Query         gi|254780772|ref|YP_003065185.1| surface antigen (D15) [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 781
No_of_seqs    308 out of 3546
Neff          8.7 
Searched_HMMs 39220
Date          Sun May 29 19:14:11 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780772.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 PRK11067 outer membrane protei 100.0       0       0 1248.3  67.2  756   23-781     1-801 (801)
  2 TIGR03303 OM_YaeT outer membra 100.0       0       0 1187.4  66.0  729   46-781     1-741 (741)
  3 COG4775 Outer membrane protein 100.0       0       0 1123.3  60.5  752   25-781     3-766 (766)
  4 COG0729 Outer membrane protein 100.0       0       0  443.1  27.4  506  240-781    77-594 (594)
  5 pfam01103 Bac_surface_Ag Surfa 100.0       0       0  410.9  31.9  309  466-781     1-317 (317)
  6 TIGR03303 OM_YaeT outer membra 100.0 3.4E-44       0  306.6  42.1  308   43-364    66-397 (741)
  7 TIGR00992 3a0901s03IAP75 chlor 100.0 1.4E-45       0  316.0  19.6  455  295-781   236-768 (768)
  8 PRK11067 outer membrane protei 100.0 8.9E-43       0  297.3  32.3  312   46-374    92-430 (801)
  9 KOG2602 consensus              100.0 5.6E-45       0  311.6  15.7  406  366-781    37-457 (457)
 10 COG4775 Outer membrane protein 100.0 4.1E-37 1.1E-41  260.2  38.9  307   44-364    90-419 (766)
 11 COG2831 FhaC Hemolysin activat 100.0 1.6E-38 4.1E-43  269.4  30.7  463  277-781    67-554 (554)
 12 pfam03865 ShlB Haemolysin secr  99.9 8.2E-23 2.1E-27  166.6  27.8  342  386-765    10-384 (404)
 13 COG2831 FhaC Hemolysin activat  99.4 8.5E-10 2.2E-14   81.4  22.6  159  188-368    67-226 (554)
 14 COG0729 Outer membrane protein  99.3 2.8E-11 7.1E-16   91.1  11.7  212  145-368    64-281 (594)
 15 pfam07244 Surf_Ag_VNR Surface   99.1 7.6E-10 1.9E-14   81.7   9.2   77  114-191     1-78  (78)
 16 pfam07244 Surf_Ag_VNR Surface   98.8 3.6E-09 9.3E-14   77.3   3.1   77  284-362     2-78  (78)
 17 TIGR00992 3a0901s03IAP75 chlor  98.7 5.1E-08 1.3E-12   69.8   7.6  220   47-283   145-388 (768)
 18 PRK05529 cell division protein  98.5 7.7E-06   2E-10   55.5  14.2  120    2-121    15-137 (255)
 19 pfam08479 POTRA_2 POTRA domain  98.4 3.9E-06 9.9E-11   57.4   9.4   75  115-191     2-76  (76)
 20 pfam06898 YqfD Putative stage   98.2 6.4E-05 1.6E-09   49.5  12.2   95   10-113    76-177 (383)
 21 COG1589 FtsQ Cell division sep  98.0 0.00025 6.3E-09   45.6  11.9   78   46-123    60-138 (269)
 22 pfam08479 POTRA_2 POTRA domain  97.7 1.8E-05 4.5E-10   53.1   2.2   75  195-280     2-76  (76)
 23 pfam08478 POTRA_1 POTRA domain  97.2  0.0013 3.3E-08   40.9   6.6   66   48-113     1-67  (67)
 24 TIGR02876 spore_yqfD sporulati  97.1   0.011 2.8E-07   34.8  10.2  103   10-119    73-185 (406)
 25 PRK10049 pgaA outer membrane p  94.0    0.37 9.5E-06   24.8   9.0   37   60-96     81-117 (818)
 26 PRK10775 cell division protein  92.4    0.65 1.6E-05   23.3  14.7  140   43-186    53-203 (274)
 27 PRK05529 cell division protein  87.7    0.24 6.2E-06   26.1   1.3   71  116-195    63-133 (255)
 28 TIGR03509 OMP_MtrB_PioB decahe  87.0     1.7 4.4E-05   20.5   8.3   36  516-551   345-380 (649)
 29 pfam08478 POTRA_1 POTRA domain  85.8    0.23 5.8E-06   26.2   0.3   29  116-144     1-29  (67)
 30 pfam11854 DUF3374 Protein of u  84.6     2.2 5.7E-05   19.7   7.3   32  518-549   374-405 (675)
 31 PRK09408 ompX outer membrane p  82.9     2.6 6.7E-05   19.3   7.4   43  738-781   129-171 (171)
 32 PRK04922 tolB translocation pr  80.6     3.1   8E-05   18.8   8.6   66   25-97      5-76  (439)
 33 PRK01742 tolB translocation pr  78.0     3.8 9.6E-05   18.3   9.7   44   50-98     28-74  (430)
 34 PRK00178 tolB translocation pr  72.9     5.1 0.00013   17.4   7.5   67   24-98      3-73  (433)
 35 TIGR01000 bacteriocin_acc bact  72.3     1.6 4.2E-05   20.6   1.1   52   25-81     25-76  (476)
 36 PRK04792 tolB translocation pr  70.7     5.7 0.00015   17.1  10.8   45   50-97     25-72  (450)
 37 PRK02889 tolB translocation pr  68.7     6.3 0.00016   16.8   7.9   43   50-97     29-74  (430)
 38 PRK12788 flgH flagellar basal   64.2     3.3 8.4E-05   18.6   1.2   22   93-114    65-86  (231)
 39 PRK04043 tolB translocation pr  61.9     7.3 0.00019   16.4   2.7   19   78-96     47-66  (419)
 40 PRK09818 putative kinase inhib  58.8     8.1 0.00021   16.1   2.4   20  476-495    55-74  (183)
 41 pfam06316 Ail_Lom Enterobacter  56.5      10 0.00027   15.4   7.8   43  738-781   157-199 (199)
 42 PRK13513 putative outer membra  54.4      11 0.00029   15.2   4.3   42   15-58      4-45  (660)
 43 PRK03629 tolB translocation pr  53.1      12  0.0003   15.0   4.4   45   50-98     24-72  (430)
 44 PRK00249 flgH flagellar basal   52.6       5 0.00013   17.4   0.5   21   93-113    66-86  (231)
 45 PRK10641 btuB vitamin B12/coba  43.6      16  0.0004   14.2   1.9   34   24-57      1-34  (615)
 46 pfam10079 DUF2317 Uncharacteri  41.1      18 0.00046   13.8   4.8   28   64-91     39-66  (541)
 47 pfam10082 DUF2320 Uncharacteri  39.7      19 0.00048   13.7   8.5   22  526-547   223-244 (380)
 48 TIGR02636 galM_Leloir galactos  39.4      12 0.00031   14.9   0.9   85  586-672   160-247 (346)
 49 pfam09743 DUF2042 Uncharacteri  39.4      18 0.00045   13.9   1.6   26  310-335   105-130 (272)
 50 pfam08339 RTX_C RTX C-terminal  39.4      19 0.00049   13.6   5.3   12   97-108    10-21  (145)
 51 pfam06935 DUF1284 Protein of u  39.0      19 0.00049   13.6   2.7   19  382-400    58-76  (103)
 52 TIGR01994 SUF_scaf_2 SUF syste  36.9      21 0.00053   13.4   4.7   22  180-203    38-59  (139)
 53 PRK10716 long-chain fatty acid  34.2      23 0.00058   13.1  20.4   64  686-761   341-404 (437)
 54 TIGR02851 spore_V_T stage V sp  33.1      13 0.00034   14.7   0.2   15  182-196    21-35  (184)
 55 TIGR02997 Sig70-cyanoRpoD RNA   32.2      13 0.00034   14.7   0.1   13  349-361   182-194 (336)
 56 TIGR00407 proA gamma-glutamyl   30.3      21 0.00054   13.3   0.9   26   63-90     53-78  (415)
 57 COG2063 FlgH Flagellar basal b  29.6      27  0.0007   12.6   1.9   19   94-112    66-84  (230)
 58 pfam07437 YfaZ YfaZ precursor.  28.4      29 0.00073   12.5   3.9   42  739-781   132-180 (180)
 59 PRK07429 phosphoribulokinase;   28.1      29 0.00074   12.5   4.6   71  199-279   108-187 (331)
 60 PRK12396 5-methylribose kinase  28.0      29 0.00074   12.5   4.2   37  154-190    13-50  (409)
 61 pfam10437 Lip_prot_lig_C Bacte  27.8      29 0.00075   12.4   7.2   12  310-321    52-63  (85)
 62 TIGR02582 cas_TM1809 CRISPR-as  26.0      24  0.0006   13.0   0.5   10  657-667   234-243 (248)
 63 TIGR03519 Bac_Flav_fam_1 Bacte  25.7      32 0.00081   12.2  11.0   39  740-781   252-292 (292)
 64 pfam10566 Glyco_hydro_97 Glyco  25.3      32 0.00083   12.1   2.5   26  694-719   583-608 (643)
 65 COG1386 scpB Chromosome segreg  25.0      33 0.00084   12.1   1.1   49  117-170    14-62  (184)
 66 TIGR01645 half-pint poly-U bin  24.9      29 0.00073   12.5   0.8   20    4-23     71-91  (791)
 67 pfam05158 RNA_pol_Rpc34 RNA po  24.8      33 0.00084   12.1   6.5  151   57-255    24-188 (313)
 68 PRK05799 coproporphyrinogen II  24.7      33 0.00085   12.1   8.4   11  203-213   116-126 (374)
 69 PRK13484 putative iron-regulat  23.0      36 0.00091   11.9   2.3   31   29-59     11-41  (682)
 70 pfam09609 Cas_GSU0054 CRISPR-a  22.7      36 0.00093   11.8   1.1   22  739-760   488-510 (519)
 71 TIGR00174 miaA tRNA delta(2)-i  22.1      23 0.00059   13.1  -0.2   22  231-252    67-88  (307)
 72 KOG1391 consensus               21.8      38 0.00096   11.7   4.6   32  160-193   192-223 (396)
 73 PRK00286 xseA exodeoxyribonucl  21.5      38 0.00098   11.7   7.0   50   74-124     4-62  (443)
 74 TIGR01780 SSADH succinic semia  21.4      38 0.00098   11.7   1.6  189  128-338    57-265 (454)
 75 COG1570 XseA Exonuclease VII,   21.0      39   0.001   11.6   8.3   51   74-125     4-63  (440)
 76 PRK05137 tolB translocation pr  20.8      40   0.001   11.6   9.0   21   78-98     56-77  (437)

No 1  
>PRK11067 outer membrane protein assembly factor YaeT; Provisional
Probab=100.00  E-value=0  Score=1248.33  Aligned_cols=756  Identities=26%  Similarity=0.448  Sum_probs=685.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCCEEEEEEEEECCCCCCHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEEE
Q ss_conf             99999999999999987511465268589996650079889999748789882688999999999996798003899986
Q gi|254780772|r   23 FQMGFIILFYAIFGLSAVYGSNTSIVRRIEIRGATNVGKEVILSRIPVVVGQSISDADLDHAVKNIYAMGYFSNVKIKIV  102 (781)
Q Consensus        23 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~I~i~G~~~i~~~~i~~~~~~~~G~~~~~~~i~~~i~~l~~~g~F~~v~~~~~  102 (781)
                      |+|+.+++.+++|.+..++++++++|++|+|+||++|++++|++++++++|++++++.++++||+||+||||+||+|..+
T Consensus         1 ~~~k~~~~~~~l~~~~~~~~a~~~~I~~I~v~G~~ri~~~ti~~~l~~~~G~~~~~~~i~~~ik~L~~tg~F~dV~v~~~   80 (801)
T PRK11067          1 MAMKKLLIASLLFSSATVYGAEGFVVKDIHFEGLQRVAVGAALLSMPVRVGDTVNDEDISNTIRALFATGNFEDVRVLRD   80 (801)
T ss_pred             CCHHHHHHHHHHHHHHHHHHCCCEEEEEEEEECCCCCCHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEEE
T ss_conf             97589999999999999875587299799998973769889996469899992798999999999985899524899971


Q ss_pred             CCEEEEEEEECCEEEEEEEECCCCCCHHHHHHHH---HHCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEEEEEECCC
Q ss_conf             9989999993653657999565436988998873---0057863799999999999999999729700179987643389
Q gi|254780772|r  103 DSVLIIDLIERKIINHLFFSGNNNLKDDQLKMIV---RSRSAAAYDEDTVNADVHNIKQAYASIGYLNVMVKVQHHSISP  179 (781)
Q Consensus       103 ~~~l~~~v~e~p~i~~i~~~Gn~~~~~~~l~~~~---~~~~g~~~~~~~~~~~~~~i~~~y~~~Gy~~a~V~~~~~~~~~  179 (781)
                      +.+|+|.|+|+|+|++|.|+||+++++++|++.+   ++++|++|++.++++++++|+++|+++||++|+|+++++++++
T Consensus        81 g~~L~~~V~E~P~I~~i~~~Gn~~i~~~~l~~~l~~~~lk~g~~~~~~~l~~~~~~i~~~Y~~~G~~~a~V~~~~~~~~~  160 (801)
T PRK11067         81 GDTLLVQVKERPTIASITFSGNKAVKDDMLKQNLEASGVRVGEALDRTTLSNIEKGLEDFYYSVGKYSASVKAVVTPLPR  160 (801)
T ss_pred             CCEEEEEEEECCEEEEEEEECCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHCCEECCEEEEEEEECCC
T ss_conf             99999999957738999998874378899998775436465754699999999999999999679212199899987899


Q ss_pred             CCEEEEEEEECCCCEEEEEEEEECCCCCCHHHHHHHHHCCCC-CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             842588986036632467787504431101222211100122-1124456664310233334578888887542322100
Q gi|254780772|r  180 TTLNITYVIEEGVKAKINSIRFVGNKNYSHARLERVISIRTS-GYFSFGKTDVYSKERMSFDEEAIRAFYHDRGYAAVKV  258 (781)
Q Consensus       180 ~~v~i~~~I~EG~~~~I~~I~f~Gn~~f~~~~L~~~~~~k~~-~~~~~~~~~~~~~~~l~~D~~~l~~~Y~~~GY~d~~V  258 (781)
                      |+|+|+|.|+||++++|++|+|+||++|++++|+++|++++. .||+|++.+.|++++|+.|+++|++||+++||+||+|
T Consensus       161 n~v~l~f~I~EG~~~~I~~I~f~GN~~fs~~~L~~~~~~~~~~~~~~~~~~~~~~~~~l~~D~~~L~~fY~~~Gy~d~~V  240 (801)
T PRK11067        161 NRVDLKLVFQEGVSAKIQQINIVGNHAFTTDELISRFQLRDEVPWWNVVGDRKYQKQKLAGDLETLRSYYLDRGYARFNI  240 (801)
T ss_pred             CEEEEEEEEEECCEEEEEEEEEECCCCCCHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEE
T ss_conf             86999999950888999999998783247899998862376643357616885498999989999999998718662266


Q ss_pred             C-CCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCEECCCCCCHHHHHCCCCCCCCCCCC
Q ss_conf             1-231012455554101220222210000012333444557677775321169962112100000000000023445642
Q gi|254780772|r  259 S-SQVLFDKQKSGYVLIFQIDEGEIYTVGNISIQSTLQEIQKKTLLSLIRIRSGNLYNPQEIKESSEKISKYFFSGERPF  337 (781)
Q Consensus       259 ~-~~~~~~~~~~~~~i~~~I~EG~~y~i~~i~i~g~~~~~~~~~l~~~~~~k~G~~~~~~~~~~~~~~i~~~y~~~GY~f  337 (781)
                      . +++.+.++++.+.|+|.|+||+||++++|+|.||.. .+.++|.+++++++|++||+.+++++.++|.+.|.+.||+|
T Consensus       241 ~~~~v~~~~dk~~~~I~~~I~EG~~Y~~g~i~~~gn~~-~~~~el~~~~~~~~G~~y~~~~i~~~~~~i~~~~~~~GY~f  319 (801)
T PRK11067        241 DSTQVSLTPDKKGIYITVNITEGDQYKLSGVQVSGNLA-GHSAEIEKLTKIEPGELYNGTKVTKMEDDIKKLLGRYGYAY  319 (801)
T ss_pred             ECCEEEECCCCCEEEEEEEECCCCEEEEEEEEEECCCC-CCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCC
T ss_conf             04425634776269999998689749872379967777-77899998754578863469999999999999998669721


Q ss_pred             CCCCCCCCCCCCCCEEEEEEECCCCCCCEEECCCCCCCCCCCCCCCHHHCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             01123322343440466554123332201100333343200332100100100000001234445666776510123445
Q gi|254780772|r  338 VRVKTRINRDFAKRIVDIEYLIDQGSPLYVKRIEIEGNDQSYDSVIRRELELSEGDPINYSMIERAKRRIMATGYFSEVN  417 (781)
Q Consensus       338 a~v~~~~~~d~~~~~vdi~~~I~eg~~~~i~~I~I~GN~~T~d~VIrrel~~~~Gd~~~~~~i~~s~~~L~~lg~F~~V~  417 (781)
                      |+|.|.++.+.++++|+|+|.|+||+++||++|+|.||++|+|+||||||++.|||+||..+|++|++||.+||||+.|+
T Consensus       320 a~V~~~~~~~~~~~~v~l~~~I~eg~~~yV~~I~I~GN~~T~D~VIRRel~~~eGd~~~~~~i~~S~~rL~~lg~F~~V~  399 (801)
T PRK11067        320 PRVQTQPEINDADKTVKLRVNVDAGNRFYVRKIRFEGNDTSKDSVLRREMRQMEGAWLGSDLVEQGKERLNRLGFFETVD  399 (801)
T ss_pred             CCCCCCEEECCCCCEEEEEEEECCCCEEEEEEEEEECCCCCHHHHHHHEECCCCCCCCCHHHHHHHHHHHHHCCCCCCCC
T ss_conf             00464126747898899999986686279998674277061347510100036765338889999999998558742034


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCCCEEEEEEECCCCEEEEEEEECCC
Q ss_conf             33254435654310233221122111111111223321100000111233323442200378741122111134541123
Q gi|254780772|r  418 ISQLPANDVSDYVILRVSVKQLSAGSVGIATNYEVDKGMGVEGHIDDNNFFGQGYRARLAAGFGRHAVQNYTFSVEDPYF  497 (781)
Q Consensus       418 i~~~~~~~~~~~vdl~i~v~E~~tg~~~~g~gys~~~g~~~~~~~~~~Nl~G~G~~l~l~~~~~~~~~~~~~~s~~~P~~  497 (781)
                      +++.|+++.+++|||.+.|+|++||++++|+|||+.+|+.+.++++++||+|+|++++++++.+... +.++++|++|||
T Consensus       400 ~~~~~~~~~~~~vdl~~~V~E~~tG~~~~g~Gyss~~g~~~~~~i~~~Nf~G~Gq~l~l~~~~s~~~-~~~~lsftePyf  478 (801)
T PRK11067        400 TDTQRVPGSPDQVDVVYKVKERNTGSFNFGIGYGTESGVSFQAGVQQDNWLGTGNSVGINGTKNDYQ-TYAELSVTDPYF  478 (801)
T ss_pred             CCCCCCCCCCCEEEEEEEEEECCCCEEEEEEEEECCCCCEEEEEEEECCCCCCCCEEEEEEEECCCE-EEEEEEECCCCC
T ss_conf             3343589998738999998986788799998886278828999999667576772999999954326-999999625355


Q ss_pred             CCCCCCCCCCCCCCCCCC-----CCCCCCCCCCEEEEEEECCCCEEEEECCCEEEEEEECCCCCCCCCHHHH--------
Q ss_conf             577754310011113333-----3343233320245542025430235404125776401467544201112--------
Q gi|254780772|r  498 LGSPISAGFDLQKTHLED-----GSLDINDESAAVRMIVPITESISTSFKYDLRFLQYGAISEKEKIPSIYT--------  564 (781)
Q Consensus       498 ~~~~~s~~~~~~~~~~~~-----~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------  564 (781)
                      ++++++++++++++..+.     ..|+.++.|+++++++|+.++.++++++++.+.++.........+....        
T Consensus       479 ~~~~~s~g~~~f~~~~~~~~~~~~~Y~~~~~G~~~~~g~pi~e~~~~~~g~~y~~~~l~~~~~~~~~~~~~~~~~~~~~~  558 (801)
T PRK11067        479 TVDGVSLGGRIFYNDFEADDADLSDYTNKSYGTDVTLGFPINEYNSLRAGLGYVHNKLSNMQPQVAMWRYLESMGENPST  558 (801)
T ss_pred             CCCCCEEEEEEEEEECCCCCCCCCCCEEEEEEEEEEEEEECCCCEEEEEEEEEEEEECCCCCCHHHHHHHHHCCCCCCCC
T ss_conf             77885247888876613566553331358972688997761442589999889998634566203234454313656443


Q ss_pred             HHHCCCCCEEEEEEEEECCCCCCCCCCCCCCEEEEEEECCCCCCCCCEEEEEEEEEEEEEEECCCEEEE--EEEEEEEEE
Q ss_conf             210158502467884321554201100246515654202456555420366663004799935880999--999997898
Q gi|254780772|r  565 TLIEHGKFSSHSISQSIIYNTLDNPIVPRKGMLISSSYDYAGFGGDSQYHRIGSRASYFYLLSDDSDIV--GSLRFGYGC  642 (781)
Q Consensus       565 ~~~~~~~~~~~~i~~~l~~dtrD~~~~Pt~G~~~~~~~~~a~~g~d~~f~k~~~~~~~y~~l~~~~~l~--~~~~~g~~~  642 (781)
                      ............++++|+||+||++++||+|+..++++++|+||||.+|+|+.+++++|+|+.++..++  ++.++|++.
T Consensus       559 ~~~~~~~~~~~~~~~~~t~dt~d~~~~Pt~G~~~~ls~~~a~~Ggd~~f~K~~~~~~~Y~pl~~~~~~vl~~~~~~G~~~  638 (801)
T PRK11067        559 SDQDSFKTDDFTFNYGWTYNNLDRGYFPTAGNRVNLTGKVTIPGSDNEYYKVTLDTATYVPLDDDHKWVLLGRGRLGYGD  638 (801)
T ss_pred             CCCCCEEEEEEEEEEEEEEECCCCCCCCCCCCEEEEEEEECCCCCCCEEEEEEEEEEEEEEECCCCEEEEEEEEEEEEEE
T ss_conf             23565034226899988996687773899875699886844567785279999999999991579559999999998740


Q ss_pred             EECCCCCCCCHHEEEECCCCCCCCCCCCCCCCC-----------------CCCCCCCCCEEEEEEEEEEEEECCCCCCC-
Q ss_conf             516997412301275078971402126861550-----------------37997222147899999999614565654-
Q gi|254780772|r  643 VIPSNKNLQLFDQFSVSSNYYLRGFAYKGIGPR-----------------VDKKYAIGGKIYSSASAAVSFPMPLVPER-  704 (781)
Q Consensus       643 ~~~~~~~lp~~erF~lGG~~svRGy~~~~iGP~-----------------~~~~~~~GG~~~~~~s~E~r~pl~~~~~~-  704 (781)
                      .++ ++++|++||||+||.++||||++++||||                 +..++++||+.++.+++|++||+|++++. 
T Consensus       639 ~~g-~~~vP~~erFylGG~~svRGf~~~~iGPr~~~~~~~~~~~~~~~~~~~~~d~iGG~~~~~~~~El~fP~p~~~~~~  717 (801)
T PRK11067        639 GLG-GKEMPFYENFYAGGSSTVRGFQSNTIGPKAVYYPGSGSNYDPDGALCKSDDAVGGNAMAVASLELITPTPFISDKY  717 (801)
T ss_pred             CCC-CCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEEEEECCCCCCCHHH
T ss_conf             579-8867710008747988647837899498732356655455654555667776555489999999991378766011


Q ss_pred             -CCEEEEEEEEEEEEECCCCCCCCCC----C--CCCCCCEEEEEEEEEEEECCCCCEEEEEEEECCCCCCCEEEEEEEEE
Q ss_conf             -5379999997677415666677544----4--56766424799999997557001589988722677876025899964
Q gi|254780772|r  705 -AGLRGAFFVDSATLYANHVALGADK----L--EGNDSFWRVSTGVEIMWNSPLGMMGVYYGIPLRHREGDKIQQFGFRI  777 (781)
Q Consensus       705 -~~l~~~~F~D~G~v~~~~~~~~~~~----~--~~~~~~~r~s~G~Glr~~tP~Gpirld~a~pl~~~~~D~~~~f~Fsi  777 (781)
                       ..+++++|+|+|+||+...+.....    .  ..++..+|+|+|+|+||.||+||||||||+||+++++|++++|||+|
T Consensus       718 ~~~vr~~~F~D~Gnvw~~~~~~~~~~~~~~~~d~~d~~~lR~S~G~Girw~sPiGPLr~d~a~pl~~~~gD~~~~F~Fsi  797 (801)
T PRK11067        718 ANSVRTSFFWDMGTVWDTNWDSSAYTGASGYPDYSDPSNIRMSAGIALQWMSPLGPLVFSYAQPFKKYDGDKAEQFQFNI  797 (801)
T ss_pred             CCEEEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEEEEEECCCCCEEEEEEECCCCCCCCCEEEEEEEC
T ss_conf             57389999998122366655544544555654668768657999799999877257899998668788997422899957


Q ss_pred             EECC
Q ss_conf             1059
Q gi|254780772|r  778 GNRM  781 (781)
Q Consensus       778 G~~f  781 (781)
                      ||+|
T Consensus       798 G~~F  801 (801)
T PRK11067        798 GKTW  801 (801)
T ss_pred             CCCC
T ss_conf             5769


No 2  
>TIGR03303 OM_YaeT outer membrane protein assembly complex, YaeT protein. Members of this protein family are the YaeT protein of the YaeT/YfiO complex for assembling proteins into the outer membrane of Gram-negative bacteria. This protein is similar in sequence and function to a non-essential paralog, YtfM, that is also in the Omp85 family. Members of this family typically have five tandem copies of the surface antigen variable number repeat (pfam07244), followed by an outer membrane beta-barrel domain (pfam01103), while the YtfM family typically has a single pfam07244 repeat.
Probab=100.00  E-value=0  Score=1187.42  Aligned_cols=729  Identities=33%  Similarity=0.581  Sum_probs=673.3

Q ss_pred             EEEEEEEEECCCCCCHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEEECCEEEEEEEECCEEEEEEEECCC
Q ss_conf             26858999665007988999974878988268899999999999679800389998699899999936536579995654
Q gi|254780772|r   46 SIVRRIEIRGATNVGKEVILSRIPVVVGQSISDADLDHAVKNIYAMGYFSNVKIKIVDSVLIIDLIERKIINHLFFSGNN  125 (781)
Q Consensus        46 ~~i~~I~i~G~~~i~~~~i~~~~~~~~G~~~~~~~i~~~i~~l~~~g~F~~v~~~~~~~~l~~~v~e~p~i~~i~~~Gn~  125 (781)
                      ++|++|+|+||+++++++|++.+++++|++++++.++++||+||+||||+||+++.++++|+|+|+|+|+|++|.|+||+
T Consensus         1 ~~I~~I~v~G~~~i~~~~i~~~~~~~~G~~~~~~~i~~~ik~L~~tg~F~dv~v~~~~~~l~i~v~E~p~i~~i~~~G~~   80 (741)
T TIGR03303         1 FVVKDIRVEGLQRVSAGTVLNYLPVKVGDTISDEKIDEAIKALYATGYFEDVKIEREGGVLVIKVKERPIINSIVFSGNK   80 (741)
T ss_pred             CEEEEEEEECCEECCHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEEEEEECCEEEEEEEECCEEEEEEEECCC
T ss_conf             98989999997165989998636999998459999999999999679900589997299999999967639999999985


Q ss_pred             CCCHHHHHHHH-HHCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEEEEEECCCCCEEEEEEEECCCCEEEEEEEEECC
Q ss_conf             36988998873-00578637999999999999999997297001799876433898425889860366324677875044
Q gi|254780772|r  126 NLKDDQLKMIV-RSRSAAAYDEDTVNADVHNIKQAYASIGYLNVMVKVQHHSISPTTLNITYVIEEGVKAKINSIRFVGN  204 (781)
Q Consensus       126 ~~~~~~l~~~~-~~~~g~~~~~~~~~~~~~~i~~~y~~~Gy~~a~V~~~~~~~~~~~v~i~~~I~EG~~~~I~~I~f~Gn  204 (781)
                      ++++++|++++ .+++|+++++.++++++++|+++|+++||++|+|++++++.++++|+|+|+|+||++++|++|.|+||
T Consensus        81 ~~~~~~l~~~l~~lk~g~~~~~~~~~~~~~~I~~~Y~~~Gy~~~~V~~~~~~~~~~~v~v~f~I~Eg~~~~I~~I~f~Gn  160 (741)
T TIGR03303        81 EIKKEQLKKALVGIKKGEIFDRAKLEKDEKALKEFYRSRGKYNAEVEAKVTPLPRNRVDLEFNIKEGKKAKIKKINFVGN  160 (741)
T ss_pred             CCCHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEEEEEECCCCEEEEEEEEECCCEEEEEEEEEECC
T ss_conf             58989999887455789703999999999999999996695204999999988998799999995388589999999887


Q ss_pred             CCCCHHHHHHHHHCCCCCCCCC-CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCC-CCCCCCCCCCCCCEEEEECCCCC
Q ss_conf             3110122221110012211244-566643102333345788888875423221001-23101245555410122022221
Q gi|254780772|r  205 KNYSHARLERVISIRTSGYFSF-GKTDVYSKERMSFDEEAIRAFYHDRGYAAVKVS-SQVLFDKQKSGYVLIFQIDEGEI  282 (781)
Q Consensus       205 ~~f~~~~L~~~~~~k~~~~~~~-~~~~~~~~~~l~~D~~~l~~~Y~~~GY~d~~V~-~~~~~~~~~~~~~i~~~I~EG~~  282 (781)
                      +.|++++|+++|++++..||+| ++++.|++++++.|+++|++||+++||+||+|. +.+.++++++.+.|+|.|+||+|
T Consensus       161 ~~fs~~~L~~~~~~k~~~~~~~~~~~~~~~~~~l~~D~~~l~~fY~~~Gy~d~~v~~~~v~~~~~~~~~~i~~~I~EG~~  240 (741)
T TIGR03303       161 KAFSDSELRDVFALKESNFLSWFTGDDKYSKQKLEADLELLRSFYLNRGYLDFKVESTQVSITPDKKGVYITYNIKEGEQ  240 (741)
T ss_pred             CCCCHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEECCCEEECCCCCEEEEEEEECCCCC
T ss_conf             42676898877752664120023667833999998799999999976052037983220388378863999999867881


