~~~avA~~~al~L~GCan~d~~S   26 (154)
T COG3133           1 MIKTALAVAALMALSLTGCANNDTLS   26 (154)
T ss_pred             CCHHHHHHHHHHHHHCCCCCCCCCCC
T ss_conf             94257899999887400110587436


No 80 
>COG4669 EscJ Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]
Probab=33.73  E-value=38  Score=15.18  Aligned_cols=68  Identities=16%  Similarity=0.182  Sum_probs=35.7

Q ss_pred             EEEECCCCCHHHHHCCCCCCCEEECCCCCCCCCEEEC------HHHHHHHHHHHHHHHHHCCCCCEEEEEEC--CCCCHH
Q ss_conf             1420799898899729998826871677866718706------46699999999999975085611169955--568988
Q gi|254780589|r  120 LSINIGFPNEFDKAHNRTGADLMIHGECASAGCYAMN------NKQMQEIYAIVRDSLRGNMQSHIQIQAFP--FRMTSK  191 (239)
Q Consensus       120 ls~~i~YPN~~Dr~~grtG~~I~IHG~~~S~GC~amt------d~~i~EIy~~v~~a~~~~gQ~~~~v~~~P--frmt~~  191 (239)
                      -+.+|+||+..|  .|++       ..++|+--+...      +..+-.|=.+|.+++.|=--.+|-|-.-|  +++-..
T Consensus       127 ArV~I~lp~~~~--~g~~-------~~P~saSVfIky~~~~nl~~~v~~IK~LV~nSv~gL~YenISVVl~~~~~~~~~~  197 (246)
T COG4669         127 ARVHISLPEDDD--EGKN-------ALPSSASVFIKYSPDVNLSIYVSQIKRLVANSVPGLQYENISVVLVPASDSDPAI  197 (246)
T ss_pred             EEEEEECCCCCC--CCCC-------CCCCEEEEEEEECCCCCHHHHHHHHHHHHHHCCCCCCHHCEEEEEEECCCCCCCC
T ss_conf             889997577786--6788-------8874068999956889816768999999981567776000699982044344446


Q ss_pred             HHHHH
Q ss_conf             98754
Q gi|254780589|r  192 NMQLY  196 (239)
Q Consensus       192 n~~~~  196 (239)
                      +-.+-
T Consensus       198 ~~~~~  202 (246)
T COG4669         198 PGPRA  202 (246)
T ss_pred             CCCCC
T ss_conf             67543


No 81 
>PRK11138 outer membrane protein assembly complex subunit YfgL; Provisional
Probab=32.94  E-value=39  Score=15.10  Aligned_cols=23  Identities=26%  Similarity=0.233  Sum_probs=11.7

Q ss_pred             CCCHHHHHHHH-HHHHHCCCCCCC
Q ss_conf             94046899999-999860466533
Q gi|254780589|r    1 MTNRYNILLFA-LFIFLNGCHHSR   23 (239)
Q Consensus         1 M~~R~~~Llfa-l~i~L~gc~~~~   23 (239)
                      |..|.+++... .+.+|+||....
T Consensus         1 ~~~~~~~~~~l~~~~ll~gCs~~~   24 (394)
T PRK11138          1 MQLRKLLLPGLLSVALLSGCSLFD   24 (394)
T ss_pred             CCHHHHHHHHHHHHHHHHHCCCCC
T ss_conf             951677999999999986523788


No 82 
>TIGR02422 protocat_beta protocatechuate 3,4-dioxygenase, beta subunit; InterPro: IPR012785   Protocatechuate (3,4-dihydroxybenzene, PCA) is an aromatic compound which is a key intermediate in the degradation of the plant biopolymer lignin and other aromatic compounds. The key step of PCA degradation is the ring-cleavage performed by dioxygenases adding both atoms from molecular oxygen to specific carbon atoms within the ring. This step can be performed by two distinct mechanisms; intradiol cleavage and extradiol cleavage. In intradiol cleavage the oxygen atoms are added to the carbons carrying the hydroxyl groups, producing two carboxylate groups. In extradiol cleavage the oxygens are added to one carbon carrying a hydroxyl group and another carrying a hydrogen, resulting in the formation of a carboxylate group and an aldehydic group. For further information see .   PCA dioxygenases fall into the broader category of catechol dioxygenases. These are metalloenzymes which bind non-haeme iron. The extradiol dioxygenases use Fe(II) to activate oxygen for nucleophilic attack on the aromatic substrate, while the intradiol dioxygenases use Fe(III) to activate the aromatic substrate for an electrophilic attack by oxygen .   This entry represents the beta subunit of protocatechuate 3,4-dioxygenase, an enzyme which cleaves the PCA ring by an intradiol mechanism. It is composed of two subunits, alpha (IPR012786 from INTERPRO) and beta which are highly similar in structure and are thought to share a common ancestor , , . The core of each subunit is two four-stranded beta-sheets that fold upon each other to form a beta sandwhich. The active site cavity contains the Fe(III)-binding site and is located between the two subunits. All Fe(III) ligands are contributed by the beta subunit.; GO: 0005506 iron ion binding, 0018578 protocatechuate 34-dioxygenase activity, 0019619 protocatechuate catabolic process.
Probab=32.75  E-value=14  Score=17.91  Aligned_cols=76  Identities=16%  Similarity=0.412  Sum_probs=51.4

Q ss_pred             CCCCCCCHHHHHHHHHCC-CCCCCCEEE--EEE------CCCCEEEEEEECCCCCEEEEEEEEECCCCCCCCCHHCCCCC
Q ss_conf             444675545677777518-775784799--998------37869999860788966899986521323898870101787
Q gi|254780589|r   28 KAEHPLSENLIISMQKKR-TSPFHPTVI--RIF------KNENILEIWKRNVDAEYVLLKEYKICAWSGTFGPKIETGDE   98 (239)
Q Consensus        28 ~~~~pl~~~~~~~~~~~~-~~~~~pi~I--rv~------K~e~~Lel~~~~~~g~~~l~ktY~Ic~~sg~lGpK~~eGD~   98 (239)
                      ..-.|+..-+....+..| ...+..|.|  ||.      -....+|+|..|.+|||+..+.    .|..+|-|- +-|=+
T Consensus        40 ~~~~~~DnDLt~N~~~~GE~pIGERI~V~GrVlD~~GrPVp~~LVE~WQANA~GRYrHk~D----~~~APLDPN-F~G~G  114 (224)
T TIGR02422        40 EDLGPLDNDLTKNFAHGGEEPIGERIIVHGRVLDEDGRPVPNTLVEVWQANAAGRYRHKRD----QYLAPLDPN-FGGAG  114 (224)
T ss_pred             HHCCCCHHHHHHHHHCCCCCCCCCEEEEEEEEECCCCCCCCCCEEHHEECCCCCCCCCCCC----CCCCCCCCC-CCCCE
T ss_conf             2246000157887640788877775789768865888858874100011035786246777----868888888-77512


Q ss_pred             CC---CCEEEEEE
Q ss_conf             47---50799984
Q gi|254780589|r   99 QA---PEGFYYIG  108 (239)
Q Consensus        99 kT---PEG~Y~i~  108 (239)
                      ||   .+|.|.-.
T Consensus       115 RtlTD~~G~Y~F~  127 (224)
T TIGR02422       115 RTLTDEDGYYRFR  127 (224)
T ss_pred             EEEECCCCCEEEE
T ss_conf             2343799826888


No 83 
>PRK11397 dacD D-alanyl-D-alanine carboxypeptidase; Provisional
Probab=32.05  E-value=40  Score=15.01  Aligned_cols=14  Identities=14%  Similarity=0.140  Sum_probs=6.2

Q ss_pred             CCCHHHHHHHHHHH
Q ss_conf             94046899999999
Q gi|254780589|r    1 MTNRYNILLFALFI   14 (239)
Q Consensus         1 M~~R~~~Llfal~i   14 (239)
                      |++|.++.++.+++
T Consensus         3 ~~~~~~~~~~~~~~   16 (390)
T PRK11397          3 LKRRLIIAASLFVF   16 (390)
T ss_pred             HHHHHHHHHHHHHH
T ss_conf             37899999999999


No 84 
>TIGR03431 PhnD phosphonate ABC transporter, periplasmic phosphonate binding protein. Note that this model does not identify all phnD-subfamily genes with evident phosphonate context, but all sequences above the trusted context may be inferred to bind phosphonate compounds even in the absence of such context. Furthermore, there is ample evidence to suggest that many other members of the TIGR01098 subfamily have a different primary function.
