Query         gi|254780727|ref|YP_003065140.1| putative pilus assembly protein [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 474
No_of_seqs    232 out of 2174
Neff          7.2 
Searched_HMMs 39220
Date          Sun May 29 19:47:19 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780727.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 COG4964 CpaC Flp pilus assembl 100.0       0       0  633.4  34.4  427   36-474    21-455 (455)
  2 TIGR02517 type_II_gspD general 100.0       0       0  412.0  23.1  238  183-421   405-689 (697)
  3 TIGR02515 IV_pilus_PilQ type I 100.0       0       0  400.3  22.1  267  129-420   152-464 (464)
  4 PRK10560 hofQ outer membrane p 100.0       0       0  383.2  29.3  278  117-420   100-384 (386)
  5 PRK13568 hofQ putative outer m 100.0       0       0  379.0  28.8  278  117-420    97-384 (385)
  6 PHA00019 phage assembly protei 100.0       0       0  377.5  29.5  275  118-421   141-427 (428)
  7 COG1450 PulD Type II secretory 100.0       0       0  365.0  25.1  239  183-423   301-551 (587)
  8 TIGR02519 pilus_MshL pilus (MS 100.0       0       0  333.1  22.3  258  138-419     3-311 (311)
  9 TIGR02516 type_III_yscC type I 100.0       0       0  310.0  21.3  235  184-421   234-508 (508)
 10 pfam00263 Secretin Bacterial t 100.0 1.4E-45       0  281.9  19.4  159  262-420     1-164 (164)
 11 COG4796 HofQ Type II secretory 100.0       0       0  287.0  14.4  229  193-421   455-709 (709)
 12 TIGR02520 pilus_B_mal_scr type 100.0 1.5E-32 3.9E-37  206.8  12.6  295   92-418   215-536 (536)
 13 COG4796 HofQ Type II secretory  98.6 4.3E-07 1.1E-11   59.3   9.6  208  195-423   310-524 (709)
 14 pfam04972 BON Putative phospho  97.4 0.00092 2.4E-08   40.0   7.3   60  121-191     2-63  (64)
 15 PRK11023 hypothetical protein;  95.9   0.075 1.9E-06   29.0   8.5   90   77-168    70-178 (191)
 16 PRK11023 hypothetical protein;  95.9   0.042 1.1E-06   30.4   7.0   51  132-193    66-116 (191)
 17 PRK10568 periplasmic protein;   95.8   0.057 1.4E-06   29.7   7.5   95   84-190    86-202 (203)
 18 COG2823 OsmY Predicted peripla  95.3   0.029 7.3E-07   31.4   4.5   51  130-191   145-195 (196)
 19 PRK10568 periplasmic protein;   95.3   0.065 1.7E-06   29.3   6.3   48  134-192    78-125 (203)
 20 PRK11198 hypothetical protein;  81.8     3.2 8.2E-05   19.5   5.1   77  119-209    26-104 (147)
 21 pfam09911 DUF2140 Uncharacteri  66.3     8.2 0.00021   17.2   4.9   24  310-333    93-116 (187)
 22 TIGR02268 TIGR02268 Myxococcus  62.7     9.6 0.00025   16.8   4.4  105   11-115     1-115 (308)
 23 pfam06183 DinI DinI-like famil  60.3      11 0.00027   16.5   4.4   46  120-167    10-56  (65)
 24 PRK13861 type IV secretion sys  57.4      12  0.0003   16.2  11.2  110    4-115     2-116 (293)
 25 PRK11824 polynucleotide phosph  54.6     5.5 0.00014   18.2   1.0   62  356-417   583-644 (694)
 26 KOG1249 consensus               52.6      13 0.00033   16.0   2.6   60  312-381   361-421 (572)
 27 pfam03958 Secretin_N Bacterial  52.2      15 0.00037   15.7   6.3   49  116-167     7-62  (68)
 28 pfam05046 Img2 Mitochondrial l  51.4      15 0.00038   15.6   6.3   48  105-152    23-73  (85)
 29 pfam07788 DUF1626 Protein of u  49.5     9.4 0.00024   16.8   1.5   54  356-419     3-57  (70)
 30 PRK00794 flbT flagellar biosyn  49.0      16 0.00042   15.4   3.1   34  359-394     5-38  (133)
 31 PRK10838 spr putative outer me  49.0      16 0.00042   15.4   2.8   23    1-23      7-29  (188)
 32 PRK13796 GTP-binding protein Y  48.6      17 0.00042   15.4   3.0   24  358-381   249-272 (367)
 33 pfam09544 DUF2381 Protein of u  42.9      20 0.00052   14.9   6.2   94   18-111     4-104 (289)
 34 pfam02368 Big_2 Bacterial Ig-l  40.6      22 0.00057   14.6   6.2   58   49-109    11-75  (79)
 35 pfam07378 FlbT Flagellar prote  40.0      23 0.00058   14.6   3.0   35  359-394     2-36  (126)
 36 COG4698 Uncharacterized protei  37.8      25 0.00063   14.4   3.5   20  314-333   105-124 (197)
 37 pfam11492 Dicistro_VP4 Cricket  37.6      11 0.00028   16.5   0.3   16  386-401    25-40  (56)
 38 pfam09133 SANTA SANTA (SANT As  35.0      21 0.00054   14.8   1.5   37  349-386    34-70  (93)
 39 TIGR03597 GTPase_YqeH ribosome  34.8      28  0.0007   14.1   2.7   59  313-380   205-263 (360)
 40 TIGR03591 polynuc_phos polyrib  33.5      16 0.00041   15.5   0.7   52  356-407   580-631 (684)
 41 COG2982 AsmA Uncharacterized p  30.5      33 0.00083   13.7   2.0   73    1-74      1-76  (648)
 42 PRK12696 flgH flagellar basal   27.5      37 0.00094   13.4   3.1   21    4-24      2-22  (238)
 43 TIGR02186 alph_Pro_TM conserve  26.6      38 0.00098   13.3   3.3  107    8-149     1-109 (275)
 44 COG1185 Pnp Polyribonucleotide  26.2      39 0.00099   13.2   1.8   46  356-401   581-626 (692)
 45 PRK09915 putative outer membra  23.9      43  0.0011   13.0   3.9   27    5-31      3-29  (488)
 46 smart00635 BID_2 Bacterial Ig-  23.8      44  0.0011   13.0   6.3   57   50-108    12-76  (81)
 47 PHA02358 hypothetical protein   23.4      19 0.00048   15.1  -0.5   14  385-398   154-167 (194)
 48 PRK10719 eutA reactivating fac  23.3      44  0.0011   12.9   1.9   60  116-175    61-121 (471)
 49 pfam09796 QCR10 Ubiquinol-cyto  22.5      27 0.00069   14.1   0.2   15  387-401    42-56  (64)
 50 PRK10503 multidrug efflux syst  21.5      48  0.0012   12.7   4.6   19  203-221   720-738 (1040)
 51 COG1079 Uncharacterized ABC-ty  20.2      40   0.001   13.2   0.7   21  196-216   165-185 (304)

No 1  
>COG4964 CpaC Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]
Probab=100.00  E-value=0  Score=633.38  Aligned_cols=427  Identities=41%  Similarity=0.658  Sum_probs=379.3

Q ss_pred             CCCCCCCCCCCCCEEEEEECCEEEEECCCCHHHEEECCCCEEEEEECCCCEEEEEECCCCEEEEEEECCCCCEEEEEEEE
Q ss_conf             33332234565402799507259995377633078537343799971698799995267227999988999778999873
Q gi|254780727|r   36 VINISDVEIGKGKKISIGLNKVIILQVPVDVQDVLVSDPTKADVVVHSPRTMYLFGKNVGQANVILIGHDGKQMLNLDIL  115 (474)
Q Consensus        36 ~~~~~~~~~~~~~~l~l~~g~s~~l~~~~~~~rV~V~dp~Vadv~v~s~~~i~i~gk~~G~T~l~v~~~~g~~~~~~~v~  115 (474)
                      ......+.....+++.|..+++.++.++.++.+|+|+||+|||+..++++.+||+||++|+|++++|+++++.+..+++.
T Consensus        21 ~~~i~~ss~~~~~t~~l~~~~~~~v~l~~~~~~i~Vg~p~iada~~~~~~~iyi~gk~~Gtt~v~~fg~~g~~~~~~~i~  100 (455)
T COG4964          21 VARIALSSASATKTLKLELGKSKTVVLPSDADDILVGDPNIADAVLLTDRSIYILGKSVGTTNVFVFGEEGRSIVSLDIE  100 (455)
T ss_pred             HHHHHHCCCCHHHEEEECCCCCEEEECCCCHHEEEECCCCHHCCCCCCCCEEEEEECCCCEEEEEEECCCCCCCCCCEEE
T ss_conf             55410046641005761468735897246200168758202101304786499994378804789986888530220058


Q ss_pred             CCCCHHHHHHHHHHHCCCCCEEEEEECCEEEEEEEECCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEE-EEECCCCC
Q ss_conf             04541478999998578771699983894999997199999999999999861223455555665443035-54327772
Q gi|254780727|r  116 IERDIAHLEMTLRRFIADSNIRVEMVSDTVVLHGMVRTIQDSQRAVELSETFLSQSGRNQYANSSSKKVMN-LLNIAGED  194 (474)
Q Consensus       116 v~~d~~~l~~~l~~~~p~~~i~v~~~~~~vvl~G~v~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~vvn-~l~v~~~~  194 (474)
                      |..|...+...+++.+|+++|+|...++.++++|+++++.+++++.++|++|.+..           +++| +++|.+++
T Consensus       101 v~~d~~~l~~~i~~~~P~s~i~V~~~~~~vvl~Gs~~~~~~a~~a~~ia~~~~g~~-----------e~~~s~~~v~~~~  169 (455)
T COG4964         101 VTRDTSGLGAPIRAVIPDSRIKVSSVNDRVVLSGSVRTAVDAESAVRIASQFLGGG-----------EVTNSLITVAGSQ  169 (455)
T ss_pred             EECCHHHHHHHHHHHCCCCEEEEEECCCCEEEEEEECCHHHHHHHHHHHHCCCCCC-----------CEECCCEEECCCC
T ss_conf             73485786546886488870489753785699875086898888776665017986-----------0441215761688


Q ss_pred             EEEEEEEEEEEECHHHHHCCCEEEECCCCCCC--CCCCCCCCCCCCC-CCCCCCEEEEECCCCCHHHHHHHHHHCCCEEE
Q ss_conf             27999999998500144226121001454336--4435455666666-66543033420377414311023773597589
Q gi|254780727|r  195 QVTLKVTIAEVRRDILKQIGFQHSITGSSSGP--SKSFAADFGGKFV-SEGGDFSVKGVLDRFSFETVLHALERATAIRT  271 (474)
Q Consensus       195 QV~lev~i~EVs~~~~~~lGi~w~~~~~~~~~--~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~aL~~~g~a~i  271 (474)
                      ||+|+|||+||+|+..++||++|+..+...+.  ..+.......... ..+..+......++..+++.|+|||++|.+|+
T Consensus       170 QV~l~VrvvEVsr~v~k~LG~~~~~~g~~~g~~~~~g~~~~~~~~~~~~~g~~~G~l~~~n~~~~~~~i~Ale~~G~~r~  249 (455)
T COG4964         170 QVQLKVRVVEVSRSVLKQLGANLSARGGFSGGPVSFGALAVLGTGLGLEKGTTFGSLLSDNGVSIDAYINALEANGLART  249 (455)
T ss_pred             EEEEEEEEEEEEHHHHHHHCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEHHHHCCCCEEE
T ss_conf             26899999998278898506206641131577541244445677545555544231036788350134033640885588


Q ss_pred             EECCEEEEECCCEEEEEECCCEEEEECCCCCCCEEEEEEEEEEEEEEEEEEECCCEEEEEEEEEECCCCC----CCCCCC
Q ss_conf             8422389875946757524730000013677620468988758999998981598499986123203445----555665
Q gi|254780727|r  272 LAEPTLTAISGQSASFTSGGQHLYKTVSSSTGATSVTTHDYGVVLHFTPTVLSPGRIGLRIQTEVSEPVI----GVNAGD  347 (474)
Q Consensus       272 La~P~l~t~sgq~A~~~~G~e~pi~~~~~~~~~~~v~~~~~Gi~L~vtP~V~~~g~I~L~i~~evS~~~~----~~~~~~  347 (474)
                      ||+|+|+++|||+|+|++|||+|+|+..+.+++++|+||+||+.|.|+|+|+.++||.|++++|||+++.    ..++..
T Consensus       250 LAePnL~a~SGe~AsFlaGGEfpip~~~d~~g~~TI~yk~fGv~L~ftPtVl~~gRI~L~v~peVSel~~~g~v~~~~~t  329 (455)
T COG4964         250 LAEPNLTALSGETASFLAGGEFPIPVPDDKNGNVTIEYKEFGVGLTFTPTVLSNGRISLKVAPEVSELDYSGSVAVGGGT  329 (455)
T ss_pred             ECCCCEEEECCCCHHHHCCCEECCCCCCCCCCCEEEEEEECCCCEEEEEEEEECCEEEEEECCCCCCCCCCCCEEECCCC
T ss_conf             51575223056400221376250356667788278999961665058617802877887644531246766757878823


Q ss_pred             CCEEEEEEEEEEEEECCCCEEEEEEEEEEEECCCCCCCCCEECCCCEEECCCCCCCCCCEEEEEEEEECEECCCCCHHHC
Q ss_conf             32167899999999858998999976653101321257112017612000165645521159999990515034686552
Q gi|254780727|r  348 MPSYRVRKADTTVELPSGGTIVLAGLLKDDIQQLKEGIPLLSKIPILGALFRNSRFNREETEIFIAATPFLVKPVAMRDL  427 (474)
Q Consensus       348 ~P~i~~R~~~T~V~l~~Get~vIgGL~~~~~~~~~~~vP~LgdIPilG~LF~s~~~~~~~tELvI~iTP~iV~p~~~~~~  427 (474)
                      +|.+++|+++|+|+|+|||||+||||+|++.....+++||||+|||||+||||++++++++||+|+||||+|+|.++.++
T Consensus       330 vP~~t~rradTtVeL~sGqSf~I~GL~qs~~~~~~~~vP~lG~iPIlGalFRs~~~~r~etELviIVTP~lVkP~~p~~~  409 (455)
T COG4964         330 VPGLTTRRADTTVELASGQSFVIGGLLQSNVRGAVDKVPGLGDIPILGALFRSKDFQRNETELVIIVTPYLVKPVAPGQL  409 (455)
T ss_pred             CCCEEEEEEEEEEEECCCCEEEEEEEEECCHHHHHHCCCCCCCCCCHHHHHHCCCCCCCCCEEEEEECCCCCCCCCHHHC
T ss_conf             43158886001699058987999512101413466428887667502555422001567634899963551220685314


Q ss_pred             CCCCCCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCEEEC
Q ss_conf             68754754776200011030023467776666666564334312769
Q gi|254780727|r  428 SRPDDHYSVEDDAKAFFFNRVNKIYGPKEASEVEGQNYKGAIGFIYK  474 (474)
Q Consensus       428 ~~p~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~Gf~~~  474 (474)
                      ..|+|++.+++|...||+|+.++.|+.+.... ..+++.|..||+|+
T Consensus       410 ~~p~~~~t~~~d~~~~~~~~~~~v~~~~~g~~-~~~~~~g~~g~v~~  455 (455)
T COG4964         410 PAPPDDFTPASDPALYFLGNVNRVYGFPAGQT-DAARYGGAVGFVIK  455 (455)
T ss_pred             CCCCCCCCCCCCCCHHCCCCCCEEEECCCCCC-CCCCCCCCCCEEEC
T ss_conf             58975668667721110355640476146765-56566763005769


No 2  
>TIGR02517 type_II_gspD general secretion pathway protein D; InterPro: IPR013356    In Gram-negative bacteria, proteins that have first crossed the inner member by Sec-dependent protein transport can be exported across the outer membrane by type II secretion (also referred to as the main terminal branch of the general secretion pathway). Members of this family are general secretion pathway protein D. In Yersinia enterocolitica, a second member of this family is part of a novel second type II secretion system specifically associated with virulence (See ). This family is closely homologous to the type IV pilus outer membrane secretin PilQ (IPR013355 from INTERPRO) and to the type III secretion system pore YscC/HrcC (IPR003522 from INTERPRO).; GO: 0008565 protein transporter activity, 0015628 protein secretion by the type II secretion system, 0015627 type II protein secretion system complex, 0019867 outer membrane.
Probab=100.00  E-value=0  Score=412.00  Aligned_cols=238  Identities=28%  Similarity=0.424  Sum_probs=196.4

Q ss_pred             CEEEEEECCCCCEEEEEEEEEEEECHHHHHCCCEEEECCCCCCCCCCCCC----------CCCC--CCCC----------
Q ss_conf             30355432777227999999998500144226121001454336443545----------5666--6666----------
Q gi|254780727|r  183 KVMNLLNIAGEDQVTLKVTIAEVRRDILKQIGFQHSITGSSSGPSKSFAA----------DFGG--KFVS----------  240 (474)
Q Consensus       183 ~vvn~l~v~~~~QV~lev~i~EVs~~~~~~lGi~w~~~~~~~~~~~~~~~----------~~~~--~~~~----------  240 (474)
                      .||.+|+++ +.||+||+.|+||+.+...+||++|...+...........          ..+.  ...+          
T Consensus       405 ~VI~~LD~r-R~QV~vEA~IvEvs~~~~~~~Gvqw~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~  483 (697)
T TIGR02517       405 EVIKQLDKR-RAQVLVEAIIVEVSLDDALELGVQWLIAGTGGTVGFGLVNGSTGAGNSGSLLGASASAINPDTAASKLLG  483 (697)
T ss_pred             HHHHHHCCC-CCCEEEEEEEEEEECCCCCCCCEEEEEECCCCEECCEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHH
T ss_conf             999983889-7664899999999708873220456761344120421204655555420001222336677741001101