Q ss_pred             CCCCCCCCCCCCCCCCHHHHHHHHHCCCCCEECCCCCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCC
Q ss_conf             00000123334445576777753211699621121000000000000234456420112332234344046655412333
Q gi|254780772|r  283 YTVGNISIQSTLQEIQKKTLLSLIRIRSGNLYNPQEIKESSEKISKYFFSGERPFVRVKTRINRDFAKRIVDIEYLIDQG  362 (781)
Q Consensus       283 y~i~~i~i~g~~~~~~~~~l~~~~~~k~G~~~~~~~~~~~~~~i~~~y~~~GY~fa~v~~~~~~d~~~~~vdi~~~I~eg  362 (781)
                      |++++|+|+||.. .+.++|.+++.+++|++|++..++++.++|.+.|.++||+||+|.|+.+.+.++++|+|+|.|+||
T Consensus       241 Y~i~~i~~~Gn~~-~~~~~l~~~~~~~~g~~y~~~~i~~~~~~I~~~y~~~Gy~fa~v~~~~~~~~~~~~v~l~~~I~eg  319 (741)
T TIGR03303       241 YKFGEVNLEGDLI-GPDEELKKLVKIKKGEVFNREKVTKIVKAIKDLLGDKGYAFANVNPRPQINDENKTVDLTFKVDPG  319 (741)
T ss_pred             EEEEEEEEECCCC-CCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEEEEEEECCCCEEEEEEEEECC
T ss_conf             5667999725777-898999976544688651588999999999999985697438998889970578689899999528


Q ss_pred             CCCEEECCCCCCCCCCCCCCCHHHCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             22011003333432003321001001000000012344456667765101234453325443565431023322112211
Q gi|254780772|r  363 SPLYVKRIEIEGNDQSYDSVIRRELELSEGDPINYSMIERAKRRIMATGYFSEVNISQLPANDVSDYVILRVSVKQLSAG  442 (781)
Q Consensus       363 ~~~~i~~I~I~GN~~T~d~VIrrel~~~~Gd~~~~~~i~~s~~~L~~lg~F~~V~i~~~~~~~~~~~vdl~i~v~E~~tg  442 (781)
                      +++||++|.|.||++|+|+||||||.+.|||+||+.++++|+++|++||||++|++.+.|.+ .+++|||.+.|+|++||
T Consensus       320 ~~~~i~~I~I~GN~~T~d~VIrRel~~~~Gd~f~~~~i~~s~~~L~~lg~F~~V~i~~~~~~-~~~~vdl~v~V~Ek~tg  398 (741)
T TIGR03303       320 KRVYVRRINISGNTRTRDEVIRRELRQLEGDWYNLSKIKRSKRRLERLGYFEEVNIETVPVG-SPDQVDLNVNVKEQPTG  398 (741)
T ss_pred             CEEEEEEEEEECCCCCCHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCC-CCCEEEEEEEEEEECCC
T ss_conf             71899999998874155375010002488653588999999999986688233101214689-98717899999980277


Q ss_pred             CCCCCCCCCCCCCCEEEECCCCCCCCCCCCCCCEEEEEEECCCCEEEEEEEECCCCCCCCCCCCCCCCCCCC-----CCC
Q ss_conf             111111122332110000011123332344220037874112211113454112357775431001111333-----333
Q gi|254780772|r  443 SVGIATNYEVDKGMGVEGHIDDNNFFGQGYRARLAAGFGRHAVQNYTFSVEDPYFLGSPISAGFDLQKTHLE-----DGS  517 (781)
Q Consensus       443 ~~~~g~gys~~~g~~~~~~~~~~Nl~G~G~~l~l~~~~~~~~~~~~~~s~~~P~~~~~~~s~~~~~~~~~~~-----~~~  517 (781)
                      ++++|+||++.+|+.+.++++++||||+|++++++++.|... +.++++|++||+++++++++++++++..+     ...
T Consensus       399 ~~~~g~Gyss~~g~~~~~~~~~~N~~G~G~~l~l~~~~s~~~-~~~~lsf~~P~~~~~~~sl~~~~~~~~~~~~~~~~~~  477 (741)
T TIGR03303       399 SISFGVGYGSSSGLIFNASISERNFLGTGNRLSLSANKSSLS-QSYSLSFTDPYFTDDGVSLGFSIYYSETDRNYKNFSD  477 (741)
T ss_pred             EEEEEEEECCCCCEEEEEEEEEECCCCCCCEEEEEEEECCCE-EEEEEEEECCCCCCCCCEEEEEEEEEECCCCCCCCCC
T ss_conf             899996431468749999875431136660999999974451-9999999886025899507899999872354445466


Q ss_pred             CCCCCCCCEEEEEEECCCCEEEEECCCEEEEEEECCCCCCCCCHHHHHHHCCCCCEEEEEEEEECCCCCCCCCCCCCCEE
Q ss_conf             43233320245542025430235404125776401467544201112210158502467884321554201100246515
Q gi|254780772|r  518 LDINDESAAVRMIVPITESISTSFKYDLRFLQYGAISEKEKIPSIYTTLIEHGKFSSHSISQSIIYNTLDNPIVPRKGML  597 (781)
Q Consensus       518 y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~dtrD~~~~Pt~G~~  597 (781)
                      |+..+.|+.+++++++.++++++++|++.+.++........ +.......+.+.+..++++++++||+||++++||+|++
T Consensus       478 y~~~~~G~~~~lg~~l~~~~~~~~~~~~~~~~i~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~dtrD~~~~Pt~G~~  556 (741)
T TIGR03303       478 YKTKTYGGSINLGYPITEYLRVSLGYGYEQNKIKDSSDSDS-SYSKFIKEQGGKFIDSSLSYGWSYDTRDSGYFPTSGSI  556 (741)
T ss_pred             CCEEEEEEEEEEEEECCCCEEEEEEEEEEEEEEECCCCCCH-HHHHHHHHCCCCEEEEEEEEEEEEECCCCCCCCCCCEE
T ss_conf             62178879999978825656999999999999871688743-56799986189627899999999963677778986408


Q ss_pred             EEEEECCCCCCCCCEEEEEEEEEEEEEEECCCE--EEEEEEEEEEEEEECCCCCCCCHHEEEECCCCCCCCCCCCCCCCC
Q ss_conf             654202456555420366663004799935880--999999997898516997412301275078971402126861550
Q gi|254780772|r  598 ISSSYDYAGFGGDSQYHRIGSRASYFYLLSDDS--DIVGSLRFGYGCVIPSNKNLQLFDQFSVSSNYYLRGFAYKGIGPR  675 (781)
Q Consensus       598 ~~~~~~~a~~g~d~~f~k~~~~~~~y~~l~~~~--~l~~~~~~g~~~~~~~~~~lp~~erF~lGG~~svRGy~~~~iGP~  675 (781)
                      ++++.++|+||||.+|+|+.+++++|+|+.+..  ++++++++|+...++ +..+|++||||+||.++||||++++|||+
T Consensus       557 ~~~~~~~a~~ggd~~f~K~~~~~~~y~~l~~~~~~vl~~~~~~G~~~~~~-~~~~p~~erF~lGG~~slRGf~~~~iGP~  635 (741)
T TIGR03303       557 QRLSQEFAGPGGDLKYYKSTYDSEYYIPLSKEDDWVLSLKGRLGYGNGYG-GKDLPFYERFYAGGIGSVRGFESNSIGPR  635 (741)
T ss_pred             EEEEEEEECCCCCCEEEEEEEEEEEEEECCCCCCEEEEEEEEEEEEECCC-CCCCCHHHEEECCCCCCCCCCCCCCCCCC
T ss_conf             99998984467651037899999999996667767999999998875378-88688777388589980468678992887


Q ss_pred             C--CCCCCCCCEEEEEEEEEEEEECCCCCCCCCEEEEEEEEEEEEECCCCCCCCCCCCCCCCCEEEEEEEEEEEECCCCC
Q ss_conf             3--79972221478999999996145656545379999997677415666677544456766424799999997557001
Q gi|254780772|r  676 V--DKKYAIGGKIYSSASAAVSFPMPLVPERAGLRGAFFVDSATLYANHVALGADKLEGNDSFWRVSTGVEIMWNSPLGM  753 (781)
Q Consensus       676 ~--~~~~~~GG~~~~~~s~E~r~pl~~~~~~~~l~~~~F~D~G~v~~~~~~~~~~~~~~~~~~~r~s~G~Glr~~tP~Gp  753 (781)
                      +  ..++++||+.++.+++|+|||+++++...++++++|+|+|+||+...+....  ......+|+|+|+||||.||+||
T Consensus       636 d~~~~~~~~GG~~~~~~~~E~r~Pl~~~~~~~~l~~~~F~D~Gnv~~~~~~~~~~--~~~~~~~r~s~G~Glr~~tPiGP  713 (741)
T TIGR03303       636 DINDSGDSIGGNAYATGNVELIFPLPFLPEDNGLRGSVFFDAGNVWGTDQDKAGD--YSDDSSLRASVGVGLRWISPMGP  713 (741)
T ss_pred             CCCCCCCCCCCEEEEEEEEEEEEECCCCCCCCEEEEEEEEEECCCCCCCCCCCCC--CCCCCCEEEEEEEEEEEECCCCC
T ss_conf             4578887546689999999999425888866618999999815635777776666--47868646899999999877216


Q ss_pred             EEEEEEEECCCCCCCEEEEEEEEEEECC
Q ss_conf             5899887226778760258999641059
Q gi|254780772|r  754 MGVYYGIPLRHREGDKIQQFGFRIGNRM  781 (781)
Q Consensus       754 irld~a~pl~~~~~D~~~~f~FsiG~~f  781 (781)
                      |||||||||++.++|..++|||+|||+|
T Consensus       714 lrld~a~pl~~~~~d~~~~f~F~iG~~F  741 (741)
T TIGR03303       714 LRFSYAKPLKKKKGDKTQSFQFNIGTTF  741 (741)
T ss_pred             EEEEEEECCCCCCCCCEEEEEEECCCCC
T ss_conf             8999997678888986118999585659


No 3  
>COG4775 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]
Probab=100.00  E-value=0  Score=1123.27  Aligned_cols=752  Identities=32%  Similarity=0.580  Sum_probs=686.7

Q ss_pred             HHHHHHHHHHHHHHHHHCCCCEEEEEEEEECCCCCCHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEEECC
Q ss_conf             99999999999998751146526858999665007988999974878988268899999999999679800389998699
Q gi|254780772|r   25 MGFIILFYAIFGLSAVYGSNTSIVRRIEIRGATNVGKEVILSRIPVVVGQSISDADLDHAVKNIYAMGYFSNVKIKIVDS  104 (781)
Q Consensus        25 ~~~~~~~~~~~~~~~~~~~~~~~i~~I~i~G~~~i~~~~i~~~~~~~~G~~~~~~~i~~~i~~l~~~g~F~~v~~~~~~~  104 (781)
                      |+..+..++++..+.+.+++..+|++|+|+|+++++.++++..+++++|+.+++++++++||+||+||||+||++..+++
T Consensus         3 ~~~~~~~~~l~~~~~~~~a~~~vv~~I~v~G~~~~~~~~~~~~l~~~~G~~~s~~~i~~~ik~L~~tg~F~~v~~~~~~~   82 (766)
T COG4775           3 MKKLLSALLLFASASAVAAEAFVVKDIRVEGLQRVSSGTALSYLPVRVGDTVSDEDIDEAIKALYATGYFEDVRVEREGG   82 (766)
T ss_pred             HHHHHHHHHHHHHCCHHHCCCEEEEEEEEECCCCCCHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCCCEEEEECCC
T ss_conf             57889999987513111033627878999655424512366415735575136778899999997168976137887098


Q ss_pred             EEEEEEEECCEEEEEEEECCCCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEEEEEECCCCCEEE
Q ss_conf             89999993653657999565436988998873005786379999999999999999972970017998764338984258
Q gi|254780772|r  105 VLIIDLIERKIINHLFFSGNNNLKDDQLKMIVRSRSAAAYDEDTVNADVHNIKQAYASIGYLNVMVKVQHHSISPTTLNI  184 (781)
Q Consensus       105 ~l~~~v~e~p~i~~i~~~Gn~~~~~~~l~~~~~~~~g~~~~~~~~~~~~~~i~~~y~~~Gy~~a~V~~~~~~~~~~~v~i  184 (781)
                      .|+++|+|+|.|++|.|+||+.+++++|++.+.+++|++|+...++++.++|++.|...||+.++|++++++.++++|+|
T Consensus        83 ~Lvv~V~e~p~I~~v~~~Gn~~i~~~~L~~~l~~~~g~~~~~~~l~~~~~~l~e~Y~~~G~~~~~v~~~~~~~~~~~v~v  162 (766)
T COG4775          83 TLVVTVKERPVINSVVFSGNKSIKDDALKKNLKIKPGEVLNRAKLEADVEALKEAYLSRGYYSVKVTYKVTPLPRNRVDV  162 (766)
T ss_pred             EEEEEEECCCCEEEEEEECCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHCCEECCEEEEEEEECCCCEEEE
T ss_conf             79999962772878998687137758988753647787345789998999999988746830434679878779970799


Q ss_pred             EEEEECCCCEEEEEEEEECCCCCCHHHHHHHHHCCCCCCCC-CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCC-CCC
Q ss_conf             89860366324677875044311012222111001221124-4566643102333345788888875423221001-231
Q gi|254780772|r  185 TYVIEEGVKAKINSIRFVGNKNYSHARLERVISIRTSGYFS-FGKTDVYSKERMSFDEEAIRAFYHDRGYAAVKVS-SQV  262 (781)
Q Consensus       185 ~~~I~EG~~~~I~~I~f~Gn~~f~~~~L~~~~~~k~~~~~~-~~~~~~~~~~~l~~D~~~l~~~Y~~~GY~d~~V~-~~~  262 (781)
                      .|.|+||++.+|+.|.|+||++|++++|+++|.+++..+|. ++..+.|++++++.|+++|++||+++||+|++|. +++
T Consensus       163 ~f~i~eG~~~~i~~I~~~Gn~~~s~~~l~~~~~~k~~~~~~~~~~~~~y~~~~l~~D~e~lr~~Y~n~Gy~d~~v~s~~~  242 (766)
T COG4775         163 VFVINEGPSAKIKQINFEGNTAFSDSDLESVVQTKESNIWGWLTRLDKYDPDKLEADLETLRSFYLNRGYADFRVSSTQV  242 (766)
T ss_pred             EEEECCCCCCCCCEEEEECCCCCCCHHHHHHEEECCCEEEEEEECCCCCCHHHHHCCHHHHHHHHHHCCEEEEEEEEEEE
T ss_conf             99937997210014687055443601223331520220588871566127666306289999999757628999864130


Q ss_pred             CCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCEECCCCCCHHHHHCCCCCCCCCCCCCCCCC
Q ss_conf             01245555410122022221000001233344455767777532116996211210000000000002344564201123
Q gi|254780772|r  263 LFDKQKSGYVLIFQIDEGEIYTVGNISIQSTLQEIQKKTLLSLIRIRSGNLYNPQEIKESSEKISKYFFSGERPFVRVKT  342 (781)
Q Consensus       263 ~~~~~~~~~~i~~~I~EG~~y~i~~i~i~g~~~~~~~~~l~~~~~~k~G~~~~~~~~~~~~~~i~~~y~~~GY~fa~v~~  342 (781)
                      ..+++++.+.|++.|+||+||++++|.++|++. ...++|.+++++++|++|+..+++++.++|.+.|.+.||++++|.|
T Consensus       243 ~~~~~k~~~~vt~~V~EG~~y~~~~i~i~g~~~-~~~~el~~~~~~~~g~~fn~~~i~~~~~~I~~~~~~~GY~~a~V~p  321 (766)
T COG4775         243 SLDPDKKGVTVTYTVKEGPQYKFGSVLIEGNLA-GVSEELEKLLKVKPGKLFNRKKIEDDADKIKERYARYGYAFANVSP  321 (766)
T ss_pred             CCCCCCCCEEEEEEECCCCCEEEEEEEEECCCC-CCHHHHHHHHCCCCCCEECHHHHHHHHHHHHHHHHHCCCEEEEEEE
T ss_conf             345787637999997448833788899975766-7389987765458895276899888999999999865930368610


Q ss_pred             CCCCCCCCCEEEEEEECCCCCCCEEECCCCCCCCCCCCCCCHHHCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf             32234344046655412333220110033334320033210010010000000123444566677651012344533254
Q gi|254780772|r  343 RINRDFAKRIVDIEYLIDQGSPLYVKRIEIEGNDQSYDSVIRRELELSEGDPINYSMIERAKRRIMATGYFSEVNISQLP  422 (781)
Q Consensus       343 ~~~~d~~~~~vdi~~~I~eg~~~~i~~I~I~GN~~T~d~VIrrel~~~~Gd~~~~~~i~~s~~~L~~lg~F~~V~i~~~~  422 (781)
                      ++..|.++++++|.|.|++|+++||++|.|.||.+|+|+||||||+++|||+||+.+++++++||++||||++|+++..|
T Consensus       322 ~~~~n~~~~tv~v~~~V~~g~~~~V~~i~i~gn~rT~D~VIrRE~~~~eGd~fn~~~v~~~~~rL~~lgyF~~V~i~~~~  401 (766)
T COG4775         322 QPDANDENKTVDVVFRVDEGDRVYVRRIRIRGNTRTKDYVIRREMRLKEGDVFNRKLVQRGKRRLRRLGYFESVNIDTAP  401 (766)
T ss_pred             ECCCCCCCCEEEEEEEEECCCCEEEEEEEECCCCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEECC
T ss_conf             11338888589999999758833664544527873031776645532773223389999999999846883345788555


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCCCEEEEEEECCCCEEEEEEEECCCCCCCC
Q ss_conf             43565431023322112211111111122332110000011123332344220037874112211113454112357775
Q gi|254780772|r  423 ANDVSDYVILRVSVKQLSAGSVGIATNYEVDKGMGVEGHIDDNNFFGQGYRARLAAGFGRHAVQNYTFSVEDPYFLGSPI  502 (781)
Q Consensus       423 ~~~~~~~vdl~i~v~E~~tg~~~~g~gys~~~g~~~~~~~~~~Nl~G~G~~l~l~~~~~~~~~~~~~~s~~~P~~~~~~~  502 (781)
                      .++.+ +|||+++|+|++||++++|+||++.+|+.+.++++++||+|+|+.+++.++.+.. .+.++++|++|||.++++
T Consensus       402 ~~~~~-~vdvvv~VkE~~Tgsi~~G~Gy~s~~gl~~~~s~~e~N~~G~G~~~~~~~~~g~~-~~~~~l~ft~P~f~~~~~  479 (766)
T COG4775         402 GSGSD-QVDVVVDVKERSTGSINFGLGYGSDSGLSGFASLSERNFLGTGQSLSLNANLGDK-QTSYSLSFTDPYFLDDRV  479 (766)
T ss_pred             CCCCC-EEEEEEEEEECCCEEEEECCCCCCCCCEEEEEEEEEEECCCCCCEEEEEEEECCC-EEEEEEEEECCCCCCCCC
T ss_conf             89997-0799999875672059864300688864899999983047656389999984341-689888875555468882


Q ss_pred             CCCCCCCCCCC-----CCC--CCCCCCCCCEEEEEEECCCCEEEEECCCEEEEEEECCCCCCC-CCHHHHHHHCCCCCEE
Q ss_conf             43100111133-----333--343233320245542025430235404125776401467544-2011122101585024
Q gi|254780772|r  503 SAGFDLQKTHL-----EDG--SLDINDESAAVRMIVPITESISTSFKYDLRFLQYGAISEKEK-IPSIYTTLIEHGKFSS  574 (781)
Q Consensus       503 s~~~~~~~~~~-----~~~--~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~  574 (781)
                      +++++++++.+     +..  +|+..+.|+.+++++|++++.+++++|.+.+.+......... .........+.+....
T Consensus       480 slg~~~f~~~~~~~~~~~~~~~y~~~~~G~~~~lg~pi~e~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  559 (766)
T COG4775         480 SLGFNLFSNRYDTFDADTANDSYRVKTYGGGVSLGRPITENLSLGLGYGYEQNSLSLLNKSPPDEYASLGVKLQGGKSDL  559 (766)
T ss_pred             EEEEEEEEEEECCCCCCCCCCCCEEEECCCEEEECCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCCCCCEE
T ss_conf             36778674221133223444551576104348856632677338999889997861366676654445221324576224


Q ss_pred             EEEEEEECCCCCCCCCCCCCCEEEEEEECCCCCCCCCEEEEEEEEEEEEEEECCCE-EEEEEEEEEEEEEECCCCCCCCH
Q ss_conf             67884321554201100246515654202456555420366663004799935880-99999999789851699741230
Q gi|254780772|r  575 HSISQSIIYNTLDNPIVPRKGMLISSSYDYAGFGGDSQYHRIGSRASYFYLLSDDS-DIVGSLRFGYGCVIPSNKNLQLF  653 (781)
Q Consensus       575 ~~i~~~l~~dtrD~~~~Pt~G~~~~~~~~~a~~g~d~~f~k~~~~~~~y~~l~~~~-~l~~~~~~g~~~~~~~~~~lp~~  653 (781)
                      ++++++|+||+||++++||+|++.+...+++++|||.+|+|+++++++|+|+.+.. ++.++..+|++..++... +|++
T Consensus       560 ~~~s~~~tyD~rD~~~~Pt~G~~~~~~~e~~~~Ggd~~~~K~~~~~~~Y~~l~~~~~~l~~~~~~g~~~~~g~~~-~p~~  638 (766)
T COG4775         560 SSLSLGWTYDTRDNALFPTKGSYLSLTQEVAGLGGDIKYYKLELDGSKYYPLTDYIFTLSLRGEVGYGKGYGTKL-LPIY  638 (766)
T ss_pred             EEEEEEEEECCCCCCCCCCCCEEEEEEEEEECCCCCCEEEEEEEEEEEEEECCCCCEEEEEEEEEEEEECCCCCC-CCCC
T ss_conf             799975888277776799887288434697235776217999998999998354307998777888760458735-4642


Q ss_pred             HEEEECCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEEEEEEECCCCCCCCCEEEEEEEEEEEEECCCCCCCCC-CCCC
Q ss_conf             127507897140212686155037997222147899999999614565654537999999767741566667754-4456
Q gi|254780772|r  654 DQFSVSSNYYLRGFAYKGIGPRVDKKYAIGGKIYSSASAAVSFPMPLVPERAGLRGAFFVDSATLYANHVALGAD-KLEG  732 (781)
Q Consensus       654 erF~lGG~~svRGy~~~~iGP~~~~~~~~GG~~~~~~s~E~r~pl~~~~~~~~l~~~~F~D~G~v~~~~~~~~~~-~~~~  732 (781)
                      ++|++||.+|||||+.+.+||++..++++||+.++.+|+|++||+|..+.. ++++++|+|+|.+|+........ ....
T Consensus       639 e~F~~GG~~svRGf~~~~igp~~~~~~~~GG~~~~~~S~El~fPl~~~~~~-~~r~~lF~D~G~v~~~~~~~~~~~~~~~  717 (766)
T COG4775         639 ERFYLGGSNSVRGFESGGLGPKDGYTDALGGTSYFVASAELRFPLPKVIGS-GVRGALFFDAGSVWNTGTDPSTVRNFYG  717 (766)
T ss_pred             CCEEECCCCCCCCEECCCCCCCCCCCCCCCCEEEEEEEEEEEEECCCCCCC-CEEEEEEEECCCCCCCCCCCCCCCCCCC
T ss_conf             325607975223644488487643455567628999989998106777776-5389999973512366766555557767


Q ss_pred             CCCCEEEEEEEEEEEECCCCCEEEEEEEECCCCCCCEEEEEEEEEEECC
Q ss_conf             7664247999999975570015899887226778760258999641059
Q gi|254780772|r  733 NDSFWRVSTGVEIMWNSPLGMMGVYYGIPLRHREGDKIQQFGFRIGNRM  781 (781)
Q Consensus       733 ~~~~~r~s~G~Glr~~tP~Gpirld~a~pl~~~~~D~~~~f~FsiG~~f  781 (781)
                      ....+|.|+|+||+|.+|+||||||||+|+.+.++|..++|||+||++|
T Consensus       718 ~~~~~r~S~Gvgl~w~sP~gPlr~d~a~pi~~~~~D~~q~F~F~iG~~F  766 (766)
T COG4775         718 SGSELRASAGVGLRWASPLGPLRFDYAFPIKKKEGDDTQRFQFGLGTRF  766 (766)
T ss_pred             CCCCEEEEEEEEEEEECCCCCEEEEEECCCCCCCCCCCEEEEEEECCCC
T ss_conf             6733367762257896687767998611233677875116999704529


No 4  
>COG0729 Outer membrane protein [Cell envelope biogenesis, outer membrane]
Probab=100.00  E-value=0  Score=443.14  Aligned_cols=506  Identities=18%  Similarity=0.267  Sum_probs=375.5

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCC--CCCCCCCCCHHHHHHH---HHCCCCCEE
Q ss_conf             45788888875423221001231012455554101220222210000012--3334445576777753---211699621
Q gi|254780772|r  240 DEEAIRAFYHDRGYAAVKVSSQVLFDKQKSGYVLIFQIDEGEIYTVGNIS--IQSTLQEIQKKTLLSL---IRIRSGNLY  314 (781)
Q Consensus       240 D~~~l~~~Y~~~GY~d~~V~~~~~~~~~~~~~~i~~~I~EG~~y~i~~i~--i~g~~~~~~~~~l~~~---~~~k~G~~~  314 (781)
                      +..+...+|...++++..|      ...+....+..+|..|++-++..+.  +.|. . ...+.+...   ...++|..+
T Consensus        77 ~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~v~pg~~~~i~~~~~~~~G~-a-~~d~~~~~~~~~~~~~~G~~~  148 (594)
T COG0729          77 DGLRALGYLQPKGRFGGKV------SVTEKRGKLIAKVTPGEPTPIAVVIVVLPGP-A-FTDGDYRLLGDAAGPKEGEDL  148 (594)
T ss_pred             HHHHHHCEECCEEEECCCC------EEECCCCCEEEECCCCCCCCCCEEEEECCCC-C-CCCHHHHHHHHHHCCCCCCCC
T ss_conf             6776420004503541431------0003455213323899986653256622462-0-037346554343121358735


Q ss_pred             CCCCCCHHHHHCCCCCCCCCCCCCCC-CCCCCCCCCCCEEEEEEECCCCCCCEEECCCCCCCCCCCCCCCHHHCCCCCCC
Q ss_conf             12100000000000023445642011-23322343440466554123332201100333343200332100100100000
Q gi|254780772|r  315 NPQEIKESSEKISKYFFSGERPFVRV-KTRINRDFAKRIVDIEYLIDQGSPLYVKRIEIEGNDQSYDSVIRRELELSEGD  393 (781)
Q Consensus       315 ~~~~~~~~~~~i~~~y~~~GY~fa~v-~~~~~~d~~~~~vdi~~~I~eg~~~~i~~I~I~GN~~T~d~VIrrel~~~~Gd  393 (781)
                      ++..+.+....+.....+.||+.+++ ..+..+|.+.++|++.+.++.|+++.++.|.++|-.+..+..+++-+++.+|+
T Consensus       149 ~~~~~~n~k~~i~~~~~~~gy~~a~~~~~r~~v~~~~~~a~~~~~~dsG~~y~~g~v~~~g~~r~~~~~~~~~~~~~~G~  228 (594)
T COG0729         149 NQGTYENAKSSIVRALLRKGYFLARFTKSRLVVDPATHTADVDLNYDSGRRYRFGPVTVEGSQRIDEEYLQNLVPFKYGL  228 (594)
T ss_pred             CCCHHHHHHHHHHHHHHHCCCCHHCCCCCCCCCCCCCCEEEEEEEECCCCEEEECCEEECCCEECCHHHHHHCCCCCCCC
T ss_conf             65211114678999998728300025403011162315688998633541697676797166035877876303666788


Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCCC
Q ss_conf             0012344456667765101234453325443565-431023322112211111111122332110000011123332344
Q gi|254780772|r  394 PINYSMIERAKRRIMATGYFSEVNISQLPANDVS-DYVILRVSVKQLSAGSVGIATNYEVDKGMGVEGHIDDNNFFGQGY  472 (781)
Q Consensus       394 ~~~~~~i~~s~~~L~~lg~F~~V~i~~~~~~~~~-~~vdl~i~v~E~~tg~~~~g~gys~~~g~~~~~~~~~~Nl~G~G~  472 (781)
                      +|..+++.+..+||.++++|++|.+++...+..+ ..+++.+.+.|++...+.+|+||+++.|+.+.+.|.++|+||+|+
T Consensus       229 ~Y~~~~l~~~~~rl~~~~~F~sv~v~~~~~~~~~~~~~pv~v~~~~rk~~~~~lG~gyst~~G~~~~~~w~~~~~~~~~~  308 (594)
T COG0729         229 PYDPEDLAELNQRLRQTGYFSSVVVQPADKQAGPDGLLPVKVSVSERKENTFELGVGYSTDVGAGLEAGWEKRNLFGRGH  308 (594)
T ss_pred             CCCHHHHHHHHHHHHHCCCEEEEEEECCCCCCCCCCEECEEEEECCCCCCEEEEEEEEECCCCCCCEEEEEEECCCCCCE
T ss_conf             67877999999987615850348981275555767603539885246553377646884263565168863422357650