Probab=31.91  E-value=33  Score=15.53  Aligned_cols=22  Identities=23%  Similarity=0.403  Sum_probs=15.0

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCC
Q ss_conf             9404689999999986046653
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHS   22 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~   22 (239)
                      |.+|.++++++++++++++..+
T Consensus         1 m~~r~l~~~~~~~~~~~~~a~a   22 (288)
T TIGR03431         1 MLRRLILSLVAAFMLISSNAQA   22 (288)
T ss_pred             CCHHHHHHHHHHHHHHCCHHHH
T ss_conf             9088999999999997432243


No 85 
>COG5461 Type IV pili component [Cell motility and secretion]
Probab=31.04  E-value=42  Score=14.91  Aligned_cols=45  Identities=31%  Similarity=0.464  Sum_probs=23.6

Q ss_pred             HHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCEEEEEECCCCEEEE
Q ss_conf             99999999860466533222344467554567777751877578479999837869999
Q gi|254780589|r    7 ILLFALFIFLNGCHHSRSLIDKAEHPLSENLIISMQKKRTSPFHPTVIRIFKNENILEI   65 (239)
Q Consensus         7 ~Llfal~i~L~gc~~~~~~~~~~~~pl~~~~~~~~~~~~~~~~~pi~Irv~K~e~~Lel   65 (239)
                      +|+.+++.+|+||.+.......+   +|         .+....+||.|+  +.|.++.+
T Consensus        11 VL~~a~~allagCAs~d~~~~~a---ip---------ddyrt~hpI~i~--e~~~~~di   55 (224)
T COG5461          11 VLLVAATALLAGCASRDPSTTGA---IP---------DDYRTRHPIVIR--EVEPEIDI   55 (224)
T ss_pred             HHHHHHHHHHHHCCCCCCCCCCC---CC---------CCCCCCCCEEEE--CCCCCCCE
T ss_conf             99999999863213689655677---65---------323578876864--25777660


No 86 
>PRK02998 prsA peptidylprolyl isomerase; Reviewed
Probab=30.75  E-value=42  Score=14.88  Aligned_cols=26  Identities=15%  Similarity=0.317  Sum_probs=16.3

Q ss_pred             CCCHHHHHHHH---HHHHHCCCCCCCCCC
Q ss_conf             94046899999---999860466533222
Q gi|254780589|r    1 MTNRYNILLFA---LFIFLNGCHHSRSLI   26 (239)
Q Consensus         1 M~~R~~~Llfa---l~i~L~gc~~~~~~~   26 (239)
                      |+.+.+++.++   +++.|+||+++..+.
T Consensus         1 Mkkkk~~~~~~~~~~~l~LaaC~s~~~va   29 (283)
T PRK02998          1 MKKKKLFIGTIISCVVLALSACGSSDNVV   29 (283)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHCCCCCCEE
T ss_conf             93589999999999999998668998179


No 87 
>COG2143 Thioredoxin-related protein [Posttranslational modification, protein turnover, chaperones]
Probab=30.69  E-value=42  Score=14.87  Aligned_cols=51  Identities=18%  Similarity=0.364  Sum_probs=27.1

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCEEEEEECC
Q ss_conf             94046899999999860466533222344467554567777751877578479999837
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHSRSLIDKAEHPLSENLIISMQKKRTSPFHPTVIRIFKN   59 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~~~~~~~~~~pl~~~~~~~~~~~~~~~~~pi~Irv~K~   59 (239)
                      |.+-..+++|++.++|.+|......  +.+-.      ..-..+...+....++.+|-+
T Consensus         1 ~mRvl~i~Lliis~fl~a~~s~~e~--~s~~~------~~~d~ksi~~~~Kylllmfes   51 (182)
T COG2143           1 VMRVLLIVLLIISLFLSACKSNNEK--RSNID------VFDDNKSISPNDKYLLLMFES   51 (182)
T ss_pred             CCCHHHHHHHHHHHHHHHHHCCCHH--HHHHH------HHHHHHHCCCCCCEEEEEECC
T ss_conf             9001999999999999997178044--32255------677787459567589999758


No 88 
>PRK02201 putative inner membrane protein translocase component YidC; Provisional
Probab=30.69  E-value=40  Score=15.02  Aligned_cols=19  Identities=37%  Similarity=0.440  Sum_probs=11.4

Q ss_pred             HHHHHHHHHHHHHCCCCCC
Q ss_conf             4689999999986046653
Q gi|254780589|r    4 RYNILLFALFIFLNGCHHS   22 (239)
Q Consensus         4 R~~~Llfal~i~L~gc~~~   22 (239)
                      +.++-+|...+.|.||--+
T Consensus        37 Ki~~~~fl~~~~l~GC~Q~   55 (392)
T PRK02201         37 KIFFYLFLFGIGLWGCIQS   55 (392)
T ss_pred             HHHHHHHHHHHHHHHHHHH
T ss_conf             9999999999999866775


No 89 
>COG3095 MukE Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=30.55  E-value=22  Score=16.64  Aligned_cols=14  Identities=43%  Similarity=0.878  Sum_probs=11.2

Q ss_pred             CCCCCEEEEEEECC
Q ss_conf             74750799984012
Q gi|254780589|r   98 EQAPEGFYYIGWNN  111 (239)
Q Consensus        98 ~kTPEG~Y~i~~~~  111 (239)
                      -++|||||++.++.
T Consensus        64 irapegffylrprs   77 (238)
T COG3095          64 IRAPEGFFYLRPRS   77 (238)
T ss_pred             EECCCCEEEECCCC
T ss_conf             22677526865663


No 90 
>smart00095 TR_THY Transthyretin.
Probab=30.47  E-value=42  Score=14.85  Aligned_cols=44  Identities=20%  Similarity=0.388  Sum_probs=25.1

Q ss_pred             EEEEEECCCCCEEEEEEEEECCCCCCCCCHHCCCCCCCCCEEEEEEE
Q ss_conf             99986078896689998652132389887010178747507999840
Q gi|254780589|r   63 LEIWKRNVDAEYVLLKEYKICAWSGTFGPKIETGDEQAPEGFYYIGW  109 (239)
Q Consensus        63 Lel~~~~~~g~~~l~ktY~Ic~~sg~lGpK~~eGD~kTPEG~Y~i~~  109 (239)
                      ++|+++..++.|+++.+=. ..-.|.... .-.+ .+-.+|.|.+.-
T Consensus        24 V~L~~~~~~~~w~~ia~~~-Tn~DGR~~~-l~~~-~~~~~G~YrL~F   67 (121)
T smart00095       24 VKVFKKTEEGTWEPFASGK-TNESGEIHE-LTTD-EKFVEGLYKVEF   67 (121)
T ss_pred             EEEEEECCCCCEEEEEEEE-ECCCCCCCC-CCCC-CCCCCEEEEEEE
T ss_conf             9999987999779978876-389988567-6771-446765499999


No 91 
>PRK10965 multicopper oxidase; Provisional
Probab=30.01  E-value=43  Score=14.80  Aligned_cols=19  Identities=21%  Similarity=0.051  Sum_probs=12.3

Q ss_pred             CCCHHHHHHHHHHHHHCCC
Q ss_conf             9404689999999986046
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGC   19 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc   19 (239)
                      |++|-|+.+.+.+..++++
T Consensus         1 l~RR~fl~~~~~~~~~~~l   19 (530)
T PRK10965          1 MQRRDFLKLSAALGVASAL   19 (530)
T ss_pred             CCHHHHHHHHHHHHHHHHC
T ss_conf             9789999999999999867


No 92 
>PRK10796 LPS-assembly lipoprotein RlpB; Provisional
Probab=29.79  E-value=44  Score=14.78  Aligned_cols=78  Identities=17%  Similarity=0.284  Sum_probs=40.2

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCCCCC--------------CCCCCCCCHHHHHHHHHCCCCCC---C-----CEEEEEE-
Q ss_conf             94046899999999860466533222--------------34446755456777775187757---8-----4799998-
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHSRSLI--------------DKAEHPLSENLIISMQKKRTSPF---H-----PTVIRIF-   57 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~~~~~--------------~~~~~pl~~~~~~~~~~~~~~~~---~-----pi~Irv~-   57 (239)
                      |+.-..+++..++++++||+.-....              .....|+...+..++...++..-   +     |+ +++. 
T Consensus         1 ~r~l~~l~l~lavll~agCGFhLRg~~~lP~~l~tL~l~S~Dpys~Ltr~vr~qLr~~gV~lv~~~~~~~~vp~-L~i~~   79 (196)
T PRK10796          1 MRYLATLLLSLAVLVTAGCGWHLRGTTQVPSEMKTMILDSGDPNGPLSRAVRNQLRLNGVELLDKDTTRKDVPS-LRLGG   79 (196)
T ss_pred             CHHHHHHHHHHHHHHHCCCCCEECCCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHCCCEEECCCCCCCCCCE-EEECC
T ss_conf             95699999999999974767157689999864445899804878679999999998779589637875245856-99715


Q ss_pred             --CCCCEEEEEEECCCCCEEEEEE
Q ss_conf             --3786999986078896689998
Q gi|254780589|r   58 --KNENILEIWKRNVDAEYVLLKE   79 (239)
Q Consensus        58 --K~e~~Lel~~~~~~g~~~l~kt   79 (239)
                        -+++.+.|+.++.--+|+|.-+
T Consensus        80 e~~~~rtlSl~~~Gr~AEYeL~~~  103 (196)
T PRK10796         80 VSISQDTASVFRNGQTAEYQMVMT  103 (196)
T ss_pred             CCCCCEEEEECCCCHHHHHEEEEE
T ss_conf             655531698815746520178889


No 93 
>PRK12701 flgH flagellar basal body L-ring protein; Reviewed
Probab=29.45  E-value=44  Score=14.74  Aligned_cols=22  Identities=18%  Similarity=0.152  Sum_probs=12.5

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCC
Q ss_conf             9404689999999986046653
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHS   22 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~   22 (239)
                      |++-.+.+...++++|+||...
T Consensus         1 m~r~~~~~~~la~~lL~GC~~~   22 (230)
T PRK12701          1 MNRLNIAVSCLATALLFGCEAL   22 (230)
T ss_pred             CCHHHHHHHHHHHHHHHCCCCC
T ss_conf             9258999999999997556688


No 94 
>pfam07615 Ykof YKOF-related Family.
