Query         gi|254780730|ref|YP_003065143.1| hypothetical protein CLIBASIA_03085 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 120
No_of_seqs    110 out of 335
Neff          2.6 
Searched_HMMs 39220
Date          Sun May 29 19:34:09 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780730.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 COG3847 Flp Flp pilus assembly  99.7 1.6E-16 4.1E-21  112.8   7.3   56    3-58      2-57  (58)
  2 pfam04964 Flp_Fap Flp/Fap pili  99.6 1.3E-15 3.2E-20  107.8   5.0   47    9-55      1-47  (47)
  3 COG4961 TadG Flp pilus assembl  97.2  0.0016 4.1E-08   40.1   7.0   35    3-37      9-43  (185)
  4 pfam05307 Bundlin Bundlin. Thi  86.6    0.67 1.7E-05   25.5   3.0   31   10-40      8-38  (97)
  5 TIGR01129 secD protein-export   82.2     3.9  0.0001   21.2   5.3   39   14-52    364-402 (522)
  6 COG0342 SecD Preprotein transl  81.5     4.5 0.00011   20.9   5.4   44   12-55    335-378 (506)
  7 COG4537 ComGC Competence prote  80.6     2.9 7.5E-05   21.9   4.2   40    3-42      1-40  (107)
  8 pfam04021 Class_IIIsignal Clas  80.4     1.4 3.5E-05   23.8   2.4   23   13-35      1-23  (28)
  9 COG4966 PilW Tfp pilus assembl  74.1       3 7.6E-05   21.9   2.7   58    7-65      6-80  (318)
 10 TIGR01707 gspI general secreti  70.8     8.2 0.00021   19.4   4.4   52   15-66      1-65  (103)
 11 pfam07811 TadE TadE-like prote  59.7      13 0.00034   18.3   3.7   23   15-37      1-23  (43)
 12 PRK13024 bifunctional preprote  58.1      16 0.00041   17.8   5.4   38   14-51    256-293 (741)
 13 PRK05812 secD preprotein trans  53.7      19 0.00049   17.3   5.3   39   14-52    343-381 (513)
 14 COG1681 FlaB Archaeal flagelli  52.0      15 0.00039   17.9   3.0   31   12-42      1-32  (209)
 15 PRK12933 secD preprotein trans  49.8      22 0.00057   17.0   5.1   41   14-54    434-474 (604)
 16 pfam12555 TPPK_C Thiamine pyro  48.9      23 0.00058   16.9   5.0   46    7-55      4-49  (53)
 17 PRK10506 hypothetical protein;  43.9      28  0.0007   16.5   4.2   35   10-44      1-35  (155)
 18 COG2165 PulG Type II secretory  43.6      28 0.00071   16.4   4.8   37   10-46      4-40  (149)
 19 TIGR00872 gnd_rel 6-phosphoglu  41.7      12  0.0003   18.5   1.1   31   18-60    196-227 (341)
 20 PRK08808 general secretion pat  41.4      30 0.00077   16.2   4.4   31   11-41      3-33  (209)
 21 PRK00442 tatA twin arginine tr  41.2      30 0.00078   16.2   6.8   70   23-94     10-81  (90)
 22 pfam04917 Shufflon_N Bacterial  37.4      35  0.0009   15.9   5.6   37   10-46      2-38  (356)
 23 TIGR01710 typeII_sec_gspG gene  36.0      37 0.00095   15.7   3.8   39   14-54      1-42  (137)
 24 pfam10731 Anophelin Thrombin i  33.7      41   0.001   15.5   4.3   41   23-83      6-46  (65)
 25 TIGR02523 type_IV_pilV type IV  32.3      43  0.0011   15.4   5.6   42   13-54      1-46  (163)
 26 PRK13464 F0F1 ATP synthase sub  31.0      45  0.0012   15.3   3.0   39    5-43      3-41  (101)
 27 TIGR03322 alt_F1F0_F0_C altern  28.8      12  0.0003   18.5  -0.6   45   35-79      8-52  (86)
 28 COG4967 PilV Tfp pilus assembl  26.8      54  0.0014   14.8   5.2   38   11-48      7-44  (162)
 29 PRK10332 hypothetical protein;  26.7      54  0.0014   14.8   5.0   40    9-49      4-43  (107)
 30 COG1991 Uncharacterized conser  26.4     8.7 0.00022   19.3  -1.7   33    4-36      3-35  (131)
 31 PRK08541 flagellin; Validated   25.6      56  0.0014   14.7   2.3   30   12-41      1-31  (212)
 32 PRK02958 tatA twin arginine tr  24.2      60  0.0015   14.6   4.2   43   22-64      9-53  (75)
 33 TIGR02600 TIGR02600 Verrucomic  24.1      61  0.0015   14.5   2.7   28   16-43      2-29  (1697)
 34 TIGR01708 typeII_sec_gspH gene  23.8      62  0.0016   14.5   3.2   48   11-58      1-53  (175)
 35 PRK01026 tetrahydromethanopter  23.5      62  0.0016   14.5   3.4   26   17-42     48-73  (75)
 36 PRK13892 conjugal transfer pro  23.1      63  0.0016   14.4   2.3   28   22-49     62-89  (141)
 37 pfam12301 CD99L2 CD99 antigen   22.7      57  0.0015   14.7   1.9   28   14-41    103-130 (154)
 38 PRK13470 consensus              22.7      20  0.0005   17.3  -0.5   33   47-79     21-53  (88)
 39 TIGR01410 tatB twin arginine-t  22.3      66  0.0017   14.3   3.8   35   23-57      9-52  (82)
 40 COG4970 FimT Tfp pilus assembl  22.0      67  0.0017   14.3   3.7   49   13-61      7-60  (181)
 41 PRK13871 conjugal transfer pro  22.0      51  0.0013   14.9   1.6   28   22-49     52-79  (134)
 42 COG2976 Uncharacterized protei  21.6      68  0.0017   14.3   3.6   45    2-56     10-66  (207)
 43 COG3043 NapB Nitrate reductase  21.0      70  0.0018   14.2   3.7   43   49-91     33-79  (155)
 44 PRK13471 F0F1 ATP synthase sub  20.5      22 0.00057   17.0  -0.5   52   28-79      7-58  (85)
 45 pfam06295 DUF1043 Protein of u  20.4      72  0.0018   14.1   3.2   12   47-58     66-77  (128)
 46 TIGR00411 redox_disulf_1 redox  20.2      26 0.00066   16.6  -0.3   15   12-26     40-54  (82)