Q ss_pred             ----------CCCCCEEEEECCCCCHHHHHHHHHHCCCEEEEECCEEEEECCCEEEEEECCCEEEEECCCCC-----C--
Q ss_conf             ----------65430334203774143110237735975898422389875946757524730000013677-----6--
Q gi|254780727|r  241 ----------EGGDFSVKGVLDRFSFETVLHALERATAIRTLAEPTLTAISGQSASFTSGGQHLYKTVSSST-----G--  303 (474)
Q Consensus       241 ----------~~~~~~~~~~~~~~~~~~~l~aL~~~g~a~iLa~P~l~t~sgq~A~~~~G~e~pi~~~~~~~-----~--  303 (474)
                                ....+.....+...+|.+.|+||++++..++||.|+|+|+|||+|+|.||+++||++.+...     +  
T Consensus       484 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~Al~~~~~~NvLSTP~~lTlDN~eA~I~VGQ~VPv~tg~~~~Gt~~~~~~  563 (697)
T TIGR02517       484 SAGIGLLVTSSSTTSGVGGTGGIPNLGVLLNALKQDTGFNVLSTPSLLTLDNEEAEINVGQEVPVLTGSYNTGTGTGGTN  563 (697)
T ss_pred             HEECCCCCCEEEEEEEEEECCCCCEEEEEEEEECCCCCCCEEECCEEEEECCCEEEEEECCCCCCCCCEEEEEEEEECCC
T ss_conf             10016650101212322100356234578875302657116877806763032146751767222365021155630545


Q ss_pred             ---CEEEEEEEEEEEEEEEEEEE-CCCEEEEEEEEEECCCC----CCCCCCCCCEEEEEEEEEEEEECCCCEEEEEEEEE
Q ss_conf             ---20468988758999998981-59849998612320344----55556653216789999999985899899997665
Q gi|254780727|r  304 ---ATSVTTHDYGVVLHFTPTVL-SPGRIGLRIQTEVSEPV----IGVNAGDMPSYRVRKADTTVELPSGGTIVLAGLLK  375 (474)
Q Consensus       304 ---~~~v~~~~~Gi~L~vtP~V~-~~g~I~L~i~~evS~~~----~~~~~~~~P~i~~R~~~T~V~l~~Get~vIgGL~~  375 (474)
                         ..++|||++|++|+|||+|. ++|.|.|+|.+|+|++.    ........|.|++|+++|+|.++||||+|||||++
T Consensus       564 ~n~f~t~~r~~vG~~L~v~PqIn~eg~~v~L~I~Qevs~~~~~~~~~~~~~~~~~~nkR~i~t~v~V~dg~tvVLGGLi~  643 (697)
T TIGR02517       564 ANPFNTVERKDVGIKLKVTPQINGEGGTVRLEIYQEVSSVAPATGTVASAATGPTFNKREIKTSVLVDDGDTVVLGGLIQ  643 (697)
T ss_pred             CCEEEEEEEEEEEEEEEEEEEEECCCCEEEEEEEEEEECCCCCCCEEECCCCCCCEEEEEEEEEEEECCCCEEEEEEEEC
T ss_conf             53143016887228998887783799869999986341333546412024577411114898899962798899866413


Q ss_pred             EEECCCCCCCCCEECCCCEEECCCCCCCCCCEEEEEEEEECEECCC
Q ss_conf             3101321257112017612000165645521159999990515034
Q gi|254780727|r  376 DDIQQLKEGIPLLSKIPILGALFRNSRFNREETEIFIAATPFLVKP  421 (474)
Q Consensus       376 ~~~~~~~~~vP~LgdIPilG~LF~s~~~~~~~tELvI~iTP~iV~p  421 (474)
                      ++.+++.+|||+|||||+||+|||++...++||+|||||||||||-
T Consensus       644 d~~~~~~~kvPlLGDIP~lG~LFr~~~~~~~KTNLmVFitP~Iir~  689 (697)
T TIGR02517       644 DKTSESVTKVPLLGDIPVLGRLFRSTTKERTKTNLMVFITPRIIRD  689 (697)
T ss_pred             CCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCEEEEEEECCEEECC
T ss_conf             7510110134345785611011576673233316899960778779


No 3  
>TIGR02515 IV_pilus_PilQ type IV pilus secretin PilQ; InterPro: IPR013355    A number of proteins homologous to PilQ are involved in type IV pilus formation, competence for transformation, type III secretion, and type II secretion (also referred to as the main terminal branch of the general secretion pathway). Members of this family include PilQ itself, which is a component of the type IV pilus structure, from a number of species. In Haemophilus influenzae, the member of this family is associated with the uptake of exogenous DNA, rather than with formation of a type IV pilus - the surface structure required for this may be considered an unusual, incomplete type IV pilus structure.; GO: 0009297 pilus biogenesis, 0009306 protein secretion.
Probab=100.00  E-value=0  Score=400.31  Aligned_cols=267  Identities=22%  Similarity=0.387  Sum_probs=212.6

Q ss_pred             HHC-CCCCEEEEEECCEEEEEEEECCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEECCCCCEEEEEEEEEEEEC
Q ss_conf             857-8771699983894999997199999999999999861223455555665443035543277722799999999850
Q gi|254780727|r  129 RFI-ADSNIRVEMVSDTVVLHGMVRTIQDSQRAVELSETFLSQSGRNQYANSSSKKVMNLLNIAGEDQVTLKVTIAEVRR  207 (474)
Q Consensus       129 ~~~-p~~~i~v~~~~~~vvl~G~v~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~vvn~l~v~~~~QV~lev~i~EVs~  207 (474)
                      .++ |.++|.++...++++++..   +...+++.+                     +|..|+++ .+||+||+||||++.
T Consensus       152 ~~LS~RGSvt~D~RTN~Liv~D~---~~~l~~~r~---------------------li~~lD~P-v~QV~IEARIVea~~  206 (464)
T TIGR02515       152 AVLSERGSVTVDPRTNTLIVTDI---PEKLARIRE---------------------LIAELDIP-VKQVLIEARIVEATD  206 (464)
T ss_pred             HHCCCCCCEEEECCCCEEEEEEC---HHHHHHHHH---------------------HHHHCCCC-CCCEEEEEEEEEEEC
T ss_conf             20389860897424253878621---578999999---------------------99961898-433899647999830


Q ss_pred             HHHHHCCCEEEECCCCCCCCCCC---------------CCCC-----------------CCCCCCC------CCCCEEEE
Q ss_conf             01442261210014543364435---------------4556-----------------6666666------54303342
Q gi|254780727|r  208 DILKQIGFQHSITGSSSGPSKSF---------------AADF-----------------GGKFVSE------GGDFSVKG  249 (474)
Q Consensus       208 ~~~~~lGi~w~~~~~~~~~~~~~---------------~~~~-----------------~~~~~~~------~~~~~~~~  249 (474)
                      ++.|+||++|.........+...               .+..                 +......      +.++.+..
T Consensus       207 ~f~r~LGv~wG~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~nv~l~~~t~~~gsgGa~~~~~~~~~  286 (464)
T TIGR02515       207 SFARELGVRWGIADKTTNGNGTLGGIGSSTGTGATGVVSSTLAGGTMNPPIGDNLNVNLATATTAGGSGGAAAISFALGK  286 (464)
T ss_pred             CCCCCCEEEECCCCCCCCCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHH
T ss_conf             61100606723435643246531013625666121642477877654777788763466356656544245788777654


Q ss_pred             ECC-CCCHHHHHHHHHHCCCEEEEECCEEEEECCCEEEEEECCCEEEEECCCC----CCCEEEEEEEEEEEEEEEEEEEC
Q ss_conf             037-7414311023773597589842238987594675752473000001367----76204689887589999989815
Q gi|254780727|r  250 VLD-RFSFETVLHALERATAIRTLAEPTLTAISGQSASFTSGGQHLYKTVSSS----TGATSVTTHDYGVVLHFTPTVLS  324 (474)
Q Consensus       250 ~~~-~~~~~~~l~aL~~~g~a~iLa~P~l~t~sgq~A~~~~G~e~pi~~~~~~----~~~~~v~~~~~Gi~L~vtP~V~~  324 (474)
                      ... +..+++.|+|||++|.++|+|+|+|+|.|+++|+|..|.||||.+.++.    .+.++|+||++=++|+|||+|.+
T Consensus       287 ~~~g~~~LdLELSAle~e~~~eiissPrv~T~d~~~A~I~qG~EIPY~~~s~~G~~~~~~~~v~FKeAvL~LeVTP~ITp  366 (464)
T TIGR02515       287 LGSGGVLLDLELSALESEGKGEIISSPRVVTADNKKAKIEQGTEIPYQQTSSSGTGASSATSVEFKEAVLSLEVTPQITP  366 (464)
T ss_pred             HHCCCCHHHHHHHHHHHHCCCCEEECCEEEEECCCEEEEECCEEECEEEECCCCCCCCCEEEEEEEEEEEECCCCCEECC
T ss_conf             40454014689999986188138765818720685557731546041898066200674217999998750531311656


Q ss_pred             CCEEEEEEEEEECCCC--CCCCCCCCCEEEEEEEEEEEEECCCCEEEEEEEEEEEECCCCCCCCCEECCCCEEECCCCCC
Q ss_conf             9849998612320344--55556653216789999999985899899997665310132125711201761200016564
Q gi|254780727|r  325 PGRIGLRIQTEVSEPV--IGVNAGDMPSYRVRKADTTVELPSGGTIVLAGLLKDDIQQLKEGIPLLSKIPILGALFRNSR  402 (474)
Q Consensus       325 ~g~I~L~i~~evS~~~--~~~~~~~~P~i~~R~~~T~V~l~~Get~vIgGL~~~~~~~~~~~vP~LgdIPilG~LF~s~~  402 (474)
                      ||+|.|+|...=.+..  ......+.|.|++|++.|.|.++||||+||||.++++.++..+|||||||||+||+|||++.
T Consensus       367 Dg~i~M~~~v~kd~~g~~~~~a~~~~~~I~k~ei~T~VlV~nGeTvViGGIY~~~~~~~~~kVPfLGDIP~lG~LFk~~~  446 (464)
T TIGR02515       367 DGRIIMDLKVSKDSPGAVVSQAGGGVPAIDKREINTQVLVKNGETVVIGGIYEQTQTNSVNKVPFLGDIPVLGNLFKKTA  446 (464)
T ss_pred             CCCEEEEEEEEECCCCCCCCCCCCCCCCEEEEEEEEEEEEECCCEEEEEEEEEEECCCCCCCCCEECCCCCEEHEEECCC
T ss_conf             99389998871077875034678701504402677899972588899812898515644245511134560111011166


Q ss_pred             CCCCEEEEEEEEECEECC
Q ss_conf             552115999999051503
Q gi|254780727|r  403 FNREETEIFIAATPFLVK  420 (474)
Q Consensus       403 ~~~~~tELvI~iTP~iV~  420 (474)
                      +++.|+||+||||||||.
T Consensus       447 ~~~~K~ELLIFiTPri~~  464 (464)
T TIGR02515       447 KSDEKSELLIFITPRIVN  464 (464)
T ss_pred             CEEECEEEEEEECCEECC
T ss_conf             311110431887565749


No 4  
>PRK10560 hofQ outer membrane porin HofQ; Provisional
Probab=100.00  E-value=0  Score=383.19  Aligned_cols=278  Identities=24%  Similarity=0.374  Sum_probs=223.0

Q ss_pred             CCCHHHHHHHHHHHCC-CCCEEEEEECCEEEEEEEECCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEECCCCCE
Q ss_conf             4541478999998578-771699983894999997199999999999999861223455555665443035543277722
Q gi|254780727|r  117 ERDIAHLEMTLRRFIA-DSNIRVEMVSDTVVLHGMVRTIQDSQRAVELSETFLSQSGRNQYANSSSKKVMNLLNIAGEDQ  195 (474)
Q Consensus       117 ~~d~~~l~~~l~~~~p-~~~i~v~~~~~~vvl~G~v~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~vvn~l~v~~~~Q  195 (474)
                      ..+...+.+.++.++. ...|.++...++++++|+   +.+.+++.++                     +..|+++. +|
T Consensus       100 ya~~~~~~~~~~~~ls~~g~i~~d~~tN~liV~~t---~~~~~~i~~l---------------------i~~lD~~~-~Q  154 (386)
T PRK10560        100 YADAGELAKAGEKLLSAKGSMTVDKRTNRLLLRDN---KTALSALEQW---------------------VAQMDLPV-GQ  154 (386)
T ss_pred             ECCHHHHHHHHHHHCCCCCEEEEECCCCEEEEECC---HHHHHHHHHH---------------------HHHHCCCC-CE
T ss_conf             08999999765532267730999368887999749---9999999999---------------------99746767-77


Q ss_pred             EEEEEEEEEEECHHHHHCCCEEEECCCCCCCCCCCCCCCCC----CCCCCCCCCEEEEECCCCCHHHHHHHHHHCCCEEE
Q ss_conf             79999999985001442261210014543364435455666----66666543033420377414311023773597589
Q gi|254780727|r  196 VTLKVTIAEVRRDILKQIGFQHSITGSSSGPSKSFAADFGG----KFVSEGGDFSVKGVLDRFSFETVLHALERATAIRT  271 (474)
Q Consensus       196 V~lev~i~EVs~~~~~~lGi~w~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~l~aL~~~g~a~i  271 (474)
                      |+||++|+||++++.++||++|+..........+.....+.    ...+...+++ .+..++..+.+.|+||+++|++++
T Consensus       155 V~Iea~IvEv~~~~~~~lGv~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~-~~~~~~~~l~~~l~aL~~~g~~~i  233 (386)
T PRK10560        155 VELAAHIVTINEKSLRELGVKWTLADAQQAGGVGQVTTLGSDLSVATATTHVGFN-IGRINGRLLDLELSALEQKQQLDI  233 (386)
T ss_pred             EEEEEEEEEEECCCHHHHCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEE-EECCCCHHHHHHHHHHHHCCCCEE
T ss_conf             9999999999778338607223413466788646544446654455644543146-521363558886799873898439


Q ss_pred             EECCEEEEECCCEEEEEECCCEEEEECCCCCCCEEEEEEEEEEEEEEEEEEECCCEEEEEEEEEECCCCC--CCCCCCCC
Q ss_conf             8422389875946757524730000013677620468988758999998981598499986123203445--55566532
Q gi|254780727|r  272 LAEPTLTAISGQSASFTSGGQHLYKTVSSSTGATSVTTHDYGVVLHFTPTVLSPGRIGLRIQTEVSEPVI--GVNAGDMP  349 (474)
Q Consensus       272 La~P~l~t~sgq~A~~~~G~e~pi~~~~~~~~~~~v~~~~~Gi~L~vtP~V~~~g~I~L~i~~evS~~~~--~~~~~~~P  349 (474)
                      ||+|+++|+|||+|.|.+|.++||.+.++..+.++++|+++|+.|+|||+|.+||.|.|++.++.+....  .......|
T Consensus       234 lS~P~i~t~~n~~A~I~vG~~ip~~~~~~~~~~t~~~~~~~gl~L~VtP~I~~dg~I~l~i~i~~~~~~~~~~~~~~~~~  313 (386)
T PRK10560        234 IASPRLLASHLQPASIKQGSEIPYQVSSGESGATSVEFKEAVLGMEVTPTVLQKGRIRLKLHISQNVPGQVLQQADGEVL  313 (386)
T ss_pred             EECCEEEEECCCEEEEECCEEEEEEECCCCCCCEEEEEEEEEEEEEEEEEECCCCEEEEEEEEEECCCCCCCCCCCCCCC
T ss_conf             86787998379779998531998995147777325899997689999889988991999999974377620205787654


Q ss_pred             EEEEEEEEEEEEECCCCEEEEEEEEEEEECCCCCCCCCEECCCCEEECCCCCCCCCCEEEEEEEEECEECC
Q ss_conf             16789999999985899899997665310132125711201761200016564552115999999051503
Q gi|254780727|r  350 SYRVRKADTTVELPSGGTIVLAGLLKDDIQQLKEGIPLLSKIPILGALFRNSRFNREETEIFIAATPFLVK  420 (474)
Q Consensus       350 ~i~~R~~~T~V~l~~Get~vIgGL~~~~~~~~~~~vP~LgdIPilG~LF~s~~~~~~~tELvI~iTP~iV~  420 (474)
                      .+++|+++|+|.++||||++||||++++.++..+|||+|||||+||+|||+++.+++|+||+||||||||+
T Consensus       314 ~i~~r~~~T~v~v~dGetvviGGLi~~~~~~~~~~VP~LgdIP~lG~LF~~~~~~~~k~eLlIfItP~Iv~  384 (386)
T PRK10560        314 AIDKQEIETQVEVKSGETLALGGIFSRKNKSGQDSVPLLGDIPWFGQLFRHDGKEDERRELVVFITPRLVS  384 (386)
T ss_pred             CEEEEEEEEEEEECCCCEEEEEEEEEEEEEEEECCCCCCCCCCCCHHHHCCCCCCCCEEEEEEEEEEEEEC
T ss_conf             15605998999992899999932788014455017715751212147507977757368999999718957


No 5  
>PRK13568 hofQ putative outer membrane porin HofQ; Provisional
Probab=100.00  E-value=0  Score=379.01  Aligned_cols=278  Identities=20%  Similarity=0.306  Sum_probs=219.9

Q ss_pred             CCCHHHHHHHHHHH-----CCCCCEEEEEECCEEEEEEEECCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEECC
Q ss_conf             45414789999985-----7877169998389499999719999999999999986122345555566544303554327
Q gi|254780727|r  117 ERDIAHLEMTLRRF-----IADSNIRVEMVSDTVVLHGMVRTIQDSQRAVELSETFLSQSGRNQYANSSSKKVMNLLNIA  191 (474)
Q Consensus       117 ~~d~~~l~~~l~~~-----~p~~~i~v~~~~~~vvl~G~v~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~vvn~l~v~  191 (474)
                      ..++..+...++..     .+...|.++...++++++|.   +.+.+++.++                     +..|+++
T Consensus        97 ~~~~~~~~~~~~~~~~~~~s~~g~v~~d~~tNsliV~~~---~~~~~~i~~l---------------------i~~LD~~  152 (385)
T PRK13568         97 YANAEQVADSLDPLQGGLLSPLGSVVADKRTNTLLIRDT---PASLALLKNW---------------------LIEMDLP  152 (385)
T ss_pred             CCCHHHHHHHHHHCCCCCCCCCCEEEECCCCCEEEEECC---HHHHHHHHHH---------------------HHHHCCC
T ss_conf             288999999876502653356630898576777999639---9999999999---------------------9974565