Probab=29.23  E-value=42  Score=14.88  Aligned_cols=60  Identities=8%  Similarity=0.132  Sum_probs=32.4

Q ss_pred             EEE-CHHHHHHHHHHHHHHHHHCCCCCEEEEE--ECCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHCCCCEEE
Q ss_conf             870-6466999999999999750856111699--555689889875425867378985356888999858973279
Q gi|254780589|r  153 YAM-NNKQMQEIYAIVRDSLRGNMQSHIQIQA--FPFRMTSKNMQLYQNNPNYSFWNMLKLGHDYFEKNHQEPFIQ  225 (239)
Q Consensus       153 ~am-td~~i~EIy~~v~~a~~~~gQ~~~~v~~--~Pfrmt~~n~~~~~~~~~~~FW~~Lk~gyd~Fe~~~~~p~v~  225 (239)
                      |.| +|+.|++||.-++.+=..|    +..+.  |-=|+        +.+. -+-+.-|+..+.++++....-...
T Consensus         9 YPMg~~d~m~~I~~ai~~~~~~g----v~~~s~h~sT~l--------~G~~-~~Vf~~l~~~f~~a~~~~~Hv~l~   71 (81)
T pfam07615         9 YPMGTSDFVDVILGALDALKTSG----VWDESDHYSTRL--------RGDV-GDVFDALEALFRNAAQSGGHVTLD   71 (81)
T ss_pred             EECCCCCHHHHHHHHHHHHHHCC----CEECCCEEEEEE--------ECCH-HHHHHHHHHHHHHHCCCCCEEEEE
T ss_conf             72688557999999999875339----266246168898--------4788-999999999999855789759999


No 95 
>PRK09915 putative outer membrane efflux protein MdtP; Provisional
Probab=29.16  E-value=45  Score=14.71  Aligned_cols=23  Identities=13%  Similarity=0.312  Sum_probs=14.3

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCC
Q ss_conf             94046899999999860466533
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHSR   23 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~~   23 (239)
                      |++-.+..+++++++|+||....
T Consensus         6 ~~r~~~~~~l~~~~lLagC~~~p   28 (488)
T PRK09915          6 LSRLLLCSILGSTTLISGCALVR   28 (488)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCC
T ss_conf             76999999999999975266899


No 96 
>PRK11189 lipoprotein NlpI; Provisional
Probab=28.94  E-value=45  Score=14.69  Aligned_cols=40  Identities=20%  Similarity=0.255  Sum_probs=18.7

Q ss_pred             CCCHHHHHHHH-HHHHHCCCCCCCCCC---CCCCCCCCHHHHHH
Q ss_conf             94046899999-999860466533222---34446755456777
Q gi|254780589|r    1 MTNRYNILLFA-LFIFLNGCHHSRSLI---DKAEHPLSENLIIS   40 (239)
Q Consensus         1 M~~R~~~Llfa-l~i~L~gc~~~~~~~---~~~~~pl~~~~~~~   40 (239)
                      |++..-+++++ .+++|+||.++.+..   ...-.|+.|.....
T Consensus         1 m~~~~r~~~~~~~~l~LsGC~s~~~~~~~~~~~a~plqp~~q~E   44 (297)
T PRK11189          1 MKPFLRWCFVATAALLLAGCASSNTSWRKSEVLAVPLQPSYQQE   44 (297)
T ss_pred             CCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHH
T ss_conf             95189999999999999864058876444865144678779999


No 97 
>PRK10783 mltD membrane-bound lytic murein transglycosylase D; Provisional
Probab=28.63  E-value=44  Score=14.77  Aligned_cols=22  Identities=27%  Similarity=0.492  Sum_probs=12.6

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             9404689999999986046653322
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHSRSL   25 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~~~~   25 (239)
                      |+.|.+++   .+++|+||+.+...
T Consensus         1 mk~~~~l~---~~~ll~gcq~~~~~   22 (449)
T PRK10783          1 MKAKAILL---ASVLLVGCQSSKND   22 (449)
T ss_pred             CCHHHHHH---HHHHHHHCCCCCCC
T ss_conf             91899999---99999725578888


No 98 
>pfam09476 Pilus_CpaD Pilus biogenesis CpaD protein (pilus_cpaD). Proteins in this entry consist of a pilus biogenesis protein, CpaD, from Caulobacter, and homologues in other bacteria, including three in the root nodule bacterium Bradyrhizobium japonicum. The molecular function of the homologues is not known.
Probab=28.53  E-value=46  Score=14.64  Aligned_cols=42  Identities=26%  Similarity=0.467  Sum_probs=22.7

Q ss_pred             HHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCEEEEEECCCCEEEEE
Q ss_conf             9999998604665332223444675545677777518775784799998378699998
Q gi|254780589|r    9 LFALFIFLNGCHHSRSLIDKAEHPLSENLIISMQKKRTSPFHPTVIRIFKNENILEIW   66 (239)
Q Consensus         9 lfal~i~L~gc~~~~~~~~~~~~pl~~~~~~~~~~~~~~~~~pi~Irv~K~e~~Lel~   66 (239)
                      ++++++.|+||.... ....  .|           .+....+||.|.  .++..+.|.
T Consensus         2 ll~la~~L~aCa~~~-~~~~--~p-----------~dyr~~hpI~V~--~~~~~~di~   43 (200)
T pfam09476         2 LLALALALAGCASTA-PTAS--AP-----------DDYRTRHPIVVE--EADRTLDLP   43 (200)
T ss_pred             HHHHHHHHHCCCCCC-CCCC--CC-----------CCHHHCCCCEEE--ECCEEEEEE
T ss_conf             678998873347876-4565--78-----------747552896687--435488873


No 99 
>PRK04405 prsA peptidylprolyl isomerase; Provisional
Probab=28.51  E-value=36  Score=15.28  Aligned_cols=23  Identities=22%  Similarity=0.219  Sum_probs=12.6

Q ss_pred             CCCHHHHHHHHHH-HHHCCCCCCC
Q ss_conf             9404689999999-9860466533
Q gi|254780589|r    1 MTNRYNILLFALF-IFLNGCHHSR   23 (239)
Q Consensus         1 M~~R~~~Llfal~-i~L~gc~~~~   23 (239)
                      |+...+.++.+++ +.|+||++..
T Consensus         5 MKK~~l~~~~~~~~l~LaaCss~~   28 (298)
T PRK04405          5 MKKWALAAASAGLLLSLAGCSSNN   28 (298)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf             899999999999999998717999


No 100
>KOG0749 consensus
Probab=28.42  E-value=22  Score=16.63  Aligned_cols=64  Identities=19%  Similarity=0.401  Sum_probs=37.0

Q ss_pred             HHCCCCCCCCCCCCCCCCCCHHHH-HHHHHCCCCCCC------CEEEEEECCCCEEEEEEECCCCCEEEEEEEEE
Q ss_conf             860466533222344467554567-777751877578------47999983786999986078896689998652
Q gi|254780589|r   15 FLNGCHHSRSLIDKAEHPLSENLI-ISMQKKRTSPFH------PTVIRIFKNENILEIWKRNVDAEYVLLKEYKI   82 (239)
Q Consensus        15 ~L~gc~~~~~~~~~~~~pl~~~~~-~~~~~~~~~~~~------pi~Irv~K~e~~Lel~~~~~~g~~~l~ktY~I   82 (239)
                      +|+|. .+.+++..+..|+.-..+ .+.+...|....      ..++|+-|||..+.+|+.|..   -+++-||-
T Consensus        16 fl~Gg-vaAavsKTavAPIERVKLlLQ~Q~~~~~~~~~YkGi~Dc~~r~~~eqG~~sfWRGN~a---nViRyfPt   86 (298)
T KOG0749          16 FLAGG-VAAAVSKTAVAPIERVKLLLQVQDSEIAADKRYKGIVDCFVRIPKEQGFLSFWRGNLA---NVIRYFPT   86 (298)
T ss_pred             HHCCH-HHHHHHHHCCCCHHHHHHHHHHCCCHHHHCCCCCCHHHEEEECHHHHHHHHEECCCCC---CHHHCCCH
T ss_conf             87120-7766554120527887888771311343226756622224624033112110226643---21210753


No 101
>PRK13859 type IV secretion system lipoprotein VirB7; Provisional
Probab=27.98  E-value=43  Score=14.83  Aligned_cols=23  Identities=30%  Similarity=0.608  Sum_probs=13.3

Q ss_pred             HHHHHHHHHHHHHCCCCCCCCCCCC
Q ss_conf             4689999999986046653322234
Q gi|254780589|r    4 RYNILLFALFIFLNGCHHSRSLIDK   28 (239)
Q Consensus         4 R~~~Llfal~i~L~gc~~~~~~~~~   28 (239)
                      ++++|+  +++.|++|+.++....-
T Consensus         2 KY~lL~--l~l~La~CqT~D~lAtc   24 (55)
T PRK13859          2 KYCLLC--LALALAGCQTNDTLASC   24 (55)
T ss_pred             CHHHHH--HHHHHHHCCCCCCCCCC
T ss_conf             013999--99999860046831124


No 102
>TIGR03525 GldK gliding motility-associated lipoprotein GldK. Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldK is a lipoprotein linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae. Knockouts of GldK abolish the gliding phenotype. GldK is homologous to GldJ. There is a GldK homolog in Cytophaga hutchinsonii and several other species that has a different, shorter architecture and is represented by a separate model. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.