No 1  
>COG3847 Flp Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]
Probab=99.67  E-value=1.6e-16  Score=112.79  Aligned_cols=56  Identities=41%  Similarity=0.746  Sum_probs=52.7

Q ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             69999996122570299999999999999999998763589999999973101478
Q gi|254780730|r    3 MNIIKKILKNGSGATAIEYGLLASLVSVAIISAVSTLGDRMKGVYQTISTELDKGD   58 (120)
Q Consensus         3 Mn~ikrFl~DEsGATAIEYgLIaALIaVAIIaavt~LGt~L~~~FttVst~LnkG~   58 (120)
                      .++++||+|||+|||+||||||++||++++|++++.+|+++++.|+.+++.|+.+.
T Consensus         2 ~~~~~rF~rDE~GAtaiEYglia~lIav~ii~~~~~l~~~l~~~ft~i~~al~~a~   57 (58)
T COG3847           2 KKLLRRFLRDEDGATAIEYGLIAALIAVVIIAGGSTLGTALKGAFTAIGAALTGAA   57 (58)
T ss_pred             CHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             17899997745651899999999999999999999998999999999999870468


No 2  
>pfam04964 Flp_Fap Flp/Fap pilin component.
Probab=99.59  E-value=1.3e-15  Score=107.79  Aligned_cols=47  Identities=53%  Similarity=0.813  Sum_probs=45.3