Q ss_pred             CCCEEEEEEEEEEEECHHHHHCCCEEEECCCCCCCCCCCC---CCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHHCCC
Q ss_conf             7722799999999850014422612100145433644354---5566666666543033420377414311023773597
Q gi|254780727|r  192 GEDQVTLKVTIAEVRRDILKQIGFQHSITGSSSGPSKSFA---ADFGGKFVSEGGDFSVKGVLDRFSFETVLHALERATA  268 (474)
Q Consensus       192 ~~~QV~lev~i~EVs~~~~~~lGi~w~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~aL~~~g~  268 (474)
                      . +||+||++|+||++++.++||++|.......+......   .+........+.++. .+..++..+.+.|+||+++|+
T Consensus       153 ~-~QV~Iea~IvEvs~~~~~~lGv~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~-~~~~~~~~l~~~l~aL~~~g~  230 (385)
T PRK13568        153 L-QQVQLSAHIVTISSEDLQELGVRWGMGEGKGNTALRINDFNVNLPLPNSAASVGFH-VARIGGRLLELELSALEQENQ  230 (385)
T ss_pred             C-CEEEEEEEEEEEECCCHHHCCEEEEECCCCCCCCEECCCCCCCCCCCCCCCCCCEE-EEECCCHHHHHHHHHHHHCCC
T ss_conf             5-65999999999835714750656650258886413236643356677753334337-642162768899789874898


Q ss_pred             EEEEECCEEEEECCCEEEEEECCCEEEEECCCCCCCEEEEEEEEEEEEEEEEEEECCCEEEEEEEEEECCCC--CCCCCC
Q ss_conf             589842238987594675752473000001367762046898875899999898159849998612320344--555566
Q gi|254780727|r  269 IRTLAEPTLTAISGQSASFTSGGQHLYKTVSSSTGATSVTTHDYGVVLHFTPTVLSPGRIGLRIQTEVSEPV--IGVNAG  346 (474)
Q Consensus       269 a~iLa~P~l~t~sgq~A~~~~G~e~pi~~~~~~~~~~~v~~~~~Gi~L~vtP~V~~~g~I~L~i~~evS~~~--~~~~~~  346 (474)
                      +++||+|+|+|+|||+|.|.+|.++||.+.++..+.++++|+++|+.|+|||+|.+||.|.|++.++.+...  ......
T Consensus       231 ~~vlS~P~i~t~nn~~A~I~vG~~vp~~~~~~~~~~~~~~~~~~gl~L~VtP~I~~dg~I~l~i~i~~~~~~~~~~~~~~  310 (385)
T PRK13568        231 VDIIASPRLITSHQQTASIKQGSDIPYTVSRGKKEAAAIEFKEAVLGMEVTPKILRNGKIILDLKISQNMPGITIKRGES  310 (385)
T ss_pred             CEEEECCEEEEECCCEEEEECCCEEEEEEEECCCCCEEEEEEEEEEEEEEEEEECCCCCEEEEEEEEECCCCCCCCCCCC
T ss_conf             35961684899779638997687899998607877404789876688999878868995899999874367620024777


Q ss_pred             CCCEEEEEEEEEEEEECCCCEEEEEEEEEEEECCCCCCCCCEECCCCEEECCCCCCCCCCEEEEEEEEECEECC
Q ss_conf             53216789999999985899899997665310132125711201761200016564552115999999051503
Q gi|254780727|r  347 DMPSYRVRKADTTVELPSGGTIVLAGLLKDDIQQLKEGIPLLSKIPILGALFRNSRFNREETEIFIAATPFLVK  420 (474)
Q Consensus       347 ~~P~i~~R~~~T~V~l~~Get~vIgGL~~~~~~~~~~~vP~LgdIPilG~LF~s~~~~~~~tELvI~iTP~iV~  420 (474)
                      ..|.+++|+++|+|.++||||++||||++++.+++.+|||||||||+||+|||+++.+++|+||+||||||||+
T Consensus       311 ~~~~i~~r~~~T~v~v~dG~tvviGGli~~~~~~~~~~VP~LgdIP~iG~LF~~~~~~~~k~ELlIfITP~Ii~  384 (385)
T PRK13568        311 EMLLIDKQEIKTQVTVNDGETIVLGGIFQQKKRQSVNKVPLLADIPLLGAMFRQDTQQQSRRELVIFITPKLIS  384 (385)
T ss_pred             CCCEEEEEEEEEEEEECCCCEEEEEEEEECCEEEEECCCCCCCCCCCCHHHHCCCCCCCCEEEEEEEEEEEEEC
T ss_conf             76405506999999994899999903788213103007705853444416507977757468999999849945


No 6  
>PHA00019 phage assembly protein
Probab=100.00  E-value=0  Score=377.46  Aligned_cols=275  Identities=22%  Similarity=0.341  Sum_probs=218.6

Q ss_pred             CCHHHHHHHHHHHC-----CCCCEEEEEECCEEEEEEEECCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEECCC
Q ss_conf             54147899999857-----8771699983894999997199999999999999861223455555665443035543277
Q gi|254780727|r  118 RDIAHLEMTLRRFI-----ADSNIRVEMVSDTVVLHGMVRTIQDSQRAVELSETFLSQSGRNQYANSSSKKVMNLLNIAG  192 (474)
Q Consensus       118 ~d~~~l~~~l~~~~-----p~~~i~v~~~~~~vvl~G~v~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~vvn~l~v~~  192 (474)
                      ..+.++...++..+     +...+.+++..++++++|+   +.+.+++.++                     ++.|+++ 
T Consensus       141 ~~a~~~~~~l~~~~~~~~~~~g~v~~D~rtNsliv~~t---~~~~~~i~~l---------------------I~~LD~~-  195 (428)
T PHA00019        141 VRASDLLPLVKIFVKSNGAPGGSVTDLPGTNSLVVSGS---ASQLPALADF---------------------ISAIDVP-  195 (428)
T ss_pred             CCHHHHHHHHHHHHCCCCCCCCEEEECCCCCEEEEECC---HHHHHHHHHH---------------------HHHHCCC-
T ss_conf             68999999998764336788832898488677999969---9999999999---------------------9984766-


Q ss_pred             CCEEEEEEEEEEEECHHHHHCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHHCCCEEEE
Q ss_conf             72279999999985001442261210014543364435455666666665430334203774143110237735975898
Q gi|254780727|r  193 EDQVTLKVTIAEVRRDILKQIGFQHSITGSSSGPSKSFAADFGGKFVSEGGDFSVKGVLDRFSFETVLHALERATAIRTL  272 (474)
Q Consensus       193 ~~QV~lev~i~EVs~~~~~~lGi~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~aL~~~g~a~iL  272 (474)
                      ++||+||++|+|++++...++|+.|.........+.......++.....++.   .+.+++..+++.|+||+++|++++|
T Consensus       196 ~~QV~IEa~Ivev~~~~~~~~g~~~g~~~g~~~~~~~~~~~~~~~l~~~~~~---~g~~~~~~l~~~l~aLe~~g~~~il  272 (428)
T PHA00019        196 RRQVLIEALIFETSLGDGVDLSFAAGLASGGKVAGGFNTARLTTVLSSAGGS---FGIFNGNVLGLSVKALENSSNSRVL  272 (428)
T ss_pred             CCEEEEEEEEEEEECCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCC---EEEECCCCHHHHHHHHHHCCCCEEE
T ss_conf             6248999999997136562310321566686211354455444434345640---3441462076656888737885396


Q ss_pred             ECCEEEEECCCEEEEEECCCEEEEECCC-------CCCCEEEEEEEEEEEEEEEEEEECCCEEEEEEEEEECCCCCCCCC
Q ss_conf             4223898759467575247300000136-------776204689887589999989815984999861232034455556
Q gi|254780727|r  273 AEPTLTAISGQSASFTSGGQHLYKTVSS-------STGATSVTTHDYGVVLHFTPTVLSPGRIGLRIQTEVSEPVIGVNA  345 (474)
Q Consensus       273 a~P~l~t~sgq~A~~~~G~e~pi~~~~~-------~~~~~~v~~~~~Gi~L~vtP~V~~~g~I~L~i~~evS~~~~~~~~  345 (474)
                      |+|+|+|+|||+|+|.+|.++||.+...       ++..++++|+++|++|+|||+|.+||+|.|++++++|++......
T Consensus       273 S~P~i~t~dn~~A~I~~G~~vp~~t~~~~~~~~~~~~~~~t~~~~d~gl~L~VtP~I~~d~~I~L~i~~~~s~~~~~~~~  352 (428)
T PHA00019        273 SRPRILTLSGQSGYISVGQNVPFVTGRVTGEAANVNNPFQTIERKDVGVSLEVTPVVMGDGQLVLDIDTKADSLSDSTIA  352 (428)
T ss_pred             ECCEEEEECCCEEEEEECCEEEEEEEEECCCCCCCCCCCEEEEEEEEEEEEEEEEEECCCCCEEEEEEEEECCCCCCCCC
T ss_conf             07668996596589980447988975413432236876047999997799999999968994999999863354555556


Q ss_pred             CCCCEEEEEEEEEEEEECCCCEEEEEEEEEEEECCCCCCCCCEECCCCEEECCCCCCCCCCEEEEEEEEECEECCC
Q ss_conf             6532167899999999858998999976653101321257112017612000165645521159999990515034
Q gi|254780727|r  346 GDMPSYRVRKADTTVELPSGGTIVLAGLLKDDIQQLKEGIPLLSKIPILGALFRNSRFNREETEIFIAATPFLVKP  421 (474)
Q Consensus       346 ~~~P~i~~R~~~T~V~l~~Get~vIgGL~~~~~~~~~~~vP~LgdIPilG~LF~s~~~~~~~tELvI~iTP~iV~p  421 (474)
                      .. |.+++|+++|+|.++||||+|||||++++.++..+|||+|||||+||+|||+++.+++|+||+||||||||+.
T Consensus       353 ~~-~~i~~r~~~T~v~v~dGetvVIGGl~~~~~~~~~~~VP~LgdIP~lG~LFk~~~~~~~k~ELlIfITP~Iir~  427 (428)
T PHA00019        353 SD-IITNQRSLQTTVQVKDGQTLLLGGLISSNNTDGDSSVPFLSKIPLIGWLFRSKSDSNEQRTLYVLLTARVIKA  427 (428)
T ss_pred             CC-CCCCCEEEEEEEEECCCCEEEEEEEEEEEEEEECCCCCCCCCCCCCHHHHCCCCCCCCEEEEEEEEEEEEEEC
T ss_conf             78-5431079989999848999999768782110131277368644101265179777673689999990299734


No 7  
>COG1450 PulD Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=100.00  E-value=0  Score=364.99  Aligned_cols=239  Identities=26%  Similarity=0.424  Sum_probs=193.1

Q ss_pred             CEEEEEECCCCCEEEEEEEEEEEECHHHHHCCCEEEECCCCCCCCCCCCCCCCCCC---CCCCCCCEEE-EECCCCCHHH
Q ss_conf             30355432777227999999998500144226121001454336443545566666---6665430334-2037741431
Q gi|254780727|r  183 KVMNLLNIAGEDQVTLKVTIAEVRRDILKQIGFQHSITGSSSGPSKSFAADFGGKF---VSEGGDFSVK-GVLDRFSFET  258 (474)
Q Consensus       183 ~vvn~l~v~~~~QV~lev~i~EVs~~~~~~lGi~w~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~-~~~~~~~~~~  258 (474)
                      .++..|+++ ++||.||+.|+||+.++..++|++|...+...+.........+...   ...+..+... ...+..+|.+
T Consensus       301 ~lI~~LD~~-~~QV~Iea~Ivevs~~~~~~lGv~W~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~a  379 (587)
T COG1450         301 ELIEKLDVR-PKQVEIEASIVEVSLNDLEQLGVNWSALNSGGGKVGNTNSSLGNAGLSGGALAGLVSGINTGAGKSNFDA  379 (587)
T ss_pred             HHHHHHCCC-CCEEEEEEEEEEEECCCHHHHCCCCHHHCCCCCCEEECCCEECCCCCCCCCCCCCCCCCCCCCCCCCHHH
T ss_conf             999975567-5269999999995267136639300521776772430221021577676533333344453446532999


Q ss_pred             HHHHHHHCCCEEEEECCEEEEECCCEEEEEECCCEEEEE-----CCCCCCCEEEEEEEEEEEEEEEEEEECCCEEEEEEE
Q ss_conf             102377359758984223898759467575247300000-----136776204689887589999989815984999861
Q gi|254780727|r  259 VLHALERATAIRTLAEPTLTAISGQSASFTSGGQHLYKT-----VSSSTGATSVTTHDYGVVLHFTPTVLSPGRIGLRIQ  333 (474)
Q Consensus       259 ~l~aL~~~g~a~iLa~P~l~t~sgq~A~~~~G~e~pi~~-----~~~~~~~~~v~~~~~Gi~L~vtP~V~~~g~I~L~i~  333 (474)
                      .|+||++++++++||+|+|+|+||++|.|.+|.++| .+     ...++...+++|+++|+.|+|||+|.++|++.|+|+
T Consensus       380 ~inaL~~~~~~~VlS~Psl~tlnN~~A~i~VGq~vp-~~~~~~~~~~g~~~~~~~~~~~Gv~LkVtP~I~~~~~v~L~Ie  458 (587)
T COG1450         380 LINALSQNGDANVLSTPSLLTLNNQQAIIDVGQDVP-QTGTSYTKVTGEKTATLERIDVGVMLKVTPRINDDGRVLLDIE  458 (587)
T ss_pred             HHHHHHHCCCCEEEECCEEEEECCCCEEEECCCCCC-CCEEEEEECCCCEEEEEEEEEEEEEEEEEEEECCCCEEEEEEE
T ss_conf             998987658947973788998248607987675346-6137998357843445778872079998778848985899984


Q ss_pred             EEECCCCCC---CCCCCCCEEEEEEEEEEEEECCCCEEEEEEEEEEEECCCCCCCCCEECCCCEEECCCCCCCCCCEEEE
Q ss_conf             232034455---55665321678999999998589989999766531013212571120176120001656455211599
Q gi|254780727|r  334 TEVSEPVIG---VNAGDMPSYRVRKADTTVELPSGGTIVLAGLLKDDIQQLKEGIPLLSKIPILGALFRNSRFNREETEI  410 (474)
Q Consensus       334 ~evS~~~~~---~~~~~~P~i~~R~~~T~V~l~~Get~vIgGL~~~~~~~~~~~vP~LgdIPilG~LF~s~~~~~~~tEL  410 (474)
                      +|+|+....   .+....|.+++|+++|.+.++||||++||||++++.++..+|||||||||+||+|||++..+++++||
T Consensus       459 qevs~~~~~~~~~~~~~~p~~~~r~I~T~v~v~dG~slvlGGLi~d~~s~s~skVP~LGdIP~iG~LFr~t~~~~~kt~l  538 (587)
T COG1450         459 QEVSSVATSDSVTSNDPLPTTNKREITTEVRVKDGDSLLLGGLIQDKQSDSVSKVPFLGDIPLIGSLFRSTSKTRKKTEL  538 (587)
T ss_pred             CCCCCCCCCCCCCCCCCCCEEEEEEEEEEEEECCCCEEEEEEEEECCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCEEEE
T ss_conf             15545566654335687863531463579994689999981376525242013886676564311442462000232899


Q ss_pred             EEEEECEECCCCC
Q ss_conf             9999051503468
Q gi|254780727|r  411 FIAATPFLVKPVA  423 (474)
Q Consensus       411 vI~iTP~iV~p~~  423 (474)
                      +|||||++|+...
T Consensus       539 ~~fI~P~ii~~~~  551 (587)
T COG1450         539 MFFITPRIIRSPA  551 (587)
T ss_pred             EEEEEEEEECCCH
T ss_conf             9998879925803


No 8  
>TIGR02519 pilus_MshL pilus (MSHA type) biogenesis protein MshL; InterPro: IPR013358    Proteins containing this region are predicted secretins, that is, outer membrane pore proteins associated with delivery of proteins from the periplasm to the outside of the cell. Related proteins include the GspD type II secretion family, the YscC/HrcC family type III secretion family, and the PilQ type IV pilus formation family. These proteins are found in gene clusters associated with MSHA (mannose-sensitive hemagglutinin) and related pili, and appear to be the secretin of this pilus system..
Probab=100.00  E-value=0  Score=333.09  Aligned_cols=258  Identities=25%  Similarity=0.341  Sum_probs=197.5

Q ss_pred             EEEECCEEEEEEEECCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEECCCCCEEEEEEEEEEEECHHHHHCCCEE
Q ss_conf             99838949999971999999999999998612234555556654430355432777227999999998500144226121
Q gi|254780727|r  138 VEMVSDTVVLHGMVRTIQDSQRAVELSETFLSQSGRNQYANSSSKKVMNLLNIAGEDQVTLKVTIAEVRRDILKQIGFQH  217 (474)
Q Consensus       138 v~~~~~~vvl~G~v~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~vvn~l~v~~~~QV~lev~i~EVs~~~~~~lGi~w  217 (474)
                      ++...+.+.+++.   +.+.+++.+..+.+-                     -+..+||.||++|+||++++.++.||||
T Consensus         3 iN~~~G~l~~~A~---p~~~~~V~~yl~~l~---------------------~~~~rQV~ie~~ileV~L~D~~~~GiDW   58 (311)
T TIGR02519         3 INKEAGLLTVRAT---PAQIRRVEEYLESLK---------------------ERIHRQVLIEAKILEVTLSDNYQQGIDW   58 (311)
T ss_pred             CCCCCCEEEEEEC---HHHHHHHHHHHHHHH---------------------HHCCCCEEEEEEEEEEEECCCCEECCCH
T ss_conf             4777357999852---589999999999988---------------------8508638999799999857880015128