Probab=27.76  E-value=43  Score=14.84  Aligned_cols=19  Identities=16%  Similarity=0.460  Sum_probs=11.4

Q ss_pred             HHHHHHHHHHHHHCCCCCC
Q ss_conf             4689999999986046653
Q gi|254780589|r    4 RYNILLFALFIFLNGCHHS   22 (239)
Q Consensus         4 R~~~Llfal~i~L~gc~~~   22 (239)
                      |-++++++++++|++|+..
T Consensus         2 kk~~~~~~~~~~~~SCg~~   20 (449)
T TIGR03525         2 KKYLVFAALVVLVYSCGSG   20 (449)
T ss_pred             CHHHHHHHHHHHHHHCCCC
T ss_conf             1248999999987210589


No 103
>COG5510 Predicted small secreted protein [Function unknown]
Probab=27.74  E-value=37  Score=15.22  Aligned_cols=23  Identities=22%  Similarity=0.400  Sum_probs=12.4

Q ss_pred             CCCH---HHHHHHHHHHHHCCCCCCC
Q ss_conf             9404---6899999999860466533
Q gi|254780589|r    1 MTNR---YNILLFALFIFLNGCHHSR   23 (239)
Q Consensus         1 M~~R---~~~Llfal~i~L~gc~~~~   23 (239)
                      |.+|   ..+++.+..+.|++|+...
T Consensus         1 mmk~t~l~i~~vll~s~llaaCNT~r   26 (44)
T COG5510           1 MMKKTILLIALVLLASTLLAACNTMR   26 (44)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             90489999999999999998866300


No 104
>pfam00820 Lipoprotein_1 Borrelia lipoprotein. This family of lipoproteins is found in Borrelia spirochetes. The function of these proteins is uncertain.
Probab=27.72  E-value=47  Score=14.55  Aligned_cols=58  Identities=21%  Similarity=0.234  Sum_probs=29.5

Q ss_pred             HHHHHHHHHHHHHCCCCCCC-CCCCCCCCCCCHHHHHHHHHCCCCCCCCEEEEEECCCCEEEEEEECCCCCEEEEEEEEE
Q ss_conf             46899999999860466533-22234446755456777775187757847999983786999986078896689998652
Q gi|254780589|r    4 RYNILLFALFIFLNGCHHSR-SLIDKAEHPLSENLIISMQKKRTSPFHPTVIRIFKNENILEIWKRNVDAEYVLLKEYKI   82 (239)
Q Consensus         4 R~~~Llfal~i~L~gc~~~~-~~~~~~~~pl~~~~~~~~~~~~~~~~~pi~Irv~K~e~~Lel~~~~~~g~~~l~ktY~I   82 (239)
                      +-++|.|++.+.|.+|.-.. +...+...           ..+++-+-.  |.|-||.        +.+|+|.|+.+-.-
T Consensus         2 kkyllgi~LilaliaCkQn~ss~dek~s~-----------svdLp~~~k--vlvSKEK--------nkdGKY~L~AtVDk   60 (273)
T pfam00820         2 KKYLLGIGLILALIACKQNVSSLDEKNSV-----------SVDLPGEME--VLVSKEK--------NKDGKYSLRATVDT   60 (273)
T ss_pred             CEEEHHHHHHHHHHHHHCCCCCCCCCCCC-----------EECCCCCEE--EEEECCC--------CCCCCEEEEEEEEE
T ss_conf             44311589999998760335554435661-----------022899708--9998124--------77875788888754


No 105
>TIGR03112 6_pyr_pter_rel 6-pyruvoyl tetrahydropterin synthase-related domain. Members of this family are small proteins, or small domains of larger proteins, that occur in certain Firmicutes in the same regions as members of families TIGR03110 and TIGR03111. Members of TIGR03110 resemble exosortase, a proposed protein sorting transpeptidase (see TIGR02602). TIGR03111 represents a small clade among the group 2 glycosyltransferases. Members of the current protein family resemble eukaryotic known and prokaryotic predicted 6-pyruvoyl tetrahydropterin synthases.
Probab=27.45  E-value=48  Score=14.52  Aligned_cols=61  Identities=18%  Similarity=0.235  Sum_probs=39.7

Q ss_pred             ECCCCCCCCCEEECHH----HHHHHHHHHHHHHHHCCCCCEEEEEECCC---CCHHHHHHHHCCCCHHHHHHHHHH
Q ss_conf             7167786671870646----69999999999997508561116995556---898898754258673789853568
Q gi|254780589|r  143 IHGECASAGCYAMNNK----QMQEIYAIVRDSLRGNMQSHIQIQAFPFR---MTSKNMQLYQNNPNYSFWNMLKLG  211 (239)
Q Consensus       143 IHG~~~S~GC~amtd~----~i~EIy~~v~~a~~~~gQ~~~~v~~~Pfr---mt~~n~~~~~~~~~~~FW~~Lk~g  211 (239)
                      +||-.|-+-|...+++    +..+|=..+++.+.. -+..+==.+-||.   .|.+|+++|       ||..|++-
T Consensus        22 lHgHtw~v~v~v~~~~~~~idF~~lk~~v~~vl~~-ldh~~LNel~pF~~~NPT~ENia~y-------i~~~l~~~   89 (113)
T TIGR03112        22 KHPHTWEITIFVIKKEDKFILFNDVEKKVEKYLKP-YQNKYLNDLEPFDKINPTLENIGDY-------FFDEIKKL   89 (113)
T ss_pred             CCCCCEEEEEEEEECCCCEEEHHHHHHHHHHHHHH-HCCCHHCCCCCCCCCCCCHHHHHHH-------HHHHHHHH
T ss_conf             76986799999980888687299999999999987-5751010487535689878999999-------99999987


No 106
>PRK11251 DNA-binding transcriptional activator OsmE; Provisional
Probab=27.27  E-value=45  Score=14.70  Aligned_cols=33  Identities=21%  Similarity=0.343  Sum_probs=19.1

Q ss_pred             HHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCC
Q ss_conf             99998604665332223444675545677777518775
Q gi|254780589|r   11 ALFIFLNGCHHSRSLIDKAEHPLSENLIISMQKKRTSP   48 (239)
Q Consensus        11 al~i~L~gc~~~~~~~~~~~~pl~~~~~~~~~~~~~~~   48 (239)
                      +.+.+|+||..-.........||...+     .+||+.
T Consensus        10 a~~~~LaGCt~~d~~~~~~~ePlVkdV-----~~GMT~   42 (109)
T PRK11251         10 AVLTMLAGCTAYDRNPVQYVEPVVKDV-----KKGMTR   42 (109)
T ss_pred             HHHHHHHHCCCCCCCHHHHCCHHHHHH-----HCCCCH
T ss_conf             999999714477678134315069888-----747579


No 107
>TIGR01819 F420_cofD LPPG:Fo 2-phospho-L-lactate transferase; InterPro: IPR010115   This entry represents LPPG:Fo 2-phospho-L-lactate transferase (CofD), which catalyses the fourth step in the biosynthesis of coenzyme F420, a flavin derivative found in methanogens, Mycobacteria, and several other lineages. This enzyme is characterised so far in Methanococcus jannaschii  but appears restricted to F420-containing species and is predicted to carry out the same function in these other species. .
Probab=26.92  E-value=23  Score=16.47  Aligned_cols=50  Identities=26%  Similarity=0.350  Sum_probs=33.6

Q ss_pred             CCCCC-CCHHCCCCCCC-CCEEEEEEECCCCCCCCCCEEEECCCCCHHHHHCCCCCCCEEECCCC
Q ss_conf             23898-87010178747-50799984012587576521420799898899729998826871677
Q gi|254780589|r   85 WSGTF-GPKIETGDEQA-PEGFYYIGWNNLNPNSKYFLSINIGFPNEFDKAHNRTGADLMIHGEC  147 (239)
Q Consensus        85 ~sg~l-GpK~~eGD~kT-PEG~Y~i~~~~~np~S~y~ls~~i~YPN~~Dr~~grtG~~I~IHG~~  147 (239)
                      .||+. |||+-+|=+|. |+|-|..+..+.  +..--++-           -+-||.++||||.-
T Consensus         4 LaGGtGtpkLL~Glk~v~~~Gqfaansahs--dad~el~V-----------vvNTgdD~w~~Gl~   55 (359)
T TIGR01819         4 LAGGTGTPKLLQGLKRVLPEGQFAANSAHS--DADAELTV-----------VVNTGDDVWIGGLK   55 (359)
T ss_pred             EECCCCCHHHHHHHHHHCCCCCEEHHCCCC--CCCCCEEE-----------EEECCCEEEECCCE
T ss_conf             635867078999999874886311000025--53444488-----------98311304450752


No 108
>pfam06604 consensus
Probab=26.79  E-value=49  Score=14.45  Aligned_cols=18  Identities=33%  Similarity=0.578  Sum_probs=13.1

Q ss_pred             HHHHHHHHHHHCCCCCCC
Q ss_conf             899999999860466533
Q gi|254780589|r    6 NILLFALFIFLNGCHHSR   23 (239)
Q Consensus         6 ~~Llfal~i~L~gc~~~~   23 (239)
                      |+.+.++.++|+||+...
T Consensus         8 ~~~~~~~v~~laGCq~~~   25 (181)
T pfam06604         8 LVAGLAAVLVLAGCQRSR   25 (181)
T ss_pred             HHHHHHHHHHHHCCCCCC
T ss_conf             899999999973445333


No 109
>PRK13883 conjugal transfer protein TrbH; Provisional
Probab=26.39  E-value=50  Score=14.41  Aligned_cols=31  Identities=13%  Similarity=0.239  Sum_probs=17.0

Q ss_pred             EEEEEECCCCCCCCCCEEEECCCC---CHHHHHCCC
Q ss_conf             999840125875765214207998---988997299
Q gi|254780589|r  104 FYYIGWNNLNPNSKYFLSINIGFP---NEFDKAHNR  136 (239)
Q Consensus       104 ~Y~i~~~~~np~S~y~ls~~i~YP---N~~Dr~~gr  136 (239)
                      +|-||.-  ....-|.+++.||.-   .+|...+|.