Q ss_pred             HHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             96122570299999999999999999998763589999999973101
Q gi|254780730|r    9 ILKNGSGATAIEYGLLASLVSVAIISAVSTLGDRMKGVYQTISTELD   55 (120)
Q Consensus         9 Fl~DEsGATAIEYgLIaALIaVAIIaavt~LGt~L~~~FttVst~Ln   55 (120)
                      |++||+|+||||||||++||++++|++++.+|++++++|++|++.|.
T Consensus         1 F~kde~GaTAIEYgLIaalIav~iI~~~~~~g~~l~~~f~~i~~~l~   47 (47)
T pfam04964         1 FLKDESGATAIEYGLIAALIAVVIIAYVTTLGTALKTKFTSIGTALT   47 (47)
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             96565641599999999999999999999970129889999886239


No 3  
>COG4961 TadG Flp pilus assembly protein TadG [Intracellular trafficking and secretion]
Probab=97.21  E-value=0.0016  Score=40.15  Aligned_cols=35  Identities=20%  Similarity=0.481  Sum_probs=28.9

Q ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             69999996122570299999999999999999998
Q gi|254780730|r    3 MNIIKKILKNGSGATAIEYGLLASLVSVAIISAVS   37 (120)
Q Consensus         3 Mn~ikrFl~DEsGATAIEYgLIaALIaVAIIaavt   37 (120)
                      ..++++|++|++|+.|||.+||+-++.+++.+.+-
T Consensus         9 ~~~~~rF~rdr~Ga~AVeFAlvap~ll~l~~g~ve   43 (185)
T COG4961           9 RGLLRRFRRDRRGAAAVEFALVAPPLLLLVFGIVE   43 (185)
T ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999887648768999999999999999999999


No 4  
>pfam05307 Bundlin Bundlin. This family consists of several bundlin proteins from E. coli. Bundlin is a type IV pilin protein that is the only known structural component of enteropathogenic Escherichia coli bundle-forming pili (BFP). BFP play a role in virulence, antigenicity, autoaggregation, and localized adherence to epithelial cells.
Probab=86.58  E-value=0.67  Score=25.46  Aligned_cols=31  Identities=16%  Similarity=0.171  Sum_probs=26.6

Q ss_pred             HHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             6122570299999999999999999998763
Q gi|254780730|r   10 LKNGSGATAIEYGLLASLVSVAIISAVSTLG   40 (120)
Q Consensus        10 l~DEsGATAIEYgLIaALIaVAIIaavt~LG   40 (120)
                      .+.|.|.+.||-++.+|++++.+.+++--+-
T Consensus         8 kK~~kGlsLiE~~mVLal~A~vIAGvf~YY~   38 (97)
T pfam05307         8 KKYEKGLSLIESAMVLALAATVTAGVMFYYQ   38 (97)
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHHHHEEHH
T ss_conf             6675252199999999999999977510307


No 5  
>TIGR01129 secD protein-export membrane protein SecD; InterPro: IPR005791    Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component. . From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins. The translocase protein subunits are encoded on the bacterial chromosome.     The translocase itself comprises 7 proteins, including a chaperone protein (SecB), an ATPase (SecA), an integral membrane complex (SecCY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) . The chaperone protein SecB  is a highly acidic homotetrameric protein that exists as a "dimer of dimers" in the bacterial cytoplasm. SecB maintains preproteins in an unfolded state after translation, and targets these to the peripheral membrane protein ATPase SecA for secretion . Together with SecY and SecG, SecE forms a multimeric channel through which preproteins are translocated, using both proton motive forces and ATP-driven secretion. The latter is mediated by SecA. The structure of the Escherichia coli SecYEG assembly revealed a sandwich of two membranes interacting through the extensive cytoplasmic domains . Each membrane is composed of dimers of SecYEG. The monomeric complex contains 15 transmembrane helices.     This entry describes the SecD family of transport proteins. Members of this family are highly variable in length immediately after the well-conserved motif LGLGLXGG at the amino-terminal end of this model. Archaeal homologs are not included in the seed. SecD from Mycobacterium tuberculosis has a long Pro-rich insert. ; GO: 0015450 P-P-bond-hydrolysis-driven protein transmembrane transporter activity, 0006886 intracellular protein transport, 0009276 1-2nm peptidoglycan-based cell wall.
Probab=82.18  E-value=3.9  Score=21.19  Aligned_cols=39  Identities=26%  Similarity=0.394  Sum_probs=35.0