Q ss_pred             EECCCCCCCCCCCCCC------CCCCCCC----------------CCCCCEEEEECCCCCHHHHHHHHHHCCCEEEEECC
Q ss_conf             0014543364435455------6666666----------------65430334203774143110237735975898422
Q gi|254780727|r  218 SITGSSSGPSKSFAAD------FGGKFVS----------------EGGDFSVKGVLDRFSFETVLHALERATAIRTLAEP  275 (474)
Q Consensus       218 ~~~~~~~~~~~~~~~~------~~~~~~~----------------~~~~~~~~~~~~~~~~~~~l~aL~~~g~a~iLa~P  275 (474)
                      +.............+.      .++.+.+                .+.+....-..++..|.+.++||.++|++++||+|
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~sg~~~l~~i~~~~~~~G~A~G~G~~i~~a~Gsf~~~v~~L~~~G~~~VLSnP  138 (311)
T TIGR02519        59 SNFNGSLLGRYKLGGAATSNDSSGNIFSSGLGFLDNISLPTTVNGAAAGLGSNISIANGSFDAIVNFLATFGDVKVLSNP  138 (311)
T ss_pred             HHHHCCCCCHHCCCCCEEECCCCCCCCCCCCCCHHHCCCCCCCCEEEEECCCEEEEECCHHHHHHHHHHHCCCEEEEECC
T ss_conf             99630221010578620313557740557765510334222341244321522674035488999999962973673177


Q ss_pred             EEEEECCCEEEEEECCCEEEEECCCC-------CC-CE-------EEEEEEEEEEEEEEEEEECCCEEEEEEEEEECCCC
Q ss_conf             38987594675752473000001367-------76-20-------46898875899999898159849998612320344
Q gi|254780727|r  276 TLTAISGQSASFTSGGQHLYKTVSSS-------TG-AT-------SVTTHDYGVVLHFTPTVLSPGRIGLRIQTEVSEPV  340 (474)
Q Consensus       276 ~l~t~sgq~A~~~~G~e~pi~~~~~~-------~~-~~-------~v~~~~~Gi~L~vtP~V~~~g~I~L~i~~evS~~~  340 (474)
                      +|+|+|||+|-|+||..+.|.+....       .+ ++       .+.....|+.|+|||.|.+||+|.|+|+|.+|+..
T Consensus       139 k~~a~NnQ~A~isVG~~~~Y~~~~~~~Gss~~~~ggtt~~~~~~~~~~s~f~G~~l~VtP~I~dDg~v~L~v~P~~s~v~  218 (311)
T TIGR02519       139 KVMALNNQPAVISVGDSITYVTEISSTGSSTTTSGGTTSTASSDVEVDSVFSGIVLGVTPQIKDDGKVILNVHPSISEVK  218 (311)
T ss_pred             EEEEECCCEEEEEECCEEEEEEEEEEECCCCCCCCCCEEEEEEEEEECCEEEEEEECCCCEEECCCEEEEEEECCEEEEE
T ss_conf             28853585789993461368987786424356888640355442357735401261420028618879999842287787


Q ss_pred             CC-------------C-CCCCCCEEEEEEEEEEEEECCCCEEEEEEEEEEEECCCCCCCCCEECCCCEEECCCCCCCCCC
Q ss_conf             55-------------5-566532167899999999858998999976653101321257112017612000165645521
Q gi|254780727|r  341 IG-------------V-NAGDMPSYRVRKADTTVELPSGGTIVLAGLLKDDIQQLKEGIPLLSKIPILGALFRNSRFNRE  406 (474)
Q Consensus       341 ~~-------------~-~~~~~P~i~~R~~~T~V~l~~Get~vIgGL~~~~~~~~~~~vP~LgdIPilG~LF~s~~~~~~  406 (474)
                      ..             . .....|.+.+|+++|+|+++|||++||||||+++.++..+|+|+|||||+||+||+++.+.++
T Consensus       219 ~~~~Ge~~~~~~~~~~g~~~~lP~~~~Ke~ss~~~~~~G~~~vlGGLi~~~~s~~~~~~P~LgdiP~lG~LF~~~~~~~~  298 (311)
T TIGR02519       219 PQKDGESLELIEVGNEGAEVALPEISVKEMSSVVRVKDGDTVVLGGLIDKKKSNTKSGLPLLGDIPGLGYLFSYKSKSKK  298 (311)
T ss_pred             ECCCCCCCCCCCCCCCCCEECCCCEEEEEEEEEEEECCCCEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCCE
T ss_conf             30267641001357767524077023323567999517979997134236501311355531147634331277513521


Q ss_pred             EEEEEEEEECEEC
Q ss_conf             1599999905150
Q gi|254780727|r  407 ETEIFIAATPFLV  419 (474)
Q Consensus       407 ~tELvI~iTP~iV  419 (474)
                      ++|||||++|+||
T Consensus       299 ~~ElVI~l~P~v~  311 (311)
T TIGR02519       299 KTELVIILRPSVV  311 (311)
T ss_pred             EEEEEEEECCEEC
T ss_conf             3689999133669


No 9  
>TIGR02516 type_III_yscC type III secretion outer membrane pore, YscC/HrcC family; InterPro: IPR003522   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.   This family aids in the structural assembly of the invasion complex . Another characteristic of this family is its ability to form a channel through the outer bacterial membrane, allowing secretion to take place. Members include the Salmonella InvG and SpiA gene, the Shigella MxiD, and the Yersinia Kim5 and YscC proteins. Plant pathogen members include the Hypersensitivity Response (HR) genes of Burkholderia and Erwinia.; GO: 0009306 protein secretion.
Probab=100.00  E-value=0  Score=310.04  Aligned_cols=235  Identities=22%  Similarity=0.380  Sum_probs=192.2

Q ss_pred             EEEEEECCCCCEEEEEEEEEEEECHHHHHCCCEEEECCCCCCCCCCCCCC-------------CC----------CCCCC
Q ss_conf             03554327772279999999985001442261210014543364435455-------------66----------66666
Q gi|254780727|r  184 VMNLLNIAGEDQVTLKVTIAEVRRDILKQIGFQHSITGSSSGPSKSFAAD-------------FG----------GKFVS  240 (474)
Q Consensus       184 vvn~l~v~~~~QV~lev~i~EVs~~~~~~lGi~w~~~~~~~~~~~~~~~~-------------~~----------~~~~~  240 (474)
                      +|..|+++ ++||.|++.|+||+++++++||+||++..+..+...++...             ++          +...+
T Consensus       234 LI~~LD~~-~~~iEi~~~I~Did~~~L~~LGvdW~~~~~~g~~~~g~~~~~~~~Y~GGqinPffGT~~l~g~av~s~~a~  312 (508)
T TIGR02516       234 LIQQLDVP-PRLIEISASIIDIDADDLSQLGVDWRATLGAGDKQTGFGKTSQDDYDGGQINPFFGTDKLTGLAVVSAGAS  312 (508)
T ss_pred             HHHHHCCC-CCEEEEEEEEEEECCCCHHHCCCEEEEEEECCCCEEEEEECCCCCCCCCEECCCCCCCCCCCCCCCCCHHC
T ss_conf             99971864-43078999999714784256271069997179837987641578778863344425565678644573020


Q ss_pred             CCCCCEEEEECCCCCHHHHHHHHHHCCCEEEEECCEEEEECCCEEEEEECCCEEEEECCCCCCCEEEEEEEEEEEEEEEE
Q ss_conf             65430334203774143110237735975898422389875946757524730000013677620468988758999998
Q gi|254780727|r  241 EGGDFSVKGVLDRFSFETVLHALERATAIRTLAEPTLTAISGQSASFTSGGQHLYKTVSSSTGATSVTTHDYGVVLHFTP  320 (474)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~l~aL~~~g~a~iLa~P~l~t~sgq~A~~~~G~e~pi~~~~~~~~~~~v~~~~~Gi~L~vtP  320 (474)
                      .+...+.....+...|-+.++|||++|.|+|+|+|.++|++|.+|.|-.-.+|++...  +......+..++|+.|.|||
T Consensus       313 ~~~~~s~~~~~~~~~f~arvnALe~~~~A~ivs~P~vlTleN~~Av~D~~~TfY~kv~--Ge~~a~L~~vt~GT~LRVtP  390 (508)
T TIGR02516       313 LGATGSSIVTSDGDYFLARVNALEQNGKAKIVSRPSVLTLENVQAVLDNNRTFYVKVS--GERVADLESVTAGTLLRVTP  390 (508)
T ss_pred             CCCEEEEEEEECCHHHHHHHHHHHCCCEEEEEEEEEEEEECCCCEEECCCCEEEEEEE--EEEEEEEECEEEEEEEEEEE
T ss_conf             6830789886262033432212520773799984169986483148328726999998--88899850246533677603


Q ss_pred             EEEC-CC---------EEEEEEEEEECC-----CCCCCCCC--CCCEEEEEEEEEEEEECCCCEEEEEEEEEEEECCCCC
Q ss_conf             9815-98---------499986123203-----44555566--5321678999999998589989999766531013212
Q gi|254780727|r  321 TVLS-PG---------RIGLRIQTEVSE-----PVIGVNAG--DMPSYRVRKADTTVELPSGGTIVLAGLLKDDIQQLKE  383 (474)
Q Consensus       321 ~V~~-~g---------~I~L~i~~evS~-----~~~~~~~~--~~P~i~~R~~~T~V~l~~Get~vIgGL~~~~~~~~~~  383 (474)
                      +|.. +|         +|.|.|+.|--+     ...+....  .+|.++.-+++|...+..|||++|||+++|+..+..+
T Consensus       391 r~~~d~g~~~tGkr~~~i~L~v~IeDGq~~~~~s~~~~~~dnn~lP~i~~t~i~TqA~v~~GqSLLiGGy~~D~~~~~~~  470 (508)
T TIGR02516       391 RVIEDGGAKSTGKRVEQIKLNVDIEDGQQKTTTSLTTSTVDNNALPEIKRTEISTQARVGHGQSLLIGGYIRDEKADSLD  470 (508)
T ss_pred             EEEECCCCCCCCCEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCEEEEEEEEEECCCCCCC
T ss_conf             88746989645724578999988751888857777777202444884226504479992588058875254322241115


Q ss_pred             CCCCEECCCCEEECCCCCCCCCCEEEEEEEEECEECCC
Q ss_conf             57112017612000165645521159999990515034
Q gi|254780727|r  384 GIPLLSKIPILGALFRNSRFNREETEIFIAATPFLVKP  421 (474)
Q Consensus       384 ~vP~LgdIPilG~LF~s~~~~~~~tELvI~iTP~iV~p  421 (474)
                      |||+|||||+||.|||++++++++.|-|++|+||+|++
T Consensus       471 ~iP~Lg~IPllG~LFr~~~~~~~~~vRLFLi~P~~v~~  508 (508)
T TIGR02516       471 GIPLLGDIPLLGALFRSTSKEKSRVVRLFLITPKIVRD  508 (508)
T ss_pred             CCCCCCCCCCCCCCCCCEEECCCEEEEEEEECCEECCC
T ss_conf             78410255710553221241444069999740557389


No 10 
>pfam00263 Secretin Bacterial type II and III secretion system protein.
Probab=100.00  E-value=1.4e-45  Score=281.86  Aligned_cols=159  Identities=36%  Similarity=0.557  Sum_probs=146.8

Q ss_pred             HHHHCCCEEEEECCEEEEECCCEEEEEECCCEEEEECCCC---CCCEEEEEEEEEEEEEEEEEEECCCEEEEEEEEEECC
Q ss_conf             3773597589842238987594675752473000001367---7620468988758999998981598499986123203
Q gi|254780727|r  262 ALERATAIRTLAEPTLTAISGQSASFTSGGQHLYKTVSSS---TGATSVTTHDYGVVLHFTPTVLSPGRIGLRIQTEVSE  338 (474)
Q Consensus       262 aL~~~g~a~iLa~P~l~t~sgq~A~~~~G~e~pi~~~~~~---~~~~~v~~~~~Gi~L~vtP~V~~~g~I~L~i~~evS~  338 (474)
                      ||+++|.+++|++|+|+++||++|.|.+|+++||++....   ....+++|+++|+.|+|+|+|.+||+|.|++++++|+
T Consensus         1 AL~~~g~~~ils~P~i~t~~g~~a~i~~g~~~~~~~~~~~~~~~~~~~~~~~~~G~~L~VtP~I~~~~~V~L~i~~~~s~   80 (164)
T pfam00263         1 ALEQNGNAKVLSSPSLLTLNNQEASILVGQEVPYPTSSTSGNGTTTVEIKYIDAGLSLEVTPRVTDDGTITLEINPEVSS   80 (164)
T ss_pred             CCCCCCCCEEEECCEEEEECCCEEEEECCEEEEEEEEEECCCCEEEEEEEEEEEEEEEEEEEEECCCCEEEEEEEEEEEE
T ss_conf             94305981899789899989999999973499968998528872888999999879999999994499799999999810


Q ss_pred             CCCCC--CCCCCCEEEEEEEEEEEEECCCCEEEEEEEEEEEECCCCCCCCCEECCCCEEECCCCCCCCCCEEEEEEEEEC
Q ss_conf             44555--5665321678999999998589989999766531013212571120176120001656455211599999905
Q gi|254780727|r  339 PVIGV--NAGDMPSYRVRKADTTVELPSGGTIVLAGLLKDDIQQLKEGIPLLSKIPILGALFRNSRFNREETEIFIAATP  416 (474)
Q Consensus       339 ~~~~~--~~~~~P~i~~R~~~T~V~l~~Get~vIgGL~~~~~~~~~~~vP~LgdIPilG~LF~s~~~~~~~tELvI~iTP  416 (474)
                      +....  .....|.+++|+++|+|.+++|||++||||++++.+++.+|||+|||||+||+||++++++++++||+|||||
T Consensus        81 ~~~~~~~~~~~~P~~~~r~~~t~v~l~~Get~vlgGl~~~~~~~~~~gvP~L~~iP~lG~lF~~~~~~~~~~el~i~ItP  160 (164)
T pfam00263        81 LDGSNAVTGGGVPTINTREVTTTVRVRDGQTLVLGGLIQEEDSESVSKVPLLGDIPLLGALFRSTSKSKEKTELLIFITP  160 (164)
T ss_pred             CCCCCCCCCCCCCEEEEEEEEEEEEECCCCEEEEEEEEEEEEEEEEECCCCCCCCCCHHHHCCCCCCCCCEEEEEEEEEE
T ss_conf             23321245677863898999999999799799996288983610314361574061104541886573537999999995


Q ss_pred             EECC
Q ss_conf             1503
Q gi|254780727|r  417 FLVK  420 (474)
Q Consensus       417 ~iV~  420 (474)
                      |||+
T Consensus       161 ~ii~  164 (164)
T pfam00263       161 RIVR  164 (164)
T ss_pred             EECC
T ss_conf             9919


No 11 
>COG4796 HofQ Type II secretory pathway, component HofQ [Intracellular trafficking and secretion]
Probab=100.00  E-value=0  Score=287.01  Aligned_cols=229  Identities=25%  Similarity=0.370  Sum_probs=191.5

Q ss_pred             CCEEEEEEEEEEEECHHHHHCCCEEEECCCCCCC----------CCC-----------CCCCCCCCCCCC-CCCCEEEEE
Q ss_conf             7227999999998500144226121001454336----------443-----------545566666666-543033420
Q gi|254780727|r  193 EDQVTLKVTIAEVRRDILKQIGFQHSITGSSSGP----------SKS-----------FAADFGGKFVSE-GGDFSVKGV  250 (474)
Q Consensus       193 ~~QV~lev~i~EVs~~~~~~lGi~w~~~~~~~~~----------~~~-----------~~~~~~~~~~~~-~~~~~~~~~  250 (474)
                      ..||+++.+++++.++.++++|+.|.........          +..           +..++.....+. ...+.+...
T Consensus       455 ~~qv~i~a~ivtv~~~~~~elgv~~gl~~~~~~~~~~~~~l~~~~~~~~d~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~  534 (709)
T COG4796         455 VNQVIIEARIVTVLKLSLRELGVLWGLIQTTDRELGGIGALGRLFFSQGDNAVKNEIVLNITLPVTTPTVGSITLGFARI  534 (709)
T ss_pred             HHHEEEEEEEEEEEECCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCEEEEEC
T ss_conf             45606775456775235765555763112355555677632345433467752244214303577566657651331100


Q ss_pred             CCCCCHHHHHHHHHHCCCEEEEECCEEEEECCCEEEEEECCCEEEEECCCCCC--CEEEEEEEEEEEEEEEEEEECCCEE
Q ss_conf             37741431102377359758984223898759467575247300000136776--2046898875899999898159849
Q gi|254780727|r  251 LDRFSFETVLHALERATAIRTLAEPTLTAISGQSASFTSGGQHLYKTVSSSTG--ATSVTTHDYGVVLHFTPTVLSPGRI  328 (474)
Q Consensus       251 ~~~~~~~~~l~aL~~~g~a~iLa~P~l~t~sgq~A~~~~G~e~pi~~~~~~~~--~~~v~~~~~Gi~L~vtP~V~~~g~I  328 (474)
                      ++...+.+-|+|++++++++++++|++.|.++++|++..|.|+||...+.+.+  .++++|++.++.|.+||+|.+||+|
T Consensus       535 ~~~~~L~leLsA~e~~~~~~ilasPrlit~~~~~A~I~~G~eip~~~~s~~~~~t~~~v~f~~a~l~l~VtP~I~~d~~i  614 (709)
T COG4796         535 GGGPLLDLELSALEQEGRAKILASPRLITANGEPASIKQGTEIPYQVASGGGGGTITSVEFKEAVLGLEVTPRITPDGRI  614 (709)
T ss_pred             CCCCCCCEECCHHHHCCCCCCCCCCEEEECCCCCEEECCCCCCCEEECCCCCCCCCCCCCCCCCCCCCEECCEECCCCCE
T ss_conf             68721033045023406876315881374378741522676466153146777656675301122341443235689967