Q ss_pred             CCCEEEEEEECCCCEEEEEEEECCCCCCC-CCCCCCCCCCCCCCCCCCCCCCC--CEEEEEEECCCCEEEEECCCEEEEE
Q ss_conf             22003787411221111345411235777-54310011113333334323332--0245542025430235404125776
Q gi|254780772|r  473 RARLAAGFGRHAVQNYTFSVEDPYFLGSP-ISAGFDLQKTHLEDGSLDINDES--AAVRMIVPITESISTSFKYDLRFLQ  549 (781)
Q Consensus       473 ~l~l~~~~~~~~~~~~~~s~~~P~~~~~~-~s~~~~~~~~~~~~~~y~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~  549 (781)
                      ++..+..+++.. |.+..+|..|.++..+ .-...+.+....+...-.....+  .+...++.....+...+..++....
T Consensus       309 ~l~~~~~is~~~-~~~~~~y~~p~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~l~~~~~~~~~~~~~~~~~~r~~~~~  387 (594)
T COG0729         309 SLRIESEISAPL-QTLEATYKAPLLFNPLGQYNPVSAGFDRLDLYDTESDAYTESLSASRGWDASLGWQRSLALRFSYDN  387 (594)
T ss_pred             EEEEEEEECCCH-HCCCEEEEEECCCCCCCCEECCCCCCCCHHHHCCCCCCCCCEEEEEEHHCCCCCCEEEEEEEEECCC
T ss_conf             575412660001-0175379820135876512033223442011014432234313111000003672037888887255


Q ss_pred             EECCCCCCCCCHHHHHHHCCCCCEEEEEEEEECCCCCCCCCCCCCCEEEEEEECCC--CCCCCCEEEEEEEEEEEEEEEC
Q ss_conf             40146754420111221015850246788432155420110024651565420245--6555420366663004799935
Q gi|254780772|r  550 YGAISEKEKIPSIYTTLIEHGKFSSHSISQSIIYNTLDNPIVPRKGMLISSSYDYA--GFGGDSQYHRIGSRASYFYLLS  627 (781)
Q Consensus       550 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~dtrD~~~~Pt~G~~~~~~~~~a--~~g~d~~f~k~~~~~~~y~~l~  627 (781)
                       ....          .......+....+.+++.||+ |+..+||.|+.+.+.++.+  .++|+..|..+.....|+....
T Consensus       388 -~~~~----------~~~~~~~~~~~g~~~~~~~~~-dd~~~Pt~G~~~~~~~~~s~~~~~s~~~~~~~~~~~~~~~~~~  455 (594)
T COG0729         388 -FRQG----------DISGKTSLLTPGVEFSYTRDT-DDGLFPTWGDRLDLTIGPSYEALGSDVDFRLVQARSGYLRTGG  455 (594)
T ss_pred             -CCCC----------CCCCCCEEEECCEEEEEEECC-CCCCCCCCCCEEEEEEEECCCCCCCCHHHHHHHCCCEEEECCC
T ss_conf             -4346----------545783577423478999716-8877887650455552001011457257765431350551376


Q ss_pred             CCEEEEEEEEEEEEEEECCCCCCCCHHEEEECCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEEEEEEECCCCCCCCCE
Q ss_conf             88099999999789851699741230127507897140212686155037997222147899999999614565654537
Q gi|254780772|r  628 DDSDIVGSLRFGYGCVIPSNKNLQLFDQFSVSSNYYLRGFAYKGIGPRVDKKYAIGGKIYSSASAAVSFPMPLVPERAGL  707 (781)
Q Consensus       628 ~~~~l~~~~~~g~~~~~~~~~~lp~~erF~lGG~~svRGy~~~~iGP~~~~~~~~GG~~~~~~s~E~r~pl~~~~~~~~l  707 (781)
                      ..+.++.+..+|+... ..-+.+|++.|||+||..|||||.+++|||++.++.++||..++..++|++|++.     .++
T Consensus       456 ~~~~~~~R~~~G~il~-~~~~~vPps~rFfaGG~~svRGY~y~sI~p~~~~g~~~Gg~~l~~~s~Ey~~~~t-----~~~  529 (594)
T COG0729         456 ADHRLAGRGELGAILT-GDLDDVPPSLRFFAGGDRSVRGYGYQSIGPQDANGDLLGGRSLVTGSLEYQYLVT-----DPW  529 (594)
T ss_pred             CCEEEEEECCCCEEEE-CCCCCCCCCEEEECCCCCCEECCCCCCCCCCCCCCCCCCCEEEEEEEEEEEEECC-----CCE
T ss_conf             4248887223213850-7500189510464079741515203223676778973264689996279999634-----866


Q ss_pred             EEEEEEEEEEEECCCCCCCCCCCCCCCCCEEEEEEEEEEEECCCCCEEEEEEEECCCCCCCEEEEEEEEEEECC
Q ss_conf             99999976774156666775444567664247999999975570015899887226778760258999641059
Q gi|254780772|r  708 RGAFFVDSATLYANHVALGADKLEGNDSFWRVSTGVEIMWNSPLGMMGVYYGIPLRHREGDKIQQFGFRIGNRM  781 (781)
Q Consensus       708 ~~~~F~D~G~v~~~~~~~~~~~~~~~~~~~r~s~G~Glr~~tP~Gpirld~a~pl~~~~~D~~~~f~FsiG~~f  781 (781)
                      ++++|+|+|.||++.....        +.++.++|+|+||.||+||||||+|+||++.+ |+.-+||++|||.|
T Consensus       530 ~~a~FvD~G~a~n~~~~~~--------~d~k~G~Gigvr~~SPvGPIr~DiA~pl~~~~-~~~~~~Yi~iG~~f  594 (594)
T COG0729         530 GLAVFVDAGSAGNNFTRLF--------SDLKKGAGIGVRWDSPVGPIRFDIAVPLEDKD-DKKFQFYIGIGQEF  594 (594)
T ss_pred             EEEEEEECCCCCCCCCHHH--------HHHHCCCEEEEEECCCCCCEEEEEECCCCCCC-CCCEEEEEEECCCC
T ss_conf             8999987265335886455--------44202523667654886875777432555567-88716999815669


No 5  
>pfam01103 Bac_surface_Ag Surface antigen. This entry includes the following surface antigens; D15 antigen from H.influenzae, OMA87 from P.multocida, OMP85 from N.meningitidis and N.gonorrhoeae. The family also includes a number of eukaryotic proteins that are members of the UPF0140 family. There also appears to be a relationship to pfam03865 (personal obs: C Yeats). In eukaryotes, it appears that these proteins are not surface antigens; S. cerevisiae YNL026W (SAM50) is an essential component of the Sorting and Assembly Machinery (SAM) of the mitochondrial outer membrane. The protein was localized to the mitochondria.
Probab=100.00  E-value=0  Score=410.88  Aligned_cols=309  Identities=29%  Similarity=0.536  Sum_probs=264.1

Q ss_pred             CCCCCCCCCCEEEEEEECCCCEEEEEEEECCCCCCCCCCCCCCCCCCCC---CCCCCCCCCCCEEEEEEECCCCEEEEEC
Q ss_conf             3332344220037874112211113454112357775431001111333---3334323332024554202543023540
Q gi|254780772|r  466 NFFGQGYRARLAAGFGRHAVQNYTFSVEDPYFLGSPISAGFDLQKTHLE---DGSLDINDESAAVRMIVPITESISTSFK  542 (781)
Q Consensus       466 Nl~G~G~~l~l~~~~~~~~~~~~~~s~~~P~~~~~~~s~~~~~~~~~~~---~~~y~~~~~~~~~~~~~~~~~~~~~~~~  542 (781)
                      ||+|+|++++++++.++. .+.++++|++||+++++++++++++.++.+   ...|+.++.++.+++++++.+...++++
T Consensus         1 N~~G~G~~l~~~~~~~~~-~~~~~~~~~~P~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~~g~~~~~~~~~~~~~~~~~~   79 (317)
T pfam01103         1 NLLGRGQSLSVSLSYSQY-EQSFSLSFTDPYFLGDGLSLGYSLFYNTYDEDEYDSYDTKSVGFSLSLGYPISENWSLSLG   79 (317)
T ss_pred             CCCCCCEEEEEEEEECCC-EEEEEEEEEECCCCCCCCEEEEEEEEEEEECCCCCCCEEEEEEEEEEEEEECCCCCEEEEE
T ss_conf             968878799999996755-8999999983776999928999999999985767651688776899999992788447788


Q ss_pred             CCEEEEEEECCCCCCCCCHHHHHHHCCCCCEEEEEEEEECCCCCCCCCCCCCCEEEEEEECCCCC--CCCCEEEEEEEEE
Q ss_conf             41257764014675442011122101585024678843215542011002465156542024565--5542036666300
Q gi|254780772|r  543 YDLRFLQYGAISEKEKIPSIYTTLIEHGKFSSHSISQSIIYNTLDNPIVPRKGMLISSSYDYAGF--GGDSQYHRIGSRA  620 (781)
Q Consensus       543 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~dtrD~~~~Pt~G~~~~~~~~~a~~--g~d~~f~k~~~~~  620 (781)
                      +.++..++........   ......+.+....++++++++||+||++++|++|+++++..+++++  ++|.+|+|+.+++
T Consensus        80 ~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~d~rD~~~~Pt~G~~~~~~~~~~~~~~~~d~~f~k~~~~~  156 (317)
T pfam01103        80 LSYSRDKIRDEDGSDN---IRNYASQTGKSLLSSLSFGLSYDTRDNGLFPTRGYYLRFNLEFAGPILGGDVKFLKLTGDA  156 (317)
T ss_pred             EEEEEEEEEECCCCCC---CHHHHHCCCCEEEEEEEEEEEEECCCCCCCCCCCEEEEEEEEEECCCCCCCCCEEEEEEEE
T ss_conf             9999999982588642---0014422883699999999999656775577621489888898035577876337899999


Q ss_pred             EEEEEECCCEEEEEEEEEEEEEE--ECCCCCCCCHHEEEECCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEEEEEEEC
Q ss_conf             47999358809999999978985--1699741230127507897140212686155037997222147899999999614
Q gi|254780772|r  621 SYFYLLSDDSDIVGSLRFGYGCV--IPSNKNLQLFDQFSVSSNYYLRGFAYKGIGPRVDKKYAIGGKIYSSASAAVSFPM  698 (781)
Q Consensus       621 ~~y~~l~~~~~l~~~~~~g~~~~--~~~~~~lp~~erF~lGG~~svRGy~~~~iGP~~~~~~~~GG~~~~~~s~E~r~pl  698 (781)
                      ++|+||.+...++++.+++.+..  ....+.+|+++||++||.++||||++++|||++..++++||+.++.+++|+|+|+
T Consensus       157 ~~y~~l~~~~~~~l~~~~~~g~~~~~~~~~~ip~~~rF~lGG~~svRGf~~~~lgP~~~~~~~~GG~~~~~~~~E~r~pl  236 (317)
T pfam01103       157 SWYYPLGEDHDFVLAARVGLGYLLGYGAKDKLPPSERFFAGGSNSVRGYGYGSIGPRDEDGDALGGRSYFTASAELRYPL  236 (317)
T ss_pred             EEEEECCCCCCEEEEEEEEEEEEECCCCCCCCCHHHEEECCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEEEEEEEC
T ss_conf             99999445873899998671187616888857966846138986435623376388766886368738999999999867


Q ss_pred             CCCCCCCCEEEEEEEEEEEEECCCCCCCCCCCCCCCCCEEEEEEEEEEEECCCCCEEEEEEEECCCCCCCEEE-EEEEEE
Q ss_conf             5656545379999997677415666677544456766424799999997557001589988722677876025-899964
Q gi|254780772|r  699 PLVPERAGLRGAFFVDSATLYANHVALGADKLEGNDSFWRVSTGVEIMWNSPLGMMGVYYGIPLRHREGDKIQ-QFGFRI  777 (781)
Q Consensus       699 ~~~~~~~~l~~~~F~D~G~v~~~~~~~~~~~~~~~~~~~r~s~G~Glr~~tP~Gpirld~a~pl~~~~~D~~~-~f~Fsi  777 (781)
                      +.   ...+++++|+|+|+||+...+............+|+|+|+||||.||+||||||||+||+++++|+++ +|||+|
T Consensus       237 ~~---~~~~~~~~F~D~G~~~~~~~~~~~~~~~~~~~~~~~s~G~Glr~~tP~gpi~ld~a~pl~~~~~d~~~~~f~F~i  313 (317)
T pfam01103       237 PF---IPNLRGALFVDAGNVWNSGGDTPGGSDGVRSKNIRASVGVGLRWDSPFGPLRFDYAIPLKKPDGDRTEFRFYFGI  313 (317)
T ss_pred             CC---CCCEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEEEEEEEEECCEEEEEEEEEECCCCCCCCCCCEEEEEEC
T ss_conf             88---896799999980175045677775444356787779999999997781879999998766777887220899984


Q ss_pred             EECC
Q ss_conf             1059
Q gi|254780772|r  778 GNRM  781 (781)
Q Consensus       778 G~~f  781 (781)
                      |++|
T Consensus       314 G~~F  317 (317)
T pfam01103       314 GTEF  317 (317)
T ss_pred             CCCC
T ss_conf             0569


No 6  
>TIGR03303 OM_YaeT outer membrane protein assembly complex, YaeT protein. Members of this protein family are the YaeT protein of the YaeT/YfiO complex for assembling proteins into the outer membrane of Gram-negative bacteria. This protein is similar in sequence and function to a non-essential paralog, YtfM, that is also in the Omp85 family. Members of this family typically have five tandem copies of the surface antigen variable number repeat (pfam07244), followed by an outer membrane beta-barrel domain (pfam01103), while the YtfM family typically has a single pfam07244 repeat.
Probab=100.00  E-value=3.4e-44  Score=306.59  Aligned_cols=308  Identities=22%  Similarity=0.384  Sum_probs=261.2

Q ss_pred             CCCEEEEEEEEECCCCCCHHHHHHHC-CCCCCCCCCHHHHHHHHHHH---HH-CCCCC-EEEEEEE---CC--EEEEEEE
Q ss_conf             46526858999665007988999974-87898826889999999999---96-79800-3899986---99--8999999
Q gi|254780772|r   43 SNTSIVRRIEIRGATNVGKEVILSRI-PVVVGQSISDADLDHAVKNI---YA-MGYFS-NVKIKIV---DS--VLIIDLI  111 (781)
Q Consensus        43 ~~~~~i~~I~i~G~~~i~~~~i~~~~-~~~~G~~~~~~~i~~~i~~l---~~-~g~F~-~v~~~~~---~~--~l~~~v~  111 (781)
                      .+..+|.+|.++||+.++++.++..+ ++++|+.+++..+++++++|   |+ -|||. .|+++.+   ++  .++|.|.
T Consensus        66 ~E~p~i~~i~~~G~~~~~~~~l~~~l~~lk~g~~~~~~~~~~~~~~I~~~Y~~~Gy~~~~V~~~~~~~~~~~v~v~f~I~  145 (741)
T TIGR03303        66 KERPIINSIVFSGNKEIKKEQLKKALVGIKKGEIFDRAKLEKDEKALKEFYRSRGKYNAEVEAKVTPLPRNRVDLEFNIK  145 (741)
T ss_pred             EECCEEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEEEEEECCCCEEEEEEEEE
T ss_conf             96763999999998558989999887455789703999999999999999996695204999999988998799999995


Q ss_pred             ECC--EEEEEEEECCCCCCHHHHHHHHHHCCC---------CCCCHHHHHHHHHHHHHHHHHCCCCEEEEEE-EEEE-CC
Q ss_conf             365--365799956543698899887300578---------6379999999999999999972970017998-7643-38
Q gi|254780772|r  112 ERK--IINHLFFSGNNNLKDDQLKMIVRSRSA---------AAYDEDTVNADVHNIKQAYASIGYLNVMVKV-QHHS-IS  178 (781)
Q Consensus       112 e~p--~i~~i~~~Gn~~~~~~~l~~~~~~~~g---------~~~~~~~~~~~~~~i~~~y~~~Gy~~a~V~~-~~~~-~~  178 (781)
                      |.+  .|.+|.|+||+.+++++|++.+..++.         ..|++..++.|+++|+++|+++||++|+|.. +++- .+
T Consensus       146 Eg~~~~I~~I~f~Gn~~fs~~~L~~~~~~k~~~~~~~~~~~~~~~~~~l~~D~~~l~~fY~~~Gy~d~~v~~~~v~~~~~  225 (741)
T TIGR03303       146 EGKKAKIKKINFVGNKAFSDSELRDVFALKESNFLSWFTGDDKYSKQKLEADLELLRSFYLNRGYLDFKVESTQVSITPD  225 (741)
T ss_pred             CCCEEEEEEEEEECCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEECCCEEECCC
T ss_conf             38858999999988742676898877752664120023667833999998799999999976052037983220388378


Q ss_pred             CCCEEEEEEEECCCCEEEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             98425889860366324677875044311012222111001221124456664310233334578888887542322100
Q gi|254780772|r  179 PTTLNITYVIEEGVKAKINSIRFVGNKNYSHARLERVISIRTSGYFSFGKTDVYSKERMSFDEEAIRAFYHDRGYAAVKV  258 (781)
Q Consensus       179 ~~~v~i~~~I~EG~~~~I~~I~f~Gn~~f~~~~L~~~~~~k~~~~~~~~~~~~~~~~~l~~D~~~l~~~Y~~~GY~d~~V  258 (781)
                      ++.+.|+|.|+||++++|.+|.|+||..+++++|++++.+++        ++.|+++.++.++++|+++|.++||..++|
T Consensus       226 ~~~~~i~~~I~EG~~Y~i~~i~~~Gn~~~~~~~l~~~~~~~~--------g~~y~~~~i~~~~~~I~~~y~~~Gy~fa~v  297 (741)
T TIGR03303       226 KKGVYITYNIKEGEQYKFGEVNLEGDLIGPDEELKKLVKIKK--------GEVFNREKVTKIVKAIKDLLGDKGYAFANV  297 (741)
T ss_pred             CCEEEEEEEECCCCCEEEEEEEEECCCCCCHHHHHHHHCCCC--------CCCCCHHHHHHHHHHHHHHHHHCCCCEEEE
T ss_conf             863999999867881566799972577789899997654468--------865158899999999999998569743899


Q ss_pred             CCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCEECCCCCCHHHHHCCCCCCCCCCCCC
Q ss_conf             12310124555541012202222100000123334445576777753211699621121000000000000234456420
Q gi|254780772|r  259 SSQVLFDKQKSGYVLIFQIDEGEIYTVGNISIQSTLQEIQKKTLLSLIRIRSGNLYNPQEIKESSEKISKYFFSGERPFV  338 (781)
Q Consensus       259 ~~~~~~~~~~~~~~i~~~I~EG~~y~i~~i~i~g~~~~~~~~~l~~~~~~k~G~~~~~~~~~~~~~~i~~~y~~~GY~fa  338 (781)
                      .+....+.++..+.|+|.|+||++++|+.|.|.||.. ..+..+++.+.+++|++|+..++++...+|.+.    || |.
T Consensus       298 ~~~~~~~~~~~~v~l~~~I~eg~~~~i~~I~I~GN~~-T~d~VIrRel~~~~Gd~f~~~~i~~s~~~L~~l----g~-F~  371 (741)
T TIGR03303       298 NPRPQINDENKTVDLTFKVDPGKRVYVRRINISGNTR-TRDEVIRRELRQLEGDWYNLSKIKRSKRRLERL----GY-FE  371 (741)
T ss_pred             EEEEEEECCCCEEEEEEEEECCCEEEEEEEEEECCCC-CCHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHC----CC-CE
T ss_conf             8889970578689899999528718999999988741-553750100024886535889999999999866----88-23


Q ss_pred             CCCCCCCCCCCCCEEEEEEECCCCCC
Q ss_conf             11233223434404665541233322
Q gi|254780772|r  339 RVKTRINRDFAKRIVDIEYLIDQGSP  364 (781)
Q Consensus       339 ~v~~~~~~d~~~~~vdi~~~I~eg~~  364 (781)
                      .|.+.+.+...+..|||.+.|.|.+.
T Consensus       372 ~V~i~~~~~~~~~~vdl~v~V~Ek~t  397 (741)
T TIGR03303       372 EVNIETVPVGSPDQVDLNVNVKEQPT  397 (741)
T ss_pred             EEEEEECCCCCCCEEEEEEEEEEECC
T ss_conf             31012146899871789999998027


No 7  
>TIGR00992 3a0901s03IAP75 chloroplast envelope protein translocase, IAP75 family; InterPro: IPR005689   Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accompished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex loacted at the inner membrane . The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane.   This entry represents Toc750, a core component of the Toc complex. This protein is deeply embedded in the outer membrane and forms the voltage-dependent translocation channel . Toc75 itself appears to be capable of at least some discrimination between substrate and non-substrate proteins, with recognition based on based on both conformational and electrostatic interactions. ; GO: 0015450 P-P-bond-hydrolysis-driven protein transmembrane transporter activity, 0006886 intracellular protein transport, 0009707 chloroplast outer membrane.
Probab=100.00  E-value=1.4e-45  Score=316.01  Aligned_cols=455  Identities=17%  Similarity=0.223  Sum_probs=334.2

Q ss_pred             CCCCHHHHHHHHHCCCC-CEECCCCCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCEEECCCC-
Q ss_conf             45576777753211699-6211210000000000002344564201123322343440466554123332201100333-
Q gi|254780772|r  295 QEIQKKTLLSLIRIRSG-NLYNPQEIKESSEKISKYFFSGERPFVRVKTRINRDFAKRIVDIEYLIDQGSPLYVKRIEI-  372 (781)
Q Consensus       295 ~~~~~~~l~~~~~~k~G-~~~~~~~~~~~~~~i~~~y~~~GY~fa~v~~~~~~d~~~~~vdi~~~I~eg~~~~i~~I~I-  372 (781)
                      ..++.+...+.+....+ ...+...|++.+++|+++|.+.||..|+|---++.+.+.   .|++.|.||.   |.+|.| 
T Consensus       236 ~lLP~~V~~E~~~~~~~q~~~~~R~LQ~~~~~v~~WY~~~GY~~AQVV~~g~~~~~G---~V~~~v~EG~---~~~l~~~  309 (768)
T TIGR00992       236 CLLPQEVVDEVFGMLYGQGKVSARLLQEIRDRVQEWYHNEGYALAQVVNFGNLNTDG---EVVLEVVEGD---ITNLQIQ  309 (768)
T ss_pred             CCCCHHHHHHHHHHHHCCCEECHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCC---EEEEEEECCC---EEEEEEE
T ss_conf             548736788999875405510067777788888631100575077873467637765---1899996471---2167899


Q ss_pred             ---------CCCCCCCCCCCHHHCC--CCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             ---------3432003321001001--00000001234445666776510123445332544356543102332211221
Q gi|254780772|r  373 ---------EGNDQSYDSVIRRELE--LSEGDPINYSMIERAKRRIMATGYFSEVNISQLPANDVSDYVILRVSVKQLSA  441 (781)
Q Consensus       373 ---------~GN~~T~d~VIrrel~--~~~Gd~~~~~~i~~s~~~L~~lg~F~~V~i~~~~~~~~~~~vdl~i~v~E~~t  441 (781)
                               +|  +|++.||+|||+  |+||++||...-+...+|++.|++|++|.+.+.|....+..+.+.|+|+|..+
T Consensus       310 f~D~~~~~V~G--~T~~~vv~REl~kqL~~G~vFN~~~~~~~L~~~~SLgLF~~~~~~~~P~~~~~~~~IV~~~~~E~~~  387 (768)
T TIGR00992       310 FLDKLGNVVEG--NTRDPVVTRELPKQLKPGDVFNIEAGKTALQNINSLGLFSNIEVNPRPDEKNEGEIIVEIKLKELEQ  387 (768)
T ss_pred             EECCCCCEECC--CCCCCEEEECCHHHCCCCCEECHHHHHHHHHHHHHHHHHCCCEECCCCCCCCCCEEEEEEEEEECCC
T ss_conf             97267874305--5466238523353257884441367888876543221000115546888888862799989985477


Q ss_pred             CCCCCCCCC-----------CCCCCCEEEECCCCCCCCCCCCCCCEEEEEEEC----CCCEEEEEEEECCCCCC--CC--
Q ss_conf             111111112-----------233211000001112333234422003787411----22111134541123577--75--
Q gi|254780772|r  442 GSVGIATNY-----------EVDKGMGVEGHIDDNNFFGQGYRARLAAGFGRH----AVQNYTFSVEDPYFLGS--PI--  502 (781)
Q Consensus       442 g~~~~g~gy-----------s~~~g~~~~~~~~~~Nl~G~G~~l~l~~~~~~~----~~~~~~~s~~~P~~~~~--~~--  502 (781)
                      ++.+....|           .+..++.+.+++.+|||-|..+++..+++.+..    ..-.+.++|++||+-+.  |.  
T Consensus       388 ~saevsteWSI~~G~GG~P~~~S~~~~Gti~f~~RNL~G~N~~l~~~~~~~nflnPQ~~L~F~~~y~~Pyl~G~~nP~~~  467 (768)
T TIGR00992       388 KSAEVSTEWSIVPGRGGAPILASSQLGGTITFEERNLQGLNRSLGGSVTVSNFLNPQDDLLFKVEYTDPYLDGVDNPRNR  467 (768)
T ss_pred             CCEEEEEEEEEECCCCCCCCEECCCCCCEEEEEECCCCCCCCEEEEEEEECCCCCCCHHHEEEEEEECCCCCCCCCCCCC
T ss_conf             63033100255148888641000267621677201567756147898887144573113114544326634787774541


Q ss_pred             CCCCCCCCCCCC----------------CCCCCCCCCCCEEEEEEECCCCEEEEECCCEEEEE----EECCCCC--CCCC
Q ss_conf             431001111333----------------33343233320245542025430235404125776----4014675--4420
Q gi|254780772|r  503 SAGFDLQKTHLE----------------DGSLDINDESAAVRMIVPITESISTSFKYDLRFLQ----YGAISEK--EKIP  560 (781)
Q Consensus       503 s~~~~~~~~~~~----------------~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~--~~~~  560 (781)
                      ++..++|+++.-                -.+....+.|..+.+..++.+...+..++.++..-    .......  ...+
T Consensus       468 ~~~~~~F~~R~lS~VF~G~~~sirt~~~~~s~~V~R~G~~~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~a~G~~~~~  547 (768)
T TIGR00992       468 TYKASLFNSRKLSLVFTGGPGSIRTVNEVPSIWVDRAGVKANITENFARQSKFTYGLVLEEIFTRDESRHINANGQRSLP  547 (768)
T ss_pred             EEEEEEEECCCEEEEEECCCCCEEEECCCCCCEEEECCCCEEEECCCHHHHCCCCCCEEECCCCCCHHHHHHHCCCCCCC
T ss_conf             15662230451015674788522221478986588515202431020233047857255101240011233316852466


Q ss_pred             H--------HHHHHHCCCCCEEEEEEEEECCCCCCCCCCCCCCEEEEEEECCCCC-CCCC-EEEEEEEEEEEEEEECC--
Q ss_conf             1--------1122101585024678843215542011002465156542024565-5542-03666630047999358--
Q gi|254780772|r  561 S--------IYTTLIEHGKFSSHSISQSIIYNTLDNPIVPRKGMLISSSYDYAGF-GGDS-QYHRIGSRASYFYLLSD--  628 (781)
Q Consensus       561 ~--------~~~~~~~~~~~~~~~i~~~l~~dtrD~~~~Pt~G~~~~~~~~~a~~-g~d~-~f~k~~~~~~~y~~l~~--  628 (781)
                      +        ....+.+.|--....+.+.++.|++++..-|+.|.+..+.++.+.+ |+.. =|.|+.+..++|.++.+  
T Consensus       548 s~~~~G~~~~P~~lS~~GvD~l~~L~~~~~~DN~~~~~~~~~G~~~~F~~~Q~lgvG~~~~~~~R~~~~~~~fi~~~~~~  627 (768)
T TIGR00992       548 SGPLSGADGPPLTLSGTGVDRLAFLQANITRDNTKFVNGPVVGSRVRFQVDQGLGVGSGFIFFNRLQLTYTKFIQLNEVE  627 (768)
T ss_pred             CCCCCCCCCCCCEECCCCHHHHHHHHCCCCHHHHHHHCCCCCCCEEEEEEECCCCCCCCCHHHEEECCCEEEEEEEEEEE
T ss_conf             66546778887100334312010010355301234202341121256643125455767501000101245666634430


Q ss_pred             -----------CEEEEEEEEEEEEEEECCCCCCCCHHEEEECCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEEEEEEE
Q ss_conf             -----------809999999978985169974123012750789714021268615503799722214789999999961
Q gi|254780772|r  629 -----------DSDIVGSLRFGYGCVIPSNKNLQLFDQFSVSSNYYLRGFAYKGIGPRVDKKYAIGGKIYSSASAAVSFP  697 (781)
Q Consensus       629 -----------~~~l~~~~~~g~~~~~~~~~~lp~~erF~lGG~~svRGy~~~~iGP~~~~~~~~GG~~~~~~s~E~r~p  697 (781)
                                 ..+++++.+.  |...   .+||.+|-|.|||++|||||..+.||-         |+..+...+|+|+|
T Consensus       628 ~~GfGl~~~~~P~~~~l~~~~--G~~~---GDLP~Y~AF~LGG~~SVRGY~~GElG~---------aR~~~~~~AE~R~P  693 (768)
T TIGR00992       628 LGGFGLAGKSPPPVLVLHGHY--GGVV---GDLPSYDAFILGGPYSVRGYNMGELGA---------ARNILEVTAEIRIP  693 (768)
T ss_pred             CCCCCCCCCCCCCEEEEECCC--CCEE---CCCCCCCCEEECCCCCCCCCCCCCCCH---------HHHHHHHCCCCCCC
T ss_conf             466111136889889995232--4154---478872314406873004445544320---------23366530310144


Q ss_pred             CCCCCCCCCEEEEEEEEEEEEECCCCCCCCCCCC-CCCCCEEEEEEEEEEEECCCCCEEEEEEEECCCCCCCEEEEEEEE
Q ss_conf             4565654537999999767741566667754445-676642479999999755700158998872267787602589996
Q gi|254780772|r  698 MPLVPERAGLRGAFFVDSATLYANHVALGADKLE-GNDSFWRVSTGVEIMWNSPLGMMGVYYGIPLRHREGDKIQQFGFR  776 (781)
Q Consensus       698 l~~~~~~~~l~~~~F~D~G~v~~~~~~~~~~~~~-~~~~~~r~s~G~Glr~~tP~Gpirld~a~pl~~~~~D~~~~f~Fs  776 (781)
                      +.     ....+++|+|.|+--++..+....... .....--.|+|+|+|..+|.+|+++|.|+     .++=+++..|.
T Consensus       694 i~-----~~~G~~~Fv~~G~~LGS~~~V~G~P~~V~~~~G~G~~YG~Gv~l~~~~a~~~vD~Gf-----t~~G~~~~~F~  763 (768)
T TIGR00992       694 IK-----ATHGVYAFVEYGSDLGSSKDVKGNPTIVYRRPGQGSSYGAGVKLGLVRAEYAVDLGF-----TNEGTGAIFFR  763 (768)
T ss_pred             EE-----ECCEEEEEEEECCCCCCCCCCCCCCEEEECCCCCCCCCCCEEEEECCCCCEEEECCC-----CCCCCEEEEEC
T ss_conf             11-----033047888415467867766888628863678862112203860431224662341-----56774378723