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             570299999999999999999998763589999999973
Q gi|254780730|r   14 SGATAIEYGLLASLVSVAIISAVSTLGDRMKGVYQTIST   52 (120)
Q Consensus        14 sGATAIEYgLIaALIaVAIIaavt~LGt~L~~~FttVst   52 (120)
                      =|+-+||=|++|+++++++|..+..+==.+-++|..++=
T Consensus       364 LG~d~i~~G~~A~~~Gl~lV~~FM~~yY~~~G~~A~~aL  402 (522)
T TIGR01129       364 LGADSIEAGIKAGLIGLVLVLVFMIVYYRLFGLIAAIAL  402 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             438999999999999999999999999767889999999


No 6  
>COG0342 SecD Preprotein translocase subunit SecD [Intracellular trafficking and secretion]
Probab=81.47  E-value=4.5  Score=20.88  Aligned_cols=44  Identities=32%  Similarity=0.490  Sum_probs=34.3

Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             22570299999999999999999998763589999999973101
Q gi|254780730|r   12 NGSGATAIEYGLLASLVSVAIISAVSTLGDRMKGVYQTISTELD   55 (120)
Q Consensus        12 DEsGATAIEYgLIaALIaVAIIaavt~LGt~L~~~FttVst~Ln   55 (120)
                      -+=|+..++.|+++++++++++..+..+=-.+-+++..++.-++
T Consensus       335 psLG~~~i~~gi~Agl~g~~~V~vfm~~~Yr~~Gvia~ial~~n  378 (506)
T COG0342         335 PTLGADSIKAGLIAGLIGLALVAVFMLLYYRLAGVIAAIALGLN  378 (506)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             45476789978999999999999999999987589999999999


No 7  
>COG4537 ComGC Competence protein ComGC [Intracellular trafficking and secretion]
Probab=80.63  E-value=2.9  Score=21.90  Aligned_cols=40  Identities=25%  Similarity=0.413  Sum_probs=32.7

Q ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             6999999612257029999999999999999999876358
Q gi|254780730|r    3 MNIIKKILKNGSGATAIEYGLLASLVSVAIISAVSTLGDR   42 (120)
Q Consensus         3 Mn~ikrFl~DEsGATAIEYgLIaALIaVAIIaavt~LGt~   42 (120)
                      |..+..|++++.|-|.||--+.+..|++-++..+-.+-.+
T Consensus         1 m~~~~k~~~~~kgFTLvEMLiVLlIISiLlLl~iPNltKq   40 (107)
T COG4537           1 MKKMKKFLKHKKGFTLVEMLIVLLIISILLLLFIPNLTKQ   40 (107)
T ss_pred             CHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCHHHH
T ss_conf             9167777776326259999999999999999974625443


No 8  
>pfam04021 Class_IIIsignal Class III signal peptide. This family of archaeal proteins contains. an amino terminal motif QXSXEXXXL that has been suggested to be part of a class III signal sequence. With the Q being the +1 residue of the signal peptidase cleavage site. Two members of this family are cleaved by a type IV pilin-like signal peptidase.
Probab=80.39  E-value=1.4  Score=23.76  Aligned_cols=23  Identities=35%  Similarity=0.371  Sum_probs=17.5

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             25702999999999999999999
Q gi|254780730|r   13 GSGATAIEYGLLASLVSVAIISA   35 (120)
Q Consensus        13 EsGATAIEYgLIaALIaVAIIaa   35 (120)
                      .+|+.++||.++.+.+.++.+.+
T Consensus         1 ~kGQ~SlE~~lLi~~vlv~~~i~   23 (28)
T pfam04021         1 KKGQISLEFLLLILAVLVVAIIA   23 (28)
T ss_pred             CCCEEEHHHHHHHHHHHHHHHHH
T ss_conf             98654399999999999999771


No 9  
>COG4966 PilW Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=74.14  E-value=3  Score=21.86  Aligned_cols=58  Identities=17%  Similarity=0.247  Sum_probs=35.2