T Consensus       112 ~YVlDq~--~~~nLYRvtl~VG~QslSRaY~~qng~  145 (156)
T PRK13883        112 RYVLDQA--GDSNLYRLTLMVGNQSITRAYLAQNGT  145 (156)
T ss_pred             EEEEECC--CCCCEEEEEEEECCEEECHHHHHHCCC
T ss_conf             8997037--888648999998999830788863895


No 110
>PRK10672 rare lipoprotein A; Provisional
Probab=26.36  E-value=50  Score=14.40  Aligned_cols=22  Identities=18%  Similarity=0.285  Sum_probs=16.0

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCC
Q ss_conf             94046899999999860466533
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHSR   23 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~~   23 (239)
                      |++-|+++.++.+ +|+||....
T Consensus         1 mr~~wl~~~~~~~-ll~~c~~~~   22 (369)
T PRK10672          1 MRKQWLGICIAAG-LLAACTSDD   22 (369)
T ss_pred             CCHHHHHHHHHHH-HHHHCCCCC
T ss_conf             9333589999999-986525886


No 111
>TIGR00784 citMHS citrate transporter; InterPro: IPR014738   This entry consists of known and predicted citrate transporters. It includes two characterised citrate/proton symporters, CitM and CitH, from Bacillus subtilis . Both of these proteins couple the uptake of citrate in complex with a divalent cation to the uptake of protons, but differ in their metal ion specificities. CitM transports citrate in complex with Mg(2+), Ni(2+), Mn(2+), Co(2+), and Zn2(+), while CitH transports citrate in complex with Ca(2+), Ba(2+), and Sr(2+). A third paralog, YraO, exists in B. subtilis, but the function of this protein is not known. .
Probab=25.99  E-value=16  Score=17.39  Aligned_cols=16  Identities=13%  Similarity=0.557  Sum_probs=12.2

Q ss_pred             CCEEEECCCCCHHHHH
Q ss_conf             5214207998988997
Q gi|254780589|r  118 YFLSINIGFPNEFDKA  133 (239)
Q Consensus       118 y~ls~~i~YPN~~Dr~  133 (239)
                      |-+|+-+||||...+.
T Consensus       268 F~~AL~vNYPNvk~Q~  283 (439)
T TIGR00784       268 FVVALIVNYPNVKEQK  283 (439)
T ss_pred             HHHHHHHCCCCHHHHH
T ss_conf             9999870587746789


No 112
>PRK12788 flgH flagellar basal body L-ring protein; Reviewed
Probab=25.85  E-value=51  Score=14.34  Aligned_cols=19  Identities=26%  Similarity=0.539  Sum_probs=12.3

Q ss_pred             CHHHHHHHHHHHHHCCCCCC
Q ss_conf             04689999999986046653
Q gi|254780589|r    3 NRYNILLFALFIFLNGCHHS   22 (239)
Q Consensus         3 ~R~~~Llfal~i~L~gc~~~   22 (239)
                      +|++++++++ ++|+||...
T Consensus         1 mr~l~~~~a~-l~LsGCa~~   19 (231)
T PRK12788          1 MRLLVAILAC-LALAGCANN   19 (231)
T ss_pred             CCHHHHHHHH-HHHHHHCCC
T ss_conf             9089999999-997640387


No 113
>PRK13733 conjugal transfer protein TraV; Provisional
Probab=25.53  E-value=11  Score=18.57  Aligned_cols=25  Identities=20%  Similarity=0.297  Sum_probs=19.4

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             9404689999999986046653322
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHSRSL   25 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~~~~   25 (239)
                      |+...|++.++..++|+||.+..+.
T Consensus         1 mk~~~~l~~l~~~llLtGCAG~nSd   25 (171)
T PRK13733          1 MKKISLLIPLLGTLLLSGCAGTNSE   25 (171)
T ss_pred             CCEEEEEHHHCCEEEEECCCCCCCC
T ss_conf             9516751120260026024577754


No 114
>KOG4824 consensus
Probab=24.98  E-value=53  Score=14.25  Aligned_cols=35  Identities=17%  Similarity=0.284  Sum_probs=23.5

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCH
Q ss_conf             94046899999999860466533222344467554
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHSRSLIDKAEHPLSE   35 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~~~~~~~~~~pl~~   35 (239)
                      |.+..|+|+|+..+++++...+.......+.|+.+
T Consensus         6 ~l~~~~~l~~~a~L~~~a~gqa~~lg~cpnypv~k   40 (224)
T KOG4824           6 ALRKCFVLGFAAILLLSAAGQAIALGECPNYPVAK   40 (224)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCC
T ss_conf             89999999889999864156467304689985346


No 115
>PRK13616 lipoprotein LpqB; Provisional
Probab=24.94  E-value=39  Score=15.09  Aligned_cols=20  Identities=20%  Similarity=0.394  Sum_probs=15.7

Q ss_pred             CCHHHHHHHHHHHHHCCCCC
Q ss_conf             40468999999998604665
Q gi|254780589|r    2 TNRYNILLFALFIFLNGCHH   21 (239)
Q Consensus         2 ~~R~~~Llfal~i~L~gc~~   21 (239)
                      ++|.+.++.+++++|+||.+
T Consensus         5 ~~~~~~~~~~~~~llaGCas   24 (590)
T PRK13616          5 RLKALAALLAVALLVAGCAS   24 (590)
T ss_pred             HHHHHHHHHHHHHHHHHCCC
T ss_conf             99999999999998612036


No 116
>TIGR03659 IsdE heme ABC transporter, heme-binding protein isdE. This family of ABC substrate-binding proteins is observed primarily in close proximity with proteins localized to the cell wall and bearing the NEAT (NEAr Transporter, pfam05031) heme-binding domain. IsdE has been shown to bind heme and is involved in the process of scavenging heme for the purpose of obtaining iron.
Probab=24.69  E-value=54  Score=14.21  Aligned_cols=19  Identities=42%  Similarity=0.571  Sum_probs=11.4

Q ss_pred             HHHHHHHHHHHCCCCCCCC
Q ss_conf             8999999998604665332
Q gi|254780589|r    6 NILLFALFIFLNGCHHSRS   24 (239)
Q Consensus         6 ~~Llfal~i~L~gc~~~~~   24 (239)
                      +++++.+++.|+||+....
T Consensus         6 ~~~~~~~~~~l~~C~~~~~   24 (289)
T TIGR03659         6 LILLALLSLGLTGCSSSKA   24 (289)
T ss_pred             HHHHHHHHHHHHHCCCCCC
T ss_conf             9999999999843289987


No 117
>KOG0884 consensus
Probab=24.27  E-value=42  Score=14.90  Aligned_cols=24  Identities=25%  Similarity=0.412  Sum_probs=14.9

Q ss_pred             CCCCCCCEEECCCC-----------CCCCCEEECHHH
Q ss_conf             29998826871677-----------866718706466
Q gi|254780589|r  134 HNRTGADLMIHGEC-----------ASAGCYAMNNKQ  159 (239)
Q Consensus       134 ~grtG~~I~IHG~~-----------~S~GC~amtd~~  159 (239)
                      -||.|..||  |..           .+.||++|.|..
T Consensus        59 tgrgg~siw--g~~fede~~~~lkh~~rg~vsmanng   93 (161)
T KOG0884          59 TGRGGNSIW--GKKFEDEYSEYLKHNVRGVVSMANNG   93 (161)
T ss_pred             CCCCCCCCC--CCCCHHHHHHHHHCCCCEEEECCCCC
T ss_conf             688875424--87432889998750631068713279


No 118
>PRK10510 putative outer membrane lipoprotein; Provisional
Probab=24.25  E-value=55  Score=14.16  Aligned_cols=49  Identities=16%  Similarity=0.119  Sum_probs=24.7

Q ss_pred             CCCCCCCEEECCCCCCCCCEEECHHHHHHHHHHHHHHHHHCCCCCEEEE
Q ss_conf             2999882687167786671870646699999999999975085611169
Q gi|254780589|r  134 HNRTGADLMIHGECASAGCYAMNNKQMQEIYAIVRDSLRGNMQSHIQIQ  182 (239)
Q Consensus       134 ~grtG~~I~IHG~~~S~GC~amtd~~i~EIy~~v~~a~~~~gQ~~~~v~  182 (239)
                      +.++...|-|-|-.-+.|--+..-.--++==.-|.+-|...|-..-++.