Q ss_pred             EEECC
Q ss_conf             41059
Q gi|254780772|r  777 IGNRM  781 (781)
Q Consensus       777 iG~~f  781 (781)
                      ||-||
T Consensus       764 ~GE~f  768 (768)
T TIGR00992       764 FGERF  768 (768)
T ss_pred             CCCCC
T ss_conf             57769


No 8  
>PRK11067 outer membrane protein assembly factor YaeT; Provisional
Probab=100.00  E-value=8.9e-43  Score=297.26  Aligned_cols=312  Identities=19%  Similarity=0.296  Sum_probs=254.5

Q ss_pred             EEEEEEEEECCCCCCHHHHHHHC---CCCCCCCCCHHHHHHH---HHHHHHCCCCC--EEEEEEE---CC--EEEEEEEE
Q ss_conf             26858999665007988999974---8789882688999999---99999679800--3899986---99--89999993
Q gi|254780772|r   46 SIVRRIEIRGATNVGKEVILSRI---PVVVGQSISDADLDHA---VKNIYAMGYFS--NVKIKIV---DS--VLIIDLIE  112 (781)
Q Consensus        46 ~~i~~I~i~G~~~i~~~~i~~~~---~~~~G~~~~~~~i~~~---i~~l~~~g~F~--~v~~~~~---~~--~l~~~v~e  112 (781)
                      .+|++|.++||+.++++.+...+   ++++|+.+++..++++   |+++|...=+.  .|++...   ++  .|+|.|.|
T Consensus        92 P~I~~i~~~Gn~~i~~~~l~~~l~~~~lk~g~~~~~~~l~~~~~~i~~~Y~~~G~~~a~V~~~~~~~~~n~v~l~f~I~E  171 (801)
T PRK11067         92 PTIASITFSGNKAVKDDMLKQNLEASGVRVGEALDRTTLSNIEKGLEDFYYSVGKYSASVKAVVTPLPRNRVDLKLVFQE  171 (801)
T ss_pred             CEEEEEEEECCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHCCEECCEEEEEEEECCCCEEEEEEEEEE
T ss_conf             73899999887437889999877543646575469999999999999999967921219989998789986999999950


Q ss_pred             CCE--EEEEEEECCCCCCHHHHHHHHHHCC---------CCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEE-EEEEC-CC
Q ss_conf             653--6579995654369889988730057---------86379999999999999999972970017998-76433-89
Q gi|254780772|r  113 RKI--INHLFFSGNNNLKDDQLKMIVRSRS---------AAAYDEDTVNADVHNIKQAYASIGYLNVMVKV-QHHSI-SP  179 (781)
Q Consensus       113 ~p~--i~~i~~~Gn~~~~~~~l~~~~~~~~---------g~~~~~~~~~~~~~~i~~~y~~~Gy~~a~V~~-~~~~~-~~  179 (781)
                      .+.  |.+|.|.||+.+++++|++.+.+++         ++.|++..++.|+++|+++|.++||.+++|.. ++.-. ++
T Consensus       172 G~~~~I~~I~f~GN~~fs~~~L~~~~~~~~~~~~~~~~~~~~~~~~~l~~D~~~L~~fY~~~Gy~d~~V~~~~v~~~~dk  251 (801)
T PRK11067        172 GVSAKIQQINIVGNHAFTTDELISRFQLRDEVPWWNVVGDRKYQKQKLAGDLETLRSYYLDRGYARFNIDSTQVSLTPDK  251 (801)
T ss_pred             CCEEEEEEEEEECCCCCCHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEECCEEEECCCC
T ss_conf             88899999999878324789999886237664335761688549899998999999999871866226604425634776


Q ss_pred             CCEEEEEEEECCCCEEEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             84258898603663246778750443110122221110012211244566643102333345788888875423221001
Q gi|254780772|r  180 TTLNITYVIEEGVKAKINSIRFVGNKNYSHARLERVISIRTSGYFSFGKTDVYSKERMSFDEEAIRAFYHDRGYAAVKVS  259 (781)
Q Consensus       180 ~~v~i~~~I~EG~~~~I~~I~f~Gn~~f~~~~L~~~~~~k~~~~~~~~~~~~~~~~~l~~D~~~l~~~Y~~~GY~d~~V~  259 (781)
                      ..+.|+|.|+||+++++.+|.|+||..+++.+|++.+..++        ++.|++.+++.+.+.|+++|.++||..|+|.
T Consensus       252 ~~~~I~~~I~EG~~Y~~g~i~~~gn~~~~~~el~~~~~~~~--------G~~y~~~~i~~~~~~i~~~~~~~GY~fa~V~  323 (801)
T PRK11067        252 KGIYITVNITEGDQYKLSGVQVSGNLAGHSAEIEKLTKIEP--------GELYNGTKVTKMEDDIKKLLGRYGYAYPRVQ  323 (801)
T ss_pred             CEEEEEEEECCCCEEEEEEEEEECCCCCCHHHHHHHHCCCC--------CCCCCHHHHHHHHHHHHHHHHHCCCCCCCCC
T ss_conf             26999999868974987237996777777899998754578--------8634699999999999999986697210046


Q ss_pred             CCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCEECCCCCCHHHHHCCCCCCCCCCCCCC
Q ss_conf             23101245555410122022221000001233344455767777532116996211210000000000002344564201
Q gi|254780772|r  260 SQVLFDKQKSGYVLIFQIDEGEIYTVGNISIQSTLQEIQKKTLLSLIRIRSGNLYNPQEIKESSEKISKYFFSGERPFVR  339 (781)
Q Consensus       260 ~~~~~~~~~~~~~i~~~I~EG~~y~i~~i~i~g~~~~~~~~~l~~~~~~k~G~~~~~~~~~~~~~~i~~~y~~~GY~fa~  339 (781)
                      +....+++.+.+.|+|.|+||++++|+.|.|.||.. ..+..+++.+.+.+|++|+..++++..++|.+.    || |-.
T Consensus       324 ~~~~~~~~~~~v~l~~~I~eg~~~yV~~I~I~GN~~-T~D~VIRRel~~~eGd~~~~~~i~~S~~rL~~l----g~-F~~  397 (801)
T PRK11067        324 TQPEINDADKTVKLRVNVDAGNRFYVRKIRFEGNDT-SKDSVLRREMRQMEGAWLGSDLVEQGKERLNRL----GF-FET  397 (801)
T ss_pred             CCEEECCCCCEEEEEEEECCCCEEEEEEEEEECCCC-CHHHHHHHEECCCCCCCCCHHHHHHHHHHHHHC----CC-CCC
T ss_conf             412674789889999998668627999867427706-134751010003676533888999999999855----87-420


Q ss_pred             CCCCCCC-CCCCCEEEEEEECCCCCCCEEECCCCCC
Q ss_conf             1233223-4344046655412333220110033334
Q gi|254780772|r  340 VKTRINR-DFAKRIVDIEYLIDQGSPLYVKRIEIEG  374 (781)
Q Consensus       340 v~~~~~~-d~~~~~vdi~~~I~eg~~~~i~~I~I~G  374 (781)
                      |.+.+.+ ...+..|||.+.|.|.+.   +.+.+-+
T Consensus       398 V~~~~~~~~~~~~~vdl~~~V~E~~t---G~~~~g~  430 (801)
T PRK11067        398 VDTDTQRVPGSPDQVDVVYKVKERNT---GSFNFGI  430 (801)
T ss_pred             CCCCCCCCCCCCCEEEEEEEEEECCC---CEEEEEE
T ss_conf             34334358999873899999898678---8799998


No 9  
>KOG2602 consensus
Probab=100.00  E-value=5.6e-45  Score=311.63  Aligned_cols=406  Identities=22%  Similarity=0.339  Sum_probs=312.6

Q ss_pred             EEECCCCCCCCCCCCCCCHHHCCCC-CCCHH-H-HHHHHHHHHHHHHHHCCCCCCCCCCC---CCCCCCCCCCCCCCCCC
Q ss_conf             1100333343200332100100100-00000-1-23444566677651012344533254---43565431023322112
Q gi|254780772|r  366 YVKRIEIEGNDQSYDSVIRRELELS-EGDPI-N-YSMIERAKRRIMATGYFSEVNISQLP---ANDVSDYVILRVSVKQL  439 (781)
Q Consensus       366 ~i~~I~I~GN~~T~d~VIrrel~~~-~Gd~~-~-~~~i~~s~~~L~~lg~F~~V~i~~~~---~~~~~~~vdl~i~v~E~  439 (781)
                      .|..|+|.|+.+|+|.+|.+++..- ....+ + ......+..+|..+++|++|++....   .+..|+..+|.+.|.|.
T Consensus        37 ~v~~V~v~Gl~~Tkdd~I~k~v~~~~ka~nl~el~~~s~~a~~nL~~l~iF~~v~~~iD~~~g~~~~p~~~~Vt~~v~E~  116 (457)
T KOG2602          37 RVDHVIVSGLERTKDDFIMKEVDLVFKAKNLQELLLASHEAASNLRALGIFDSVNILIDTKEGSDALPGGLVVTFLVTEP  116 (457)
T ss_pred             EEEEEEECCCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCCCCCCCEEEEEEEEEC
T ss_conf             13589851310153278999866666300599999878999988988452100116602455787789851689996525


Q ss_pred             CCCCCCCCCCCCCCCC---CEEEECCCCCCCCCCCCCCCEEEEEEECCCCEEEEEEEECCCCCCCCCCCCCCCCC---CC
Q ss_conf             2111111111223321---10000011123332344220037874112211113454112357775431001111---33
Q gi|254780772|r  440 SAGSVGIATNYEVDKG---MGVEGHIDDNNFFGQGYRARLAAGFGRHAVQNYTFSVEDPYFLGSPISAGFDLQKT---HL  513 (781)
Q Consensus       440 ~tg~~~~g~gys~~~g---~~~~~~~~~~Nl~G~G~~l~l~~~~~~~~~~~~~~s~~~P~~~~~~~s~~~~~~~~---~~  513 (781)
                      +.  +....|  |+.|   -.+..++..+|++|+|+.++.+.+++......+.++|..|.+-+....+....+..   ..
T Consensus       117 kr--~tg~~G--T~~gn~~~s~~~~l~~~ni~G~ge~l~~~~sy~~~~~~~~~l~f~~P~~~~~~~~~~~~~~~~~~d~~  192 (457)
T KOG2602         117 KR--LTGSTG--TDVGNREGSVELNLKLPNILGRGENLSGQVSYGCTRSTDMGLSFYKPRFHGLKTPFSSFSIFRTQDWM  192 (457)
T ss_pred             CH--HEEECC--CCCCCCCCCCCHHCCCCCCCCCCEEEEEEEEEECCCCCEEEEEEEECCCCCCCCCHHHHHHHHHHCCC
T ss_conf             20--102103--11268776501010465445751441006887204675242578710357877640434434221036


Q ss_pred             CCCCCCCCCCCCEEEEEEECCCCEEEEECCCEEEEEEECCCCCCCCCHHHHHHHCCCCCEEEEEEEEECCCCCCCCCCCC
Q ss_conf             33334323332024554202543023540412577640146754420111221015850246788432155420110024
Q gi|254780772|r  514 EDGSLDINDESAAVRMIVPITESISTSFKYDLRFLQYGAISEKEKIPSIYTTLIEHGKFSSHSISQSIIYNTLDNPIVPR  593 (781)
Q Consensus       514 ~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~dtrD~~~~Pt  593 (781)
                      ....++....+..+.+..+....+.+.+.|..-+-+....+..    .......+.|....+++.+++.+|+||..+.||
T Consensus       193 ~~ss~d~~~~g~sL~l~~~~~~~l~H~l~~~~~WR~l~~~sq~----as~svR~qaG~~L~s~L~~tfv~D~Rd~~~~pt  268 (457)
T KOG2602         193 KWSSLDETHRGASLELSAEDWFLLFHELKYEIAWRNLGDLSQG----ASFSVRRQAGHSLKSSLSYTFVFDKRDSSIIPT  268 (457)
T ss_pred             CCCCCCCCCCCEEEEEECCHHHHHHHHHHHHHHHHHHCCCCCC----CCHHHHHHHHHHHHHHHCCEEEEECCCCCCCCC
T ss_conf             5642355665228987324455346799888888761243334----568889875577887410069996267755665


Q ss_pred             CCEEEEEEECCCCCCCCCEEEEEEEEEEEEEEECCCEEEEEEEEEEEEEEECCCCCCCCHHEEEECCCCCCCCCCCCCCC
Q ss_conf             65156542024565554203666630047999358809999999978985169974123012750789714021268615
Q gi|254780772|r  594 KGMLISSSYDYAGFGGDSQYHRIGSRASYFYLLSDDSDIVGSLRFGYGCVIPSNKNLQLFDQFSVSSNYYLRGFAYKGIG  673 (781)
Q Consensus       594 ~G~~~~~~~~~a~~g~d~~f~k~~~~~~~y~~l~~~~~l~~~~~~g~~~~~~~~~~lp~~erF~lGG~~svRGy~~~~iG  673 (781)
                      +|.++....++++++++..|.|.+++++.-.|+.-..++.++++.|+..+.++ ..+++.||||+||+.+||||..++||
T Consensus       269 rG~~~k~~~e~~g~~~~~sf~k~e~~lq~avpl~~~~~~s~~~~~G~l~~~~~-~~v~I~dRFylGGps~lRGFk~~giG  347 (457)
T KOG2602         269 RGILLKSTSELAGLFGDVSFLKSELDLQKAVPLGFDATLSFSFSGGVLKPLGS-RPVSIADRFYLGGPSDLRGFKTRGIG  347 (457)
T ss_pred             CCCEEEEEHHHCCCCCCHHHHHHHHHHEECCCCCCCEEEEEEEEEEEEECCCC-CCCCHHHHHCCCCCCCCCCCCCCCCC
T ss_conf             65314760432476554023223111101243134303676676206615898-76435465302896321331267758


Q ss_pred             CCCCCCCCCCCEEEEEEEEEEEEECCCCCCC-CCEEEEEEEEEEEEECCCCCCCCCCCCCCCCCEEEEEEEEEEEECC-C
Q ss_conf             5037997222147899999999614565654-5379999997677415666677544456766424799999997557-0
Q gi|254780772|r  674 PRVDKKYAIGGKIYSSASAAVSFPMPLVPER-AGLRGAFFVDSATLYANHVALGADKLEGNDSFWRVSTGVEIMWNSP-L  751 (781)
Q Consensus       674 P~~~~~~~~GG~~~~~~s~E~r~pl~~~~~~-~~l~~~~F~D~G~v~~~~~~~~~~~~~~~~~~~r~s~G~Glr~~tP-~  751 (781)
                      |++. ++++||++++.+.+.+-+|+|+.+.. ..+++.+|+.+|++-+-...............+|+|+|+||.+.+| +
T Consensus       348 P~~~-~~~lGG~a~~a~~~~L~~~lP~~~~~~~~fr~h~F~naG~l~~l~s~~~~~~~~kl~e~~r~S~G~Glv~~~~~~  426 (457)
T KOG2602         348 PKDE-GDFLGGDAFVAAGAHLYFPLPFAKGFKSGFRGHVFANAGNLANLSSEAPKNTIPKLLETFRTSVGAGLVVPTPRA  426 (457)
T ss_pred             CCCC-CCCCCCCEEEEEEEEECCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCEEEECCHH
T ss_conf             7877-765477036675017402477654322451457774046512467654331035555400100023268752413


Q ss_pred             CCEEEEEEEECCCCCCCEE-EEEEEEEEECC
Q ss_conf             0158998872267787602-58999641059
Q gi|254780772|r  752 GMMGVYYGIPLRHREGDKI-QQFGFRIGNRM  781 (781)
Q Consensus       752 Gpirld~a~pl~~~~~D~~-~~f~FsiG~~f  781 (781)
                      .-+.|.|..|+.+.++|.. +.|||.+|..|
T Consensus       427 aR~ELNy~~pl~~~e~D~~~~GfqfG~g~~F  457 (457)
T KOG2602         427 ARLELNYCLPLKKQENDRIRKGFQFGAGIDF  457 (457)
T ss_pred             HCEEEEEEEEEEEECCCHHHCCEEECCCCCC
T ss_conf             2045555777555036323241474131469


No 10 
>COG4775 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]
Probab=100.00  E-value=4.1e-37  Score=260.17  Aligned_cols=307  Identities=21%  Similarity=0.427  Sum_probs=259.5

Q ss_pred             CCEEEEEEEEECCCCCCHHHHHHHCCCCCCCCCCHHHHHHHHHHH---HH-CCCCC-EEEEEEE----CC-EEEEEEEEC
Q ss_conf             652685899966500798899997487898826889999999999---96-79800-3899986----99-899999936
Q gi|254780772|r   44 NTSIVRRIEIRGATNVGKEVILSRIPVVVGQSISDADLDHAVKNI---YA-MGYFS-NVKIKIV----DS-VLIIDLIER  113 (781)
Q Consensus        44 ~~~~i~~I~i~G~~~i~~~~i~~~~~~~~G~~~~~~~i~~~i~~l---~~-~g~F~-~v~~~~~----~~-~l~~~v~e~  113 (781)
                      +..+|++|.++||+.++++.++..+.+++|+.++...+++++++|   |. .|+|. .|+...+    +. .+.|.+.|.
T Consensus        90 e~p~I~~v~~~Gn~~i~~~~L~~~l~~~~g~~~~~~~l~~~~~~l~e~Y~~~G~~~~~v~~~~~~~~~~~v~v~f~i~eG  169 (766)
T COG4775          90 ERPVINSVVFSGNKSIKDDALKKNLKIKPGEVLNRAKLEADVEALKEAYLSRGYYSVKVTYKVTPLPRNRVDVVFVINEG  169 (766)
T ss_pred             CCCCEEEEEEECCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHCCEECCEEEEEEEECCCCEEEEEEEECCC
T ss_conf             27728789986871377589887536477873457899989999999887468304346798787799707999993799


Q ss_pred             C--EEEEEEEECCCCCCHHHHHHHHHHCCCC---------CCCHHHHHHHHHHHHHHHHHCCCCEEEEEEEEEEC--CCC
Q ss_conf             5--3657999565436988998873005786---------37999999999999999997297001799876433--898
Q gi|254780772|r  114 K--IINHLFFSGNNNLKDDQLKMIVRSRSAA---------AYDEDTVNADVHNIKQAYASIGYLNVMVKVQHHSI--SPT  180 (781)
Q Consensus       114 p--~i~~i~~~Gn~~~~~~~l~~~~~~~~g~---------~~~~~~~~~~~~~i~~~y~~~Gy~~a~V~~~~~~~--~~~  180 (781)
                      |  .|..|.|.||+++++.+|++.+.+++..         .|++.+++.+...|+.+|++.||.++.|.......  +++
T Consensus       170 ~~~~i~~I~~~Gn~~~s~~~l~~~~~~k~~~~~~~~~~~~~y~~~~l~~D~e~lr~~Y~n~Gy~d~~v~s~~~~~~~~k~  249 (766)
T COG4775         170 PSAKIKQINFEGNTAFSDSDLESVVQTKESNIWGWLTRLDKYDPDKLEADLETLRSFYLNRGYADFRVSSTQVSLDPDKK  249 (766)
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHEEECCCEEEEEEECCCCCCHHHHHCCHHHHHHHHHHCCEEEEEEEEEEECCCCCCC
T ss_conf             72100146870554436012233315202205888715661276663062899999997576289998641303457876


Q ss_pred             CEEEEEEEECCCCEEEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             42588986036632467787504431101222211100122112445666431023333457888888754232210012
Q gi|254780772|r  181 TLNITYVIEEGVKAKINSIRFVGNKNYSHARLERVISIRTSGYFSFGKTDVYSKERMSFDEEAIRAFYHDRGYAAVKVSS  260 (781)
Q Consensus       181 ~v~i~~~I~EG~~~~I~~I~f~Gn~~f~~~~L~~~~~~k~~~~~~~~~~~~~~~~~l~~D~~~l~~~Y~~~GY~d~~V~~  260 (781)
                      .+.|++.|+||+++++.+|.++||..++..+|.+.+..++.        ..|+.+.++.+.++|.++|.+.||..++|.+
T Consensus       250 ~~~vt~~V~EG~~y~~~~i~i~g~~~~~~~el~~~~~~~~g--------~~fn~~~i~~~~~~I~~~~~~~GY~~a~V~p  321 (766)
T COG4775         250 GVTVTYTVKEGPQYKFGSVLIEGNLAGVSEELEKLLKVKPG--------KLFNRKKIEDDADKIKERYARYGYAFANVSP  321 (766)
T ss_pred             CEEEEEEECCCCCEEEEEEEEECCCCCCHHHHHHHHCCCCC--------CEECHHHHHHHHHHHHHHHHHCCCEEEEEEE
T ss_conf             37999997448833788899975766738998776545889--------5276899888999999999865930368610


Q ss_pred             CCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCEECCCCCCHHHHHCCCCCCCCCCCCCCC
Q ss_conf             31012455554101220222210000012333444557677775321169962112100000000000023445642011
Q gi|254780772|r  261 QVLFDKQKSGYVLIFQIDEGEIYTVGNISIQSTLQEIQKKTLLSLIRIRSGNLYNPQEIKESSEKISKYFFSGERPFVRV  340 (781)
Q Consensus       261 ~~~~~~~~~~~~i~~~I~EG~~y~i~~i~i~g~~~~~~~~~l~~~~~~k~G~~~~~~~~~~~~~~i~~~y~~~GY~fa~v  340 (781)
                      +...+.+...+.|.+.|.||++++|..|.|.||.. ..+..++..+++++|++||..+++.++.+|.+.    || |.+|
T Consensus       322 ~~~~n~~~~tv~v~~~V~~g~~~~V~~i~i~gn~r-T~D~VIrRE~~~~eGd~fn~~~v~~~~~rL~~l----gy-F~~V  395 (766)
T COG4775         322 QPDANDENKTVDVVFRVDEGDRVYVRRIRIRGNTR-TKDYVIRREMRLKEGDVFNRKLVQRGKRRLRRL----GY-FESV  395 (766)
T ss_pred             ECCCCCCCCEEEEEEEEECCCCEEEEEEEECCCCC-CCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHC----CC-CEEE
T ss_conf             11338888589999999758833664544527873-031776645532773223389999999999846----88-3345


Q ss_pred             CCCCCCCCCCCEEEEEEECCCCCC
Q ss_conf             233223434404665541233322
Q gi|254780772|r  341 KTRINRDFAKRIVDIEYLIDQGSP  364 (781)
Q Consensus       341 ~~~~~~d~~~~~vdi~~~I~eg~~  364 (781)
                      ++...+......|||.+.|.|+.-
T Consensus       396 ~i~~~~~~~~~~vdvvv~VkE~~T  419 (766)
T COG4775         396 NIDTAPGSGSDQVDVVVDVKERST  419 (766)
T ss_pred             EEEECCCCCCCEEEEEEEEEECCC
T ss_conf             788555899970799999875672


No 11 
>COG2831 FhaC Hemolysin activation/secretion protein [Intracellular trafficking and secretion]
Probab=100.00  E-value=1.6e-38  Score=269.36  Aligned_cols=463  Identities=16%  Similarity=0.203  Sum_probs=325.0

Q ss_pred             ECCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCEECCCCCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEE
Q ss_conf             02222100000123334445576777753211699621121000000000000234456420112332234344046655
Q gi|254780772|r  277 IDEGEIYTVGNISIQSTLQEIQKKTLLSLIRIRSGNLYNPQEIKESSEKISKYFFSGERPFVRVKTRINRDFAKRIVDIE  356 (781)
Q Consensus       277 I~EG~~y~i~~i~i~g~~~~~~~~~l~~~~~~k~G~~~~~~~~~~~~~~i~~~y~~~GY~fa~v~~~~~~d~~~~~vdi~  356 (781)
                      -.|.+++.|..|.++|+ ...+..+|.+++....|.......++....+|++.|.++||+.++|... .++.+++++  .
T Consensus        67 ~~E~~~f~I~~i~l~g~-~~~~~~~l~~~~~~~~g~~l~~~~l~~l~~~lt~~y~~~GYvtsra~lp-~Q~i~~G~l--~  142 (554)
T COG2831          67 PDETPCFPINRIELEGN-TLLDALELQAILAPYLGRCLGLADLNQLASALTNLYIDRGYVTTRALLP-PQDLKSGTL--R  142 (554)
T ss_pred             CCCCCEEEEEEEEEECC-CCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCEEEEEECC-CCCCCCCEE--E
T ss_conf             77885078878998177-5578589998667751886678999999999999998669478899726-874557879--9


Q ss_pred             EECCCCCCCEEECCCCCCCCCCCCCCCHHHCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             41233322011003333432003321001001000000012344456667765101234453325443565431023322
Q gi|254780772|r  357 YLIDQGSPLYVKRIEIEGNDQSYDSVIRRELELSEGDPINYSMIERAKRRIMATGYFSEVNISQLPANDVSDYVILRVSV  436 (781)
Q Consensus       357 ~~I~eg~~~~i~~I~I~GN~~T~d~VIrrel~~~~Gd~~~~~~i~~s~~~L~~lg~F~~V~i~~~~~~~~~~~vdl~i~v  436 (781)
                      +.|.||.   |++|.|.|+...++..++..++..+|+++|..+||+....|+++.--+ |.++..|.. .++..||.+++
T Consensus       143 l~VveG~---i~~i~i~g~~~~~~~~~~~~~p~~~g~~Ln~~~lEq~l~~l~~~P~~q-a~~~l~pg~-~~G~S~l~i~~  217 (554)
T COG2831         143 LQVVEGR---IEDIRITGDSDLRSVALRSLFPAHRGDPLNLRDLEQGLELLNRLPGVQ-ADAELVPGS-EPGESDLVIKV  217 (554)
T ss_pred             EEEEEEE---EEEEEECCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCC-CEEEECCCC-CCCCCEEEEEE
T ss_conf             9995218---565898278874146677547667899778899999999862274422-125677778-88841699984


Q ss_pred             CCCCCCCCCCCCC-CCC--CCCCEEEECCCCCCCCCCCCCCCEEEEEEECCC--CEEEEEEEECCCCCCCCCCCCCCCCC
Q ss_conf             1122111111111-223--321100000111233323442200378741122--11113454112357775431001111
Q gi|254780772|r  437 KQLSAGSVGIATN-YEV--DKGMGVEGHIDDNNFFGQGYRARLAAGFGRHAV--QNYTFSVEDPYFLGSPISAGFDLQKT  511 (781)
Q Consensus       437 ~E~~tg~~~~g~g-ys~--~~g~~~~~~~~~~Nl~G~G~~l~l~~~~~~~~~--~~~~~s~~~P~~~~~~~s~~~~~~~~  511 (781)
                      ++.++.++.+++. |++  .....+.+++...|++|.|+.+++++..+....  .+|+++|+.|+ ....++++++....
T Consensus       218 ~~~~~~~~~~~~DN~G~~~tG~~r~~~~l~~dn~lglgD~l~~~~~~~~~~~~~~~~~~~Ys~P~-g~~~~~~~~s~~~y  296 (554)
T COG2831         218 QQGKPWRVSASADNYGSKSTGRYRLGVGLSLDNPLGLGDQLSLSYSRSLDGQTTNNYSLSYSVPL-GYWTFSLGASYSEY  296 (554)
T ss_pred             EECCCEEEEEEECCCCCCCCCCEEEEEEEEECCCCCCCHHEEEECCCCCCCCCCCEEEEEEEEEE-CCCCEEEEEEECCE
T ss_conf             43796789998637888666631567689726976521222310033677753224789999897-47535898501013


Q ss_pred             CC------CCCCCCCCCCCCEEEEEEECCCCEEEEECC--CEEEEEEECCCCCCCCCHHHHHHHCCCCCEEEEEEEEEC-
Q ss_conf             33------333343233320245542025430235404--125776401467544201112210158502467884321-
Q gi|254780772|r  512 HL------EDGSLDINDESAAVRMIVPITESISTSFKY--DLRFLQYGAISEKEKIPSIYTTLIEHGKFSSHSISQSII-  582 (781)
Q Consensus       512 ~~------~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~-  582 (781)
                      +.      ...++.-++...++.+.+++.++....+..  ++.+.+....-.......      +........++.+.. 
T Consensus       297 ~~~~~~~~~~~~~~G~s~~~~~~l~~~l~R~~~~~~s~~~~~~~r~~~~~~~~~~~~~------q~r~~~~~~~gl~~~~  370 (554)
T COG2831         297 RQVLEGPFDVLDYQGKSQNLSLRLSHPLLRNRSSKLSLGLGLSHRRSENYLDDTEIEV------QRRRLTAVELGLSGRR  370 (554)
T ss_pred             EEECCCCCCEEEEECCEEEEEEEEEEEEEECCCCEEEEEEEEEEECCHHHHCCCCCCC------CCCCCCCEEECCEEEE
T ss_conf             4402567731453011135657875578976761688888999840600103443333------2212330897126899


Q ss_pred             ---CCCCCCCCCCCCCEEEEEEECCC---CCC-CCCEEEEEEEEEEEEEEECC-CEEEEEEEEEEEEEEECCCCCCCCHH
Q ss_conf             ---55420110024651565420245---655-54203666630047999358-80999999997898516997412301
Q gi|254780772|r  583 ---YNTLDNPIVPRKGMLISSSYDYA---GFG-GDSQYHRIGSRASYFYLLSD-DSDIVGSLRFGYGCVIPSNKNLQLFD  654 (781)
Q Consensus       583 ---~dtrD~~~~Pt~G~~~~~~~~~a---~~g-~d~~f~k~~~~~~~y~~l~~-~~~l~~~~~~g~~~~~~~~~~lp~~e  654 (781)
                         ..+.|..+.-.+|... ++....   ..+ .+.+|.++.+++.+.+|+.. .+.+..++.+++     +.+.++..|
T Consensus       371 ~~~~~~~~~~l~~~~G~~~-~Ga~~~~~~~~~~~~~~f~~~~~~~~~~~~f~~~~~~~~~~~~~Q~-----s~~~L~s~e  444 (554)
T COG2831         371 YLGGGTLDASLGYRRGLGA-LGASKDDEETNGEPTSRFKKLNGNASLLQPFGLGPFLYATQFNAQY-----SGDPLLSSE  444 (554)
T ss_pred             EECCCCCCCCCHHHCCCCC-CCCCCCCHHHCCCCCCCCEEEEEEEEEEEECCCCCEEEEEEEEEEE-----CCCCCCCHH
T ss_conf             7136510322354428620-1881676110477764307999851677641655279986666788-----899788378