Q ss_pred             HHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH-----------------HHHHHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf             999612257029999999999999999999876-----------------35899999999731014789876788
Q gi|254780730|r    7 KKILKNGSGATAIEYGLLASLVSVAIISAVSTL-----------------GDRMKGVYQTISTELDKGDVPPTKPG   65 (120)
Q Consensus         7 krFl~DEsGATAIEYgLIaALIaVAIIaavt~L-----------------Gt~L~~~FttVst~LnkG~~pp~~p~   65 (120)
                      +...+.++|.+.||. ||+.+|++.++.++..+                 -+.....++-|+-+|..++-....+.
T Consensus         6 ~~~~rrqrG~SLIEL-MIallIglivL~av~s~y~~sr~~y~~~~~~a~~qE~gR~Al~litrdlr~AG~~~~~n~   80 (318)
T COG4966           6 RARPRRQRGFSLIEL-MIALLIGLIVLLAVGSLYLSSRQLYTTLADRASLQENGRFALELITRDLRMAGFFGCSNN   80 (318)
T ss_pred             CCCCCCCCCCCHHHH-HHHHHHHHHHHHHHHHEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCC
T ss_conf             355455577439999-999999999999776303435677887766653123157899999999997188667888


No 10 
>TIGR01707 gspI general secretion pathway protein I; InterPro: IPR010052   This entry represents GspI, one of two proteins highly conserved at their N-termini but easily separable phylogenetically. The other is GspJ (IPR010055 from INTERPRO). Both GspI and GspJ are proteins of the type II secretion pathway, or main terminal branch of the general secretion pathway. This pathway carries proteins across the outer membrane. Note that proteins of type II secretion are cryptic in Escherichia coli K-12 - present but not yet demonstrated to act on any target.; GO: 0008565 protein transporter activity, 0015628 protein secretion by the type II secretion system, 0015627 type II protein secretion system complex.
Probab=70.78  E-value=8.2  Score=19.39  Aligned_cols=52  Identities=23%  Similarity=0.418  Sum_probs=41.2

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHCCCCCCCCCCCC
Q ss_conf             702999999999999999999987635899999-------------9997310147898767887
Q gi|254780730|r   15 GATAIEYGLLASLVSVAIISAVSTLGDRMKGVY-------------QTISTELDKGDVPPTKPGS   66 (120)
Q Consensus        15 GATAIEYgLIaALIaVAIIaavt~LGt~L~~~F-------------ttVst~LnkG~~pp~~p~~   66 (120)
                      |-|.+|-=+-+|.+++|+++.+.+.|..+++.=             +.+.+++.-+-+||..+++
T Consensus         1 GFTLlEVLVALAIFa~aa~~~~~~~~~~~~~~~rL~dk~LA~~~aDNrl~se~~l~v~P~~~~~~   65 (103)
T TIGR01707         1 GFTLLEVLVALAIFALAALAVLSSVGEQTNAVGRLRDKTLALWVADNRLASELSLGVTPPSLGRN   65 (103)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCC
T ss_conf             91499999999999999999999998765443566899999999987776577606798634677


No 11 
>pfam07811 TadE TadE-like protein. The members of this family are similar to a region of the protein product of the bacterial tadE locus. In various bacterial species, the tad locus is closely linked to flp-like genes, which encode proteins required for the production of pili involved in adherence to surfaces. It is thought that the tad loci encode proteins that act to assemble or export an Flp pilus in various bacteria. All tad loci but TadA have putative transmembrane regions, and in fact the region in question is this family has a high proportion of hydrophobic amino acid residues.
Probab=59.71  E-value=13  Score=18.25  Aligned_cols=23  Identities=26%  Similarity=0.557  Sum_probs=18.1

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             70299999999999999999998
Q gi|254780730|r   15 GATAIEYGLLASLVSVAIISAVS   37 (120)
Q Consensus        15 GATAIEYgLIaALIaVAIIaavt   37 (120)
                      |+++||.+|++-++.+.+.+.+.
T Consensus         1 G~a~VEfalv~p~~l~l~~~~~~   23 (43)
T pfam07811         1 GAAAVEFALVLPVLLLLLFGIVE   23 (43)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             91699999999999999999999