Q ss_pred             EEEEEEEECCCCCCCC--CCCCCEEEEEEEEEEEEECCCCEEEEEEEEEEEECCCCCCCCCEECCCCEEECCCCCCCCCC
Q ss_conf             9986123203445555--66532167899999999858998999976653101321257112017612000165645521
Q gi|254780727|r  329 GLRIQTEVSEPVIGVN--AGDMPSYRVRKADTTVELPSGGTIVLAGLLKDDIQQLKEGIPLLSKIPILGALFRNSRFNRE  406 (474)
Q Consensus       329 ~L~i~~evS~~~~~~~--~~~~P~i~~R~~~T~V~l~~Get~vIgGL~~~~~~~~~~~vP~LgdIPilG~LF~s~~~~~~  406 (474)
                      .|++.+..+++.....  ...+|.+++|++.|.+.++||||++|||.+++...++.+|||+|||||+||+|||++.+...
T Consensus       615 ~L~~~~~~~~p~~~~~~~~~~i~~i~~~ei~t~v~v~~G~TvvlgGi~~~~~~~t~skVPlLgdiP~iG~lFr~~~~~~~  694 (709)
T COG4796         615 FLDLFVTQDSPGQVQVIGVGEIPLISKQEINTQVIVKNGETVVLGGIFQEADRSTVSKVPLLGDIPVIGALFRTTTKTTE  694 (709)
T ss_pred             EEEEEEEECCCCCEEECCCCCCCCCCHHHHCCCCEECCCCEEEEECEEEECCCCCCCCCCCCCCCCCCHHHHHCCCCCCC
T ss_conf             98743351277734432677522124656055524316957997021440566764556515546410334201355566


Q ss_pred             EEEEEEEEECEECCC
Q ss_conf             159999990515034
Q gi|254780727|r  407 ETEIFIAATPFLVKP  421 (474)
Q Consensus       407 ~tELvI~iTP~iV~p  421 (474)
                      ++||+||+||+++.|
T Consensus       695 rrEl~IfiTP~i~~~  709 (709)
T COG4796         695 RRELLIFITPRIIEP  709 (709)
T ss_pred             CCCEEEEECCCCCCC
T ss_conf             663258825756789


No 12 
>TIGR02520 pilus_B_mal_scr type IVB pilus formation outer membrane protein, R64 PilN family; InterPro: IPR013359    Several related protein families encode outer membrane pore proteins for type II secretion, type III secretion, and type IV pilus formation. Proteins in this entry appear to be secretins for pilus formation, although they are quite different from PilQ. Members include the PilN lipoprotein of the plasmid R64 thin pilus, a type IV pilus. Some proteins may be examples of bundle-forming pilus B (bfpB)..
Probab=100.00  E-value=1.5e-32  Score=206.82  Aligned_cols=295  Identities=17%  Similarity=0.220  Sum_probs=214.9

Q ss_pred             CCCCEEEEEEECCCCCEEEEEEEECCCCHHHHHHHHHHHC---CCCCEEEEEECCEEEEEEEECCHHHHHHHHHHHHHHH
Q ss_conf             2672279999889997789998730454147899999857---8771699983894999997199999999999999861
Q gi|254780727|r   92 KNVGQANVILIGHDGKQMLNLDILIERDIAHLEMTLRRFI---ADSNIRVEMVSDTVVLHGMVRTIQDSQRAVELSETFL  168 (474)
Q Consensus        92 k~~G~T~l~v~~~~g~~~~~~~v~v~~d~~~l~~~l~~~~---p~~~i~v~~~~~~vvl~G~v~~~~~~~~~~~ia~~~~  168 (474)
                      -..|+|-|..-+ ....-..+...|   .+++++.+++++   |..++......+.+.++..   |+..+|+    +.|.
T Consensus       215 ~GsGttGltans-tq~tav~~~~sv---~~di~~~v~aMlS~~P~G~~~lS~sTG~L~VtD~---P~VL~Rv----~~Y~  283 (536)
T TIGR02520       215 AGSGTTGLTANS-TQSTAVKLKSSV---LNDIQKSVKAMLSSSPEGSLVLSRSTGSLAVTDS---PEVLDRV----ASYI  283 (536)
T ss_pred             CCCCCCCCCCCC-CCEEEEEEEHHH---HHHHHHHHEEEECCCCCCCEEEECCCEEEEEEEC---CCHHHHH----HHHH
T ss_conf             777534521146-640578750134---5433110201204699840687605406899406---6468899----9999


Q ss_pred             CCCCCCCCCCCCCCCEEEEEECCCCCEEEEEEEEEEEECHHHHHCCCEEEECCCCCC--CCCCCCCCCCCCCCCCCCCCE
Q ss_conf             223455555665443035543277722799999999850014422612100145433--644354556666666654303
Q gi|254780727|r  169 SQSGRNQYANSSSKKVMNLLNIAGEDQVTLKVTIAEVRRDILKQIGFQHSITGSSSG--PSKSFAADFGGKFVSEGGDFS  246 (474)
Q Consensus       169 ~~~~~~~~~~~~~~~vvn~l~v~~~~QV~lev~i~EVs~~~~~~lGi~w~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~  246 (474)
                                       +.......+||.|.|+|+||+++..+|+|+||+..+....  .+........+..........
T Consensus       284 -----------------~~~N~~l~rqV~LnV~v~~v~~~~~dq~~vdW~~vYK~~~~r~GLs~~n~~~g~s~~~~a~~s  346 (536)
T TIGR02520       284 -----------------DSQNRRLTRQVLLNVKVLSVSFKDSDQYGVDWSLVYKSLSRRIGLSLANKVAGTSTAATAGSS  346 (536)
T ss_pred             -----------------HHHCCCCCCEEEEEEEEEEEEECCCCCCEEEEEEEEEEEECEECCCCCCCCCCCCCCCCCCEE
T ss_conf             -----------------850501130489889999988447764030004476654021134215766774100455406


Q ss_pred             EEEE---CCCCCHHHHHHHHHHCCCEEEEECCEEEEECCCEEEEEECCCEEEEECCCCCCCE------EEE--EEEEEEE
Q ss_conf             3420---3774143110237735975898422389875946757524730000013677620------468--9887589
Q gi|254780727|r  247 VKGV---LDRFSFETVLHALERATAIRTLAEPTLTAISGQSASFTSGGQHLYKTVSSSTGAT------SVT--THDYGVV  315 (474)
Q Consensus       247 ~~~~---~~~~~~~~~l~aL~~~g~a~iLa~P~l~t~sgq~A~~~~G~e~pi~~~~~~~~~~------~v~--~~~~Gi~  315 (474)
                      ....   .-...-.++|+||+++|+++++.+|.+||+|.|+|-|+++++.-|.-...++.+.      .+|  ....|+.
T Consensus       347 a~i~~~~s~F~Gs~~li~ALs~QG~vs~v~~~svTTlNlqp~P~QvA~q~~YlaS~stt~t~~vGsst~l~Pa~vTtGfn  426 (536)
T TIGR02520       347 AAIDVVKSPFAGSTLLIRALSEQGKVSVVTSPSVTTLNLQPVPVQVATQTGYLASVSTTSTANVGSSTSLEPATVTTGFN  426 (536)
T ss_pred             EEEECCCCCCCCHHHHHHHHHHCCCEEEEECCCCCCCCCCCCCEEECCEEEEEEEEECCCCCCCCCEEECCCCEECCCCH
T ss_conf             67744668615327999998407918674146644004776556886736999864111267744101034870345620


Q ss_pred             EEEEEEEECCCEEEEEEEEEECCCC------CCCC-----CCCCCEEEEEEEEEEEEECCCCEEEEEEEEEEEECCCCCC
Q ss_conf             9999898159849998612320344------5555-----6653216789999999985899899997665310132125
Q gi|254780727|r  316 LHFTPTVLSPGRIGLRIQTEVSEPV------IGVN-----AGDMPSYRVRKADTTVELPSGGTIVLAGLLKDDIQQLKEG  384 (474)
Q Consensus       316 L~vtP~V~~~g~I~L~i~~evS~~~------~~~~-----~~~~P~i~~R~~~T~V~l~~Get~vIgGL~~~~~~~~~~~  384 (474)
                      |.+.|.|.+++.|.|+++..+|+..      ....     -.+.|.+..|.+.-.|.||+|||+||.|+-+.+++.++.|
T Consensus       427 M~LLP~i~d~~~ilLqf~~s~S~~~~L~~~~s~~~~sGl~~vq~p~~d~r~~~~kV~LksG~TLv~sGye~~~~~~d~~G  506 (536)
T TIGR02520       427 MTLLPKILDDGDILLQFSISLSDLAELKKFTSKEGGSGLAKVQTPDVDLRNFSQKVALKSGETLVLSGYEERNDTADREG  506 (536)
T ss_pred             HHHHHHHHCCCCEEEEEEECCCCHHHHHEECCCCCCCCEEEEECCCCHHHHHHHHHCCCCCCEEEEECCCCCCCCCCCCC
T ss_conf             12123663288466876405688447310024567853158741760077553341168897668813257775644244


Q ss_pred             CCCEECCCCEEECCCCCCCCCCEEEEEEEEECEE
Q ss_conf             7112017612000165645521159999990515
Q gi|254780727|r  385 IPLLSKIPILGALFRNSRFNREETEIFIAATPFL  418 (474)
Q Consensus       385 vP~LgdIPilG~LF~s~~~~~~~tELvI~iTP~i  418 (474)
                      + |=-|.=.   |-+++..++++.-|||+|||-+
T Consensus       507 ~-G~p~~~~---lGGs~~~~~~~~~lvvlvTPv~  536 (536)
T TIGR02520       507 V-GDPDVIV---LGGSRESERDHEVLVVLVTPVV  536 (536)
T ss_pred             C-CCCCEEE---ECCCCCCCCCCCEEEEEECCCC
T ss_conf             7-7722256---3476446556607999866889


No 13 
>COG4796 HofQ Type II secretory pathway, component HofQ [Intracellular trafficking and secretion]
Probab=98.62  E-value=4.3e-07  Score=59.35  Aligned_cols=208  Identities=18%  Similarity=0.138  Sum_probs=144.7

Q ss_pred             EEEEEEEEEEEECHHHHHCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHHCCCEEEEEC
Q ss_conf             27999999998500144226121001454336443545566666666543033420377414311023773597589842
Q gi|254780727|r  195 QVTLKVTIAEVRRDILKQIGFQHSITGSSSGPSKSFAADFGGKFVSEGGDFSVKGVLDRFSFETVLHALERATAIRTLAE  274 (474)
Q Consensus       195 QV~lev~i~EVs~~~~~~lGi~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~aL~~~g~a~iLa~  274 (474)
                      .++++..+.|+.+..+.++++ |..........      ..+...-..+  ..........+....++  .....+.+++
T Consensus       310 n~v~~~~V~~~~tl~L~dvp~-~~q~L~l~l~~------~~~l~~~~~~--~v~~i~~~~~~~~~~~~--~~~~~~~~a~  378 (709)
T COG4796         310 NLVLEDEVLGTLTLRLTDVPI-WPQALDLVLRS------AKGLDLRKHG--NVVRIGPSSELNKNERA--ELEATNLIAN  378 (709)
T ss_pred             CEEEECCCCEEEEEECCCCCC-HHHHHHHHHHC------CCCEEECCCC--CEEEEECCCHHHHHHHH--HHHHHHHHCC
T ss_conf             414220001167752345873-56677775311------5550133688--56896054355554565--5300233316


Q ss_pred             CEEEEECCCEEEEEECCCEEEEECCCCCCCEEEEEEEEEEEEEEEEEEECCCEEEEEEEEEECCC----CCCCCCCCCC-
Q ss_conf             23898759467575247300000136776204689887589999989815984999861232034----4555566532-
Q gi|254780727|r  275 PTLTAISGQSASFTSGGQHLYKTVSSSTGATSVTTHDYGVVLHFTPTVLSPGRIGLRIQTEVSEP----VIGVNAGDMP-  349 (474)
Q Consensus       275 P~l~t~sgq~A~~~~G~e~pi~~~~~~~~~~~v~~~~~Gi~L~vtP~V~~~g~I~L~i~~evS~~----~~~~~~~~~P-  349 (474)
                      |++-+.+...+-.+++...|. .......+...-|.+.  .|.+.|.+..|++..+.+..++++.    ........+| 
T Consensus       379 ~~~~~~~~~~~l~y~~~~~~~-~~~a~s~~~g~~~~~~--~ls~~~sv~~D~~tn~~~i~d~~~~i~~i~~~~~~~d~p~  455 (709)
T COG4796         379 PRIRLRNKEKALIYAGAAEPF-LSLATSLTTGGVYNDV--LLSVRGSVTFDNRTNILLILDVPSIIQQIRTLVAQIDIPV  455 (709)
T ss_pred             CCCCCHHHHHHHHHCCCCCCH-HHHCCCCCCCCCCCCC--CCCCCCCEEECCCCCEEEEECCHHHHHHHHHHHHHCCCCH
T ss_conf             331112344444413567620-0000003567544553--2333673556277766896073889999974201116754


Q ss_pred             --EEEEEEEEEEEEECCCCEEEEEEEEEEEECCCCCCCCCEECCCCEEECCCCCCCCCCEEEEEEEEECEECCCCC
Q ss_conf             --16789999999985899899997665310132125711201761200016564552115999999051503468
Q gi|254780727|r  350 --SYRVRKADTTVELPSGGTIVLAGLLKDDIQQLKEGIPLLSKIPILGALFRNSRFNREETEIFIAATPFLVKPVA  423 (474)
Q Consensus       350 --~i~~R~~~T~V~l~~Get~vIgGL~~~~~~~~~~~vP~LgdIPilG~LF~s~~~~~~~tELvI~iTP~iV~p~~  423 (474)
                        .+-++++.|.....++|.-+..|+++.+...       ++++|.+|.+|-+......++|.+.=++|++..|..
T Consensus       456 ~qv~i~a~ivtv~~~~~~elgv~~gl~~~~~~~-------~~~~~~l~~~~~~~~d~~~~~~~~l~~~~~~~~~~~  524 (709)
T COG4796         456 NQVIIEARIVTVLKLSLRELGVLWGLIQTTDRE-------LGGIGALGRLFFSQGDNAVKNEIVLNITLPVTTPTV  524 (709)
T ss_pred             HHEEEEEEEEEEEECCCCCCCEEEEECCCCCCC-------CCCCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCC
T ss_conf             560677545677523576555576311235555-------567763234543346775224421430357756665


No 14 
>pfam04972 BON Putative phospholipid-binding domain. This domain is found in a family of osmotic shock protection proteins. It is also found in some Secretins and a group of potential haemolysins. Its likely function is attachment to phospholipid membranes.
Probab=97.37  E-value=0.00092  Score=40.04  Aligned_cols=60  Identities=25%  Similarity=0.378  Sum_probs=50.1

Q ss_pred             HHHHHHHHH--HCCCCCEEEEEECCEEEEEEEECCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEECC
Q ss_conf             478999998--57877169998389499999719999999999999986122345555566544303554327
Q gi|254780727|r  121 AHLEMTLRR--FIADSNIRVEMVSDTVVLHGMVRTIQDSQRAVELSETFLSQSGRNQYANSSSKKVMNLLNIA  191 (474)
Q Consensus       121 ~~l~~~l~~--~~p~~~i~v~~~~~~vvl~G~v~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~vvn~l~v~  191 (474)
                      ..++..|..  .++..+|++...++.++|+|.|.+..+++++.++|+.+.+.           .+|.|.|.+.
T Consensus         2 ~~i~~~l~~~~~~~~~~I~V~v~~g~V~L~G~v~s~~~~~~a~~~a~~~~Gv-----------~~V~n~l~v~   63 (64)
T pfam04972         2 AKVKAALLADPGLPASDIKVTVENGVVTLSGTVDSEEEKEKAEEIARNVKGV-----------KKVVNEITVR   63 (64)
T ss_pred             HHHHHHHHCCCCCCCCCEEEEEECCEEEEEEECCCHHHHHHHHHHHHCCCCC-----------CEEEEEEEEE
T ss_conf             7899988349899857169999896999999859999999999999669698-----------5899617992


No 15 
>PRK11023 hypothetical protein; Provisional
Probab=95.94  E-value=0.075  Score=28.99  Aligned_cols=90  Identities=20%  Similarity=0.331  Sum_probs=55.6

Q ss_pred             EEEEECCCCEEEEEECCCCEE-----EEEEECCCCCEEEEEEEECCCCHH--------HHHHHHH------HHCCCCCEE
Q ss_conf             799971698799995267227-----999988999778999873045414--------7899999------857877169
Q gi|254780727|r   77 ADVVVHSPRTMYLFGKNVGQA-----NVILIGHDGKQMLNLDILIERDIA--------HLEMTLR------RFIADSNIR  137 (474)
Q Consensus        77 adv~v~s~~~i~i~gk~~G~T-----~l~v~~~~g~~~~~~~v~v~~d~~--------~l~~~l~------~~~p~~~i~  137 (474)
                      .++.+.+ +.++|+|.-+=..     .-++|.-+|=.-...++.+....+        -+...++      .-++..+++
T Consensus        70 I~v~v~n-g~VLLtGqV~~~~~k~~a~~ia~~~~gVr~V~Nei~V~~~~s~~~~a~D~~Ittkvk~~ll~~~~v~s~~ik  148 (191)
T PRK11023         70 INVTAYQ-GKVLLIGQSPNAELSARAKQIAMGVEGVTEVYNEIRQGQPIGLGQASKDTWITTKVRSQLLTSDSVKSSNVK  148 (191)
T ss_pred             EEEEEEC-CEEEEEEEECCHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCCCCEEECHHHHHHHHHHHHHCCCCCCCEEE
T ss_conf             9999977-899999997999999999999846688428999999668876442200298999999998737797763789