Q ss_pred             EEEECCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEEEEEEECCCCCCCCCEEEEEEEEEEEEECCCCCCCCCCCCCCC
Q ss_conf             27507897140212686155037997222147899999999614565654537999999767741566667754445676
Q gi|254780772|r  655 QFSVSSNYYLRGFAYKGIGPRVDKKYAIGGKIYSSASAAVSFPMPLVPERAGLRGAFFVDSATLYANHVALGADKLEGND  734 (781)
Q Consensus       655 rF~lGG~~svRGy~~~~iGP~~~~~~~~GG~~~~~~s~E~r~pl~~~~~~~~l~~~~F~D~G~v~~~~~~~~~~~~~~~~  734 (781)
                      +|.+||.++||||+.+++.          |+..+.++.|+++|++..  .. +...+|+|+|.||.......       .
T Consensus       445 ~fsiGg~~sVRGf~~~~ls----------gD~G~~~snel~~~~~~~--~~-~~~y~f~D~G~v~~~~~~~~-------~  504 (554)
T COG2831         445 KFSIGGRYSVRGFDGGSLS----------GDRGWYLSNELRWPLPPG--GA-LQPYVFVDYGKVYNNSAEYL-------S  504 (554)
T ss_pred             HEECCCCCEECCCCCCCCC----------CCCEEEEEEEEEEECCCC--CC-EEEEEEEEEEEEECCCCCCC-------C
T ss_conf             6531786523562688644----------341689976654303787--74-47988998678833455556-------7


Q ss_pred             CCEEEEEEEEEEEECCC-CCEEEEEEEECCCCCCC--EEEEEEEEEEECC
Q ss_conf             64247999999975570-01589988722677876--0258999641059
Q gi|254780772|r  735 SFWRVSTGVEIMWNSPL-GMMGVYYGIPLRHREGD--KIQQFGFRIGNRM  781 (781)
Q Consensus       735 ~~~r~s~G~Glr~~tP~-Gpirld~a~pl~~~~~D--~~~~f~FsiG~~f  781 (781)
                      ..-.+|+|+|+||.-+- .-.+|++|+||.++.+.  ...++.|+++-+|
T Consensus       505 ~~~l~g~~~Glr~~~~~~~~~~l~~g~pl~~p~~~~~~~~~~~~~~~~~f  554 (554)
T COG2831         505 GETLAGAGLGLRGNLKDGFSYDLDLGRPLSKPAGFDNRRTVVGFSFSYSF  554 (554)
T ss_pred             CCEEEEEEEEEEEEECCCEEEEEEEEEECCCCCCCCCCCCEEEEEEEEEC
T ss_conf             77166799767676067547899870063561236777630689999979


No 12 
>pfam03865 ShlB Haemolysin secretion/activation protein ShlB/FhaC/HecB. This family represents a group of sequences that are related to ShlB from Serratia marcescens. ShlB is an outer membrane protein pore involved in the Type Vb or Two-partner secretion system where it is functions to secrete and activate the haemolysin ShlA. The activation of ShlA occurs during secretion when ShlB imposes a conformational change in the inactive haemolysin to form the active protein.
Probab=99.94  E-value=8.2e-23  Score=166.57  Aligned_cols=342  Identities=15%  Similarity=0.104  Sum_probs=207.2

Q ss_pred             HCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC---CCCCCCCCEEEECC
Q ss_conf             001000000012344456667765101234453325443565431023322112211111111---12233211000001
Q gi|254780772|r  386 ELELSEGDPINYSMIERAKRRIMATGYFSEVNISQLPANDVSDYVILRVSVKQLSAGSVGIAT---NYEVDKGMGVEGHI  462 (781)
Q Consensus       386 el~~~~Gd~~~~~~i~~s~~~L~~lg~F~~V~i~~~~~~~~~~~vdl~i~v~E~~tg~~~~g~---gys~~~g~~~~~~~  462 (781)
                      -++..+|+++|..+||++.++|++|.- .+|++++.|.. .++.-||.+..++.++..+++++   |..+.....+.+++
T Consensus        10 ~FP~~~G~~LNlrdlEQgleqlnRl~s-~~a~i~I~Pg~-~~G~S~i~i~~~~~~~~~~s~~~DN~G~~~TGr~q~~~~l   87 (404)
T pfam03865        10 LFPGIEGKPLKLAELDQGLDQANRLQS-NKTKLDILPGR-ELGGSVIKLRNQHAKPWHINAASDNYGQKNSGRWLARANA   87 (404)
T ss_pred             ECCCCCCCCCCHHHHHHHHHHHHCCCC-CCCEEEECCCC-CCCCEEEEEEEECCCCEEEEEEECCCCCCCCCCEEEEEEE
T ss_conf             178988989737688889999706777-76159985799-9992089998601787799998769998143727878899


Q ss_pred             CCCCCCCCCCCCCEEEEEEE-----CCCCEEEEEEEECCCCCCCCCCCCCCCCCCCC--------CCCCCCCCCCCEEEE
Q ss_conf             11233323442200378741-----12211113454112357775431001111333--------333432333202455
Q gi|254780772|r  463 DDNNFFGQGYRARLAAGFGR-----HAVQNYTFSVEDPYFLGSPISAGFDLQKTHLE--------DGSLDINDESAAVRM  529 (781)
Q Consensus       463 ~~~Nl~G~G~~l~l~~~~~~-----~~~~~~~~s~~~P~~~~~~~s~~~~~~~~~~~--------~~~y~~~~~~~~~~~  529 (781)
                      ...|+||.++.+++++....     ...+.++++|+.|+  + .+.+.+...++++.        ...+.-++....+.+
T Consensus        88 ~~dnplgLnD~lsls~~~~~~~~~~~~~~~~s~~YSvP~--G-ywt~s~~~s~S~Y~~~~~~~~~~~~~~G~S~~~~l~~  164 (404)
T pfam03865        88 SLDSPFGLSDFVSLNANITLDNPAHRFNRAYTLLYSIPY--G-AFTFSGFASFSEYEFHQKLPHNTVKLHGDTQQVGIRG  164 (404)
T ss_pred             EECCCCCCCCEEEEECCCCCCCCCCCCCCEEEEEEEEEE--C-CEEEEEEEEEEEEEEEEECCCCCEEEECEEEEEEEEE
T ss_conf             964866754058983243367877776437899999100--0-1344237751237888704785178433165896377


Q ss_pred             EEECCCCE--EEEECCCEEEEEEECCCCCCCCCHHHHHHHCCCCCEEEEEEEEECCCCCCCCCCCCCCEEEEEEECCCC-
Q ss_conf             42025430--235404125776401467544201112210158502467884321554201100246515654202456-
Q gi|254780772|r  530 IVPITESI--STSFKYDLRFLQYGAISEKEKIPSIYTTLIEHGKFSSHSISQSIIYNTLDNPIVPRKGMLISSSYDYAG-  606 (781)
Q Consensus       530 ~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~dtrD~~~~Pt~G~~~~~~~~~a~-  606 (781)
                      .+.+.++.  ..++...+.+.+....-..        ...+........+.+++.+..    ..|.-....+++++.+. 
T Consensus       165 srvl~R~~~~k~sl~~~l~~k~~~nyi~d--------~~l~vqsr~lt~~~lGl~~~~----~l~~g~l~~~l~~~~Gl~  232 (404)
T pfam03865       165 DYAFSRDHDQIDSLNGQLTHKRIDNYFEQ--------IRLDLSSPKLTLAELGANHLQ----IIPNGVFSANLSVEKAMG  232 (404)
T ss_pred             EEEEECCCCCEEEEEEEEEEEECCCEECC--------EEEEECCCCEEEEEEEEEEEE----EECCCEEEEEEEHHHCCC
T ss_conf             88788688843899999999650311777--------797602783678999620279----924858976772632667


Q ss_pred             -C------------CCCCEEEEEEEEEEEEEEECC-CEEEEEEEEEEEEEEECCCCCCCCHHEEEECCCCCCCCCCCCCC
Q ss_conf             -5------------554203666630047999358-80999999997898516997412301275078971402126861
Q gi|254780772|r  607 -F------------GGDSQYHRIGSRASYFYLLSD-DSDIVGSLRFGYGCVIPSNKNLQLFDQFSVSSNYYLRGFAYKGI  672 (781)
Q Consensus       607 -~------------g~d~~f~k~~~~~~~y~~l~~-~~~l~~~~~~g~~~~~~~~~~lp~~erF~lGG~~svRGy~~~~i  672 (781)
                       +            +-+.+|.|..+.+.++.|+.- ...+.+.  ..+...+ +.+.|+.+|+|.+||.++||||+.+++
T Consensus       233 wfgA~~~~~~~~~~~~~~~f~k~~l~~~~~~~f~l~~~~~~~~--~~~~gQy-S~d~L~~sE~~sIGg~~sVRGF~e~sl  309 (404)
T pfam03865       233 WFGAEEHPSIAHGNGLDSQFTKGKLFANLSQRFRLGDATFLFN--NLFLGQY-SHDPLPGVEWLSLTDKNAIRGFDQSTL  309 (404)
T ss_pred             CCCCCCCCHHHCCCCCCCEEEEEEEEEEEEECCEECCCCEEEE--EEEEEEE-CCCCCCCHHEECCCCCCEECCCCCCCE
T ss_conf             6578778212037776524799999998860505556448989--9899650-899888044671448854776488807


Q ss_pred             CCCCCCCCCCCCEEEEEEEEEEEEECCCCCCCCCEEEEEEEEEEEEECCCCCCCCCCCCCCCCCEEEEEEEEEEEECCCC
Q ss_conf             55037997222147899999999614565654537999999767741566667754445676642479999999755700
Q gi|254780772|r  673 GPRVDKKYAIGGKIYSSASAAVSFPMPLVPERAGLRGAFFVDSATLYANHVALGADKLEGNDSFWRVSTGVEIMWNSPLG  752 (781)
Q Consensus       673 GP~~~~~~~~GG~~~~~~s~E~r~pl~~~~~~~~l~~~~F~D~G~v~~~~~~~~~~~~~~~~~~~r~s~G~Glr~~tP~G  752 (781)
                      .          |+.-++...|+.+|+++-  ...+..-+++|+|.|.......+.      ....-.|+|+|+||..-..
T Consensus       310 s----------GD~G~y~rNels~~~~~~--~~~l~Pyig~D~G~v~~~~~~~~~------~~~~g~~~g~~l~~~~~~~  371 (404)
T pfam03865       310 S----------GDNGGYLQNTLSRPFNLG--AFSITPRIGADIGQIKPHGDNKGW------QGGAGISSGANIQYQQALL  371 (404)
T ss_pred             E----------ECCEEEEEEEEECCCCCC--CEEEEEEEEEEEEEEEECCCCCCC------CCCCEEEEEEEEEEEEEEE
T ss_conf             6----------455699999995324689--705889999775899716887555------4334055688999961089


Q ss_pred             CEEEEEEEECCCC
Q ss_conf             1589988722677
Q gi|254780772|r  753 MMGVYYGIPLRHR  765 (781)
Q Consensus       753 pirld~a~pl~~~  765 (781)
                      .+.+.+|+||.++
T Consensus       372 ~~~~~~g~~l~~~  384 (404)
T pfam03865       372 DLEVAKGEILYHQ  384 (404)
T ss_pred             EEEEECCCHHCCC
T ss_conf             8997716200173


No 13 
>COG2831 FhaC Hemolysin activation/secretion protein [Intracellular trafficking and secretion]
Probab=99.40  E-value=8.5e-10  Score=81.41  Aligned_cols=159  Identities=19%  Similarity=0.257  Sum_probs=118.1

Q ss_pred             EECCCCEEEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC-C
Q ss_conf             603663246778750443110122221110012211244566643102333345788888875423221001231012-4
Q gi|254780772|r  188 IEEGVKAKINSIRFVGNKNYSHARLERVISIRTSGYFSFGKTDVYSKERMSFDEEAIRAFYHDRGYAAVKVSSQVLFD-K  266 (781)
Q Consensus       188 I~EG~~~~I~~I~f~Gn~~f~~~~L~~~~~~k~~~~~~~~~~~~~~~~~l~~D~~~l~~~Y~~~GY~d~~V~~~~~~~-~  266 (781)
                      -+|.+...|+.|.++||+.++..+|...+.        ...+.+.....|..-..+|+++|.++||.-++|    .+. .
T Consensus        67 ~~E~~~f~I~~i~l~g~~~~~~~~l~~~~~--------~~~g~~l~~~~l~~l~~~lt~~y~~~GYvtsra----~lp~Q  134 (554)
T COG2831          67 PDETPCFPINRIELEGNTLLDALELQAILA--------PYLGRCLGLADLNQLASALTNLYIDRGYVTTRA----LLPPQ  134 (554)
T ss_pred             CCCCCEEEEEEEEEECCCCCCHHHHHHHHH--------HHHCCCCCHHHHHHHHHHHHHHHHHCCCEEEEE----ECCCC
T ss_conf             778850788789981775578589998667--------751886678999999999999998669478899----72687


Q ss_pred             CCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCEECCCCCCHHHHHCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             55554101220222210000012333444557677775321169962112100000000000023445642011233223
Q gi|254780772|r  267 QKSGYVLIFQIDEGEIYTVGNISIQSTLQEIQKKTLLSLIRIRSGNLYNPQEIKESSEKISKYFFSGERPFVRVKTRINR  346 (781)
Q Consensus       267 ~~~~~~i~~~I~EG~~y~i~~i~i~g~~~~~~~~~l~~~~~~k~G~~~~~~~~~~~~~~i~~~y~~~GY~fa~v~~~~~~  346 (781)
                      +-+.-+|.+.|.||   ++++|.+.|+.. .....+...++.++|++.+..++++.++.++.....+      +...+.+
T Consensus       135 ~i~~G~l~l~VveG---~i~~i~i~g~~~-~~~~~~~~~~p~~~g~~Ln~~~lEq~l~~l~~~P~~q------a~~~l~p  204 (554)
T COG2831         135 DLKSGTLRLQVVEG---RIEDIRITGDSD-LRSVALRSLFPAHRGDPLNLRDLEQGLELLNRLPGVQ------ADAELVP  204 (554)
T ss_pred             CCCCCEEEEEEEEE---EEEEEEECCCCC-CHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCC------CEEEECC
T ss_conf             45578799999521---856589827887-4146677547667899778899999999862274422------1256777


Q ss_pred             CCCCCEEEEEEECCCCCCCEEE
Q ss_conf             4344046655412333220110
Q gi|254780772|r  347 DFAKRIVDIEYLIDQGSPLYVK  368 (781)
Q Consensus       347 d~~~~~vdi~~~I~eg~~~~i~  368 (781)
                      ..+.+.-+|.+.+.+++++.+.
T Consensus       205 g~~~G~S~l~i~~~~~~~~~~~  226 (554)
T COG2831         205 GSEPGESDLVIKVQQGKPWRVS  226 (554)
T ss_pred             CCCCCCCEEEEEEEECCCEEEE
T ss_conf             7888841699984437967899


No 14 
>COG0729 Outer membrane protein [Cell envelope biogenesis, outer membrane]
Probab=99.33  E-value=2.8e-11  Score=91.13  Aligned_cols=212  Identities=12%  Similarity=0.191  Sum_probs=149.2

Q ss_pred             CHHHHHHHHHHHHHHHHHCCCCEEEEEEEEEE-CCCCCEEEEEEEECCCCEEEE--EEEEECCCCCCHHHHHHHHH-CCC
Q ss_conf             99999999999999999729700179987643-389842588986036632467--78750443110122221110-012
Q gi|254780772|r  145 DEDTVNADVHNIKQAYASIGYLNVMVKVQHHS-ISPTTLNITYVIEEGVKAKIN--SIRFVGNKNYSHARLERVIS-IRT  220 (781)
Q Consensus       145 ~~~~~~~~~~~i~~~y~~~Gy~~a~V~~~~~~-~~~~~v~i~~~I~EG~~~~I~--~I~f~Gn~~f~~~~L~~~~~-~k~  220 (781)
                      .+.......+......+..||+.+++.+++.. ..+..-.++..|..|++.+|.  .+...| .++.+..++.... ..+
T Consensus        64 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~pg~~~~i~~~~~~~~G-~a~~d~~~~~~~~~~~~  142 (594)
T COG0729          64 DSRFRGLLDKARRDGLRALGYLQPKGRFGGKVSVTEKRGKLIAKVTPGEPTPIAVVIVVLPG-PAFTDGDYRLLGDAAGP  142 (594)
T ss_pred             CCCHHHHHHHCCCHHHHHHCEECCEEEECCCCEEECCCCCEEEECCCCCCCCCCEEEEECCC-CCCCCHHHHHHHHHHCC
T ss_conf             31034565641016776420004503541431000345521332389998665325662246-20037346554343121


Q ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHC-CCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCH
Q ss_conf             21124456664310233334578888887542322100-12310124555541012202222100000123334445576
Q gi|254780772|r  221 SGYFSFGKTDVYSKERMSFDEEAIRAFYHDRGYAAVKV-SSQVLFDKQKSGYVLIFQIDEGEIYTVGNISIQSTLQEIQK  299 (781)
Q Consensus       221 ~~~~~~~~~~~~~~~~l~~D~~~l~~~Y~~~GY~d~~V-~~~~~~~~~~~~~~i~~~I~EG~~y~i~~i~i~g~~~~~~~  299 (781)
                      .      .+..+++..++.-+.+|.+....+||++++. .+++..+++.+.+.+++.++-|++|.++.|+|+|. .-+++
T Consensus       143 ~------~G~~~~~~~~~n~k~~i~~~~~~~gy~~a~~~~~r~~v~~~~~~a~~~~~~dsG~~y~~g~v~~~g~-~r~~~  215 (594)
T COG0729         143 K------EGEDLNQGTYENAKSSIVRALLRKGYFLARFTKSRLVVDPATHTADVDLNYDSGRRYRFGPVTVEGS-QRIDE  215 (594)
T ss_pred             C------CCCCCCCCHHHHHHHHHHHHHHHCCCCHHCCCCCCCCCCCCCCEEEEEEEECCCCEEEECCEEECCC-EECCH
T ss_conf             3------5873565211114678999998728300025403011162315688998633541697676797166-03587


Q ss_pred             HHHHHHHHCCCCCEECCCCCCHHHHHCCCCCCCCCCCCC-CCCCCCCCCCCCCEEEEEEECCCCCCCEEE
Q ss_conf             777753211699621121000000000000234456420-112332234344046655412333220110
Q gi|254780772|r  300 KTLLSLIRIRSGNLYNPQEIKESSEKISKYFFSGERPFV-RVKTRINRDFAKRIVDIEYLIDQGSPLYVK  368 (781)
Q Consensus       300 ~~l~~~~~~k~G~~~~~~~~~~~~~~i~~~y~~~GY~fa-~v~~~~~~d~~~~~vdi~~~I~eg~~~~i~  368 (781)
                      +.+...+++++|++|..+.+.+..++    +...+|... .|.+..++...+..+.+.+.+.|+++.+++
T Consensus       216 ~~~~~~~~~~~G~~Y~~~~l~~~~~r----l~~~~~F~sv~v~~~~~~~~~~~~~pv~v~~~~rk~~~~~  281 (594)
T COG0729         216 EYLQNLVPFKYGLPYDPEDLAELNQR----LRQTGYFSSVVVQPADKQAGPDGLLPVKVSVSERKENTFE  281 (594)
T ss_pred             HHHHHCCCCCCCCCCCHHHHHHHHHH----HHHCCCEEEEEEECCCCCCCCCCEECEEEEECCCCCCEEE
T ss_conf             78763036667886787799999998----7615850348981275555767603539885246553377


No 15 
>pfam07244 Surf_Ag_VNR Surface antigen variable number repeat. This family is found primarily in bacterial surface antigens, normally as variable number repeats at the N-terminus. The C-terminus of these proteins is normally represented by pfam01103. The alignment centres on a -GY- or -GF- motif. Some members of this family are found in the mitochondria. It is predicted to have a mixed alpha/beta secondary structure.
Probab=99.09  E-value=7.6e-10  Score=81.73  Aligned_cols=77  Identities=23%  Similarity=0.487  Sum_probs=69.7

Q ss_pred             CEEEEEEEECCCC-CCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEEEEEECCCCCEEEEEEEECC
Q ss_conf             5365799956543-69889988730057863799999999999999999729700179987643389842588986036
Q gi|254780772|r  114 KIINHLFFSGNNN-LKDDQLKMIVRSRSAAAYDEDTVNADVHNIKQAYASIGYLNVMVKVQHHSISPTTLNITYVIEEG  191 (781)
Q Consensus       114 p~i~~i~~~Gn~~-~~~~~l~~~~~~~~g~~~~~~~~~~~~~~i~~~y~~~Gy~~a~V~~~~~~~~~~~v~i~~~I~EG  191 (781)
                      |.|++|.|+||.. ++++.|.+.+.+++|++|++..+++++++|.++|.+.||++++|++...+. ++.|+|+|.|+||
T Consensus         1 ~~i~~I~~~Gn~~~~~~~~l~~~~~~~~G~~~~~~~i~~~~~~l~~~y~~~Gy~~~~V~~~~~~~-~~~v~l~~~V~Eg   78 (78)
T pfam07244         1 YKIKDINIEGNLKRTKDEVLRRELKLKEGDVFNREKLEEDIERLYDYYGALGYAFADVKVEPEPD-PKTVDLTFNVDEG   78 (78)
T ss_pred             CEEEEEEEEECCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCEEECC-CCEEEEEEEEECC
T ss_conf             97979999948866899999998635887631699999799999999986797654433177138-9989999998269


No 16 
>pfam07244 Surf_Ag_VNR Surface antigen variable number repeat. This family is found primarily in bacterial surface antigens, normally as variable number repeats at the N-terminus. The C-terminus of these proteins is normally represented by pfam01103. The alignment centres on a -GY- or -GF- motif. Some members of this family are found in the mitochondria. It is predicted to have a mixed alpha/beta secondary structure.
Probab=98.78  E-value=3.6e-09  Score=77.26  Aligned_cols=77  Identities=22%  Similarity=0.513  Sum_probs=40.5

Q ss_pred             CCCCCCCCCCCCCCCHHHHHHHHHCCCCCEECCCCCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCC
Q ss_conf             0000123334445576777753211699621121000000000000234456420112332234344046655412333
Q gi|254780772|r  284 TVGNISIQSTLQEIQKKTLLSLIRIRSGNLYNPQEIKESSEKISKYFFSGERPFVRVKTRINRDFAKRIVDIEYLIDQG  362 (781)
Q Consensus       284 ~i~~i~i~g~~~~~~~~~l~~~~~~k~G~~~~~~~~~~~~~~i~~~y~~~GY~fa~v~~~~~~d~~~~~vdi~~~I~eg  362 (781)
                      +|++|+|+||...+++++|.+.+++++|++|+...++++.++|.++|.+.||+|++|.+.+..+  ++.|+|+|.|+||
T Consensus         2 ~i~~I~~~Gn~~~~~~~~l~~~~~~~~G~~~~~~~i~~~~~~l~~~y~~~Gy~~~~V~~~~~~~--~~~v~l~~~V~Eg   78 (78)
T pfam07244         2 KIKDINIEGNLKRTKDEVLRRELKLKEGDVFNREKLEEDIERLYDYYGALGYAFADVKVEPEPD--PKTVDLTFNVDEG   78 (78)
T ss_pred             EEEEEEEEECCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCEEECC--CCEEEEEEEEECC
T ss_conf             7979999948866899999998635887631699999799999999986797654433177138--9989999998269


No 17 
>TIGR00992 3a0901s03IAP75 chloroplast envelope protein translocase, IAP75 family; InterPro: IPR005689   Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accompished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex loacted at the inner membrane . The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane.   This entry represents Toc750, a core component of the Toc complex. This protein is deeply embedded in the outer membrane and forms the voltage-dependent translocation channel . Toc75 itself appears to be capable of at least some discrimination between substrate and non-substrate proteins, with recognition based on based on both conformational and electrostatic interactions. ; GO: 0015450 P-P-bond-hydrolysis-driven protein transmembrane transporter activity, 0006886 intracellular protein transport, 0009707 chloroplast outer membrane.
Probab=98.73  E-value=5.1e-08  Score=69.76  Aligned_cols=220  Identities=15%  Similarity=0.132  Sum_probs=150.2

Q ss_pred             EEEEEEEECCCCCCHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEEECC----EEEEEEEECCEEEE-EEE
Q ss_conf             6858999665007988999974878988268899999999999679800389998699----89999993653657-999
Q gi|254780772|r   47 IVRRIEIRGATNVGKEVILSRIPVVVGQSISDADLDHAVKNIYAMGYFSNVKIKIVDS----VLIIDLIERKIINH-LFF  121 (781)
Q Consensus        47 ~i~~I~i~G~~~i~~~~i~~~~~~~~G~~~~~~~i~~~i~~l~~~g~F~~v~~~~~~~----~l~~~v~e~p~i~~-i~~  121 (781)
                      .++++++.|..-.-+...+......+|..=....+.+++...+++++|.+|.+-..+.    ...+.++|+|.-.. .+.
T Consensus       145 L~~E~~~~aT~g~~E~~~~~~~~~~~G~~~~~~~~~E~~~~~~~~~~~~NV~~~~~~~P~~~~~~~~~~~~~~f~~~l~~  224 (768)
T TIGR00992       145 LQKELEVLATCGMLEKVDLEGKTTQDGRLGVTISLAESVWAIADRFRCINVGLMPQSKPLEVDVDMEVKEKLEFTRRLEK  224 (768)
T ss_pred             HHHHHHHHCCCCCEEEEEECCEECCCCCEEEEEEEHHHHHHHHHCEEEEEEEECCCCCCCEECCCHHHCCCEEEEHHHHH
T ss_conf             77666552478620222113400689824789874123675540401587775246754100466000123111000111


Q ss_pred             E-------C-CCCCCHHHHHHHHHHCCC-CCCCHHHHHHHHHHHHHHHHHCCCCEEEEEEEEEECCCCCEEEEEEEECCC
Q ss_conf             5-------6-543698899887300578-637999999999999999997297001799876433898425889860366
Q gi|254780772|r  122 S-------G-NNNLKDDQLKMIVRSRSA-AAYDEDTVNADVHNIKQAYASIGYLNVMVKVQHHSISPTTLNITYVIEEGV  192 (781)
Q Consensus       122 ~-------G-n~~~~~~~l~~~~~~~~g-~~~~~~~~~~~~~~i~~~y~~~Gy~~a~V~~~~~~~~~~~v~i~~~I~EG~  192 (781)
                      +       | ...+..+-..+......+ ..++-..|++.+++|.+.|+++||--|+|--. -.+. .+-.|+..|.||.
T Consensus       225 ~~~~~~~~a~~~lLP~~V~~E~~~~~~~q~~~~~R~LQ~~~~~v~~WY~~~GY~~AQVV~~-g~~~-~~G~V~~~v~EG~  302 (768)
T TIGR00992       225 RYKRRIAEARPCLLPQEVVDEVFGMLYGQGKVSARLLQEIRDRVQEWYHNEGYALAQVVNF-GNLN-TDGEVVLEVVEGD  302 (768)
T ss_pred             HHCCHHHCCCCCCCCHHHHHHHHHHHHCCCEECHHHHHHHHHHHHHHHHHCCCEEEEEECC-CCCC-CCCEEEEEEECCC
T ss_conf             1011013056554873678899987540551006777778888863110057507787346-7637-7651899996471


Q ss_pred             CEEEEEEEE--------ECCCCC--CHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             324677875--------044311--0122221110012211244566643102333345788888875423221001231
Q gi|254780772|r  193 KAKINSIRF--------VGNKNY--SHARLERVISIRTSGYFSFGKTDVYSKERMSFDEEAIRAFYHDRGYAAVKVSSQV  262 (781)
Q Consensus       193 ~~~I~~I~f--------~Gn~~f--~~~~L~~~~~~k~~~~~~~~~~~~~~~~~l~~D~~~l~~~Y~~~GY~d~~V~~~~  262 (781)
                      -..|. |+|        +||+.-  =.++|++++.          .++.|+.+.=..|+++|.++-+   |-|++|+..=
T Consensus       303 ~~~l~-~~f~D~~~~~V~G~T~~~vv~REl~kqL~----------~G~vFN~~~~~~~L~~~~SLgL---F~~~~~~~~P  368 (768)
T TIGR00992       303 ITNLQ-IQFLDKLGNVVEGNTRDPVVTRELPKQLK----------PGDVFNIEAGKTALQNINSLGL---FSNIEVNPRP  368 (768)
T ss_pred             EEEEE-EEEECCCCCEECCCCCCCEEEECCHHHCC----------CCCEECHHHHHHHHHHHHHHHH---HCCCEECCCC
T ss_conf             21678-99972678743055466238523353257----------8844413678888765432210---0011554688


Q ss_pred             CCCCCCCCCCEEEEECCCCCC
Q ss_conf             012455554101220222210
Q gi|254780772|r  263 LFDKQKSGYVLIFQIDEGEIY  283 (781)
Q Consensus       263 ~~~~~~~~~~i~~~I~EG~~y  283 (781)
                       -..+...+.|.++|.|+++-
T Consensus       369 -~~~~~~~~IV~~~~~E~~~~  388 (768)
T TIGR00992       369 -DEKNEGEIIVEIKLKELEQK  388 (768)
T ss_pred             -CCCCCCEEEEEEEEEECCCC
T ss_conf             -88888627999899854776


No 18 
>PRK05529 cell division protein FtsQ; Provisional
Probab=98.54  E-value=7.7e-06  Score=55.51  Aligned_cols=120  Identities=15%  Similarity=0.215  Sum_probs=93.1