T Consensus       139 ~~yp~~~V~I~GHTD~~G~~~yN~~LS~~RA~aV~~yL~~~GV~~~Ri~  187 (219)
T PRK10510        139 KEYPKTAVNVVGYTDSTGSHDLNMRLSQQRADSVASALITQGVDASRIR  187 (219)
T ss_pred             HHCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHEE
T ss_conf             9889927999987689671999999999999999999998599956489


No 119
>PRK13736 conjugal transfer protein TraK; Provisional
Probab=24.22  E-value=55  Score=14.16  Aligned_cols=23  Identities=9%  Similarity=0.044  Sum_probs=11.9

Q ss_pred             CCCEEECHHHHHHHHHHHHHHHH
Q ss_conf             67187064669999999999997
Q gi|254780589|r  150 AGCYAMNNKQMQEIYAIVRDSLR  172 (239)
Q Consensus       150 ~GC~amtd~~i~EIy~~v~~a~~  172 (239)
                      .--..-++.+..-|-.+.+.-.+
T Consensus       128 a~~~e~s~~Y~~~l~~l~~am~~  150 (245)
T PRK13736        128 AKAWETSQPYESLLVALSQAVRG  150 (245)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHC
T ss_conf             44222138788999999999973


No 120
>TIGR00693 thiE thiamine-phosphate pyrophosphorylase; InterPro: IPR003733   Thiamine monophosphate synthase (TMP) (2.5.1.3 from EC) catalyzes the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5- (beta-hydroxyethyl)thiazole phosphate to yield thiamine phosphate in the thiamine biosynthesis pathway .   TENI, a protein from Bacillus subtilis that regulates the production of several extracellular enzymes by reducing alkaline protease production belongs to this group .; GO: 0004789 thiamin-phosphate diphosphorylase activity, 0009228 thiamin biosynthetic process.
Probab=23.99  E-value=56  Score=14.13  Aligned_cols=59  Identities=14%  Similarity=0.194  Sum_probs=40.6

Q ss_pred             CEEECHHHH----HHHHHHHHHHHHHCCCCCEEEEEECCCCCHHHHHHHHCCC-------CHHHHHHHHHHHHHHHHHCC
Q ss_conf             187064669----9999999999975085611169955568988987542586-------73789853568889998589
Q gi|254780589|r  152 CYAMNNKQM----QEIYAIVRDSLRGNMQSHIQIQAFPFRMTSKNMQLYQNNP-------NYSFWNMLKLGHDYFEKNHQ  220 (239)
Q Consensus       152 C~amtd~~i----~EIy~~v~~a~~~~gQ~~~~v~~~Pfrmt~~n~~~~~~~~-------~~~FW~~Lk~gyd~Fe~~~~  220 (239)
                      =|.+||+++    ++....++.||+| |-+.+|.             |.++++       -..||+.-++-=+.=.++.-
T Consensus         2 LYlit~~~~~~~~~~~~~~ve~Al~G-GV~~~Ql-------------R~K~~~~~~~yGE~~~~~~~A~~l~~lc~~y~~   67 (210)
T TIGR00693         2 LYLITDPQLFPDLKDLLARVEAALKG-GVTLVQL-------------RDKGSNALQQYGETRERLELAEKLRELCRKYGV   67 (210)
T ss_pred             CEEEECCCCCCCHHHHHHHHHHHHHC-CCEEEEE-------------EECCCCCCCCCCCHHHHHHHHHHHHHHHHHCCC
T ss_conf             05630874677534489999999858-9629998-------------405875421258588999999999999987089


Q ss_pred             CCEE
Q ss_conf             7327
Q gi|254780589|r  221 EPFI  224 (239)
Q Consensus       221 ~p~v  224 (239)
                      |-.|
T Consensus        68 ~f~v   71 (210)
T TIGR00693        68 PFIV   71 (210)
T ss_pred             CEEE
T ss_conf             7688


No 121
>TIGR00212 hemC porphobilinogen deaminase; InterPro: IPR000860   Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway . The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin .   The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA.   The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III.   Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) .   This entry represents hydroxymethylbilane synthase (or porphobilinogen deaminase, 2.5.1.61 from EC), which functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses the polymerisation of four PBG molecules into the tetrapyrrole structure, preuroporphyrinogen, with the concomitant release of four molecules of ammonia. This enzyme uses a unique dipyrro-methane cofactor made from two molecules of PBG, which is covalently attached to a cysteine side chain. The tetrapyrrole product is synthesized in an ordered, sequential fashion, by initial attachment of the first pyrrole unit (ring A) to the cofactor, followed by subsequent additions of the remaining pyrrole units (rings B, C, D) to the growing pyrrole chain . The link between the pyrrole ring and the cofactor is broken once all the pyrroles have been added. This enzyme is folded into three distinct domains that enclose a single, large active site that makes use of an aspartic acid as its one essential catalytic residue, acting as a general acid/base during catalysis , . A deficiency of hydroxymethylbilane synthase is implicated in the neuropathic disease, Acute Intermittent Porphyria (AIP) . ; GO: 0004418 hydroxymethylbilane synthase activity, 0033014 tetrapyrrole biosynthetic process.
Probab=23.72  E-value=38  Score=15.16  Aligned_cols=19  Identities=32%  Similarity=0.158  Sum_probs=16.1

Q ss_pred             HHCCCCCCCCCEEEEEEEC
Q ss_conf             0101787475079998401
Q gi|254780589|r   92 KIETGDEQAPEGFYYIGWN  110 (239)
Q Consensus        92 K~~eGD~kTPEG~Y~i~~~  110 (239)
                      +.-+|+++||.|.|.....
T Consensus       236 ~~L~GgC~~Pig~~a~~~~  254 (312)
T TIGR00212       236 KELDGGCQTPIGAYAEYEG  254 (312)
T ss_pred             HHHCCCCCCCEEEEEEEEC
T ss_conf             8728896433146889833


No 122
>PRK02463 OxaA-like protein precursor; Provisional
Probab=23.22  E-value=58  Score=14.04  Aligned_cols=16  Identities=25%  Similarity=0.625  Sum_probs=10.7

Q ss_pred             HHHHHHHHHCCCCCCC
Q ss_conf             9999999860466533
Q gi|254780589|r    8 LLFALFIFLNGCHHSR   23 (239)
Q Consensus         8 Llfal~i~L~gc~~~~   23 (239)
                      ++.+++++|+||....
T Consensus        13 ~~~~~~l~LsgC~~~~   28 (307)
T PRK02463         13 LALSMLLTLTGCVGRD   28 (307)
T ss_pred             HHHHHHHHHHCCCCCC
T ss_conf             9999999996346899


No 123
>TIGR02824 quinone_pig3 putative NAD(P)H quinone oxidoreductase, PIG3 family; InterPro: IPR014189   Members of this family are putative quinone oxidoreductases that belong to the broader superfamily of zinc-dependent alcohol (of medium chain length) dehydrogenases and quinone oxidoreductases. An alignment shows no motif of conserved Cys residues as are found in zinc-binding members of the superfamily, consequently members of this entry are likely to be quinone oxidoreductases. A member of this family in Homo sapiens (Human), PIG3, is induced by p53 but is otherwise uncharacterised..
Probab=22.73  E-value=21  Score=16.76  Aligned_cols=74  Identities=23%  Similarity=0.406  Sum_probs=47.7

Q ss_pred             CCCCEEEEEEECCCCCCCCCCEEEECCCCCHHHHHCCCCCCCEEECCCCC-----------CCCCEEECHHHHHHHHHHH
Q ss_conf             47507999840125875765214207998988997299988268716778-----------6671870646699999999
Q gi|254780589|r   99 QAPEGFYYIGWNNLNPNSKYFLSINIGFPNEFDKAHNRTGADLMIHGECA-----------SAGCYAMNNKQMQEIYAIV  167 (239)
Q Consensus        99 kTPEG~Y~i~~~~~np~S~y~ls~~i~YPN~~Dr~~grtG~~I~IHG~~~-----------S~GC~amtd~~i~EIy~~v  167 (239)
                      .-|+|+=.+...-+ |-     -|-+=|=|.|++++=+.|.-+-|||.-|           ..||...|-..-+|=-..+
T Consensus       112 P~P~Gls~veAAAl-PE-----t~fTVW~NLF~~g~L~~GEtvLiHGGaSGIGttAIqLAKA~Ga~V~~TaGS~eK~~~a  185 (334)
T TIGR02824       112 PVPEGLSLVEAAAL-PE-----TFFTVWSNLFQRGGLKAGETVLIHGGASGIGTTAIQLAKAFGARVFTTAGSDEKCATA  185 (334)
T ss_pred             ECCCCCCHHHHHCC-HH-----HHHHHHHHHHHHCCCCCCCEEEEEECCCCHHHHHHHHHHHCCCEEEEEECCHHHHHHH
T ss_conf             06898877976125-14-----7888888687221137897289971367367999999985697599982898999999


Q ss_pred             HHHHHHCCCCCEE
Q ss_conf             9999750856111
Q gi|254780589|r  168 RDSLRGNMQSHIQ  180 (239)
Q Consensus       168 ~~a~~~~gQ~~~~  180 (239)
                      .++| | -+..|.
T Consensus       186 ~~~L-G-Ad~aIN  196 (334)
T TIGR02824       186 CEAL-G-ADIAIN  196 (334)
T ss_pred             HHHC-C-CEEEEE
T ss_conf             9860-9-807860


No 124
>TIGR01626 ytfJ_HI0045 conserved hypothetical protein YtfJ-family, TIGR01626; InterPro: IPR006513   These are sequences from gamma proteobacteria that are related to the E. coli protein, YtfJ. .
Probab=22.61  E-value=59  Score=13.96  Aligned_cols=53  Identities=11%  Similarity=0.228  Sum_probs=31.7

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCEEEEEECCCCEEEEEE
Q ss_conf             9404689999999986046653322234446755456777775187757847999983786999986
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHSRSLIDKAEHPLSENLIISMQKKRTSPFHPTVIRIFKNENILEIWK   67 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~~~~~~~~~~pl~~~~~~~~~~~~~~~~~pi~Irv~K~e~~Lel~~   67 (239)
                      |++|.++++.++++...+|.--.    ..+.++|+--++.-.+          |.+-+.+-.-.-|.