Q ss_pred             EEEECCEEEEEEEECCHHHHHHHHHHHHHHH
Q ss_conf             9983894999997199999999999999861
Q gi|254780727|r  138 VEMVSDTVVLHGMVRTIQDSQRAVELSETFL  168 (474)
Q Consensus       138 v~~~~~~vvl~G~v~~~~~~~~~~~ia~~~~  168 (474)
                      |...++.++|-|.+ +..+++++.++|+.-.
T Consensus       149 V~teng~VyLmG~v-t~~E~~~av~iAr~v~  178 (191)
T PRK11023        149 VTTENGEVFLLGLV-TQREAKAAADIASRVS  178 (191)
T ss_pred             EEEECCEEEEEEEC-CHHHHHHHHHHHHCCC
T ss_conf             99999899999967-9999999999986399


No 16 
>PRK11023 hypothetical protein; Provisional
Probab=95.88  E-value=0.042  Score=30.44  Aligned_cols=51  Identities=20%  Similarity=0.197  Sum_probs=41.4

Q ss_pred             CCCCEEEEEECCEEEEEEEECCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEECCCC
Q ss_conf             87716999838949999971999999999999998612234555556654430355432777
Q gi|254780727|r  132 ADSNIRVEMVSDTVVLHGMVRTIQDSQRAVELSETFLSQSGRNQYANSSSKKVMNLLNIAGE  193 (474)
Q Consensus       132 p~~~i~v~~~~~~vvl~G~v~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~vvn~l~v~~~  193 (474)
                      ...+|.+...++.+.|.|+|++++..+++.+++....+-           .+|.|.|+|..+
T Consensus        66 ~~~~I~v~v~ng~VLLtGqV~~~~~k~~a~~ia~~~~gV-----------r~V~Nei~V~~~  116 (191)
T PRK11023         66 KEARINVTAYQGKVLLIGQSPNAELSARAKQIAMGVEGV-----------TEVYNEIRQGQP  116 (191)
T ss_pred             CCCEEEEEEECCEEEEEEEECCHHHHHHHHHHHHCCCCC-----------EEEEEEEEECCC
T ss_conf             460899999778999999979999999999998466884-----------289999996688


No 17 
>PRK10568 periplasmic protein; Provisional
Probab=95.84  E-value=0.057  Score=29.68  Aligned_cols=95  Identities=21%  Similarity=0.279  Sum_probs=57.5

Q ss_pred             CCEEEEEECCCCEE-----EEEEECCCCCEEEEEEEECCC-----------CHHHHHHHHHH------HCCCCCEEEEEE
Q ss_conf             98799995267227-----999988999778999873045-----------41478999998------578771699983
Q gi|254780727|r   84 PRTMYLFGKNVGQA-----NVILIGHDGKQMLNLDILIER-----------DIAHLEMTLRR------FIADSNIRVEMV  141 (474)
Q Consensus        84 ~~~i~i~gk~~G~T-----~l~v~~~~g~~~~~~~v~v~~-----------d~~~l~~~l~~------~~p~~~i~v~~~  141 (474)
                      ...++|.|.-+-..     .-++|.-.|=.-...++.|..           |. .+...++.      .++..+|+|+..
T Consensus        86 ~G~VlLsG~V~s~~~k~~A~~iA~~V~GV~~V~NeL~V~~~~~~s~~~~a~D~-~ITtkvKa~Ll~d~~v~s~~i~V~T~  164 (203)
T PRK10568         86 QKVVTLSGFVESQAQAEEAVKVAKGVEGVTSVSDKLHVRDAKEGSVKGYAGDT-ATTSEIKAKLLADDIVPSRKVKVETT  164 (203)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCCCCCCCCCHH-HHHHHHHHHHHCCCCCCCEEEEEEEE
T ss_conf             58899974069999999999998528982388766897058886501236509-99999999863178877258899996


Q ss_pred             CCEEEEEEEECCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEC
Q ss_conf             8949999971999999999999998612234555556654430355432
Q gi|254780727|r  142 SDTVVLHGMVRTIQDSQRAVELSETFLSQSGRNQYANSSSKKVMNLLNI  190 (474)
Q Consensus       142 ~~~vvl~G~v~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~vvn~l~v  190 (474)
                      ++.+.|.|.|.+..+++++.++|+...+-           .+|.|.|.|
T Consensus       165 nGvV~L~G~V~s~~E~~rA~~iAr~V~GV-----------k~V~N~l~V  202 (203)
T PRK10568        165 DGVVQLSGTVDSQAQSDRAESIAKAVDGV-----------KSVKNDLKV  202 (203)
T ss_pred             CEEEEEEEEECCHHHHHHHHHHHHCCCCC-----------EEEEEEEEE
T ss_conf             53999999989999999999998549996-----------088876898


No 18 
>COG2823 OsmY Predicted periplasmic or secreted lipoprotein [General function prediction only]
Probab=95.34  E-value=0.029  Score=31.39  Aligned_cols=51  Identities=35%  Similarity=0.479  Sum_probs=41.4

Q ss_pred             HCCCCCEEEEEECCEEEEEEEECCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEECC
Q ss_conf             57877169998389499999719999999999999986122345555566544303554327
Q gi|254780727|r  130 FIADSNIRVEMVSDTVVLHGMVRTIQDSQRAVELSETFLSQSGRNQYANSSSKKVMNLLNIA  191 (474)
Q Consensus       130 ~~p~~~i~v~~~~~~vvl~G~v~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~vvn~l~v~  191 (474)
                      .++.++|+|...++.+.|.|.|++..++++|.++|....+-           .+|+|.+++.
T Consensus       145 ~v~s~~IkV~t~~g~V~L~G~V~s~~e~~~A~~~A~~v~GV-----------k~V~~~l~i~  195 (196)
T COG2823         145 NVKSSNIKVETENGEVYLSGLVDSQEEAERAEEIASKVSGV-----------KKVVNDLKIK  195 (196)
T ss_pred             CCCCCEEEEEEECCEEEEEEEECCHHHHHHHHHHHHCCCCH-----------HHHHHHHCCC
T ss_conf             78730489999898999987748999999999998629778-----------8886444406


No 19 
>PRK10568 periplasmic protein; Provisional
Probab=95.33  E-value=0.065  Score=29.33  Aligned_cols=48  Identities=21%  Similarity=0.337  Sum_probs=40.3

Q ss_pred             CCEEEEEECCEEEEEEEECCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEECCC
Q ss_conf             71699983894999997199999999999999861223455555665443035543277
Q gi|254780727|r  134 SNIRVEMVSDTVVLHGMVRTIQDSQRAVELSETFLSQSGRNQYANSSSKKVMNLLNIAG  192 (474)
Q Consensus       134 ~~i~v~~~~~~vvl~G~v~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~vvn~l~v~~  192 (474)
                      .+|.|+..++.+.|+|.|++..++.+|.++|...-+-           ..|.|.|+|+.
T Consensus        78 ~~I~V~t~~G~VlLsG~V~s~~~k~~A~~iA~~V~GV-----------~~V~NeL~V~~  125 (203)
T PRK10568         78 TDISVKTDQKVVTLSGFVESQAQAEEAVKVAKGVEGV-----------TSVSDKLHVRD  125 (203)
T ss_pred             CEEEEEEECCEEEEEEECCCHHHHHHHHHHHHCCCCC-----------EEEEEEEEECC
T ss_conf             1379999658899974069999999999998528982-----------38876689705


No 20 
>PRK11198 hypothetical protein; Provisional
Probab=81.78  E-value=3.2  Score=19.52  Aligned_cols=77  Identities=8%  Similarity=0.085  Sum_probs=50.3

Q ss_pred             CHHHHHHHHHHHC-CCCCEE-EEEECCEEEEEEEECCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEECCCCCEE
Q ss_conf             4147899999857-877169-99838949999971999999999999998612234555556654430355432777227
Q gi|254780727|r  119 DIAHLEMTLRRFI-ADSNIR-VEMVSDTVVLHGMVRTIQDSQRAVELSETFLSQSGRNQYANSSSKKVMNLLNIAGEDQV  196 (474)
Q Consensus       119 d~~~l~~~l~~~~-p~~~i~-v~~~~~~vvl~G~v~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~vvn~l~v~~~~QV  196 (474)
                      ....+...|..+- |..+.. +..-++++.++|.+.+.+..+++.-.+....+-           .+|-+.+.|..+.  
T Consensus        26 ~a~~l~~~i~~~gl~~~~~~~~~~~~~~v~vsG~a~~q~~~EKiila~GNv~Gv-----------~~V~d~~~v~~~~--   92 (147)
T PRK11198         26 AADALKEHISKTGLPGADLVVVQVGDGKATVSGDAASQEAKEKIILAVGNIQGV-----------ASVDDQVKVATPA--   92 (147)
T ss_pred             HHHHHHHHHHHCCCCCCCCEEEEECCCEEEEEEECCCHHHHHHHHEECCCCCCH-----------HHHCCCCCCCCCC--
T ss_conf             899999999983999778548985698699962008988874372100260253-----------3312565347999--


Q ss_pred             EEEEEEEEEECHH
Q ss_conf             9999999985001
Q gi|254780727|r  197 TLKVTIAEVRRDI  209 (474)
Q Consensus       197 ~lev~i~EVs~~~  209 (474)
                       -+.+++.|.+-+
T Consensus        93 -~e~~~YtVq~GD  104 (147)
T PRK11198         93 -PESQFYTVKSGD  104 (147)
T ss_pred             -CCCCEEEECCCC
T ss_conf             -998578979899


No 21 
>pfam09911 DUF2140 Uncharacterized protein conserved in bacteria (DUF2140). This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=66.34  E-value=8.2  Score=17.17  Aligned_cols=24  Identities=29%  Similarity=0.494  Sum_probs=17.5

Q ss_pred             EEEEEEEEEEEEEECCCEEEEEEE
Q ss_conf             887589999989815984999861
Q gi|254780727|r  310 HDYGVVLHFTPTVLSPGRIGLRIQ  333 (474)
Q Consensus       310 ~~~Gi~L~vtP~V~~~g~I~L~i~  333 (474)
                      .++-+.|.|.|.|.+||.|.|+..
T Consensus        93 ~~V~~~l~F~P~V~~nGnv~Lk~~  116 (187)
T pfam09911        93 SKVPLYIYFEPTVLKNGNVLLKAK  116 (187)
T ss_pred             EEEEEEEEEEEEECCCCCEEEEEC
T ss_conf             246489998159816998999856


No 22 
>TIGR02268 TIGR02268 Myxococcus xanthus paralogous family TIGR02268; InterPro: IPR011754   This family consists of at least 8 paralogs in Myxococcus xanthus, a member of the Deltaproteobacteria. The function is unknown..
Probab=62.65  E-value=9.6  Score=16.76  Aligned_cols=105  Identities=8%  Similarity=0.055  Sum_probs=67.8

Q ss_pred             HHHHHHHHHHHHHCCCCCCC-CCCCCCCCCCCCCCC--CCCEEEEEECCEEEEECCCCHHHEEECCCCEE-EEEEC--CC
Q ss_conf             99999998545411465455-434643333223456--54027995072599953776330785373437-99971--69
Q gi|254780727|r   11 MMSIFLFSSNPSVAKLPPIK-EANAAVINISDVEIG--KGKKISIGLNKVIILQVPVDVQDVLVSDPTKA-DVVVH--SP   84 (474)
Q Consensus        11 ~~~~~L~~~~~~~a~~~~~~-~~~~~~~~~~~~~~~--~~~~l~l~~g~s~~l~~~~~~~rV~V~dp~Va-dv~v~--s~   84 (474)
                      ++.++|++..+..|++++++ ...-..+.+.....+  +-..+.+.-|-+..+.|+.++.+--+.-+.-- -.+.+  +.
T Consensus         1 ~~~~lLl~~~A~~AQp~at~r~~~~Rrv~v~a~~~~a~p~P~vr~~pg~~T~l~FD~~~~~~~~~~eg~eGRF~~~Dv~e   80 (308)
T TIGR02268         1 LAAVLLLAGAAAEAQPSATARARRVRRVEVSAAAAGAEPPPEVRVAPGVSTTLLFDAPINREKLLLEGSEGRFRRLDVTE   80 (308)
T ss_pred             CHHHHHHHHCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCEEEECCCCEEEEECCCCCCHHHCCCCCCCCCEEEECCCC
T ss_conf             36411027164103876445885447988647643478997778769811788707744631436776557478851674


Q ss_pred             CEEEEEEC----CCCEEEEEEECCCCCEEEEEEEE
Q ss_conf             87999952----67227999988999778999873
Q gi|254780727|r   85 RTMYLFGK----NVGQANVILIGHDGKQMLNLDIL  115 (474)
Q Consensus        85 ~~i~i~gk----~~G~T~l~v~~~~g~~~~~~~v~  115 (474)
                      ..|+|...    .-+...|.++..||..+......
T Consensus        81 ~~L~LvP~~~~~~geR~~L~VrF~DGavP~rA~l~  115 (308)
T TIGR02268        81 EHLILVPSEALPEGERLELTVRFADGAVPARAVLE  115 (308)
T ss_pred             CEEEEECCCCCCCCCCEEEEEEECCCCCHHHHHHH
T ss_conf             07888266202778710689986253203344332


No 23 
>pfam06183 DinI DinI-like family. This family of short proteins includes DNA-damage-inducible protein I (DinI) and related proteins. The SOS response, a set of cellular phenomena exhibited by eubacteria, is initiated by various causes that include DNA damage-induced replication arrest, and is positively regulated by the co- protease activity of RecA. Escherichia coli DinI, a LexA-regulated SOS gene product, shuts off the initiation of the SOS response when overexpressed in vivo. Biochemical and genetic studies indicated that DinI physically interacts with RecA to inhibit its co-protease activity. The structure of DinI is known.
Probab=60.26  E-value=11  Score=16.51  Aligned_cols=46  Identities=17%  Similarity=0.314  Sum_probs=35.2

Q ss_pred             HHHHHHHHHHHCCCCCEEEEEEC-CEEEEEEEECCHHHHHHHHHHHHHH
Q ss_conf             14789999985787716999838-9499999719999999999999986
Q gi|254780727|r  120 IAHLEMTLRRFIADSNIRVEMVS-DTVVLHGMVRTIQDSQRAVELSETF  167 (474)
Q Consensus       120 ~~~l~~~l~~~~p~~~i~v~~~~-~~vvl~G~v~~~~~~~~~~~ia~~~  167 (474)
                      ..+|.+.|+..||+..|+|.... +.+-+.|..+  .+.+++.++.+..
T Consensus        10 ~~EL~kRl~~~fPd~~V~Vr~~s~n~l~v~g~~k--~dK~~i~eiLqE~   56 (65)
T pfam06183        10 QNELTKRIQSLYPDTVVSVRKGSANGLSVTGAAK--DDKERIMEILQET   56 (65)
T ss_pred             HHHHHHHHHHHCCCCEEEEEECCCCCEEECCCCH--HHHHHHHHHHHHH
T ss_conf             9999998653389957987105679705438774--0399999999999


No 24 
>PRK13861 type IV secretion system protein VirB9; Provisional
Probab=57.37  E-value=12  Score=16.22  Aligned_cols=110  Identities=12%  Similarity=0.218  Sum_probs=61.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCEEEEECC--CCHHHEEECCCCEEEEEE
Q ss_conf             578999999999998545411465455434643333223456540279950725999537--763307853734379997
Q gi|254780727|r    4 LQRTFFTMMSIFLFSSNPSVAKLPPIKEANAAVINISDVEIGKGKKISIGLNKVIILQVP--VDVQDVLVSDPTKADVVV   81 (474)
Q Consensus         4 ~~r~~~~~~~~~L~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~l~~g~s~~l~~~--~~~~rV~V~dp~Vadv~v   81 (474)
                      ||+.+.+++++++++..+.++..|.... .+..+..+.=...-.-.+.-..|.+..|.|.  |.+..+.+||+.=-++..
T Consensus         2 mk~l~~~~~~~l~~~~~a~A~~~P~~s~-~D~Riq~v~Ynp~~V~~V~~~~G~~T~I~F~~dE~I~~v~~Gd~~~W~v~~   80 (293)
T PRK13861          2 IKKLFLTLACLLFAAIGALAEDTPAAGK-LDPRMRYLAYNPDQVVRLSTAVGATLVVTFGANETVTAVAVSNSKDLAALP   80 (293)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHCCCCCC-CCCCCEEEEECCCCEEEEEEECCEEEEEEECCCCEEEEECCCCCCCEEEEC
T ss_conf             0899999999998612667875698888-897717988088888999998746999998899879986158820148962


Q ss_pred             CCCCEEEEEECCC-CEEEEEEE-CCC-CCEEEEEEEE
Q ss_conf             1698799995267-22799998-899-9778999873
Q gi|254780727|r   82 HSPRTMYLFGKNV-GQANVILI-GHD-GKQMLNLDIL  115 (474)
Q Consensus        82 ~s~~~i~i~gk~~-G~T~l~v~-~~~-g~~~~~~~v~  115 (474)
                       ..|.+++-.+.. -.|++.+. ..+ ++-.+.+++.
T Consensus        81 -~gN~lfiKP~~~~~~tn~~v~T~~~~~kr~y~f~l~  116 (293)
T PRK13861         81 -RGNYLFFKASQVLPPQPVVVLTASDAGMRRYVFSIS  116 (293)
T ss_pred             -CCCEEEEEECCCCCCCCEEEEECCCCCEEEEEEEEE
T ss_conf             -787799966677899841898316788289999998


No 25 
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional
Probab=54.60  E-value=5.5  Score=18.19  Aligned_cols=62  Identities=16%  Similarity=0.284  Sum_probs=43.7