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHCCCCEEEEEEEEECCCCCCHHHHHHHCCCCCCCCCCHH
Q ss_conf             740378999999999998888999999999--999999875114652685899966500798899997487898826889
Q gi|254780772|r    2 HKSTEDFRRIKRLLEKYFPRSFQMGFIILF--YAIFGLSAVYGSNTSIVRRIEIRGATNVGKEVILSRIPVVVGQSISDA   79 (781)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~i~~I~i~G~~~i~~~~i~~~~~~~~G~~~~~~   79 (781)
                      ||+..+.++++|+.+++-.|.+...--+-.  .++..+-.++...-.-|++|+|+|+++++.+.|...+....|+++-.-
T Consensus        15 ~~~~~~~~~~~~~~~~~r~r~~~~~~~~g~v~~l~~~v~~~~fSpll~v~~I~V~G~~~~~~~~V~~a~~~~~G~pL~~v   94 (255)
T PRK05529         15 RKERKDYERVRRFTTRIRRRFILLACAVGAVLTLLLFVMLSAYSPLLALRSIEVAGNMRVKPQDIVAALRDQFGKPLPLV   94 (255)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEEEEECCCCCCHHHHHHHHCCCCCCEEEEE
T ss_conf             88888899999999988888898999999999999999985417546988999989834799999998658789851388


Q ss_pred             HHHHHHHHHHHCCCCCEEEEEEE-CCEEEEEEEECCEEEEEEE
Q ss_conf             99999999996798003899986-9989999993653657999
Q gi|254780772|r   80 DLDHAVKNIYAMGYFSNVKIKIV-DSVLIIDLIERKIINHLFF  121 (781)
Q Consensus        80 ~i~~~i~~l~~~g~F~~v~~~~~-~~~l~~~v~e~p~i~~i~~  121 (781)
                      +.++.-++|-+.-+-.++++... .+.|.|.|+|+--+.-+.-
T Consensus        95 d~~~v~~~l~~lp~V~sa~V~r~~P~~l~I~V~ER~Pva~v~~  137 (255)
T PRK05529         95 DPETVRKKLAAFPLIRSYSVESKPPGTIVVRVVERVPLAFIQR  137 (255)
T ss_pred             CHHHHHHHHHCCCCEEEEEEEECCCCCEEEEEEEEEEEEEEEE
T ss_conf             6999999874499855899996397926999995052799982


No 19 
>pfam08479 POTRA_2 POTRA domain, ShlB-type. The POTRA domain (for polypeptide-transport-associated domain) is found towards the N-terminus of ShlB family proteins (pfam03865). ShlB is important in the secretion and activation of the haemolysin ShlA. It has been postulated that the POTRA domain has a chaperone-like function over ShlA; it may fold back into the C-terminal beta-barrel channel.
Probab=98.37  E-value=3.9e-06  Score=57.43  Aligned_cols=75  Identities=19%  Similarity=0.279  Sum_probs=65.6

Q ss_pred             EEEEEEEECCCCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEEEEEECCCCCEEEEEEEECC
Q ss_conf             36579995654369889988730057863799999999999999999729700179987643389842588986036
Q gi|254780772|r  115 IINHLFFSGNNNLKDDQLKMIVRSRSAAAYDEDTVNADVHNIKQAYASIGYLNVMVKVQHHSISPTTLNITYVIEEG  191 (781)
Q Consensus       115 ~i~~i~~~Gn~~~~~~~l~~~~~~~~g~~~~~~~~~~~~~~i~~~y~~~Gy~~a~V~~~~~~~~~~~v~i~~~I~EG  191 (781)
                      .|++|.|+||+.+++++|.+.+.-..|..++...+++.+..|.++|.++||..+.|...-.+..++.  |.+.|.||
T Consensus         2 ~v~~i~~~G~~~~~~~~l~~~~~~~~g~~l~~~~L~~~~~~i~~~Y~~~GY~~srv~lP~Q~i~~G~--l~i~VvEG   76 (76)
T pfam08479         2 PIKGIELEGNTLLPPADLAALLQPYLGRCLGLADLNQLAKALTNAYIERGYVTSRVYLPPQDLSDGV--LRLTVLEG   76 (76)
T ss_pred             CEEEEEEECCCCCCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCCE--EEEEEECC
T ss_conf             0789999898257999999987875098369999999999999999988987999981785067988--99999688


No 20 
>pfam06898 YqfD Putative stage IV sporulation protein YqfD. This family consists of several putative bacterial stage IV sporulation (SpoIV) proteins. YqfD of Bacillus subtilis is known to be essential for efficient sporulation although its exact function is unknown.
Probab=98.19  E-value=6.4e-05  Score=49.47  Aligned_cols=95  Identities=18%  Similarity=0.254  Sum_probs=68.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHCCCCEEEEEEEEECCCCCCHHHHHHHC---CCCCCCC---CCHHHHH
Q ss_conf             99999999988889999999999999-998751146526858999665007988999974---8789882---6889999
Q gi|254780772|r   10 RIKRLLEKYFPRSFQMGFIILFYAIF-GLSAVYGSNTSIVRRIEIRGATNVGKEVILSRI---PVVVGQS---ISDADLD   82 (781)
Q Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~i~~I~i~G~~~i~~~~i~~~~---~~~~G~~---~~~~~i~   82 (781)
                      ++-+++.|..+|+.++.-+++|++++ .+|.       .|=+|+|+||..++++.|+..+   ++++|..   ++...+.
T Consensus        76 GlpF~~~r~~kR~~~~~G~~~f~~~l~~lS~-------fVW~I~i~G~~~~t~~~i~~~L~~~gi~~G~~k~~id~~~ie  148 (383)
T pfam06898        76 GLPFLFFRLRKRRGIVLGILLFVILLYFLSN-------FIWSIDIKTAKNIAEHEIRQQLNEIGVKSGVKKFSLDVYKLE  148 (383)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------EEEEEEEECCCCCCHHHHHHHHHHCCCCCCEECCCCCHHHHH
T ss_conf             7178999988879999999999999997840-------699999986998998999999998699778072778999999


Q ss_pred             HHHHHHHHCCCCCEEEEEEECCEEEEEEEEC
Q ss_conf             9999999679800389998699899999936
Q gi|254780772|r   83 HAVKNIYAMGYFSNVKIKIVDSVLIIDLIER  113 (781)
Q Consensus        83 ~~i~~l~~~g~F~~v~~~~~~~~l~~~v~e~  113 (781)
                      +.+..-  ..-++.|.++.+|..|.+.|+|+
T Consensus       149 ~~l~~~--~~~i~Wv~v~i~Gt~l~v~v~Ek  177 (383)
T pfam06898       149 RELTDN--NNNIMWIGVRVRGTTLKVKVVEK  177 (383)
T ss_pred             HHHHHH--CCCEEEEEEEEEEEEEEEEEEEC
T ss_conf             999864--89829999999836999999965


No 21 
>COG1589 FtsQ Cell division septal protein [Cell envelope biogenesis, outer membrane]
Probab=97.99  E-value=0.00025  Score=45.63  Aligned_cols=78  Identities=22%  Similarity=0.318  Sum_probs=67.3

Q ss_pred             EEEEEEEEECCCCCCHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEEE-CCEEEEEEEECCEEEEEEEEC
Q ss_conf             268589996650079889999748789882688999999999996798003899986-998999999365365799956
Q gi|254780772|r   46 SIVRRIEIRGATNVGKEVILSRIPVVVGQSISDADLDHAVKNIYAMGYFSNVKIKIV-DSVLIIDLIERKIINHLFFSG  123 (781)
Q Consensus        46 ~~i~~I~i~G~~~i~~~~i~~~~~~~~G~~~~~~~i~~~i~~l~~~g~F~~v~~~~~-~~~l~~~v~e~p~i~~i~~~G  123 (781)
                      ..|++|.|+||..+++++|+..+++..+..+=.-+++++-.+|-+.-+-++|+|... -+.+.|.|+|+..|.-....+
T Consensus        60 ~~i~~v~v~Gn~~~s~~~I~~~~~l~~~~~~~~ld~~~~~~~i~~~PwVk~a~V~r~~Pntv~I~v~Er~piA~w~~~~  138 (269)
T COG1589          60 FPIRKVSVSGNNQVSEEDILKALGLDGGTSFLTLDLNAIRENIEKLPWVKSAEVRRQFPNTLEIEVVEREPIAYWQRND  138 (269)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHCCCCCCCEEEECHHHHHHHHHHCCCEEEEEEEEECCCCEEEEEEEEEEEEEEEECC
T ss_conf             7520899967843699999998575689854887699999998629765799999838994799999850379997079


No 22 
>pfam08479 POTRA_2 POTRA domain, ShlB-type. The POTRA domain (for polypeptide-transport-associated domain) is found towards the N-terminus of ShlB family proteins (pfam03865). ShlB is important in the secretion and activation of the haemolysin ShlA. It has been postulated that the POTRA domain has a chaperone-like function over ShlA; it may fold back into the C-terminal beta-barrel channel.
Probab=97.71  E-value=1.8e-05  Score=53.12  Aligned_cols=75  Identities=23%  Similarity=0.268  Sum_probs=42.4

Q ss_pred             EEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEE
Q ss_conf             46778750443110122221110012211244566643102333345788888875423221001231012455554101
Q gi|254780772|r  195 KINSIRFVGNKNYSHARLERVISIRTSGYFSFGKTDVYSKERMSFDEEAIRAFYHDRGYAAVKVSSQVLFDKQKSGYVLI  274 (781)
Q Consensus       195 ~I~~I~f~Gn~~f~~~~L~~~~~~k~~~~~~~~~~~~~~~~~l~~D~~~l~~~Y~~~GY~d~~V~~~~~~~~~~~~~~i~  274 (781)
                      .|++|.|+||+.|++.+|...+.--.        +.....+.|..-.+.|.++|+++||.-+++.-+-   .+-.+..|.
T Consensus         2 ~v~~i~~~G~~~~~~~~l~~~~~~~~--------g~~l~~~~L~~~~~~i~~~Y~~~GY~~srv~lP~---Q~i~~G~l~   70 (76)
T pfam08479         2 PIKGIELEGNTLLPPADLAALLQPYL--------GRCLGLADLNQLAKALTNAYIERGYVTSRVYLPP---QDLSDGVLR   70 (76)
T ss_pred             CEEEEEEECCCCCCHHHHHHHHHHHC--------CCCCCHHHHHHHHHHHHHHHHHCCCEEEEEECCC---CCCCCCEEE
T ss_conf             07899998982579999999878750--------9836999999999999999998898799998178---506798899


Q ss_pred             EEECCC
Q ss_conf             220222
Q gi|254780772|r  275 FQIDEG  280 (781)
Q Consensus       275 ~~I~EG  280 (781)
                      +.|.||
T Consensus        71 i~VvEG   76 (76)
T pfam08479        71 LTVLEG   76 (76)
T ss_pred             EEEECC
T ss_conf             999688


No 23 
>pfam08478 POTRA_1 POTRA domain, FtsQ-type. FtsQ/DivIB bacterial division proteins (pfam03799) contain an N-terminal POTRA domain (for polypeptide-transport-associated domain). This is found in different types of proteins, usually associated with a transmembrane beta-barrel. FtsQ/DivIB may have chaperone-like roles, which has also been postulated for the POTRA domain in other contexts.
Probab=97.21  E-value=0.0013  Score=40.90  Aligned_cols=66  Identities=21%  Similarity=0.392  Sum_probs=58.1

Q ss_pred             EEEEEEECCCCCCHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEEE-CCEEEEEEEEC
Q ss_conf             8589996650079889999748789882688999999999996798003899986-99899999936
Q gi|254780772|r   48 VRRIEIRGATNVGKEVILSRIPVVVGQSISDADLDHAVKNIYAMGYFSNVKIKIV-DSVLIIDLIER  113 (781)
Q Consensus        48 i~~I~i~G~~~i~~~~i~~~~~~~~G~~~~~~~i~~~i~~l~~~g~F~~v~~~~~-~~~l~~~v~e~  113 (781)
                      |++|+|.||+++++++|+..+++..|+++=.-+.++.-++|-+.-+-++|+|... .+.|.+.|.|+
T Consensus         1 i~~I~V~G~~~~~~~~i~~~~~~~~~~~~~~i~~~~i~~~l~~~p~I~~a~V~r~~P~~l~I~I~Er   67 (67)
T pfam08478         1 IRQVEVSGNKHVSAEEIRKALGIQKGTSFFSVDLNAIEDRLEKLPWIKSASVRRQWPNTLEIRVVER   67 (67)
T ss_pred             CCEEEEECCCCCCHHHHHHHHCCCCCCCEEEECHHHHHHHHHCCCCEEEEEEEEECCCEEEEEEEEC
T ss_conf             9299999983479999999767658992799989999998747887269999997799899999969


No 24 
>TIGR02876 spore_yqfD sporulation protein YqfD; InterPro: IPR010690   This family consists of several putative bacterial stage IV sporulation (SpoIV) proteins. YqfD of Bacillus subtilis (P54469 from SWISSPROT) is known to be essential for efficient sporulation although its exact function is unknown ..
Probab=97.08  E-value=0.011  Score=34.83  Aligned_cols=103  Identities=17%  Similarity=0.233  Sum_probs=71.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHCCCCEEEEEEE--EECCCCCCHHHHH---HHCCCCCCCCCCHHH-HH
Q ss_conf             9999999998888999999999-999999875114652685899--9665007988999---974878988268899-99
Q gi|254780772|r   10 RIKRLLEKYFPRSFQMGFIILF-YAIFGLSAVYGSNTSIVRRIE--IRGATNVGKEVIL---SRIPVVVGQSISDAD-LD   82 (781)
Q Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~i~~I~--i~G~~~i~~~~i~---~~~~~~~G~~~~~~~-i~   82 (781)
                      ++.|+..|-.+|.+++.-++++ ++++++|..       |=+|+  |.|...+.+..|+   ..+++++|..-..-+ ++
T Consensus        73 G~pF~~~r~~kr~~~~~G~L~f~~~~~~lS~f-------iW~IdvrI~g~~~~~~~~i~~~L~~~G~k~Gv~k~~~Ds~~  145 (406)
T TIGR02876        73 GLPFLIKRLRKRPGILIGILLFLAIVYLLSTF-------IWKIDVRITGVKGETEYEIRKELKEMGIKPGVKKFSIDSVY  145 (406)
T ss_pred             CCHHHHHHHHHCCCHHHHHHHHHHHHHHHCCC-------EEEEEEEEECCCCCCHHHHHHHHHHCCCCCCCCCCCCCCHH
T ss_conf             81478889885500766899999999986175-------58999997279997789999999855875683203688988


Q ss_pred             HHHHHHHH-CCCCCEEEEEEECCEEEEEEEECCEE--EEE
Q ss_conf             99999996-79800389998699899999936536--579
Q gi|254780772|r   83 HAVKNIYA-MGYFSNVKIKIVDSVLIIDLIERKII--NHL  119 (781)
Q Consensus        83 ~~i~~l~~-~g~F~~v~~~~~~~~l~~~v~e~p~i--~~i  119 (781)
                      ..-+.|.+ ..-..-|.++.+|+.|.|+|+|+-.+  ..+
T Consensus       146 ~~~~~L~~~~~ei~Wv~v~~~Gt~l~~kvvEk~~~ki~~~  185 (406)
T TIGR02876       146 KLERKLLDRVPEIMWVGVRVRGTKLVIKVVEKQEPKIKEV  185 (406)
T ss_pred             HHHHHHHHCCCCEEEEEEEEECCEEEEEEEECCCCCCCCC
T ss_conf             9999998459948999999853099999982133324456


No 25 
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=93.97  E-value=0.37  Score=24.85  Aligned_cols=37  Identities=16%  Similarity=0.129  Sum_probs=20.9

Q ss_pred             CHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCCE
Q ss_conf             9889999748789882688999999999996798003
Q gi|254780772|r   60 GKEVILSRIPVVVGQSISDADLDHAVKNIYAMGYFSN   96 (781)
Q Consensus        60 ~~~~i~~~~~~~~G~~~~~~~i~~~i~~l~~~g~F~~   96 (781)
                      +.+.|.-...-.+-..+....+....|+.-..+-|..
T Consensus        81 d~~v~~~~~~~~~~~~lp~~~l~~~Aka~Rn~kq~~~  117 (818)
T PRK10049         81 DQEVITVYERYQSHMQLPARGLAAAARAYRNLKQWQN  117 (818)
T ss_pred             CHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             7799999996188888997999999999863554677


No 26 
>PRK10775 cell division protein FtsQ; Provisional
Probab=92.36  E-value=0.65  Score=23.28  Aligned_cols=140  Identities=14%  Similarity=0.161  Sum_probs=89.6

Q ss_pred             CCCEEEEEEEEEC-CCCCCHHHHHHHC-CCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEEE-CCEEEEEEEECCEEEEE
Q ss_conf             4652685899966-5007988999974-8789882688999999999996798003899986-99899999936536579
Q gi|254780772|r   43 SNTSIVRRIEIRG-ATNVGKEVILSRI-PVVVGQSISDADLDHAVKNIYAMGYFSNVKIKIV-DSVLIIDLIERKIINHL  119 (781)
Q Consensus        43 ~~~~~i~~I~i~G-~~~i~~~~i~~~~-~~~~G~~~~~~~i~~~i~~l~~~g~F~~v~~~~~-~~~l~~~v~e~p~i~~i  119 (781)
                      ++..=|+.|.|.| .++++.+.|...+ .....-.|=..+++.+-+.|-++-+-.+|+|... .+.|.|.|+|.-.|..=
T Consensus        53 ~~~lPis~i~v~G~~~~~~~~dir~ai~~~~~~G~Fft~Dl~~iq~~le~lPWV~~asVRR~WPd~L~V~v~E~~PvArW  132 (274)
T PRK10775         53 AQRLPLSKLVLTGERHYTRNDDIRQAILALGAPGTFMTQDVNIIQQQIERLPWIKQVSVRKQWPDELKIHLVEYVPIARW  132 (274)
T ss_pred             CCCCCCEEEEEECCCCCCCHHHHHHHHHHCCCCCCEEEECHHHHHHHHHHCCCEEEEEEEEECCCCEEEEEEEECCEEEE
T ss_conf             54388538999030041799999999984478997575069999999984999337889984899609999985348998


Q ss_pred             ------EEECCC-CCCHHHH-HHHHHHCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEEEEEECCCCCEEEEE
Q ss_conf             ------995654-3698899-887300578637999999999999999997297001799876433898425889
Q gi|254780772|r  120 ------FFSGNN-NLKDDQL-KMIVRSRSAAAYDEDTVNADVHNIKQAYASIGYLNVMVKVQHHSISPTTLNITY  186 (781)
Q Consensus       120 ------~~~Gn~-~~~~~~l-~~~~~~~~g~~~~~~~~~~~~~~i~~~y~~~Gy~~a~V~~~~~~~~~~~v~i~~  186 (781)
                            .-.|.- ....+.+ ...+..-.|..=++..+-+.-..+.+.+...|+--+.+...    +.+.+.|++
T Consensus       133 n~~~lln~~G~vF~~p~~~~~~~~LP~L~GP~gs~~~Vl~~Y~~l~~~L~~~gl~I~~L~l~----~R~aW~l~L  203 (274)
T PRK10775        133 NDQHMVDAEGNTFSVPSDRTGKQVLPMLYGPEGSENEVLQGYREMGQVLAKDKFTLKEAAMT----ARRSWQLTL  203 (274)
T ss_pred             CCCCCCCCCCEEEECCCCCCCCCCCCEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEEC----CCCEEEEEE
T ss_conf             99872768980986670004556885578999879999999999999998779876899975----786189996


No 27 
>PRK05529 cell division protein FtsQ; Provisional
Probab=87.74  E-value=0.24  Score=26.06  Aligned_cols=71  Identities=14%  Similarity=0.082  Sum_probs=41.9

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEEEEEECCCCCEEEEEEEECCCCEE
Q ss_conf             65799956543698899887300578637999999999999999997297001799876433898425889860366324
Q gi|254780772|r  116 INHLFFSGNNNLKDDQLKMIVRSRSAAAYDEDTVNADVHNIKQAYASIGYLNVMVKVQHHSISPTTLNITYVIEEGVKAK  195 (781)
Q Consensus       116 i~~i~~~Gn~~~~~~~l~~~~~~~~g~~~~~~~~~~~~~~i~~~y~~~Gy~~a~V~~~~~~~~~~~v~i~~~I~EG~~~~  195 (781)
                      |.+|+++||..++++++.+.+....|.++-.-...+..++|.+.   -+--.    .++...-++.  |.+.|.|-.++-
T Consensus        63 v~~I~V~G~~~~~~~~V~~a~~~~~G~pL~~vd~~~v~~~l~~l---p~V~s----a~V~r~~P~~--l~I~V~ER~Pva  133 (255)
T PRK05529         63 LRSIEVAGNMRVKPQDIVAALRDQFGKPLPLVDPETVRKKLAAF---PLIRS----YSVESKPPGT--IVVRVVERVPLA  133 (255)
T ss_pred             EEEEEEECCCCCCHHHHHHHHCCCCCCEEEEECHHHHHHHHHCC---CCEEE----EEEEECCCCC--EEEEEEEEEEEE
T ss_conf             88999989834799999998658789851388699999987449---98558----9999639792--699999505279


No 28 
>TIGR03509 OMP_MtrB_PioB decaheme-associated outer membrane protein, MtrB/PioB family. Members of this protein family are integral proteins of the bacterial outer membrane, associated with multiheme c-type cytochromes involved in electron transfer. The MtrB protein of Shewanella oneidensis MR-1 (SO1776) has been shown to form a complex with 1:1:1 stochiometry with the small, periplasmic decaheme cytochrome MtrA and large, surface-exposed decaheme cytochrome MtrC.
Probab=87.01  E-value=1.7  Score=20.51  Aligned_cols=36  Identities=17%  Similarity=0.147  Sum_probs=19.7

Q ss_pred             CCCCCCCCCCEEEEEEECCCCEEEEECCCEEEEEEE
Q ss_conf             334323332024554202543023540412577640
Q gi|254780772|r  516 GSLDINDESAAVRMIVPITESISTSFKYDLRFLQYG  551 (781)
Q Consensus       516 ~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  551 (781)
                      ..|+.++..+.+...|++.+..++..+|.++.....
T Consensus       345 ~~~d~tk~~~~l~a~YR~~~~~~l~~gy~~~~~dRs  380 (649)
T TIGR03509       345 RPYDKTKQKAELAADYRFTRSVKLTAGYDYKNDDRS  380 (649)
T ss_pred             CCCCCCCEECCEEEEEEECCCCEEECCEEEEECCCC
T ss_conf             665500003203334875467277611207752222


No 29 
>pfam08478 POTRA_1 POTRA domain, FtsQ-type. FtsQ/DivIB bacterial division proteins (pfam03799) contain an N-terminal POTRA domain (for polypeptide-transport-associated domain). This is found in different types of proteins, usually associated with a transmembrane beta-barrel. FtsQ/DivIB may have chaperone-like roles, which has also been postulated for the POTRA domain in other contexts.
Probab=85.80  E-value=0.23  Score=26.23  Aligned_cols=29  Identities=14%  Similarity=0.407  Sum_probs=19.2

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHCCCCCC
Q ss_conf             65799956543698899887300578637
Q gi|254780772|r  116 INHLFFSGNNNLKDDQLKMIVRSRSAAAY  144 (781)
Q Consensus       116 i~~i~~~Gn~~~~~~~l~~~~~~~~g~~~  144 (781)
                      |.+|.++||+.++++++.+.+++..|..+
T Consensus         1 i~~I~V~G~~~~~~~~i~~~~~~~~~~~~   29 (67)
T pfam08478         1 IRQVEVSGNKHVSAEEIRKALGIQKGTSF   29 (67)
T ss_pred             CCEEEEECCCCCCHHHHHHHHCCCCCCCE
T ss_conf             92999999834799999997676589927


No 30 
>pfam11854 DUF3374 Protein of unknown function (DUF3374). This family of proteins are functionally uncharacterized. This protein is found in bacteria. Proteins in this family are typically between 665 to 712 amino acids in length.
Probab=84.57  E-value=2.2  Score=19.74  Aligned_cols=32  Identities=13%  Similarity=0.166  Sum_probs=13.2

Q ss_pred             CCCCCCCCEEEEEEECCCCEEEEECCCEEEEE
Q ss_conf             43233320245542025430235404125776
Q gi|254780772|r  518 LDINDESAAVRMIVPITESISTSFKYDLRFLQ  549 (781)
Q Consensus       518 y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  549 (781)
                      |+.++..+.+...|++....++..+|.++...
T Consensus       374 ~d~tk~~~~l~a~YR~~~~~~l~agy~~~~~~  405 (675)
T pfam11854       374 YDRTRQKAKLAASYRLARGLKLDAGYDYKNDE  405 (675)
T ss_pred             CCCCCEECCCCCEEEECCCCEEEEEEEEEECC
T ss_conf             64101021001128844674576116675050


No 31 
>PRK09408 ompX outer membrane protein X; Provisional
Probab=82.92  E-value=2.6  Score=19.30  Aligned_cols=43  Identities=14%  Similarity=0.270  Sum_probs=31.0

Q ss_pred             EEEEEEEEEEECCCCCEEEEEEEECCCCCCCEEEEEEEEEEECC
Q ss_conf             47999999975570015899887226778760258999641059
Q gi|254780772|r  738 RVSTGVEIMWNSPLGMMGVYYGIPLRHREGDKIQQFGFRIGNRM  781 (781)
Q Consensus       738 r~s~G~Glr~~tP~Gpirld~a~pl~~~~~D~~~~f~FsiG~~f  781 (781)
                      ..++|+|+.++ |+--+-+|.+|-=.+-..-+...|-..+|-||
T Consensus       129 ~fayGAGvQ~N-P~~nvaid~gYE~S~~~~~~~~~f~vGvGYRF  171 (171)
T PRK09408        129 GFSYGAGLQFN-PMENVALDFSYEQSRIRSVDVGTWIAGVGYRF  171 (171)
T ss_pred             CEEEEEEEEEC-CCCCEEEEEEEEECCCCCEEECCEEEEEEECC
T ss_conf             14666547980-67787999876111458727685998114139


No 32 
>PRK04922 tolB translocation protein TolB; Provisional
Probab=80.65  E-value=3.1  Score=18.77  Aligned_cols=66  Identities=20%  Similarity=0.380  Sum_probs=31.0

Q ss_pred             HHHHHHHHHHH-HHHHHHCCCCEEEEEEEEEC-C-CCCCHHHHHHHCCCC-CCCC-CCHHHHHHHHH-HHHHCCCCCEE
Q ss_conf             99999999999-99875114652685899966-5-007988999974878-9882-68899999999-99967980038
Q gi|254780772|r   25 MGFIILFYAIF-GLSAVYGSNTSIVRRIEIRG-A-TNVGKEVILSRIPVV-VGQS-ISDADLDHAVK-NIYAMGYFSNV   97 (781)
Q Consensus        25 ~~~~~~~~~~~-~~~~~~~~~~~~i~~I~i~G-~-~~i~~~~i~~~~~~~-~G~~-~~~~~i~~~i~-~l~~~g~F~~v   97 (781)
                      ++.+.++++++ ++.+.+++.+.   +|+|.| . +.++-. |   .++. .|+. .-..++.+.|. .|-.+|+|.-+
T Consensus         5 ~~~~~~~~~~~~~~~a~~a~a~L---~IeIt~G~~~~~pIA-V---~pF~~~~~~~~~~~~i~~II~~DL~~SG~F~~l   76 (439)
T PRK04922          5 LRWLAALTALLLPLSALAQQQGL---TIDIVGGSASATPIA-V---VPMPYQGSGTAPQTDVSAVVSADLDRSGQFRTL   76 (439)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCE---EEEEECCCCCCEEEE-E---ECCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCC
T ss_conf             89999999999987788616836---999935777705069-9---375657876550364999998657727274415


No 33 
>PRK01742 tolB translocation protein TolB; Provisional
Probab=78.04  E-value=3.8  Score=18.25  Aligned_cols=44  Identities=20%  Similarity=0.314  Sum_probs=24.3

Q ss_pred             EEEEE-CCC-CCCHHHHHHHCCCCCCCCCCHHHHHHHHH-HHHHCCCCCEEE
Q ss_conf             89996-650-07988999974878988268899999999-999679800389
Q gi|254780772|r   50 RIEIR-GAT-NVGKEVILSRIPVVVGQSISDADLDHAVK-NIYAMGYFSNVK   98 (781)
Q Consensus        50 ~I~i~-G~~-~i~~~~i~~~~~~~~G~~~~~~~i~~~i~-~l~~~g~F~~v~   98 (781)
                      +|+|. |.. .++-.    ..++.-.... +++|.+.|. .|-.+|+|+-+.
T Consensus        28 ~I~It~G~~~~~pIA----i~pF~~~~~~-~~~i~~vI~~DL~~SG~F~~i~   74 (430)
T PRK01742         28 RIVIDEGVDGARPIA----VVPFKWNGSA-PEDIAKIIAADLRNSGKFNPIA   74 (430)
T ss_pred             EEEEECCCCCCCCEE----EECCCCCCCC-HHHHHHHHHHHHHCCCCCCCCC
T ss_conf             999945767740459----9253678976-6789999987776084726259


No 34 
>PRK00178 tolB translocation protein TolB; Provisional
Probab=72.89  E-value=5.1  Score=17.39  Aligned_cols=67  Identities=18%  Similarity=0.334  Sum_probs=33.9

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCEEEEEEEEEC-C-CCCCHHHHHHHCCCC-CCCCCCHHHHHHHH-HHHHHCCCCCEEE
Q ss_conf             99999999999999875114652685899966-5-007988999974878-98826889999999-9999679800389
Q gi|254780772|r   24 QMGFIILFYAIFGLSAVYGSNTSIVRRIEIRG-A-TNVGKEVILSRIPVV-VGQSISDADLDHAV-KNIYAMGYFSNVK   98 (781)
Q Consensus        24 ~~~~~~~~~~~~~~~~~~~~~~~~i~~I~i~G-~-~~i~~~~i~~~~~~~-~G~~~~~~~i~~~i-~~l~~~g~F~~v~   98 (781)
                      .|+.++++++|++++..+.++    -.|+|.+ . ..++- +|   .++. .|..--++++.+.| ..|-.+|+|+-+.
T Consensus         3 ~l~~~~~l~~~l~~~~~a~A~----l~I~It~g~~~~ipI-AI---~pF~~~~~~~~~~~i~~iI~~DL~~sG~F~~l~   73 (433)
T PRK00178          3 KLKRIALLVLCLLAGGAAAAE----LNIEITSGSDRAIPI-AV---VPFGWQGGSVLPEDMAQIIGNDLRNSGYFEPIP   73 (433)
T ss_pred             CHHHHHHHHHHHHHHHHHCEE----EEEEEECCCCCEEEE-EE---CCCCCCCCCCHHHHHHHHHHHHHHCCCCCEECC
T ss_conf             179999999999876762203----999993477760406-98---576666876224899999998886288855248