No 12 
>PRK13024 bifunctional preprotein translocase subunit SecD/SecF; Reviewed
Probab=58.12  E-value=16  Score=17.76  Aligned_cols=38  Identities=26%  Similarity=0.419  Sum_probs=18.5

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             57029999999999999999999876358999999997
Q gi|254780730|r   14 SGATAIEYGLLASLVSVAIISAVSTLGDRMKGVYQTIS   51 (120)
Q Consensus        14 sGATAIEYgLIaALIaVAIIaavt~LGt~L~~~FttVs   51 (120)
                      -|+.+++.|+++++|+++++..+..+-=.+-+....++
T Consensus       256 LG~~si~~g~~A~~ig~~lV~lfMi~~Yr~~G~iA~ia  293 (741)
T PRK13024        256 LGQDAINAGIIAGIIGFALIALFMLLFYGLPGLIANIA  293 (741)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             10999999999999999999999999986769999999


No 13 
>PRK05812 secD preprotein translocase subunit SecD; Reviewed
Probab=53.68  E-value=19  Score=17.34  Aligned_cols=39  Identities=31%  Similarity=0.439  Sum_probs=28.9

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             570299999999999999999998763589999999973
Q gi|254780730|r   14 SGATAIEYGLLASLVSVAIISAVSTLGDRMKGVYQTIST   52 (120)
Q Consensus        14 sGATAIEYgLIaALIaVAIIaavt~LGt~L~~~FttVst   52 (120)
                      =|+.+|+=|+++++|++++|..+..+--.+-+++..++=
T Consensus       343 LG~~si~~g~~A~~ig~~lV~~fmi~~Yr~~G~~a~~aL  381 (513)
T PRK05812        343 LGADSIRAGLIAGLIGLALVLLFMLLYYRLFGLIANIAL  381 (513)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             009999999999999999999999999857699999999


No 14 
>COG1681 FlaB Archaeal flagellins [Cell motility and secretion]
Probab=52.05  E-value=15  Score=17.87  Aligned_cols=31  Identities=26%  Similarity=0.317  Sum_probs=20.8

Q ss_pred             CCCCHHHHHHHHH-HHHHHHHHHHHHHHHHHH
Q ss_conf             2257029999999-999999999999876358
Q gi|254780730|r   12 NGSGATAIEYGLL-ASLVSVAIISAVSTLGDR   42 (120)
Q Consensus        12 DEsGATAIEYgLI-aALIaVAIIaavt~LGt~   42 (120)
                      |++|++.||=+++ .|+|-+|.+++...+++.
T Consensus         1 ~rrG~~GIgtlIVfIAmVlVAAVaA~VlInt~   32 (209)
T COG1681           1 DRRGATGIGTLIVFIAMVLVAAVAAYVLINTG   32 (209)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             98411043289999999999999999986534


No 15 
>PRK12933 secD preprotein translocase subunit SecD; Reviewed
Probab=49.81  E-value=22  Score=16.98  Aligned_cols=41  Identities=24%  Similarity=0.191  Sum_probs=29.7

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             57029999999999999999999876358999999997310
Q gi|254780730|r   14 SGATAIEYGLLASLVSVAIISAVSTLGDRMKGVYQTISTEL   54 (120)
Q Consensus        14 sGATAIEYgLIaALIaVAIIaavt~LGt~L~~~FttVst~L   54 (120)
                      =|+-+|+-|+++++|+++++..+..+=-.+-+++.+++=-+
T Consensus       434 LG~dsi~~g~~A~~iG~~lV~~fM~~~Yr~~G~iA~iaL~~  474 (604)
T PRK12933        434 LGAENIENGFAALALGMGITLLFMALWYRRLGWVANVALIA  474 (604)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             55999999999999999999999999985529999999999