Q ss_pred             EEEEEEECCCCEEEEEEEEEEEECCCCCCCCCEECCCCEEECCCCCCCCCCEEEEEEEEECE
Q ss_conf             99999985899899997665310132125711201761200016564552115999999051
Q gi|254780727|r  356 ADTTVELPSGGTIVLAGLLKDDIQQLKEGIPLLSKIPILGALFRNSRFNREETEIFIAATPF  417 (474)
Q Consensus       356 ~~T~V~l~~Get~vIgGL~~~~~~~~~~~vP~LgdIPilG~LF~s~~~~~~~tELvI~iTP~  417 (474)
                      ...++.+.|..++-|.+--++........|=.+-.-|-+|..|..+=..-.+-=-+|-+-|-
T Consensus       583 tg~~Idi~ddG~v~i~~~~~~~~~~A~~~I~~i~~~~evG~iy~g~V~~i~~fGafve~~pg  644 (694)
T PRK11824        583 TGAKIDIEDDGTVKIAASDGEAAEAAKERIEGITAEPEVGEIYEGKVVRIVDFGAFVEILPG  644 (694)
T ss_pred             HCCEEEEECCCEEEEEECCHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEEEECEEEEEECCC
T ss_conf             89889996891799998999999999999998457685897799999999844189996799


No 26 
>KOG1249 consensus
Probab=52.57  E-value=13  Score=16.03  Aligned_cols=60  Identities=33%  Similarity=0.437  Sum_probs=34.8

Q ss_pred             EEEEEEEEEEEECCCEEEEEEEEEECCCCCCCCCCCCCEEEEEEEE-EEEEECCCCEEEEEEEEEEEECCC
Q ss_conf             7589999989815984999861232034455556653216789999-999985899899997665310132
Q gi|254780727|r  312 YGVVLHFTPTVLSPGRIGLRIQTEVSEPVIGVNAGDMPSYRVRKAD-TTVELPSGGTIVLAGLLKDDIQQL  381 (474)
Q Consensus       312 ~Gi~L~vtP~V~~~g~I~L~i~~evS~~~~~~~~~~~P~i~~R~~~-T~V~l~~Get~vIgGL~~~~~~~~  381 (474)
                      .|=.+-=||=++.+++|...+..|  |. ...    .|   +|++. -++.++.|+|+.||||.+-+.-+.
T Consensus       361 ~~~w~YDTPG~~~~~q~~~llt~e--El-~~v----~p---~~~lrprtf~vkpG~sl~iGGl~RLDilqa  421 (572)
T KOG1249         361 RGAWLYDTPGVLNPNQILSLLTSE--EL-LNV----TP---RRVLRPRTFRVKPGYSLFIGGLVRLDILQA  421 (572)
T ss_pred             CCCEEECCCCCCCHHHHHHHCCHH--HH-HHC----CC---CCCCCCCEEECCCCCEEEEEEEEEEEHHHC
T ss_conf             652551588756754654341687--76-314----73---110166127737884799710578653340


No 27 
>pfam03958 Secretin_N Bacterial type II/III secretion system short domain. This is a short, often repeated, domain found in bacterial type II/III secretory system proteins. All previous NolW-like domains fall into this family.
Probab=52.20  E-value=15  Score=15.72  Aligned_cols=49  Identities=12%  Similarity=0.225  Sum_probs=36.0

Q ss_pred             CCCCHHHHHHHHHHHC-------CCCCEEEEEECCEEEEEEEECCHHHHHHHHHHHHHH
Q ss_conf             0454147899999857-------877169998389499999719999999999999986
Q gi|254780727|r  116 IERDIAHLEMTLRRFI-------ADSNIRVEMVSDTVVLHGMVRTIQDSQRAVELSETF  167 (474)
Q Consensus       116 v~~d~~~l~~~l~~~~-------p~~~i~v~~~~~~vvl~G~v~~~~~~~~~~~ia~~~  167 (474)
                      ...++.++...|+.++       +...+.+++..++++++|.   +...+++.++.+..
T Consensus         7 ~~~~a~~l~~~L~~~~~~~~~~~~~~~v~~~~~~n~liv~g~---~~~~~~v~~li~~l   62 (68)
T pfam03958         7 KYASAEDLASALRALLGGSGLLSKRGSVVADPRTNSLIVSGP---PEYVERIRQLIKQL   62 (68)
T ss_pred             ECCCHHHHHHHHHHHCCCCCCCCCCCEEEEECCCCEEEEECC---HHHHHHHHHHHHHH
T ss_conf             476599999999985366555689836999688777999829---99999999999985


No 28 
>pfam05046 Img2 Mitochondrial large subunit ribosomal protein (Img2). This family of proteins have been identified as part of the mitochondrial large ribosomal subunit in yeast.
Probab=51.38  E-value=15  Score=15.65  Aligned_cols=48  Identities=27%  Similarity=0.401  Sum_probs=37.5

Q ss_pred             CCCEEEEEEEECCCCHHHHHHHHHHHCCC---CCEEEEEECCEEEEEEEEC
Q ss_conf             99778999873045414789999985787---7169998389499999719
Q gi|254780727|r  105 DGKQMLNLDILIERDIAHLEMTLRRFIAD---SNIRVEMVSDTVVLHGMVR  152 (474)
Q Consensus       105 ~g~~~~~~~v~v~~d~~~l~~~l~~~~p~---~~i~v~~~~~~vvl~G~v~  152 (474)
                      .|....+.--.+..|..+|++.|++.++.   ..+.|.+..+.+.++|...
T Consensus        23 ~g~~~~T~IRkI~GDi~~L~~dL~~~L~~~~~~~~~V~e~~g~i~ikG~~~   73 (85)
T pfam05046        23 GGTKIITEIRKIEGDIWALRRDLREFLGEIPKIDVRVNELSGKIEIKGDRV   73 (85)
T ss_pred             CCCEEEEEEEEECCCHHHHHHHHHHHHHHCCCCCEEEEEECCEEEEECCCH
T ss_conf             993879999857176999999999987213688718997338999907568


No 29 
>pfam07788 DUF1626 Protein of unknown function (DUF1626). This is a family consisting of sequences from hypothetical proteins of unknown function expressed by certain species of archaebacteria. One member is thought to be similar to tropomyosin.
Probab=49.47  E-value=9.4  Score=16.81  Aligned_cols=54  Identities=15%  Similarity=0.218  Sum_probs=28.6

Q ss_pred             EEEEEEECCCCEEEEEEEEEEEECCCCCCCCCEECCCCEEECCCCCCCCCCEE-EEEEEEECEEC
Q ss_conf             99999985899899997665310132125711201761200016564552115-99999905150
Q gi|254780727|r  356 ADTTVELPSGGTIVLAGLLKDDIQQLKEGIPLLSKIPILGALFRNSRFNREET-EIFIAATPFLV  419 (474)
Q Consensus       356 ~~T~V~l~~Get~vIgGL~~~~~~~~~~~vP~LgdIPilG~LF~s~~~~~~~t-ELvI~iTP~iV  419 (474)
                      ++--+-++||.++++-      ...+.++    ||++++..--.--.+..+++ .-+|+|||.+=
T Consensus         3 VE~DviikdG~~ilvE------ikSs~~r----~Dv~~~~rK~~~Yek~~grk~~rlivItP~id   57 (70)
T pfam07788         3 VELDVVVKDGVHILVE------IKSSLSR----GDLAVIKRKGELYEKAKGRKVDRLIVVTPFID   57 (70)
T ss_pred             EEEEEEEECCCEEEEE------EECCCCH----HHHHHHHHHHHHHHHHHCCCCCEEEEECCCCC
T ss_conf             3799999779599999------8436862----33599999999999986887762899846659


No 30 
>PRK00794 flbT flagellar biosynthesis repressor FlbT; Reviewed
Probab=48.99  E-value=16  Score=15.42  Aligned_cols=34  Identities=24%  Similarity=0.347  Sum_probs=20.9

Q ss_pred             EEEECCCCEEEEEEEEEEEECCCCCCCCCEECCCCE
Q ss_conf             999858998999976653101321257112017612
Q gi|254780727|r  359 TVELPSGGTIVLAGLLKDDIQQLKEGIPLLSKIPIL  394 (474)
Q Consensus       359 ~V~l~~Get~vIgGL~~~~~~~~~~~vP~LgdIPil  394 (474)
                      .++||+||-++|+|-.=.+.  ....+=++.|.|+|
T Consensus         5 kl~LKpgERi~INGAVi~nd--rr~~l~i~n~a~iL   38 (133)
T PRK00794          5 VLSLKPGERIFINGAVLRND--RKVRLELLNDATFL   38 (133)
T ss_pred             EEEECCCCEEEECCEEEECC--CEEEEEEEECCCCH
T ss_conf             79856998899848499828--80589997067010


No 31 
>PRK10838 spr putative outer membrane lipoprotein; Provisional
Probab=48.96  E-value=16  Score=15.42  Aligned_cols=23  Identities=26%  Similarity=0.377  Sum_probs=18.0

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             93357899999999999854541
Q gi|254780727|r    1 MRYLQRTFFTMMSIFLFSSNPSV   23 (474)
Q Consensus         1 ~~~~~r~~~~~~~~~L~~~~~~~   23 (474)
                      ||++-|.+++.+++.|++++...
T Consensus         7 ~r~~l~~~~~~~~~~~l~ac~~~   29 (188)
T PRK10838          7 LRYILRGIPAIAVAVLLSACSSN   29 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             99999871799999988863389


No 32 
>PRK13796 GTP-binding protein YqeH; Provisional
Probab=48.57  E-value=17  Score=15.38  Aligned_cols=24  Identities=29%  Similarity=0.286  Sum_probs=19.5

Q ss_pred             EEEEECCCCEEEEEEEEEEEECCC
Q ss_conf             999985899899997665310132
Q gi|254780727|r  358 TTVELPSGGTIVLAGLLKDDIQQL  381 (474)
Q Consensus       358 T~V~l~~Get~vIgGL~~~~~~~~  381 (474)
                      -+..+++|||+.||||.+-+..+.
T Consensus       249 ~t~~l~~gqslfigGL~RiD~~~g  272 (367)
T PRK13796        249 KTYQLNEEQTLFLGGLARFDYVSG  272 (367)
T ss_pred             EEEEECCCCEEEEEEEEEEEEECC
T ss_conf             079967985899800899999538


No 33 
>pfam09544 DUF2381 Protein of unknown function (DUF2381). This family consists of at least 8 paralogs in Myxococcus xanthus, a member of the Deltaproteobacteria. The function is unknown.
Probab=42.90  E-value=20  Score=14.86  Aligned_cols=94  Identities=15%  Similarity=0.156  Sum_probs=51.8

Q ss_pred             HHHHHHCCCCC-CCCCCCCCCCCCCCCCCCCCEEEEEECCEEEEECCCCHHH--EEECCCCEEEEEECCCCEEEEEECC-
Q ss_conf             85454114654-5543464333322345654027995072599953776330--7853734379997169879999526-
Q gi|254780727|r   18 SSNPSVAKLPP-IKEANAAVINISDVEIGKGKKISIGLNKVIILQVPVDVQD--VLVSDPTKADVVVHSPRTMYLFGKN-   93 (474)
Q Consensus        18 ~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~~~~l~l~~g~s~~l~~~~~~~r--V~V~dp~Vadv~v~s~~~i~i~gk~-   93 (474)
                      ...++.|..++ ........+........+...+.+.-|.+.++-|+.++.+  +.+-+..--...-...+.+.|.... 
T Consensus         4 ~~~~A~Aq~~~~~~~~~~R~i~l~~~~~~p~peV~Vapg~~T~llFdapi~~~~~~~egr~Rf~~vd~g~~~l~L~p~~~   83 (289)
T pfam09544         4 WGTAARAQPAPPAREPRVRRVTLSAGPAEPPPEVRVAPGVPTVLLFDAPIRRETLTVEGRGRFRVVDVGERTLILVPVED   83 (289)
T ss_pred             CCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCEEEECCCCCEEEEECCCCCCCCEEECCCCEEEEECCCCCEEEEEECCC
T ss_conf             05500037787656541357994378889896699769961699846755646236725445897126775799988432


Q ss_pred             --CC-EEEEEEECCCCCEEEE
Q ss_conf             --72-2799998899977899
Q gi|254780727|r   94 --VG-QANVILIGHDGKQMLN  111 (474)
Q Consensus        94 --~G-~T~l~v~~~~g~~~~~  111 (474)
                        +| .-.|.+...+|..+.+
T Consensus        84 L~~gERl~L~V~F~DG~~P~~  104 (289)
T pfam09544        84 LAEGERLELTVRFADGAAPAR  104 (289)
T ss_pred             CCCCCCEEEEEEECCCCCCCC
T ss_conf             688873579999747887632


No 34 
>pfam02368 Big_2 Bacterial Ig-like domain (group 2). This family consists of bacterial domains with an Ig-like fold. Members of this family are found in bacterial and phage surface proteins such as intimins.
Probab=40.55  E-value=22  Score=14.65  Aligned_cols=58  Identities=19%  Similarity=0.115  Sum_probs=41.2

Q ss_pred             EEEEEECCEEEEEC---CCCH----HHEEECCCCEEEEEECCCCEEEEEECCCCEEEEEEECCCCCEE
Q ss_conf             27995072599953---7763----3078537343799971698799995267227999988999778
Q gi|254780727|r   49 KISIGLNKVIILQV---PVDV----QDVLVSDPTKADVVVHSPRTMYLFGKNVGQANVILIGHDGKQM  109 (474)
Q Consensus        49 ~l~l~~g~s~~l~~---~~~~----~rV~V~dp~Vadv~v~s~~~i~i~gk~~G~T~l~v~~~~g~~~  109 (474)
                      .+.|.+|.+..+..   |.+.    -.-.-+||+||.+..   ..-.+.|.++|++++.+...+|...
T Consensus        11 ~~~l~~G~t~ql~a~~~p~~a~~~~vtw~Ssn~~vAtVd~---~~G~Vta~~~G~a~Itat~~d~~~~   75 (79)
T pfam02368        11 VASLLKGATLQLGATVLPSDASNGKVTWSSSNTSIATVSG---STGLVTALAKGTATITATSGDNQSA   75 (79)
T ss_pred             CCEEECCCEEEEEEEEEECCCCCCEEEEEECCCCEEEEEC---CCCEEEEEECEEEEEEEEECCCCEE
T ss_conf             3289049879999999846678855999989999899989---9888999827189999996999868


No 35 
>pfam07378 FlbT Flagellar protein FlbT. This family consists of several FlbT proteins. FlbT is a post-transcriptional regulator of flagellin. FlbT is associated with the 5' untranslated region (UTR) of fljK (25 kDa flagellin) mRNA and that this association requires a predicted loop structure in the transcript. Mutations within this loop abolish FlbT association and result in increased mRNA stability. It is therefore thought that FlbT promotes the degradation of flagellin mRNA by associating with the 5' UTR.
Probab=40.01  E-value=23  Score=14.60  Aligned_cols=35  Identities=20%  Similarity=0.408  Sum_probs=18.1

Q ss_pred             EEEECCCCEEEEEEEEEEEECCCCCCCCCEECCCCE
Q ss_conf             999858998999976653101321257112017612
Q gi|254780727|r  359 TVELPSGGTIVLAGLLKDDIQQLKEGIPLLSKIPIL  394 (474)
Q Consensus       359 ~V~l~~Get~vIgGL~~~~~~~~~~~vP~LgdIPil  394 (474)
                      .++||+||-++|+|-.=.+. .....+=++++.|+|
T Consensus         2 kl~LKp~Eri~INGAVi~Ng-drr~~l~i~n~a~iL   36 (126)
T pfam07378         2 KLSLKPGERIIINGAVIRNG-DRRSRLEIENDAPIL   36 (126)
T ss_pred             EEEECCCCEEEECCEEEEEC-CCCEEEEEECCCCEE
T ss_conf             35607998899858588707-973489996178131


No 36 
>COG4698 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=37.77  E-value=25  Score=14.39  Aligned_cols=20  Identities=40%  Similarity=0.690  Sum_probs=13.3

Q ss_pred             EEEEEEEEEECCCEEEEEEE
Q ss_conf             89999989815984999861
Q gi|254780727|r  314 VVLHFTPTVLSPGRIGLRIQ  333 (474)
Q Consensus       314 i~L~vtP~V~~~g~I~L~i~  333 (474)
                      +-+.|.|+|.+||.|.|.+.
T Consensus       105 l~I~f~P~v~~NG~i~L~V~  124 (197)
T COG4698         105 LYIYFEPTVLQNGDIELSVT  124 (197)
T ss_pred             EEEEECCEEECCCCEEEEEE
T ss_conf             79997415613896899988


No 37 
>pfam11492 Dicistro_VP4 Cricket paralysis virus, VP4. This is a family of minor capsid proteins, known as VP4, from the dicistroviridae. The dicistroviridae is a group of small, RNA-containing viruses that are closely structurally related to the picornaviridae. VP4 is a short, extended polypeptide chain found within the viral capsid, at the interface between the external protein shell and packaged RNA genome.
Probab=37.57  E-value=11  Score=16.45  Aligned_cols=16  Identities=31%  Similarity=0.702  Sum_probs=12.3

Q ss_pred             CCEECCCCEEECCCCC
Q ss_conf             1120176120001656
Q gi|254780727|r  386 PLLSKIPILGALFRNS  401 (474)
Q Consensus       386 P~LgdIPilG~LF~s~  401 (474)
                      -.|.+||+||..|+-.
T Consensus        25 ~~ls~IPvig~~aka~   40 (56)
T pfam11492        25 SALSSIPVIGNIAKAT   40 (56)
T ss_pred             HHCCCCCCCCCHHHHH
T ss_conf             6601686012101048


No 38 
>pfam09133 SANTA SANTA (SANT Associated). The SANTA domain (SANT Associated domain) is approximately 90 amino acids in length and is conserved in Eukaryota. It is sometimes found in association with the SANT domain (pfam00249, also known as Myb-like DNA-binding domain) implying a putative function in regulating chromatin remodelling. Sequence analysis has showed that the SANTA domain is likely to form four central beta-sheets with three flanking alpha- helixes. Many conserved hydrophobic residues are present which implying a possible role in protein-protein interactions.
Probab=35.03  E-value=21  Score=14.78  Aligned_cols=37  Identities=35%  Similarity=0.466  Sum_probs=27.0