No 35 
>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein; InterPro: IPR005696    Bacteriocins are antibacterial proteinaceous compounds produced by bacteria. In Gram-positive bacteria, they are divided into four classes. Within the class II, constituted by non-modified peptides produced mainly by lactic acid bacteria, bacteriocins of the subclass IIa, such as mesentericin Y105, are of particular interest. They are active against the foodborne pathogen Listeria monocytogenes and share a similar primary structure, with a conserved N-terminal motif (YGNGV). Subclass IIa bacteriocins induce membrane permeabilization of sensitive strains, but their target specificity and their molecular mode of action remain elusive. This family of proteins is involved in the secretion of such bacteriocins although the mechanism of this process is not well understood. ; GO: 0005215 transporter activity, 0006810 transport.
Probab=72.26  E-value=1.6  Score=20.61  Aligned_cols=52  Identities=17%  Similarity=0.324  Sum_probs=32.8

Q ss_pred             HHHHHHHHHHHHHHHHHCCCCEEEEEEEEECCCCCCHHHHHHHCCCCCCCCCCHHHH
Q ss_conf             999999999999987511465268589996650079889999748789882688999
Q gi|254780772|r   25 MGFIILFYAIFGLSAVYGSNTSIVRRIEIRGATNVGKEVILSRIPVVVGQSISDADL   81 (781)
Q Consensus        25 ~~~~~~~~~~~~~~~~~~~~~~~i~~I~i~G~~~i~~~~i~~~~~~~~G~~~~~~~i   81 (781)
                      +-.+++++|++++.+.+|     =++|.|+|.-.|...-++..|..-...++...-|
T Consensus        25 I~P~~lLLv~~~lFs~fA-----kkEivi~~~g~~~p~~~~~~iQst~n~~I~~N~L   76 (476)
T TIGR01000        25 IVPIFLLLVFLVLFSLFA-----KKEIVIRSTGSIEPAKVIAKIQSTSNNAIKENYL   76 (476)
T ss_pred             HHHHHHHHHHHHHHHCCC-----EEEEEEEEEEEECCCCCCHHHCCCCCCHHHHHHH
T ss_conf             999999999999972201-----0788984112661432012122884214565133


No 36 
>PRK04792 tolB translocation protein TolB; Provisional
Probab=70.66  E-value=5.7  Score=17.06  Aligned_cols=45  Identities=18%  Similarity=0.330  Sum_probs=24.1

Q ss_pred             EEEEEC-CCCCCHHHHHHHCCCC-CCCCCCHHHHHHHHH-HHHHCCCCCEE
Q ss_conf             899966-5007988999974878-988268899999999-99967980038
Q gi|254780772|r   50 RIEIRG-ATNVGKEVILSRIPVV-VGQSISDADLDHAVK-NIYAMGYFSNV   97 (781)
Q Consensus        50 ~I~i~G-~~~i~~~~i~~~~~~~-~G~~~~~~~i~~~i~-~l~~~g~F~~v   97 (781)
                      .|+|.+ ....-.   ....++. .|+.--+.+|.+.|. .|..+|+|+-+
T Consensus        25 ~IeIt~G~~~~~P---IAV~pF~~~g~~~~~~~i~~II~~DL~rSG~F~~l   72 (450)
T PRK04792         25 ELVITDGIDSARP---IAIVPFKWEGEGKLPTDISAVIASDLQRSGKFSPV   72 (450)
T ss_pred             EEEEECCCCCCCC---EEEECCCCCCCCCHHHHHHHHHHHHHHHCCCCEEC
T ss_conf             9999547777425---49937545687432579999999887608785525


No 37 
>PRK02889 tolB translocation protein TolB; Provisional
Probab=68.69  E-value=6.3  Score=16.80  Aligned_cols=43  Identities=26%  Similarity=0.334  Sum_probs=24.2

Q ss_pred             EEEEEC--CCCCCHHHHHHHCCCCCCCCCCHHHHHHHHH-HHHHCCCCCEE
Q ss_conf             899966--5007988999974878988268899999999-99967980038
Q gi|254780772|r   50 RIEIRG--ATNVGKEVILSRIPVVVGQSISDADLDHAVK-NIYAMGYFSNV   97 (781)
Q Consensus        50 ~I~i~G--~~~i~~~~i~~~~~~~~G~~~~~~~i~~~i~-~l~~~g~F~~v   97 (781)
                      .|+|.+  ...++-.    ..++. |+.--+.++.++|. .|-.+|+|+-+
T Consensus        29 ~IeIt~g~~~~~pIA----V~pF~-~~~~~~~~i~~II~~DL~~SG~F~~l   74 (430)
T PRK02889         29 NVEITGVGATQFPIA----TANFA-NEAGLPQQVTSIVRADLARSGKFSNV   74 (430)
T ss_pred             EEEEECCCCCEEEEE----EECCC-CCCCCHHHHHHHHHHHHHHCCCCEEC
T ss_conf             999935788707279----90657-88875067999999888728884005


No 38 
>PRK12788 flgH flagellar basal body L-ring protein; Reviewed
Probab=64.21  E-value=3.3  Score=18.64  Aligned_cols=22  Identities=5%  Similarity=0.208  Sum_probs=12.3

Q ss_pred             CCCEEEEEEECCEEEEEEEECC
Q ss_conf             8003899986998999999365
Q gi|254780772|r   93 YFSNVKIKIVDSVLIIDLIERK  114 (781)
Q Consensus        93 ~F~~v~~~~~~~~l~~~v~e~p  114 (781)
                      +|.|-+....|++|+|.+.|+-
T Consensus        65 LF~D~RA~~VGDIlTV~i~e~~   86 (231)
T PRK12788         65 LYRDPRASRTGDLLTVTISMND   86 (231)
T ss_pred             CCCCCCCCCCCCEEEEEEEECC
T ss_conf             3366642337984999998724


No 39 
>PRK04043 tolB translocation protein TolB; Provisional
Probab=61.87  E-value=7.3  Score=16.38  Aligned_cols=19  Identities=5%  Similarity=0.043  Sum_probs=13.7

Q ss_pred             HHHHHHHHH-HHHHCCCCCE
Q ss_conf             899999999-9996798003
Q gi|254780772|r   78 DADLDHAVK-NIYAMGYFSN   96 (781)
Q Consensus        78 ~~~i~~~i~-~l~~~g~F~~   96 (781)
                      +.+|.+.|+ .|..+|+|+-
T Consensus        47 ~~~i~~II~~DL~rSG~F~~   66 (419)
T PRK04043         47 KLKFFKILVNDLKVSSHFDV   66 (419)
T ss_pred             HHHHHHHHHHHHHCCCCCCC
T ss_conf             68999999875341658512


No 40 
>PRK09818 putative kinase inhibitor; Provisional
Probab=58.77  E-value=8.1  Score=16.07  Aligned_cols=20  Identities=20%  Similarity=0.325  Sum_probs=7.4

Q ss_pred             EEEEEEECCCCEEEEEEEEC
Q ss_conf             03787411221111345411
Q gi|254780772|r  476 LAAGFGRHAVQNYTFSVEDP  495 (781)
Q Consensus       476 l~~~~~~~~~~~~~~s~~~P  495 (781)
                      |+|+-....++++.+...+|
T Consensus        55 L~W~~~P~gTkSfAl~~~DP   74 (183)
T PRK09818         55 LTWSGAPEGTKSFAVTVYDP   74 (183)
T ss_pred             EEECCCCCCCEEEEEEEECC
T ss_conf             25448999876889877679


No 41 
>pfam06316 Ail_Lom Enterobacterial Ail/Lom protein. This family consists of several bacterial and phage Ail/Lom-like proteins. The Yersinia enterocolitica Ail protein is a known virulence factor. Proteins in this family are predicted to consist of eight transmembrane beta-sheets and four cell surface-exposed loops. It is thought that Ail directly promotes invasion and loop 2 contains an active site, perhaps a receptor-binding domain. The phage protein Lom is expressed during lysogeny, and encode host-cell envelope proteins. Lom is found in the bacterial outer membrane, and is homologous to virulence proteins of two other enterobacterial genera. It has been suggested that lysogeny may generally have a role in bacterial survival in animal hosts, and perhaps in pathogenesis.
Probab=56.50  E-value=10  Score=15.37  Aligned_cols=43  Identities=16%  Similarity=0.232  Sum_probs=30.8

Q ss_pred             EEEEEEEEEEECCCCCEEEEEEEECCCCCCCEEEEEEEEEEECC
Q ss_conf             47999999975570015899887226778760258999641059
Q gi|254780772|r  738 RVSTGVEIMWNSPLGMMGVYYGIPLRHREGDKIQQFGFRIGNRM  781 (781)
Q Consensus       738 r~s~G~Glr~~tP~Gpirld~a~pl~~~~~D~~~~f~FsiG~~f  781 (781)
                      ..++|+|+.++ |+--+-+|.||-=.+...-+...|-..+|-||
T Consensus       157 sfAyGAGvQfN-P~~nvaiD~gYEgS~~~d~~~~gf~vGVGYRF  199 (199)
T pfam06316       157 ALAWGAGVQFN-PTENIAVDLAYEASGRGDWRTDAFIVGTGYKF  199 (199)
T ss_pred             CEEEEEEEEEC-CCCCEEEEEEEEECCCCCCEECCEEEEEEECC
T ss_conf             22442027971-57667999877630348705175899514409


No 42 
>PRK13513 putative outer membrane receptor; Provisional
Probab=54.42  E-value=11  Score=15.15  Aligned_cols=42  Identities=7%  Similarity=0.173  Sum_probs=25.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEEEECCCC
Q ss_conf             99998888999999999999999875114652685899966500
Q gi|254780772|r   15 LEKYFPRSFQMGFIILFYAIFGLSAVYGSNTSIVRRIEIRGATN   58 (781)
Q Consensus        15 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~I~i~G~~~   58 (781)
                      .++.|+++.+..  +++.++++.++.++++.....+|.|.+.++
T Consensus         4 ~~~~~~~~~~~a--~~~~~~~~~~~~aa~~~~~le~ivVTAtr~   45 (660)
T PRK13513          4 VNQRFRKTHSAA--LVIAAVISSQGYAAEKTTPTDTMVVTASGF   45 (660)
T ss_pred             HHHHHHHHHHHH--HHHHHHHHHHHHHCCCCCCCCEEEEEECCC
T ss_conf             555443799999--999998756886376788987299970487


No 43 
>PRK03629 tolB translocation protein TolB; Provisional
Probab=53.14  E-value=12  Score=15.02  Aligned_cols=45  Identities=24%  Similarity=0.431  Sum_probs=25.6

Q ss_pred             EEEEE-CCCC-CCHHHHHHHCCCC-CCCCCCHHHHHHHHHH-HHHCCCCCEEE
Q ss_conf             89996-6500-7988999974878-9882688999999999-99679800389
Q gi|254780772|r   50 RIEIR-GATN-VGKEVILSRIPVV-VGQSISDADLDHAVKN-IYAMGYFSNVK   98 (781)
Q Consensus        50 ~I~i~-G~~~-i~~~~i~~~~~~~-~G~~~~~~~i~~~i~~-l~~~g~F~~v~   98 (781)
                      .|+|. |... ++    ....++. .|+.-.+++|.++|.+ |-.+|+|+-+.
T Consensus        24 ~I~It~G~~~~~P----IAV~pF~~~g~~~~~~~i~~II~~DL~rSG~F~~l~   72 (430)
T PRK03629         24 RIEITQGVDSARP----IGVVPFKWAGPGAAPEDIGGIVAADLRNSGKFNPLD   72 (430)
T ss_pred             EEEEECCCCCCCC----EEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCEECC
T ss_conf             9999346677325----699286447888646789999987687577815039


No 44 
>PRK00249 flgH flagellar basal body L-ring protein; Reviewed
Probab=52.55  E-value=5  Score=17.44  Aligned_cols=21  Identities=24%  Similarity=0.411  Sum_probs=8.6

Q ss_pred             CCCEEEEEEECCEEEEEEEEC
Q ss_conf             800389998699899999936
Q gi|254780772|r   93 YFSNVKIKIVDSVLIIDLIER  113 (781)
Q Consensus        93 ~F~~v~~~~~~~~l~~~v~e~  113 (781)
                      +|.|-+....|++|+|.|.|+
T Consensus        66 Lf~D~RA~~VGDiiTV~i~E~   86 (231)
T PRK00249         66 LFKDRRARNVGDILTVVLQEN   86 (231)
T ss_pred             CCCCCCCCCCCCEEEEEEEEC
T ss_conf             512344378999699999970


No 45 
>PRK10641 btuB vitamin B12/cobalamin outer membrane transporter; Provisional
Probab=43.57  E-value=16  Score=14.22  Aligned_cols=34  Identities=6%  Similarity=-0.085  Sum_probs=20.2

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCEEEEEEEEECCC
Q ss_conf             9999999999999987511465268589996650
Q gi|254780772|r   24 QMGFIILFYAIFGLSAVYGSNTSIVRRIEIRGAT   57 (781)
Q Consensus        24 ~~~~~~~~~~~~~~~~~~~~~~~~i~~I~i~G~~   57 (781)
                      |||++.++.++.+.+..+.|+.....+|.|.+.+
T Consensus         1 ~~~~~~~~~~~~~~~~~~~a~~~~~devvVTAtr   34 (615)
T PRK10641          1 MIKKASLLTALSVTAFSAWAQDTSPDTLVVTANR   34 (615)
T ss_pred             CCHHHHHHHHHHHHCCHHHHCCCCCCEEEEECCC
T ss_conf             9448999999987513354335899719990348


No 46 
>pfam10079 DUF2317 Uncharacterized protein conserved in bacteria (DUF2317). Members of this family of hypothetical bacterial proteins have no known function.
Probab=41.10  E-value=18  Score=13.82  Aligned_cols=28  Identities=14%  Similarity=0.116  Sum_probs=13.1

Q ss_pred             HHHHCCCCCCCCCCHHHHHHHHHHHHHC
Q ss_conf             9997487898826889999999999967
Q gi|254780772|r   64 ILSRIPVVVGQSISDADLDHAVKNIYAM   91 (781)
Q Consensus        64 i~~~~~~~~G~~~~~~~i~~~i~~l~~~   91 (781)
                      -...+.......+++..+-+.+++-|+-
T Consensus        39 f~~~~~~~~~~~~~R~~L~~~L~~q~~~   66 (541)
T pfam10079        39 FKKRLEELASRFFNREALVDALKAQNKR   66 (541)
T ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHHHHC
T ss_conf             9999998645973199999999999855


No 47 
>pfam10082 DUF2320 Uncharacterized protein conserved in bacteria (DUF2320). This domain, found in various hypothetical bacterial proteins, has no known function.
Probab=39.66  E-value=19  Score=13.68  Aligned_cols=22  Identities=14%  Similarity=0.096  Sum_probs=9.0

Q ss_pred             EEEEEEECCCCEEEEECCCEEE
Q ss_conf             2455420254302354041257
Q gi|254780772|r  526 AVRMIVPITESISTSFKYDLRF  547 (781)
Q Consensus       526 ~~~~~~~~~~~~~~~~~~~~~~  547 (781)
                      .+++.+.++..++..+..++..
T Consensus       223 ~~G~~~~~t~k~~g~~~~Gy~~  244 (380)
T pfam10082       223 RAGVSFDLTEKLRGEVKVGYLA  244 (380)
T ss_pred             EEEEEEEECCCEEEEEEEEEEE
T ss_conf             8206998410079999998899


No 48 
>TIGR02636 galM_Leloir galactose mutarotase; InterPro: IPR013458    Galactose mutarotases (D-galactose 1-epimerase) participate in the Leloir pathway for galactose/glucose interconversion. Genes encoding the proteins found in this entry are found clustered with genes encoding other enzymes of the Leloir pathway. These proteins belong to the aldose 1-epimerase family. However, the aldose 1-epimerase itself (5.1.3.3 from EC) has a relatively broad specificity and can utilise D-glucose, L-arabinose, D-xylose, D-galactose, maltose and lactose. The restricted genomic context of the genes suggests members should act primarily on D-galactose.; GO: 0004034 aldose 1-epimerase activity, 0006012 galactose metabolic process.
Probab=39.43  E-value=12  Score=14.89  Aligned_cols=85  Identities=14%  Similarity=0.162  Sum_probs=58.5

Q ss_pred             CCCCCCCCCCEEEEEEECCCCCCCCCEEEEEEEEEEEEEEECCC-EEEEEEEEEEEEEEECCCCCCCCHHEEEECC--CC
Q ss_conf             20110024651565420245655542036666300479993588-0999999997898516997412301275078--97
Q gi|254780772|r  586 LDNPIVPRKGMLISSSYDYAGFGGDSQYHRIGSRASYFYLLSDD-SDIVGSLRFGYGCVIPSNKNLQLFDQFSVSS--NY  662 (781)
Q Consensus       586 rD~~~~Pt~G~~~~~~~~~a~~g~d~~f~k~~~~~~~y~~l~~~-~~l~~~~~~g~~~~~~~~~~lp~~erF~lGG--~~  662 (781)
                      -+-+++||.-.|++|.-+-  .++|+.=+++.+.+..|.|+.+. ..-...+.-=-+..+.-.+.=.+.+.|-+.-  -.
T Consensus       160 k~Tp~NlTNHvYFNL~g~~--~~~d~~~H~L~lnAd~yLP~D~~tgIP~G~l~~V~~TsFDFr~~K~i~~~f~~~~~QqQ  237 (346)
T TIGR02636       160 KATPVNLTNHVYFNLDGAE--AGSDVLSHELQLNADRYLPLDEETGIPLGELKSVDGTSFDFRKEKAIGQDFLADDDQQQ  237 (346)
T ss_pred             CCCCCCCCCCEEECCCCCC--CCCCHHHCEEEEECCCCCCCCCCCCCCCCCEECCCCCCCCCCCCHHHHHHHHCCHHHHH
T ss_conf             6576588733011268772--56864265268864843012574346456520135788565562011254525834878


Q ss_pred             CCCCCCCCCC
Q ss_conf             1402126861
Q gi|254780772|r  663 YLRGFAYKGI  672 (781)
Q Consensus       663 svRGy~~~~i  672 (781)
                      .+.||+.--|
T Consensus       238 ~~kGYDHaF~  247 (346)
T TIGR02636       238 LAKGYDHAFL  247 (346)
T ss_pred             HHCCCCCHHH
T ss_conf             6406274451


No 49 
>pfam09743 DUF2042 Uncharacterized conserved protein (DUF2042). This entry is the conserved N-terminal 300 residues of a group of proteins found from protozoa to Humans. The function is unknown.
Probab=39.38  E-value=18  Score=13.89  Aligned_cols=26  Identities=15%  Similarity=0.243  Sum_probs=12.0

Q ss_pred             CCCEECCCCCCHHHHHCCCCCCCCCC
Q ss_conf             99621121000000000000234456
Q gi|254780772|r  310 SGNLYNPQEIKESSEKISKYFFSGER  335 (781)
Q Consensus       310 ~G~~~~~~~~~~~~~~i~~~y~~~GY  335 (781)
                      .|+..+..-++...+.|++.+.+.|.
T Consensus       105 ~geLit~~Yld~iaeeIne~Lqe~G~  130 (272)
T pfam09743       105 QGELITDDYLDRLAEEINEKLQECGQ  130 (272)
T ss_pred             CCEECCHHHHHHHHHHHHHHHHHCCC
T ss_conf             57762458999999999999998295


No 50 
>pfam08339 RTX_C RTX C-terminal domain. This family describes the C-terminal region of various bacterial haemolysins and leukotoxins, which belong to the RTX family of toxins. These are produced by various Gram negative bacteria, such as E. coli and Actinobacillus pleuropneumoniae. RTX toxins may interact with lipopolysaccharide (LPS) to functionally impair and eventually kill leukocytes. This region is found in association with the RTX N-terminal domain (pfam02382) and multiple hemolysin-type calcium-binding repeats (pfam00353).
Probab=39.37  E-value=19  Score=13.65  Aligned_cols=12  Identities=42%  Similarity=0.479  Sum_probs=4.0

Q ss_pred             EEEEEECCEEEE
Q ss_conf             899986998999
Q gi|254780772|r   97 VKIKIVDSVLII  108 (781)
Q Consensus        97 v~~~~~~~~l~~  108 (781)
                      |.++..+..|++
T Consensus        10 l~fer~~~~Lii   21 (145)
T pfam08339        10 LTFKRVGNDLII   21 (145)
T ss_pred             CEEEEECCCEEE
T ss_conf             057882881699


No 51 
>pfam06935 DUF1284 Protein of unknown function (DUF1284). This family consists of several hypothetical bacterial and archaeal proteins of around 130 residues in length. The function of this family is unknown, although it is thought that they may be iron-sulphur binding proteins.
Probab=39.04  E-value=19  Score=13.62  Aligned_cols=19  Identities=11%  Similarity=0.221  Sum_probs=7.7

Q ss_pred             CCHHHCCCCCCCHHHHHHH
Q ss_conf             1001001000000012344
Q gi|254780772|r  382 VIRRELELSEGDPINYSMI  400 (781)
Q Consensus       382 VIrrel~~~~Gd~~~~~~i  400 (781)
                      -+.+.+.+++|+.|....+
T Consensus        58 ~vl~~lgl~~g~~~~~~e~   76 (103)
T pfam06935        58 RVLELLGIKPGKVLTWDEA   76 (103)
T ss_pred             HHHHHCCCCCCCEECHHHH
T ss_conf             9999849998878849999


No 52 
>TIGR01994 SUF_scaf_2 SUF system FeS assembly protein, NifU family; InterPro: IPR011341   Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron. These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] . FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems.   The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins , . It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly .   The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA . SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA , acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets.   In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins . Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen .   This family represents SufU, NifU-like proteins that are part of the SUF system, one of the two different proteins proposed to act as a scaffold on which the Fe-S cluster is built and from which it is transferred.; GO: 0005506 iron ion binding, 0005515 protein binding, 0051536 iron-sulfur cluster binding, 0016226 iron-sulfur cluster assembly.
Probab=36.93  E-value=21  Score=13.40  Aligned_cols=22  Identities=27%  Similarity=0.428  Sum_probs=10.0

Q ss_pred             CCEEEEEEEECCCCEEEEEEEEEC
Q ss_conf             842588986036632467787504
Q gi|254780772|r  180 TTLNITYVIEEGVKAKINSIRFVG  203 (781)
Q Consensus       180 ~~v~i~~~I~EG~~~~I~~I~f~G  203 (781)
                      +.+.|.+.++.+.  +|++|.|+|
T Consensus        38 D~I~L~~k~~~~~--~i~D~~F~G   59 (139)
T TIGR01994        38 DEITLTVKLEGDR--VIEDIAFEG   59 (139)
T ss_pred             CEEEEEEEECCCC--EEEEEEEEC
T ss_conf             7378999874988--888888735


No 53 
>PRK10716 long-chain fatty acid outer membrane transporter; Provisional
Probab=34.25  E-value=23  Score=13.13  Aligned_cols=64  Identities=13%  Similarity=0.189  Sum_probs=32.8

Q ss_pred             EEEEEEEEEEEECCCCCCCCCEEEEEEEEEEEEECCCCCCCCCCCCCCCCCEEEEEEEEEEEECCCCCEEEEEEEE
Q ss_conf             7899999999614565654537999999767741566667754445676642479999999755700158998872
Q gi|254780772|r  686 IYSSASAAVSFPMPLVPERAGLRGAFFVDSATLYANHVALGADKLEGNDSFWRVSTGVEIMWNSPLGMMGVYYGIP  761 (781)
Q Consensus       686 ~~~~~s~E~r~pl~~~~~~~~l~~~~F~D~G~v~~~~~~~~~~~~~~~~~~~r~s~G~Glr~~tP~Gpirld~a~p  761 (781)
                      ..+..-+||++     .++..|++.+.+|---+-+..   ....++. ......|+|++..|.-.   +.+|+||.
T Consensus       341 w~~~~G~~Y~~-----~~~l~LRaG~aYD~sPv~~~~---~~~~iPd-~dR~~~S~G~~y~~~~~---~tvD~ay~  404 (437)
T PRK10716        341 YRIALGTTYYY-----DDNWTFRTGIAFDDSPVPAQN---RSISIPD-QDRFWLSAGTTYAFNKD---ASVDVGVS  404 (437)
T ss_pred             EEEEEEEEEEC-----CCCCEEEEEEEECCCCCCCCC---CCCCCCC-CCCEEEEEEEEEECCCC---CEEEEEEE
T ss_conf             07997899987-----998189887787468888886---5620768-88859981268854889---57999889


No 54 
>TIGR02851 spore_V_T stage V sporulation protein T; InterPro: IPR014213   Members of this protein entry include the stage V sporulation protein T (SpoVT), a protein of the sporulation/germination program in Bacillus subtilis and related species. The amino-terminal 50 amino acids are nearly perfectly conserved across all endospore-forming bacteria. SpoVT is a DNA-binding transcriptional regulator related to AbrB..
Probab=33.10  E-value=13  Score=14.70  Aligned_cols=15  Identities=33%  Similarity=0.363  Sum_probs=9.0

Q ss_pred             EEEEEEEECCCCEEE
Q ss_conf             258898603663246
Q gi|254780772|r  182 LNITYVIEEGVKAKI  196 (781)
Q Consensus       182 v~i~~~I~EG~~~~I  196 (781)
                      ++=++.|.||.|..|
T Consensus        21 IRRTLRIrEGDPLEI   35 (184)
T TIGR02851        21 IRRTLRIREGDPLEI   35 (184)
T ss_pred             CCCCCCCCCCCCCEE
T ss_conf             411010125997148


No 55 
>TIGR02997 Sig70-cyanoRpoD RNA polymerase sigma factor, cyanobacterial RpoD-like family.
Probab=32.18  E-value=13  Score=14.69  Aligned_cols=13  Identities=15%  Similarity=0.314  Sum_probs=6.0

Q ss_pred             CCCEEEEEEECCC
Q ss_conf             4404665541233
Q gi|254780772|r  349 AKRIVDIEYLIDQ  361 (781)
Q Consensus       349 ~~~~vdi~~~I~e  361 (781)
                      ...||-+=+||.|
T Consensus       182 qSRTIRLPiH~~E  194 (336)
T TIGR02997       182 QSRTIRLPIHITE  194 (336)
T ss_pred             CCCCCCCCCCHHH
T ss_conf             6883247410766


No 56 
>TIGR00407 proA gamma-glutamyl phosphate reductase; InterPro: IPR000965   Gamma-glutamyl phosphate reductase (1.2.1.41 from EC) (GPR) is the enzyme that catalyzes the second step in the biosynthesis of proline from glutamate, the NADP-dependent reduction of L-glutamate 5-phosphate into L-glutamate 5-semialdehyde and phosphate. In bacteria (gene proA) and yeast  (gene PRO2), GPR is a monofunctional protein, while in plants and mammals, it is a bifunctional enzyme (P5CS)  that consists of two domains, an N-terminal glutamate 5-kinase domain (2.7.2.11 from EC) and a C-terminal GPR domain. ; GO: 0004350 glutamate-5-semialdehyde dehydrogenase activity, 0006561 proline biosynthetic process.
Probab=30.32  E-value=21  Score=13.34  Aligned_cols=26  Identities=15%  Similarity=0.289  Sum_probs=13.3

Q ss_pred             HHHHHCCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             9999748789882688999999999996
Q gi|254780772|r   63 VILSRIPVVVGQSISDADLDHAVKNIYA   90 (781)
Q Consensus        63 ~i~~~~~~~~G~~~~~~~i~~~i~~l~~   90 (781)
                      .++.++.+.+++.  -..+-++||.+-.
T Consensus        53 ~l~dRL~L~~~dr--l~~i~~~V~~v~~   78 (415)
T TIGR00407        53 ALLDRLLLTEKDR--LKGIADGVKDVIE   78 (415)
T ss_pred             HHHHHHCCCCCHH--HHHHHHHHHHHHH
T ss_conf             8998634780125--8999999999851


No 57 
>COG2063 FlgH Flagellar basal body L-ring protein [Cell motility and secretion]
Probab=29.61  E-value=27  Score=12.63  Aligned_cols=19  Identities=26%  Similarity=0.399  Sum_probs=6.0

Q ss_pred             CCEEEEEEECCEEEEEEEE
Q ss_conf             0038999869989999993
Q gi|254780772|r   94 FSNVKIKIVDSVLIIDLIE  112 (781)
Q Consensus        94 F~~v~~~~~~~~l~~~v~e  112 (781)
                      |+|.+....|++|+|.+.|
T Consensus        66 f~D~RA~~vGDilTVvi~E   84 (230)
T COG2063          66 FEDRRASNVGDILTIVIQE   84 (230)
T ss_pred             HCCCCCCCCCCEEEEEEEE
T ss_conf             2254325689879999985


No 58 
>pfam07437 YfaZ YfaZ precursor. This family contains the precursor of the bacterial protein YfaZ (approximately 180 residues long). Many members of this family are hypothetical proteins.
Probab=28.37  E-value=29  Score=12.49  Aligned_cols=42  Identities=14%  Similarity=0.168  Sum_probs=24.9

Q ss_pred             EEEEEEEEEECCCCCEEEEEEEECCC---CCC--CEE--EEEEEEEEECC
Q ss_conf             79999999755700158998872267---787--602--58999641059
Q gi|254780772|r  739 VSTGVEIMWNSPLGMMGVYYGIPLRH---REG--DKI--QQFGFRIGNRM  781 (781)
Q Consensus       739 ~s~G~Glr~~tP~Gpirld~a~pl~~---~~~--D~~--~~f~FsiG~~f  781 (781)
                      .-+.+|+|| +|+-|+.++.||..-.   .++  |.+  ..|+...|=+|
T Consensus       132 ~ea~~gv~~-~v~~pl~v~aGYRyi~~~~~dg~~d~~ladG~yvG~~~sF  180 (180)
T pfam07437       132 YEANSGVRY-NINRPMALYVGYRYINFEGKDGARDNTFADGAYIGGKFRF  180 (180)
T ss_pred             EEECCCEEE-EECCCCEEEEEEEEEEEECCCCCCCCEECCCCEEEEEECC
T ss_conf             373461699-9737728997579998663679877524237468337509


No 59 
>PRK07429 phosphoribulokinase; Provisional
Probab=28.12  E-value=29  Score=12.47  Aligned_cols=71  Identities=13%  Similarity=0.065  Sum_probs=37.5