No 16 
>pfam12555 TPPK_C Thiamine pyrophosphokinase C terminal. This domain family is found in bacteria, and is approximately 50 amino acids in length. The proteins in this family catalyses the pyrophosphorylation of thiamine in yeast and synthesizes thiamine pyrophosphate (TPP), a thiamine coenzyme.
Probab=48.94  E-value=23  Score=16.90  Aligned_cols=46  Identities=20%  Similarity=0.314  Sum_probs=32.5

Q ss_pred             HHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             9996122570299999999999999999998763589999999973101
Q gi|254780730|r    7 KKILKNGSGATAIEYGLLASLVSVAIISAVSTLGDRMKGVYQTISTELD   55 (120)
Q Consensus         7 krFl~DEsGATAIEYgLIaALIaVAIIaavt~LGt~L~~~FttVst~Ln   55 (120)
                      .++-|......++=-.++++|++++++..++..|.   ..|+.+.+.+|
T Consensus         4 s~LYrsris~~~~~~lvla~Lva~~val~~s~~g~---~~~~~l~~~w~   49 (53)
T pfam12555         4 SRLYRSRISGGALLLLVLAALVALAVALLVSPAGQ---SFLDLLADRWN   49 (53)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCHH---HHHHHHHHHHH
T ss_conf             88989227788999999999999999998084229---99999999987


No 17 
>PRK10506 hypothetical protein; Provisional
Probab=43.90  E-value=28  Score=16.45  Aligned_cols=35  Identities=20%  Similarity=0.098  Sum_probs=27.4

Q ss_pred             HHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             61225702999999999999999999987635899
Q gi|254780730|r   10 LKNGSGATAIEYGLLASLVSVAIISAVSTLGDRMK   44 (120)
Q Consensus        10 l~DEsGATAIEYgLIaALIaVAIIaavt~LGt~L~   44 (120)
                      ++.|+|-|.||--+..++|++....++-.+.....
T Consensus         1 ~~~q~GFTLiEllvvi~ii~il~~~a~p~~~~~~q   35 (155)
T PRK10506          1 MKKQRGYTLIETLVAMTLVVILSAWGLYGWQYWQQ   35 (155)
T ss_pred             CCCCCCEEHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             98556627999999999999999887777999999


No 18 
>COG2165 PulG Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=43.63  E-value=28  Score=16.43  Aligned_cols=37  Identities=19%  Similarity=0.302  Sum_probs=28.6

Q ss_pred             HHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             6122570299999999999999999998763589999
Q gi|254780730|r   10 LKNGSGATAIEYGLLASLVSVAIISAVSTLGDRMKGV   46 (120)
Q Consensus        10 l~DEsGATAIEYgLIaALIaVAIIaavt~LGt~L~~~   46 (120)
                      .+.++|=|.||--+.+++|++....++..+.......
T Consensus         4 ~~~qrGFTLiElLVvl~Iigil~~~~~p~~~~~~~~~   40 (149)
T COG2165           4 MKKQRGFTLIELLVVLAIIGILAALALPSLQGSIDKA   40 (149)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             4145673899999999999999999999999988999


No 19 
>TIGR00872 gnd_rel 6-phosphogluconate dehydrogenase (decarboxylating); InterPro: IPR004849   This family resembles a larger family of bacterial and eukaryotic 6-phosphogluconate dehydrogenases (Gnd) but differs from it by a deep split in a UPGMA similarity clustering tree and the lack of a central region of about 140 residues. Among complete genomes, it is found is found in Bacillus subtilis and Mycobacterium tuberculosis, both of which also contain Gnd, and in Aquifex aeolicus. .
Probab=41.72  E-value=12  Score=18.49  Aligned_cols=31  Identities=26%  Similarity=0.631  Sum_probs=20.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHCCCCCC
Q ss_conf             99999999999999999998763589999999-97310147898
Q gi|254780730|r   18 AIEYGLLASLVSVAIISAVSTLGDRMKGVYQT-ISTELDKGDVP   60 (120)
Q Consensus        18 AIEYgLIaALIaVAIIaavt~LGt~L~~~Ftt-Vst~LnkG~~p   60 (120)
                      -||||+++|+            ++.++-+=++ |.+.+..|+.-
T Consensus       196 GIEYG~Maai------------aEGfe~L~nsdvGtrvqhGdae  227 (341)
T TIGR00872       196 GIEYGMMAAI------------AEGFEVLKNSDVGTRVQHGDAE  227 (341)
T ss_pred             CCHHHHHHHH------------HHHHHHHHHCCCCCCEECCCCC
T ss_conf             5138889999------------8778987524655500037544