T Consensus         1 Mk~~~l~a~~~~~~p~~a~AHNL----~v~q~vP~Vgv~~~GE----------ivL~~~~~~yq~W~   53 (184)
T TIGR01626         1 MKKKKLLALLLVLLPILAFAHNL----EVEQSVPAVGVEERGE----------IVLSDDDISYQKWR   53 (184)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHCC----CCCCCCCCCCCCCCEE----------EEECCCCCCCCCCC
T ss_conf             91478999999998775654201----2488589711135401----------67527840015874


No 125
>KOG2100 consensus
Probab=22.55  E-value=59  Score=13.95  Aligned_cols=37  Identities=22%  Similarity=0.335  Sum_probs=20.3

Q ss_pred             CEEECCCCCCCCCEEECHHHH-HHHHHHHHHHHHHCCCCCEEEEEECC
Q ss_conf             268716778667187064669-99999999999750856111699555
Q gi|254780589|r  140 DLMIHGECASAGCYAMNNKQM-QEIYAIVRDSLRGNMQSHIQIQAFPF  186 (239)
Q Consensus       140 ~I~IHG~~~S~GC~amtd~~i-~EIy~~v~~a~~~~gQ~~~~v~~~Pf  186 (239)
                      .+-|||+-         |+.+ -+=.+...+||+..|-. +++++||-
T Consensus       685 ~LliHGt~---------DdnVh~q~s~~~~~aL~~~gv~-~~~~vypd  722 (755)
T KOG2100         685 LLLIHGTE---------DDNVHFQQSAILIKALQNAGVP-FRLLVYPD  722 (755)
T ss_pred             EEEEECCC---------CCCCCHHHHHHHHHHHHHCCCC-EEEEECCC
T ss_conf             79997466---------7665846699999999976994-48997389


No 126
>KOG2292 consensus
Probab=22.27  E-value=23  Score=16.47  Aligned_cols=51  Identities=24%  Similarity=0.468  Sum_probs=34.9

Q ss_pred             CCCCCC-HHCCCCCCCCCEEEEEEECCCCCC--------CCCCEE--EECCC--CCHHHHHCCCC
Q ss_conf             389887-010178747507999840125875--------765214--20799--89889972999
Q gi|254780589|r   86 SGTFGP-KIETGDEQAPEGFYYIGWNNLNPN--------SKYFLS--INIGF--PNEFDKAHNRT  137 (239)
Q Consensus        86 sg~lGp-K~~eGD~kTPEG~Y~i~~~~~np~--------S~y~ls--~~i~Y--PN~~Dr~~grt  137 (239)
                      +|+.-| -.+|-|.-||+|-|.++..- .|.        -+||.+  +.+.|  |.-|||.++..
T Consensus       624 ~~g~~p~~IkE~dy~t~~GEfRvD~~a-sptmlNcLmYKmsYyrfge~~~~~~~~~GyDR~R~~e  687 (751)
T KOG2292         624 GGGEHPKHIKERDYFTPTGEFRVDAEA-SPTMLNCLMYKMSYYRFGELYTEFNGPPGYDRVRNAE  687 (751)
T ss_pred             CCCCCHHHCCCCCCCCCCCCEECCCCC-CHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHH
T ss_conf             377683540534333788736437777-8789999999887643444101368998740365400


No 127
>COG3009 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.18  E-value=60  Score=13.91  Aligned_cols=15  Identities=27%  Similarity=0.656  Sum_probs=10.2

Q ss_pred             HHHHHHHHHCCCCCC
Q ss_conf             999999986046653
Q gi|254780589|r    8 LLFALFIFLNGCHHS   22 (239)
Q Consensus         8 Llfal~i~L~gc~~~   22 (239)
                      ++..+++.|+||.+.
T Consensus         5 l~~~aal~L~~Cas~   19 (190)
T COG3009           5 LMIIAALLLAGCASG   19 (190)
T ss_pred             HHHHHHHHHHHCCCC
T ss_conf             999999998753799


No 128
>pfam07172 GRP Glycine rich protein family. This family of proteins includes several glycine rich proteins as well as two nodulins 16 and 24. The family also contains proteins that are induced in response to various stresses.
Probab=21.96  E-value=35  Score=15.38  Aligned_cols=12  Identities=33%  Similarity=0.326  Sum_probs=7.6

Q ss_pred             CCCHHHHHHHHH
Q ss_conf             940468999999
Q gi|254780589|r    1 MTNRYNILLFAL   12 (239)
Q Consensus         1 M~~R~~~Llfal   12 (239)
                      |..|+|+||..+
T Consensus         1 MaSKa~llLgll   12 (91)
T pfam07172         1 MASKALLLLGLL   12 (91)
T ss_pred             CCCHHHHHHHHH
T ss_conf             950579999999


No 129
>pfam02157 Man-6-P_recep Cation-dependent mannose-6-phosphate receptor.
Probab=21.64  E-value=38  Score=15.11  Aligned_cols=133  Identities=17%  Similarity=0.237  Sum_probs=58.2

Q ss_pred             EEEEEEEECCCCCC--CCC-----HHCCCCCCCCCEEEEEEECCCCCCCCCCEEEECCCCCHHHHHCCC--CCCCEEECC
Q ss_conf             89998652132389--887-----010178747507999840125875765214207998988997299--988268716
Q gi|254780589|r   75 VLLKEYKICAWSGT--FGP-----KIETGDEQAPEGFYYIGWNNLNPNSKYFLSINIGFPNEFDKAHNR--TGADLMIHG  145 (239)
Q Consensus        75 ~l~ktY~Ic~~sg~--lGp-----K~~eGD~kTPEG~Y~i~~~~~np~S~y~ls~~i~YPN~~Dr~~gr--tG~~I~IHG  145 (239)
                      ..--+|.||..-|.  .|-     +..+++ -|-.|.|.-+.-  ---|.|- -+--.+-+.||.--++  .-..|||-=
T Consensus        71 ~Y~Y~F~VC~~ag~~~~gaGLVQ~~k~~~k-~tviGriN~T~i--~~GSdWI-mLiYk~GDkYdsHC~~E~RkA~IMIsC  146 (278)
T pfam02157        71 MYSYIFRVCREAGNHSSGAGLVQINKSNDK-ETVVGRFNETHI--FNGSNWI-MLIYKGGDEYDNHCGKEQRRAVVMISC  146 (278)
T ss_pred             CEEEEEEEECCCCCCCCCCEEEEECCCCCC-CEEEEEECCEEE--ECCCCEE-EEEECCCCCCCCCCCHHHHHCEEEEEE
T ss_conf             258999972013788888516886057886-269875012278--3587459-998437861134344122203589873


Q ss_pred             CC---------------------------CCCCCEEECH-----HHHHHHHHHHHHHHHHCCCCCEEEEEECCCCCHHHH
Q ss_conf             77---------------------------8667187064-----669999999999997508561116995556898898
Q gi|254780589|r  146 EC---------------------------ASAGCYAMNN-----KQMQEIYAIVRDSLRGNMQSHIQIQAFPFRMTSKNM  193 (239)
Q Consensus       146 ~~---------------------------~S~GC~amtd-----~~i~EIy~~v~~a~~~~gQ~~~~v~~~Pfrmt~~n~  193 (239)
                      ..                           +|+-|=|...     .-+.-|+...-.++.-+|-   -.+  -|-+-+..|
T Consensus       147 n~~~~~~~f~vv~Eer~k~~~CfYLFEmdSsaaCp~~~s~LS~GSIllIif~~l~a~Ylv~G~---lyq--r~v~GAkG~  221 (278)
T pfam02157       147 NRHTLAANFNPVSEERGKVQDCFYLFEMDSSLACSPEISHLSVGSILLVIFASLVAVYIIGGF---LYQ--RLVVGAKGM  221 (278)
T ss_pred             CCCCCCCCCEEEEHHCCCCCCEEEEEEECCCCCCCCCCCCCCCCCEEHHHHHHHHHHHHHHHH---HHH--HHHHCCCCH
T ss_conf             466556662232010165444179998436656786545677663301458999999999999---999--986425640


Q ss_pred             HHHHCCCCHHHHHHHH----HHHHHHHHHC
Q ss_conf             7542586737898535----6888999858
Q gi|254780589|r  194 QLYQNNPNYSFWNMLK----LGHDYFEKNH  219 (239)
Q Consensus       194 ~~~~~~~~~~FW~~Lk----~gyd~Fe~~~  219 (239)
                         ..-||++||+++.    .|-|+.-+++
T Consensus       222 ---Eq~Pn~~fW~~~gnL~ADGCdfvCR~~  248 (278)
T pfam02157       222 ---EQFPHLAFWQDLGNLVADGCDFVCRSK  248 (278)
T ss_pred             ---HCCCCHHHHHHCCCCCCCCCCEEEECC
T ss_conf             ---007656899872763346763477438


No 130
>COG4939 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]
Probab=21.56  E-value=62  Score=13.83  Aligned_cols=23  Identities=17%  Similarity=0.255  Sum_probs=17.8

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCC
Q ss_conf             94046899999999860466533
Q gi|254780589|r    1 MTNRYNILLFALFIFLNGCHHSR   23 (239)
Q Consensus         1 M~~R~~~Llfal~i~L~gc~~~~   23 (239)
                      |..+-+..+++++++|.+|+.+.