Q ss_pred             EEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCC---------CCCCCCCCC
Q ss_conf             87504431101222211100122112445666431023333457888888754232210012---------310124555
Q gi|254780772|r  199 IRFVGNKNYSHARLERVISIRTSGYFSFGKTDVYSKERMSFDEEAIRAFYHDRGYAAVKVSS---------QVLFDKQKS  269 (781)
Q Consensus       199 I~f~Gn~~f~~~~L~~~~~~k~~~~~~~~~~~~~~~~~l~~D~~~l~~~Y~~~GY~d~~V~~---------~~~~~~~~~  269 (781)
                      |.++|-..|.+.+|++.|..|-.     .     +.+.=-.-..+|.+=-..+||---+|-.         ..-+.|.++
T Consensus       108 IIvEGLh~L~~~~lR~l~DlKIF-----V-----D~d~diR~~rRI~RDv~ERG~s~E~Vl~qi~~RkpD~~~yI~PQk~  177 (331)
T PRK07429        108 VVVEGLHPLYDERVRDLYDFKVY-----L-----DPPDEVKIAWKIKRDMAERGHTYEDVLAEIEKREPDFEAYIDPQRQ  177 (331)
T ss_pred             EEEECCHHCCCHHHHHHCCEEEE-----E-----CCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCHHHHHHCCCCHH
T ss_conf             99916121287989975493799-----6-----4878899999888778661899999999998511789976680411


Q ss_pred             CCCEEEEECC
Q ss_conf             5410122022
Q gi|254780772|r  270 GYVLIFQIDE  279 (781)
Q Consensus       270 ~~~i~~~I~E  279 (781)
                      .++|++.+-.
T Consensus       178 ~ADiVI~~~p  187 (331)
T PRK07429        178 YADVVIQVLP  187 (331)
T ss_pred             CCCEEEEECC
T ss_conf             2728999627


No 60 
>PRK12396 5-methylribose kinase; Reviewed
Probab=28.04  E-value=29  Score=12.46  Aligned_cols=37  Identities=11%  Similarity=0.087  Sum_probs=27.8

Q ss_pred             HHHHHHHHHC-CCCEEEEEEEEEECCCCCEEEEEEEEC
Q ss_conf             9999999972-970017998764338984258898603
Q gi|254780772|r  154 HNIKQAYASI-GYLNVMVKVQHHSISPTTLNITYVIEE  190 (781)
Q Consensus       154 ~~i~~~y~~~-Gy~~a~V~~~~~~~~~~~v~i~~~I~E  190 (781)
                      +.+.+|-+++ |++...-..+.++.++|..+++|.|.-
T Consensus        13 ~~~i~Y~k~~~~~f~~~~~l~~~EIGDGNLN~Vf~V~~   50 (409)
T PRK12396         13 NDVIVYVKEKLCKFEHAKGLQCKEIGDGNLNYVFRVWD   50 (409)
T ss_pred             HHHHHHHHHHCCCCCCCCCCEEEEECCCCEEEEEEEEE
T ss_conf             36999999826879998885368974785689999970


No 61 
>pfam10437 Lip_prot_lig_C Bacterial lipoate protein ligase C-terminus. This is the C-terminal domain of a bacterial lipoate protein ligase. There is no conservation between this C-terminus and that of vertebrate lipoate protein ligase C-termini, but both are associated with the domain BPL_LipA_LipB pfam03099, further upstream. This C-terminal domain is more stable than the BPL_LipA_LipB and the hypothesis is that the C-terminal domain has a role in recognising the lipoyl domain and/or transferring the lipoyl group onto it from the lipoyl-AMP intermediate. C-terminal fragments of length 172 to 193 amino acid residues are observed in the eubacterial enzymes whereas in their archaeal counterparts the C-terminal segment is significantly smaller, ranging in size from 87 to 107 amino acid residues.
Probab=27.77  E-value=29  Score=12.43  Aligned_cols=12  Identities=33%  Similarity=0.556  Sum_probs=3.8

Q ss_pred             CCCEECCCCCCH
Q ss_conf             996211210000
Q gi|254780772|r  310 SGNLYNPQEIKE  321 (781)
Q Consensus       310 ~G~~~~~~~~~~  321 (781)
                      .|.+|+...+.+
T Consensus        52 ~G~~y~~~~i~~   63 (85)
T pfam10437        52 IGVKYDKEAIKK   63 (85)
T ss_pred             CCCCCCHHHHHH
T ss_conf             799869999999


No 62 
>TIGR02582 cas_TM1809 CRISPR-associated RAMP protein, Csm3 family; InterPro: IPR013412    Members of this CRISPR-associated (cas) gene family are found in the mtube subtype CRISPR/cas locus, and and designated Csm3 for CRISPR/cas Subtype Mtube, protein 3..
Probab=25.96  E-value=24  Score=13.03  Aligned_cols=10  Identities=20%  Similarity=0.404  Sum_probs=5.4

Q ss_pred             EECCCCCCCCC
Q ss_conf             50789714021
Q gi|254780772|r  657 SVSSNYYLRGF  667 (781)
Q Consensus       657 ~lGG~~svRGy  667 (781)
                      ||||..| |||
T Consensus       234 YLGG~Gs-RGY  243 (248)
T TIGR02582       234 YLGGSGS-RGY  243 (248)
T ss_pred             CCCCCCE-ECC
T ss_conf             0688702-156


No 63 
>TIGR03519 Bac_Flav_fam_1 Bacteroidetes-specific putative membrane protein. This model describes a protein family unique to, and greatly expanded in, the Bacteriodetes. Species in this lineage include several, such as Cytophaga hutchinsonii and Flavobacterium johnsoniae, that exhibit a poorly understood rapid gliding phenotype. Several members of this protein family are found in operons with other genes whose loss leads to a loss a this motility.
Probab=25.73  E-value=32  Score=12.19  Aligned_cols=39  Identities=10%  Similarity=0.058  Sum_probs=20.9

Q ss_pred             EEEEEEEEECCCCCEEEEEEEECCCCC--CCEEEEEEEEEEECC
Q ss_conf             999999975570015899887226778--760258999641059
Q gi|254780772|r  740 STGVEIMWNSPLGMMGVYYGIPLRHRE--GDKIQQFGFRIGNRM  781 (781)
Q Consensus       740 s~G~Glr~~tP~Gpirld~a~pl~~~~--~D~~~~f~FsiG~~f  781 (781)
                      +..+|+.+.   ..+++.|+|-+.-.+  ....+.++++++-||
T Consensus       252 ~~~~g~~~~---~~~~~gysYd~~~s~l~~~~~gshEi~l~y~F  292 (292)
T TIGR03519       252 IGLVGFNLN---KRLSIGYSYDFSTSSLSAYNGGSHEISVSYRF  292 (292)
T ss_pred             EEEEEEEEC---CCEEEEEEEEEECCCCCCCCCCEEEEEEEEEC
T ss_conf             999979977---98999999970233101779980899999879


No 64 
>pfam10566 Glyco_hydro_97 Glycoside hydrolase 97. This is the 97th family of glycosidases, in this case bacterial. The central part of the GH97 family protein sequences represents a typical and complete (beta/alpha)8-barrel or catalytic TIM-barrel type domain. The N- and C-terminal parts of the sequences, mainly consisting of beta-strands, most probably form two additional non-catalytic domains with as yet unknown functions. The non-catalytic domains of glycosidases from the alpha-galactosidase and alpha-glucosidase superfamilies are also predominantly composed of beta-strands, and at least some of these domains are involved in oligomerisation and carbohydrate binding. In all known glycosidases with the (beta-alpha)8-barrel fold, the amino acid residues at the active site are located on the C-termini of the beta-strands.
Probab=25.33  E-value=32  Score=12.14  Aligned_cols=26  Identities=15%  Similarity=0.268  Sum_probs=15.1

Q ss_pred             EEEECCCCCCCCCEEEEEEEEEEEEE
Q ss_conf             99614565654537999999767741
Q gi|254780772|r  694 VSFPMPLVPERAGLRGAFFVDSATLY  719 (781)
Q Consensus       694 ~r~pl~~~~~~~~l~~~~F~D~G~v~  719 (781)
                      +..||.+++........+|-|+.++-
T Consensus       583 ~~v~LsFL~~g~~y~a~iy~Dg~~a~  608 (643)
T pfam10566       583 VSLDLSFLGEGKDYTAELYKDGRDAD  608 (643)
T ss_pred             EEEECCCCCCCCCEEEEEEECCCCCC
T ss_conf             88665235899808999996087655


No 65 
>COG1386 scpB Chromosome segregation and condensation protein B [DNA replication, recombination and repair]
Probab=25.01  E-value=33  Score=12.11  Aligned_cols=49  Identities=24%  Similarity=0.360  Sum_probs=27.1

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEE
Q ss_conf             579995654369889988730057863799999999999999999729700179
Q gi|254780772|r  117 NHLFFSGNNNLKDDQLKMIVRSRSAAAYDEDTVNADVHNIKQAYASIGYLNVMV  170 (781)
Q Consensus       117 ~~i~~~Gn~~~~~~~l~~~~~~~~g~~~~~~~~~~~~~~i~~~y~~~Gy~~a~V  170 (781)
                      ..+.|.|.+-++.++|.+.+++.     +...+......+++-|.+.|.--..|
T Consensus        14 Eall~a~~~pls~~~L~~il~~~-----~~~~~~~~l~~l~~~y~~rg~~L~~~   62 (184)
T COG1386          14 EALLFAGGEPLSLKELAEILGIV-----SADAIIDALAELKEEYEDRGLELVEV   62 (184)
T ss_pred             HHHHHHCCCCCCHHHHHHHHCCC-----CHHHHHHHHHHHHHHHCCCCEEEEEE
T ss_conf             99999647997899999986888-----47889999999998625798049997


No 66 
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family; InterPro: IPR006532   The proteins contain three RNA recognition motifs and have been characterised as poly-pyrimidine tract binding proteins associated with RNA splicing factors , , . In the case of PUF60, in complex with p54, and in the presence of U2AF, it facilitates association of U2 snRNP with pre-mRNA . .
Probab=24.94  E-value=29  Score=12.48  Aligned_cols=20  Identities=15%  Similarity=0.429  Sum_probs=13.4

Q ss_pred             CHHHHHHHHH-HHHHHHHHHH
Q ss_conf             0378999999-9999988889
Q gi|254780772|r    4 STEDFRRIKR-LLEKYFPRSF   23 (781)
Q Consensus         4 ~~~~~~~~~~-~~~~~~~~~~   23 (781)
                      -+++++.=++ +|..+++.++
T Consensus        71 ~~d~~qkAKKyAMe~SIK~vL   91 (791)
T TIGR01645        71 QKDDIQKAKKYAMEQSIKQVL   91 (791)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
T ss_conf             678898887887766699999


No 67 
>pfam05158 RNA_pol_Rpc34 RNA polymerase Rpc34 subunit. Subunit specific to RNA Pol III, the tRNA specific polymerase. The C34 subunit of yeast RNA Pol III is part of a subcomplex of three subunits which have no counterpart in the other two nuclear RNA polymerases. This subunit interacts with TFIIIB70 and is therefore participates in Pol III recruitment.
Probab=24.81  E-value=33  Score=12.08  Aligned_cols=151  Identities=15%  Similarity=0.209  Sum_probs=90.9

Q ss_pred             CCCCHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEEECCEEEEEEEECC--------------EEEEEEEE
Q ss_conf             0079889999748789882688999999999996798003899986998999999365--------------36579995
Q gi|254780772|r   57 TNVGKEVILSRIPVVVGQSISDADLDHAVKNIYAMGYFSNVKIKIVDSVLIIDLIERK--------------IINHLFFS  122 (781)
Q Consensus        57 ~~i~~~~i~~~~~~~~G~~~~~~~i~~~i~~l~~~g~F~~v~~~~~~~~l~~~v~e~p--------------~i~~i~~~  122 (781)
                      +-++.+.+...++     ..+...+-.+++.|.+.|.|.=++   .++.|.++.+..-              +-+-|+=.
T Consensus        24 ~~~~q~dL~~~~~-----~~~~~~l~~~ln~Ll~~~~l~l~k---~~~~l~yk~~~~e~a~k~~~l~~eE~lVY~~Ie~a   95 (313)
T pfam05158        24 NLFSQQDLQALVP-----GLSLNLLMSAINILLDQGLLVLLK---QNDGLVYKAVTREEAKKKATLSDEESLVYSIIEES   95 (313)
T ss_pred             CCCCHHHHHHHCC-----CCCHHHHHHHHHHHHHCCCEEEEE---CCCEEEEEEECHHHHHHHCCCCHHHHHHHHHHHHC
T ss_conf             9837999997657-----999999999999997469789995---49988899848999876528988899999999862


Q ss_pred             CCCCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEEEEEECCCCCEEEEEEEECCCCEEEEEEEEE
Q ss_conf             65436988998873005786379999999999999999972970017998764338984258898603663246778750
Q gi|254780772|r  123 GNNNLKDDQLKMIVRSRSAAAYDEDTVNADVHNIKQAYASIGYLNVMVKVQHHSISPTTLNITYVIEEGVKAKINSIRFV  202 (781)
Q Consensus       123 Gn~~~~~~~l~~~~~~~~g~~~~~~~~~~~~~~i~~~y~~~Gy~~a~V~~~~~~~~~~~v~i~~~I~EG~~~~I~~I~f~  202 (781)
                      ||+-+...+|+...++.      ...    +.++.+.++.+++..+.-.   ...++.++-+.|++...       ..+.
T Consensus        96 g~~GIW~k~i~~~tnL~------~~~----l~K~LK~LEsk~lIKsVks---V~~~~rKvYmL~~LePS-------~eiT  155 (313)
T pfam05158        96 GNEGIWTRTIKNRTNLH------QSV----LKKCLKSLESKKYIKSVKS---VKAPTRKMYMLYNLEPS-------EEVT  155 (313)
T ss_pred             CCCCEEHHHHHHHCCCC------HHH----HHHHHHHHHHCCCEEEECC---CCCCCEEEEEEECCCCC-------CCCC
T ss_conf             76774499999880998------899----9999999975686154214---56787059998347747-------1114


Q ss_pred             CCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             44311012222111001221124456664310233334578888887542322
Q gi|254780772|r  203 GNKNYSHARLERVISIRTSGYFSFGKTDVYSKERMSFDEEAIRAFYHDRGYAA  255 (781)
Q Consensus       203 Gn~~f~~~~L~~~~~~k~~~~~~~~~~~~~~~~~l~~D~~~l~~~Y~~~GY~d  255 (781)
                      |-.-|                    ..+.|+.+-++.-++.+..|..++-+..
T Consensus       156 GG~Wy--------------------tD~elD~efI~~L~~~~~~~v~~k~~~~  188 (313)
T pfam05158       156 GGPWY--------------------TDGELDVEFINTLRRVIFRFVSQKSYVA  188 (313)
T ss_pred             CCCCC--------------------CCCCCCHHHHHHHHHHHHHHHHHCCCCC
T ss_conf             88651--------------------2785569999999999999998344554


No 68 
>PRK05799 coproporphyrinogen III oxidase; Provisional
Probab=24.68  E-value=33  Score=12.06  Aligned_cols=11  Identities=18%  Similarity=0.437  Sum_probs=4.5

Q ss_pred             CCCCCCHHHHH
Q ss_conf             44311012222
Q gi|254780772|r  203 GNKNYSHARLE  213 (781)
Q Consensus       203 Gn~~f~~~~L~  213 (781)
                      |-+.|++..|+
T Consensus       116 GVQSf~~~~l~  126 (374)
T PRK05799        116 GLQAWQNSLLK  126 (374)
T ss_pred             ECCCCCHHHHH
T ss_conf             53358899999


No 69 
>PRK13484 putative iron-regulated outer membrane virulence protein; Provisional
Probab=23.05  E-value=36  Score=11.86  Aligned_cols=31  Identities=13%  Similarity=0.075  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHHHHCCCCEEEEEEEEECCCCC
Q ss_conf             9999999998751146526858999665007
Q gi|254780772|r   29 ILFYAIFGLSAVYGSNTSIVRRIEIRGATNV   59 (781)
Q Consensus        29 ~~~~~~~~~~~~~~~~~~~i~~I~i~G~~~i   59 (781)
                      +...|..+++++.|++...+.+|.|...+.-
T Consensus        11 ~~~~~~~~~~~~~a~~~~~~e~vvVTAtr~~   41 (682)
T PRK13484         11 IAVMCSAVISSGYASSDKKEDTLVVTASGFT   41 (682)
T ss_pred             HHHHHHHHHCHHHHHCCCCCCEEEEECCCCC
T ss_conf             9999988755354522268874999215873


No 70 
>pfam09609 Cas_GSU0054 CRISPR-associated protein, GSU0054 family (Cas_GSU0054). This entry represents a rare CRISPR-associated protein. So far, members are found in Geobacter sulfurreducens and in two unpublished genomes: Gemmata obscuriglobus and Actinomyces naeslundii. CRISPR-associated proteins typically are found near CRISPR repeats and other CRISPR-associated proteins, have low levels of sequence identify, have sequence relationships that suggest lateral transfer, and show some sequence similarity to DNA-active proteins such as helicases and repair proteins.
Probab=22.68  E-value=36  Score=11.82  Aligned_cols=22  Identities=23%  Similarity=0.155  Sum_probs=16.7

Q ss_pred             EEEEEEEEEECCC-CCEEEEEEE
Q ss_conf             7999999975570-015899887
Q gi|254780772|r  739 VSTGVEIMWNSPL-GMMGVYYGI  760 (781)
Q Consensus       739 ~s~G~Glr~~tP~-Gpirld~a~  760 (781)
                      .+.++-|+|..|+ |||.|..+-
T Consensus       488 ~~~h~rl~F~epV~GPi~lGagr  510 (519)
T pfam09609       488 PSYHVRISFPEEVKGPVIIGAGR  510 (519)
T ss_pred             CCCEEEEECCCCCCCCEEECCCC
T ss_conf             66148997787665765624766


No 71 
>TIGR00174 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; InterPro: IPR002627 tRNA isopentenyltransferases 2.5.1.8 from EC also known as tRNA delta(2)-isopentenylpyrophosphate transferases or IPP transferases. These enzymes modify both cytoplasmic and mitochondrial tRNAs at A(37) to give isopentenyl A(37) .; GO: 0004811 tRNA isopentenyltransferase activity, 0005524 ATP binding, 0008033 tRNA processing.
Probab=22.12  E-value=23  Score=13.10  Aligned_cols=22  Identities=23%  Similarity=0.160  Sum_probs=8.8

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             4310233334578888887542
Q gi|254780772|r  231 VYSKERMSFDEEAIRAFYHDRG  252 (781)
Q Consensus       231 ~~~~~~l~~D~~~l~~~Y~~~G  252 (781)
                      .|+-..+..+......--.++|
T Consensus        67 ~y~~~~F~~~~~~~~~~i~~~G   88 (307)
T TIGR00174        67 SYSAADFQTQALNAIADITARG   88 (307)
T ss_pred             CCCCHHHHHHHHHHHHHHHHCC
T ss_conf             0370889999999999998569


No 72 
>KOG1391 consensus
Probab=21.83  E-value=38  Score=11.71  Aligned_cols=32  Identities=16%  Similarity=0.230  Sum_probs=14.4

Q ss_pred             HHHCCCCEEEEEEEEEECCCCCEEEEEEEECCCC
Q ss_conf             9972970017998764338984258898603663
Q gi|254780772|r  160 YASIGYLNVMVKVQHHSISPTTLNITYVIEEGVK  193 (781)
Q Consensus       160 y~~~Gy~~a~V~~~~~~~~~~~v~i~~~I~EG~~  193 (781)
                      -++.|||+.++.+-......+  ..+|.|+|.|+
T Consensus       192 aq~aG~fn~Ei~pI~~K~kkg--e~~f~vDEHpR  223 (396)
T KOG1391         192 AQDAGYFNDEIAPIEVKTKKG--EQTFQVDEHPR  223 (396)
T ss_pred             HHHCCCCCCCCCCEEEEECCC--CEEEEECCCCC
T ss_conf             654473234302269861367--25467447898


No 73 
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=21.48  E-value=38  Score=11.66  Aligned_cols=50  Identities=18%  Similarity=0.293  Sum_probs=34.3

Q ss_pred             CCCCHHHHHHHHHHHHHCCCCCEEEEEEE--------CCEEEEEEEE-CCEEEEEEEECC
Q ss_conf             82688999999999996798003899986--------9989999993-653657999565
Q gi|254780772|r   74 QSISDADLDHAVKNIYAMGYFSNVKIKIV--------DSVLIIDLIE-RKIINHLFFSGN  124 (781)
Q Consensus        74 ~~~~~~~i~~~i~~l~~~g~F~~v~~~~~--------~~~l~~~v~e-~p~i~~i~~~Gn  124 (781)
                      ..++-.+++..||++.... |..|+|.-+        .|-+-|.+++ +-.|+-+.|.|+
T Consensus         4 ~~lsVsel~~~ik~~le~~-~~~v~V~GEIS~~~~~~sGH~YF~LkD~~a~i~~v~~~~~   62 (443)
T PRK00286          4 NPLSVSELNGYVKSLLERD-LGQVWVRGEISNFTRPSSGHWYFTLKDEQAQIRCVMFRGS   62 (443)
T ss_pred             CCEEHHHHHHHHHHHHHHH-CCCEEEEEEECCCEECCCCEEEEEEEECCCEEEEEEECCH
T ss_conf             8630999999999999834-8989999996466628996499999818928999999284


No 74 
>TIGR01780 SSADH succinic semialdehyde dehydrogenase; InterPro: IPR010102   Succinic semialdehyde dehydrogenase is one of three enzymes constituting 4-aminobutyrate (GABA) degradation in both prokaryotes and eukaryotes, catalysing the (NAD(P)+)-dependent catabolism reaction of succinic semialdehyde to succinate for metabolism by the citric acid cycle. In Escherichia coli, succinic semialdehyde dehydrogenase is located in a unidirectionally transcribed gene cluster encoding enzymes for GABA degradation and is suggested to be co-transcribed with succinic semialdehyde transaminase from a common promoter upstream of SSADH . Similar gene arrangements can be found in characterised Ralstonia eutropha  and the genome analysis of Bacillus subtilis.     Prokaryotic succinic semialdehyde dehydrogenases (1.2.1.16 from EC) share high sequence homology to characterised succinic semialdehyde dehydrogenases from rat and human (1.2.1.24 from EC), exhibiting conservation of proposed cofactor binding residues, and putative active sites (G-237 and G-242, C-293 and G-259 respectively of rat SSADH) .    Eukaryotic SSADH enzymes exclusively utilise NAD+ as a cofactor, exhibiting little to no NADP+ activity . While a NADP+ preference has been detected in prokaryotes in addition to both NADP+- and NAD+-dependencies as in Escherichia coli, Pseudomonas, and Klebsiella pneumoniae . The function of this alternative SSADH currently is unknown, but has been suggested to play a possible role in 4-hydroxyphenylacetic degradation .    SSADH enzyme belongs to the aldehyde dehydrogenase family, sharing a common evolutionary origin and enzymatic mechanism with lactaldehyde dehydrogenase . Like in lactaldehyde dehydrogenase and succinate semialdehyde dehydrogenase, the mammalian catalytic glutamic acid and cysteine residues are conserved in all the enzymes of this family. ; GO: 0016620 oxidoreductase activity acting on the aldehyde or oxo group of donors NAD or NADP as acceptor.
Probab=21.44  E-value=38  Score=11.66  Aligned_cols=189  Identities=13%  Similarity=0.151  Sum_probs=89.0

Q ss_pred             CHHHHHHHHHHCCCCCCCHHHHHHHH-HHHHHHHHHCCCCEEEEEEEEEEC---CCCCEEEEEEEECCCCEEEEEEEEEC
Q ss_conf             98899887300578637999999999-999999997297001799876433---89842588986036632467787504
Q gi|254780772|r  128 KDDQLKMIVRSRSAAAYDEDTVNADV-HNIKQAYASIGYLNVMVKVQHHSI---SPTTLNITYVIEEGVKAKINSIRFVG  203 (781)
Q Consensus       128 ~~~~l~~~~~~~~g~~~~~~~~~~~~-~~i~~~y~~~Gy~~a~V~~~~~~~---~~~~v~i~~~I~EG~~~~I~~I~f~G  203 (781)
                      ..|+|.+.|+++.|.+|.+.+-+-.- .--.+.|.+++-   .|.-++.+-   +.+|+   +.|.  +|+-|..+    
T Consensus        57 nkddLA~liT~E~GKPL~eA~GEv~YaA~ylEWfaEEA~---RvyG~~~~~s~~~~~r~---~v~k--QPVGV~a~----  124 (454)
T TIGR01780        57 NKDDLAKLITLENGKPLKEAKGEVLYAASYLEWFAEEAK---RVYGDTIPSSLQSDKRL---LVIK--QPVGVCAA----  124 (454)
T ss_pred             HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCCC---CCCCCCCCCCCCCCCEE---EEEE--CCCCCEEE----
T ss_conf             478999998763689626720102233245655530055---24444136787778637---9972--68766154----


Q ss_pred             CCCCCHHHHHHHHHCCCCCC-CCCCCCCCCCHHH-HHHHHHHHHHHHHHHHHHHHHCCCCCCCCC--CCCCCCEEEEECC
Q ss_conf             43110122221110012211-2445666431023-333457888888754232210012310124--5555410122022
Q gi|254780772|r  204 NKNYSHARLERVISIRTSGY-FSFGKTDVYSKER-MSFDEEAIRAFYHDRGYAAVKVSSQVLFDK--QKSGYVLIFQIDE  279 (781)
Q Consensus       204 n~~f~~~~L~~~~~~k~~~~-~~~~~~~~~~~~~-l~~D~~~l~~~Y~~~GY~d~~V~~~~~~~~--~~~~~~i~~~I~E  279 (781)
                         +..+--=..|-|+..+- |-=+..=++.|.. =-.--=.|..+=..-|+-+-.  .+|....  +-..+==  ...+
T Consensus       125 ---ITPWNFPaAMITRKagaALAAGCT~i~KPA~~TPlsALaLA~LA~~AG~P~GV--lnVi~g~~~~a~~~G~--~Lt~  197 (454)
T TIGR01780       125 ---ITPWNFPAAMITRKAGAALAAGCTVIIKPAEQTPLSALALARLAEEAGIPKGV--LNVITGSANDAEEVGK--VLTT  197 (454)
T ss_pred             ---ECCCCCHHHHHHHHHHHHHHCCCCEEECCCCCCCHHHHHHHHHHHHCCCCCCC--CEEECCCCCCHHHHCC--EECC
T ss_conf             ---27888723677733446763068278637888847899999999857899984--1356176404355150--0026


Q ss_pred             CCCCCCCCCCCCCCCCCCCHHHHHHH------HHCCCCC-----EECCCCCCHHHHH-CCCCCCCCCCCCC
Q ss_conf             22100000123334445576777753------2116996-----2112100000000-0000234456420
Q gi|254780772|r  280 GEIYTVGNISIQSTLQEIQKKTLLSL------IRIRSGN-----LYNPQEIKESSEK-ISKYFFSGERPFV  338 (781)
Q Consensus       280 G~~y~i~~i~i~g~~~~~~~~~l~~~------~~~k~G~-----~~~~~~~~~~~~~-i~~~y~~~GY~fa  338 (781)
                      -|  .|++|+|+|.+. +=+-.+.+.      +.+.=|-     +|+-.+++++++. +..+|++.|-..+
T Consensus       198 ~P--~VrK~sFTGST~-vGKiLM~qsA~tvKkvS~ELGGnAPfIVF~DAd~D~AVE~a~AsKFRn~GQTCV  265 (454)
T TIGR01780       198 SP--LVRKVSFTGSTN-VGKILMKQSASTVKKVSMELGGNAPFIVFDDADIDQAVEGAMASKFRNAGQTCV  265 (454)
T ss_pred             CC--CEEEEEECCCCH-HHHHHHHHHHHHHCEEHHHCCCCCCEEECCCCCHHHHHHHHHHHHHCCCCCEEE
T ss_conf             88--477654137717-899999961322212123207898830259988768999999874527996377


No 75 
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=20.97  E-value=39  Score=11.59  Aligned_cols=51  Identities=25%  Similarity=0.387  Sum_probs=36.7

Q ss_pred             CCCCHHHHHHHHHHHHHCCCCCEEEEEEE--------CCEEEEEEE-ECCEEEEEEEECCC
Q ss_conf             82688999999999996798003899986--------998999999-36536579995654
Q gi|254780772|r   74 QSISDADLDHAVKNIYAMGYFSNVKIKIV--------DSVLIIDLI-ERKIINHLFFSGNN  125 (781)
Q Consensus        74 ~~~~~~~i~~~i~~l~~~g~F~~v~~~~~--------~~~l~~~v~-e~p~i~~i~~~Gn~  125 (781)
                      .+++-..++.-||.+.... |..|.|.-+        .+-+.|.++ ++..|.-+.|.|+.
T Consensus         4 ~~~sVSeln~~ik~llE~~-~~~V~v~GEISn~t~~~sgH~YFtLKD~~A~i~c~mf~~~~   63 (440)
T COG1570           4 KILSVSELNDYIKRLLERD-LGQVWVRGEISNFTRPASGHLYFTLKDERAQIRCVMFKGNN   63 (440)
T ss_pred             CEECHHHHHHHHHHHHHHC-CCEEEEEEEECCCCCCCCCCEEEEECCCCCEEEEEEECCCC
T ss_conf             7051999999999999840-78599999963776688860799971677168999974700


No 76 
>PRK05137 tolB translocation protein TolB; Provisional
Probab=20.77  E-value=40  Score=11.57  Aligned_cols=21  Identities=19%  Similarity=0.509  Sum_probs=15.4

Q ss_pred             HHHHHHHH-HHHHHCCCCCEEE
Q ss_conf             89999999-9999679800389
Q gi|254780772|r   78 DADLDHAV-KNIYAMGYFSNVK   98 (781)
Q Consensus        78 ~~~i~~~i-~~l~~~g~F~~v~   98 (781)
                      ..++.++| ..|-.+|+|+-+.
T Consensus        56 ~~~i~~II~~DL~~SG~F~~l~   77 (437)
T PRK05137         56 GADIAQVIAADLKRSGLFAPID   77 (437)
T ss_pred             HHHHHHHHHHHHHHCCCCEECC
T ss_conf             6889999997786388955648


Done!