Q ss_pred             CEEEEEEEEEEEEECCCCEEEEEEEEEEEECCCCCCCC
Q ss_conf             21678999999998589989999766531013212571
Q gi|254780727|r  349 PSYRVRKADTTVELPSGGTIVLAGLLKDDIQQLKEGIP  386 (474)
Q Consensus       349 P~i~~R~~~T~V~l~~Get~vIgGL~~~~~~~~~~~vP  386 (474)
                      -.|.+|-..++++-.||-++.|.|.+.. .....+|.|
T Consensus        34 ~~IvkR~~~~~l~T~dG~~~~L~G~in~-~~~~~nGfs   70 (93)
T pfam09133        34 NFIVKRHSSTTLETVDGITYVLVGFIDR-SRMLKNGFP   70 (93)
T ss_pred             HHHHEEECCCEEEECCCEEEEEECCCCH-HHHHHCCCC
T ss_conf             5541001243799258709999465688-889885999


No 39 
>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH. This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.
Probab=34.85  E-value=28  Score=14.11  Aligned_cols=59  Identities=20%  Similarity=0.260  Sum_probs=32.4

Q ss_pred             EEEEEEEEEEECCCEEEEEEEEEECCCCCCCCCCCCCEEEEEEEEEEEEECCCCEEEEEEEEEEEECC
Q ss_conf             58999998981598499986123203445555665321678999999998589989999766531013
Q gi|254780727|r  313 GVVLHFTPTVLSPGRIGLRIQTEVSEPVIGVNAGDMPSYRVRKADTTVELPSGGTIVLAGLLKDDIQQ  380 (474)
Q Consensus       313 Gi~L~vtP~V~~~g~I~L~i~~evS~~~~~~~~~~~P~i~~R~~~T~V~l~~Get~vIgGL~~~~~~~  380 (474)
                      |..+-=||=+..++++.-.+.++  +...     -.|.  ++--.-+..+++|||+.||||.+-+.-+
T Consensus       205 ~~~i~DTPGi~~~~q~~~~L~~~--~lk~-----i~p~--k~i~p~t~~l~~gqslfiGGL~rid~~~  263 (360)
T TIGR03597       205 GHSLYDTPGIINSHQMAHYLDKK--DLKY-----ITPK--KEIKPKTYQLNPNQTLFLGGLARFDYLK  263 (360)
T ss_pred             CCEEECCCCCCCHHHHHHHCCHH--HHHH-----CCCC--CCCCCEEEEECCCCEEEECCEEEEEEEC
T ss_conf             95574577655742755544998--8742-----1776--5106527897897289993389999814


No 40 
>TIGR03591 polynuc_phos polyribonucleotide nucleotidyltransferase. Members of this protein family are polyribonucleotide nucleotidyltransferase, also called polynucleotide phosphorylase. Some members have been shown also to have additional functions as guanosine pentaphosphate synthetase and as poly(A) polymerase (see model TIGR02696 for an exception clade, within this family).
Probab=33.46  E-value=16  Score=15.45  Aligned_cols=52  Identities=12%  Similarity=0.228  Sum_probs=39.1

Q ss_pred             EEEEEEECCCCEEEEEEEEEEEECCCCCCCCCEECCCCEEECCCCCCCCCCE
Q ss_conf             9999998589989999766531013212571120176120001656455211
Q gi|254780727|r  356 ADTTVELPSGGTIVLAGLLKDDIQQLKEGIPLLSKIPILGALFRNSRFNREE  407 (474)
Q Consensus       356 ~~T~V~l~~Get~vIgGL~~~~~~~~~~~vP~LgdIPilG~LF~s~~~~~~~  407 (474)
                      ...++.+.|..++-|.+--++........|=.+-.-|-+|..|..+=..-.+
T Consensus       580 tg~~I~i~ddG~v~i~~~~~~~~~~A~~~I~~~~~~~evG~~y~g~V~~i~~  631 (684)
T TIGR03591       580 TGAKIDIEDDGTVKIAASDGEAAEAAIKMIEGITAEPEVGKIYEGKVVRIMD  631 (684)
T ss_pred             HCCEEEEECCCEEEEEECCHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEEEE
T ss_conf             8988998589089999899999999999999851668589779999999984


No 41 
>COG2982 AsmA Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]
Probab=30.51  E-value=33  Score=13.69  Aligned_cols=73  Identities=21%  Similarity=0.309  Sum_probs=37.8

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCC-CCCCEEEE--EECCEEEEECCCCHHHEEECCC
Q ss_conf             93357899999999999854541146545543464333322345-65402799--5072599953776330785373
Q gi|254780727|r    1 MRYLQRTFFTMMSIFLFSSNPSVAKLPPIKEANAAVINISDVEI-GKGKKISI--GLNKVIILQVPVDVQDVLVSDP   74 (474)
Q Consensus         1 ~~~~~r~~~~~~~~~L~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~~~~~l~l--~~g~s~~l~~~~~~~rV~V~dp   74 (474)
                      ||.|+|++..++++.++..+...+-.+-..+ ............ ...+.+.+  .++-+.--...-...++.+++|
T Consensus         1 ~~~~~~~l~~~l~~~i~~ia~~~~~~~lf~p-N~~k~~i~q~v~a~t~~~l~i~Gdi~w~~~P~~~v~l~d~tLs~~   76 (648)
T COG2982           1 MRRMRKVLVSLLGILILVIALLAAVLPLFDP-NDFKDTIVQQVSAATGRPLAINGDLGWRLWPWPSVILEDITLSNP   76 (648)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CCHHHHHHHHHHHHHCCCEEECCCCCCCCCCCCCEECCCCEECCC
T ss_conf             9307788999999999999999998652682-200089999999985896466167644227765025034263488


No 42 
>PRK12696 flgH flagellar basal body L-ring protein; Reviewed
Probab=27.45  E-value=37  Score=13.37  Aligned_cols=21  Identities=10%  Similarity=0.262  Sum_probs=15.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHC
Q ss_conf             578999999999998545411
Q gi|254780727|r    4 LQRTFFTMMSIFLFSSNPSVA   24 (474)
Q Consensus         4 ~~r~~~~~~~~~L~~~~~~~a   24 (474)
                      |+|.+..++++++++.+.+..
T Consensus         2 m~~~l~~~~~~~~L~GC~~~~   22 (238)
T PRK12696          2 IRKLLAASCAVLLLSGCNAAR   22 (238)
T ss_pred             HHHHHHHHHHHHHHHCCCCCC
T ss_conf             589999999999951656888


No 43 
>TIGR02186 alph_Pro_TM conserved hypothetical protein; InterPro: IPR011734   This family consists of predicted transmembrane proteins of about 270 amino acids. Members are found, so far, only among the Alphaproteobacteria and only once in each genome..
Probab=26.64  E-value=38  Score=13.29  Aligned_cols=107  Identities=12%  Similarity=0.099  Sum_probs=59.3

Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCEEEEECCCCHHHEEECCCCEEEEEECCCCEE
Q ss_conf             99999999998545411465455434643333223456540279950725999537763307853734379997169879
Q gi|254780727|r    8 FFTMMSIFLFSSNPSVAKLPPIKEANAAVINISDVEIGKGKKISIGLNKVIILQVPVDVQDVLVSDPTKADVVVHSPRTM   87 (474)
Q Consensus         8 ~~~~~~~~L~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~l~~g~s~~l~~~~~~~rV~V~dp~Vadv~v~s~~~i   87 (474)
                      +.+++++.|+.+..+.+..+.++-..-+ .....+.....++|                 .|-+++.+|+=..--+..++
T Consensus         1 ~r~Lla~~lv~~~g~~a~~a~aQ~~~~a-lPPGPQ~~p~~E~l-----------------eig~St~~i~itsnF~G~~L   62 (275)
T TIGR02186         1 LRALLAAVLVLLLGAAATVAAAQVLELA-LPPGPQVRPLEERL-----------------EIGVSTEEIAITSNFRGADL   62 (275)
T ss_pred             CCHHHHHHHHHHHCCCCCCHHHCCCCCC-CCCCCCCCCCCEEE-----------------EEEEECCEEEECCCCCCCCE
T ss_conf             9447899999863002476224264102-77778888743016-----------------88653575651568898760


Q ss_pred             EEEECCCCEEEEEEECCCCCEEEEEEEECCCCHHHHHHHHHHHCCCCCEEEEEECC--EEEEEE
Q ss_conf             99952672279999889997789998730454147899999857877169998389--499999
Q gi|254780727|r   88 YLFGKNVGQANVILIGHDGKQMLNLDILIERDIAHLEMTLRRFIADSNIRVEMVSD--TVVLHG  149 (474)
Q Consensus        88 ~i~gk~~G~T~l~v~~~~g~~~~~~~v~v~~d~~~l~~~l~~~~p~~~i~v~~~~~--~vvl~G  149 (474)
                      -|||--.+...+..  +.    ..||+.|.-.           =|..++.|+.+..  .|++--
T Consensus        63 tlFGa~~~~d~~~~--~~----g~YdivV~l~-----------GP~~~~vvRkKeR~~GiWiNt  109 (275)
T TIGR02186        63 TLFGALDNADPLLL--AQ----GKYDIVVTLE-----------GPRDDMVVRKKERVFGIWINT  109 (275)
T ss_pred             EEEECCCCCCCCHH--HC----CCCCEEEEEE-----------CCCCCCEEEEECCEEEEEECC
T ss_conf             78601266330167--53----6953799975-----------787771361210276577615


No 44 
>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]
Probab=26.22  E-value=39  Score=13.24  Aligned_cols=46  Identities=15%  Similarity=0.351  Sum_probs=25.9

Q ss_pred             EEEEEEECCCCEEEEEEEEEEEECCCCCCCCCEECCCCEEECCCCC
Q ss_conf             9999998589989999766531013212571120176120001656
Q gi|254780727|r  356 ADTTVELPSGGTIVLAGLLKDDIQQLKEGIPLLSKIPILGALFRNS  401 (474)
Q Consensus       356 ~~T~V~l~~Get~vIgGL~~~~~~~~~~~vP~LgdIPilG~LF~s~  401 (474)
                      ....+.+.+-.|+-|++--.+.....+..+-.+-.-+-+|..|..+
T Consensus       581 tg~~IdieddGtv~i~~s~~~~~~~ak~~I~~i~~e~evg~iy~G~  626 (692)
T COG1185         581 TGVKIDIEDDGTVKIAASDGESAKKAKERIEAITREVEVGEVYEGT  626 (692)
T ss_pred             HCCEEEECCCCCEEEEECCHHHHHHHHHHHHHHHHHHCCCCEEEEE
T ss_conf             4767984589858999565688899999999987431015289988


No 45 
>PRK09915 putative outer membrane efflux protein MdtP; Provisional
Probab=23.92  E-value=43  Score=12.98  Aligned_cols=27  Identities=7%  Similarity=0.205  Sum_probs=17.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             789999999999985454114654554
Q gi|254780727|r    5 QRTFFTMMSIFLFSSNPSVAKLPPIKE   31 (474)
Q Consensus         5 ~r~~~~~~~~~L~~~~~~~a~~~~~~~   31 (474)
                      -|.|++++.|.++++....++|...+.
T Consensus         3 ~~~~~r~~~~~~l~~~~lLagC~~~p~   29 (488)
T PRK09915          3 NRQLSRLLLCSILGSTTLISGCALVRK   29 (488)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCCCC
T ss_conf             157769999999999999752668999


No 46 
>smart00635 BID_2 Bacterial Ig-like domain 2.
Probab=23.75  E-value=44  Score=12.96  Aligned_cols=57  Identities=21%  Similarity=0.276  Sum_probs=37.9

Q ss_pred             EEEEECCEEEEEC---CCCH-----HHEEECCCCEEEEEECCCCEEEEEECCCCEEEEEEECCCCCE
Q ss_conf             7995072599953---7763-----307853734379997169879999526722799998899977
Q gi|254780727|r   50 ISIGLNKVIILQV---PVDV-----QDVLVSDPTKADVVVHSPRTMYLFGKNVGQANVILIGHDGKQ  108 (474)
Q Consensus        50 l~l~~g~s~~l~~---~~~~-----~rV~V~dp~Vadv~v~s~~~i~i~gk~~G~T~l~v~~~~g~~  108 (474)
                      +.|..|.+..+..   |...     -+...+||+||.+.  +.+.+.+.|.++|.+++.+...++..
T Consensus        12 ~~l~~G~t~~l~a~~~p~~a~~~~~vtw~Ssn~~vAtV~--~~~G~~vta~~~G~atItat~~dg~~   76 (81)
T smart00635       12 ASVKKGLTLQLTATVTPSSAKVTGKVTWTSSNPSVATVV--NASGLVVTAVAAGTATITATSGDGSS   76 (81)
T ss_pred             CEECCCCEEEEEEEECCCCCCCCCCEEEEECCCCEEEEE--CCCCEEEEEEECCEEEEEEEECCCCC
T ss_conf             627149889999998046667686269980899789998--69982999980426899999168973


No 47 
>PHA02358 hypothetical protein
Probab=23.38  E-value=19  Score=15.09  Aligned_cols=14  Identities=43%  Similarity=0.686  Sum_probs=9.4

Q ss_pred             CCCEECCCCEEECC
Q ss_conf             71120176120001
Q gi|254780727|r  385 IPLLSKIPILGALF  398 (474)
Q Consensus       385 vP~LgdIPilG~LF  398 (474)
                      .|.|+.||++|||-
T Consensus       154 aPa~s~IP~VGWva  167 (194)
T PHA02358        154 APALSSIPFVGWVA  167 (194)
T ss_pred             CCHHHCCCHHHHHH
T ss_conf             20320797078899


No 48 
>PRK10719 eutA reactivating factor for ethanolamine ammonia lyase; Provisional
Probab=23.31  E-value=44  Score=12.91  Aligned_cols=60  Identities=13%  Similarity=0.059  Sum_probs=47.0

Q ss_pred             CCCCHHHHHHHHHHHCCCCCEEEEEE-CCEEEEEEEECCHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             04541478999998578771699983-8949999971999999999999998612234555
Q gi|254780727|r  116 IERDIAHLEMTLRRFIADSNIRVEMV-SDTVVLHGMVRTIQDSQRAVELSETFLSQSGRNQ  175 (474)
Q Consensus       116 v~~d~~~l~~~l~~~~p~~~i~v~~~-~~~vvl~G~v~~~~~~~~~~~ia~~~~~~~~~~~  175 (474)
                      ...|...+++.+.+.+..+.++-+.. .+.++++|....-+.+..+.+....+.++-....
T Consensus        61 ~~ID~~~i~~~i~~qy~~Agi~p~dI~tGAVIITGEtaRk~NA~~i~~~ls~~aGdFVvAT  121 (471)
T PRK10719         61 GGIDEAAIKELIEEQYQAAGIAPESIDSGAVIITGETARKENARPVVMALSGSAGDFVVAT  121 (471)
T ss_pred             CCCCHHHHHHHHHHHHHHCCCCHHHCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEE
T ss_conf             7327999999999999984999888763409996455524349999999887569779971


No 49 
>pfam09796 QCR10 Ubiquinol-cytochrome-c reductase complex subunit (QCR10). The QCR10 family of proteins are a component of the ubiquinol-cytochrome c reductase complex (also known as complex III or cytochrome b-c1 complex). This complex is located on the inner mitochondrial membrane and it couples electron transfer from ubiquinol to cytochrome. This subunit (QCR10) is required for stable association of the iron-sulfur protein with the complex.
Probab=22.47  E-value=27  Score=14.15  Aligned_cols=15  Identities=33%  Similarity=0.868  Sum_probs=10.1

Q ss_pred             CEECCCCEEECCCCC
Q ss_conf             120176120001656
Q gi|254780727|r  387 LLSKIPILGALFRNS  401 (474)
Q Consensus       387 ~LgdIPilG~LF~s~  401 (474)
                      +|.+||++|.-|..+
T Consensus        42 il~KIP~~g~~~~~~   56 (64)
T pfam09796        42 ILQKIPVFGSYWERE   56 (64)
T ss_pred             HHHHCCCCCCHHCCC
T ss_conf             987277543100347


No 50 
>PRK10503 multidrug efflux system subunit MdtB; Provisional
Probab=21.54  E-value=48  Score=12.70  Aligned_cols=19  Identities=21%  Similarity=0.331  Sum_probs=12.2

Q ss_pred             EEEECHHHHHCCCEEEECC
Q ss_conf             9985001442261210014
Q gi|254780727|r  203 AEVRRDILKQIGFQHSITG  221 (474)
Q Consensus       203 ~EVs~~~~~~lGi~w~~~~  221 (474)
                      ++++++...++|++-....
T Consensus       720 i~idr~~a~~~Glt~~~v~  738 (1040)
T PRK10503        720 VNVDRDSASRLGISMADVD  738 (1040)
T ss_pred             EECCHHHHHHCCCCHHHHH
T ss_conf             8448888986699878876


No 51 
>COG1079 Uncharacterized ABC-type transport system, permease component [General function prediction only]
Probab=20.22  E-value=40  Score=13.16  Aligned_cols=21  Identities=10%  Similarity=0.194  Sum_probs=9.2

Q ss_pred             EEEEEEEEEEECHHHHHCCCE
Q ss_conf             799999999850014422612
Q gi|254780727|r  196 VTLKVTIAEVRRDILKQIGFQ  216 (474)
Q Consensus       196 V~lev~i~EVs~~~~~~lGi~  216 (474)
                      .-++.|-+--+-...+..|+|
T Consensus       165 ~GL~lravGE~P~aad~~Gi~  185 (304)
T COG1079         165 FGLRLRAVGENPAAADAMGIN  185 (304)
T ss_pred             CCEEEEEECCCHHHHHHCCCC
T ss_conf             466999826982678867987


Done!