T Consensus         1 mvk~g~~~~~~~~~LL~aCg~sd   23 (147)
T COG4939           1 MVKYGLVGMIVALSLLTACGKSD   23 (147)
T ss_pred             CCEEHHHHHHHHHHHHHHHCCCC
T ss_conf             91303659999999998706664


No 131
>pfam08345 YscJ_FliF_C Flagellar M-ring protein C-terminal. This domain is found in bacterial flagellar M-ring (FliF) proteins together with the YscJ/FliF domain (pfam01514).
Probab=21.49  E-value=62  Score=13.82  Aligned_cols=34  Identities=15%  Similarity=0.375  Sum_probs=25.6

Q ss_pred             EEECHHHHHHHHHHHHHHHHHCCC--CCEEEEEECC
Q ss_conf             870646699999999999975085--6111699555
Q gi|254780589|r  153 YAMNNKQMQEIYAIVRDSLRGNMQ--SHIQIQAFPF  186 (239)
Q Consensus       153 ~amtd~~i~EIy~~v~~a~~~~gQ--~~~~v~~~Pf  186 (239)
                      -.+++++|++|-.||+.|+--..+  ..+.|..+||
T Consensus       127 ~~~s~ee~~~i~~lV~~AiG~d~~RGD~v~V~~~~F  162 (162)
T pfam08345       127 VPRSPEELAQIEALVKSAVGFDAARGDSVTVVSMPF  162 (162)
T ss_pred             CCCCHHHHHHHHHHHHHHCCCCCCCCCEEEEEECCC
T ss_conf             667999999999999996088877899899994689


No 132
>PRK09250 fructose-bisphosphate aldolase; Provisional
Probab=21.00  E-value=64  Score=13.76  Aligned_cols=54  Identities=17%  Similarity=0.315  Sum_probs=33.0

Q ss_pred             CCCCCHHHHHCCCCCCCEEECCCCCCCCCEEEC----------HHHHHHHHHHHHHHHHHCCCCCEEEEEEC
Q ss_conf             799898899729998826871677866718706----------46699999999999975085611169955
Q gi|254780589|r  124 IGFPNEFDKAHNRTGADLMIHGECASAGCYAMN----------NKQMQEIYAIVRDSLRGNMQSHIQIQAFP  185 (239)
Q Consensus       124 i~YPN~~Dr~~grtG~~I~IHG~~~S~GC~amt----------d~~i~EIy~~v~~a~~~~gQ~~~~v~~~P  185 (239)
                      +.|||.+|++.--+=      ...+-.||.||.          +++|+|+-.+.++|-.- |-. +=+-+||
T Consensus       138 L~~~~~~dQ~~~~sV------~dA~rLGa~AVG~TIY~GS~~~~~mi~E~~~i~~eAh~~-GL~-tVlW~Yp  201 (348)
T PRK09250        138 LSYPNTYDQALTASV------EDALRLGAVAVGATIYFGSEESRRQIEEISEAFEEAHEL-GLA-TVLWSYL  201 (348)
T ss_pred             CCCCCCCCCCCCCCH------HHHHHCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHC-CCE-EEEEECC
T ss_conf             689998753400469------999854764654278469754799999999999999976-980-8999724


No 133
>PRK12389 glutamate-1-semialdehyde aminotransferase; Provisional
Probab=20.80  E-value=64  Score=13.73  Aligned_cols=12  Identities=25%  Similarity=0.465  Sum_probs=4.8

Q ss_pred             CCCEEECHHHHH
Q ss_conf             671870646699
Q gi|254780589|r  150 AGCYAMNNKQMQ  161 (239)
Q Consensus       150 ~GC~amtd~~i~  161 (239)
                      +|++..+++-|+
T Consensus       276 i~av~g~~eim~  287 (429)
T PRK12389        276 IGAYGGRQDIME  287 (429)
T ss_pred             EEEEEEHHHHHH
T ss_conf             488767799998


No 134
>COG2605 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]
Probab=20.68  E-value=58  Score=14.01  Aligned_cols=35  Identities=11%  Similarity=0.189  Sum_probs=22.5

Q ss_pred             EECHHHHHHHHHHHHHH-------HHHCCCCCEEEEEECCCC
Q ss_conf             70646699999999999-------975085611169955568
Q gi|254780589|r  154 AMNNKQMQEIYAIVRDS-------LRGNMQSHIQIQAFPFRM  188 (239)
Q Consensus       154 amtd~~i~EIy~~v~~a-------~~~~gQ~~~~v~~~Pfrm  188 (239)
                      .+||+.||.||.++.+.       +-+|||-..-|-+=|=+-
T Consensus       262 ~ISN~~IDriy~~A~~~GA~~gKl~GaG~gGFllf~~~p~k~  303 (333)
T COG2605         262 RISNDAIDRIYELALKNGAYGGKLSGAGGGGFLLFFCDPSKR  303 (333)
T ss_pred             CCCCHHHHHHHHHHHHCCCHHCEEECCCCCCEEEEEECCCCH
T ss_conf             767477899999998667322223026886279999685424


No 135
>PRK13908 putative recombination protein RecO; Provisional
Probab=20.55  E-value=45  Score=14.67  Aligned_cols=32  Identities=16%  Similarity=0.407  Sum_probs=23.5

Q ss_pred             CCEEECCCCC---------------CCCCEEECHHHHHHHHHHHHHH
Q ss_conf             8268716778---------------6671870646699999999999
Q gi|254780589|r  139 ADLMIHGECA---------------SAGCYAMNNKQMQEIYAIVRDS  170 (239)
Q Consensus       139 ~~I~IHG~~~---------------S~GC~amtd~~i~EIy~~v~~a  170 (239)
                      +.+--|..|.               +-+|+-..|++|+++|.++.++
T Consensus       157 ~flpaH~~C~~~~~f~~~ki~~~f~~k~ti~l~D~evd~Lw~il~~G  203 (204)
T PRK13908        157 GFLPAHPSCILGKSFDLKKIKAFFRTKSTIFLEDEEVEELWKILLEG  203 (204)
T ss_pred             HHHCCCHHHHCCCCCCHHHHHHHHHHCCCEECCHHHHHHHHHHHHCC
T ss_conf             75123765527554589999999974784304878899999999753


No 136
>pfam05643 DUF799 Putative bacterial lipoprotein (DUF799). This family consists of several bacterial proteins of unknown function. Some of the family members are described as putative lipoproteins.
Probab=20.33  E-value=66  Score=13.67  Aligned_cols=19  Identities=26%  Similarity=0.357  Sum_probs=13.3

Q ss_pred             HHHHHHHHHHHHHCCCCCC
Q ss_conf             4689999999986046653
Q gi|254780589|r    4 RYNILLFALFIFLNGCHHS   22 (239)
Q Consensus         4 R~~~Llfal~i~L~gc~~~   22 (239)
                      +.+++.++..++|+||...
T Consensus         2 K~lil~l~~~l~L~gCa~~   20 (215)
T pfam05643         2 KPLILGLAAVLALSACQVQ   20 (215)
T ss_pred             HHHHHHHHHHHHHHHCCCC
T ss_conf             3149999999998623489


No 137
>COG3317 NlpB Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]
Probab=20.28  E-value=66  Score=13.66  Aligned_cols=21  Identities=19%  Similarity=0.328  Sum_probs=13.8

Q ss_pred             CCHHHHHHHHHHHHHCCCCCC
Q ss_conf             404689999999986046653
Q gi|254780589|r    2 TNRYNILLFALFIFLNGCHHS   22 (239)
Q Consensus         2 ~~R~~~Llfal~i~L~gc~~~   22 (239)
                      ..+-.++.+++++.|+||+..
T Consensus         3 ~~~~lv~~al~v~~LaaCSs~   23 (342)
T COG3317           3 SSAKLVLGALLVLLLAACSSD   23 (342)
T ss_pred             HHHHHHHHHHHHHHHHHCCCC
T ss_conf             178899999999987414688


No 138
>PRK12450 foldase protein PrsA; Reviewed
Probab=20.11  E-value=57  Score=14.05  Aligned_cols=12  Identities=33%  Similarity=0.617  Sum_probs=8.6

Q ss_pred             HHHHHHCCCCCC
Q ss_conf             999986046653
Q gi|254780589|r   11 ALFIFLNGCHHS   22 (239)
Q Consensus        11 al~i~L~gc~~~   22 (239)
                      +.++.|+||+++
T Consensus        15 ~svl~LaAC~s~   26 (309)
T PRK12450         15 ATVVTLSACQSS   26 (309)
T ss_pred             HHHHHHHHHCCC
T ss_conf             999999860589


No 139
>TIGR03300 assembly_YfgL outer membrane assembly lipoprotein YfgL. Members of this protein family are YfgL, a lipoprotein component of a complex that acts protein insertion into the bacterial outer membrane. Other members of this complex are NlpB, YfiO, and YaeT. This protein contains multiple copies of a repeat that, in other contexts, are associated with binding of the coenzyme PQQ.
Probab=20.06  E-value=67  Score=13.64  Aligned_cols=18  Identities=33%  Similarity=0.477  Sum_probs=12.4

Q ss_pred             HHHHHHHHHHHHCCCCCC
Q ss_conf             689999999986046653
Q gi|254780589|r    5 YNILLFALFIFLNGCHHS   22 (239)
Q Consensus         5 ~~~Llfal~i~L~gc~~~   22 (239)
                      .++++++++++|+||+..
T Consensus         2 ~~~~~~~~~~~l~gCs~~   19 (377)
T TIGR03300         2 RLALVIALAALLSGCSWF   19 (377)
T ss_pred             CCHHHHHHHHHHHHCCCC
T ss_conf             238999999998556576


Done!