No 20 
>PRK08808 general secretion pathway protein J; Validated
Probab=41.41  E-value=30  Score=16.23  Aligned_cols=31  Identities=29%  Similarity=0.306  Sum_probs=26.6

Q ss_pred             HCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             1225702999999999999999999987635
Q gi|254780730|r   11 KNGSGATAIEYGLLASLVSVAIISAVSTLGD   41 (120)
Q Consensus        11 ~DEsGATAIEYgLIaALIaVAIIaavt~LGt   41 (120)
                      +-+.|=|.||--+-.+|+++.++..+++|-+
T Consensus         3 r~~~GFTLVEvLvalsLlslillll~saLrt   33 (209)
T PRK08808          3 RRAAGFTLIEVLLATVLLAGGLALAFATLRS   33 (209)
T ss_pred             CCCCCCEEHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             4458837619999999999999999999998


No 21 
>PRK00442 tatA twin arginine translocase protein A; Provisional
Probab=41.24  E-value=30  Score=16.21  Aligned_cols=70  Identities=16%  Similarity=0.341  Sum_probs=35.7

Q ss_pred             HHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             9999999999999--98763589999999973101478987678875578677877432458877653432123
Q gi|254780730|r   23 LLASLVSVAIISA--VSTLGDRMKGVYQTISTELDKGDVPPTKPGSVPMQPESSNPSTRLQPPAKPTSIPVKTK   94 (120)
Q Consensus        23 LIaALIaVAIIaa--vt~LGt~L~~~FttVst~LnkG~~pp~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (120)
                      ||+.+|++.+.+.  +..+|..|....-..-..|+..+..|+....-|-||.  .+.....+-..++.|++..+
T Consensus        10 livl~iv~llFGtkkl~~lg~dlG~~iK~Fkk~m~d~~~k~~~~~~~~a~p~--~~~q~~a~~~~~~Tid~qA~   81 (90)
T PRK00442         10 IVILVVVVLVFGTKKLKNLGSDVGESIKGFRKAMNEEEDKPAEQTPPPAQPV--PPVQNTAQLNQPHTIDAQAQ   81 (90)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCC--CCCCCCCCCCCCCCCHHHHH
T ss_conf             9999999999464035467888999999999873333457656899877888--86434544468975106776


No 22 
>pfam04917 Shufflon_N Bacterial shufflon protein, N-terminal constant region. This family represents the high-similarity N-terminal 'constant region' shared by shufflon proteins.
Probab=37.37  E-value=35  Score=15.86  Aligned_cols=37  Identities=22%  Similarity=0.358  Sum_probs=30.3

Q ss_pred             HHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             6122570299999999999999999998763589999
Q gi|254780730|r   10 LKNGSGATAIEYGLLASLVSVAIISAVSTLGDRMKGV   46 (120)
Q Consensus        10 l~DEsGATAIEYgLIaALIaVAIIaavt~LGt~L~~~   46 (120)
                      .+.++|-+.+|-.+.++.+++++...+.-+.+.+..+
T Consensus         2 r~~~kGf~LlE~~~~L~I~~~~~~~~~~~~~~~~~~~   38 (356)
T pfam04917         2 KKTDKGVSLLEVGAVLLIVVMVIPKVAENIEDYLNNV   38 (356)
T ss_pred             CEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             1203443089999999999999999999999899999


No 23 
>TIGR01710 typeII_sec_gspG general secretion pathway protein G; InterPro: IPR010054   This entry represents GspG, protein G of the main terminal branch of the general secretion pathway, also called type II secretion. It transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens.; GO: 0008565 protein transporter activity, 0015628 protein secretion by the type II secretion system, 0015627 type II protein secretion system complex.
Probab=36.00  E-value=37  Score=15.74  Aligned_cols=39  Identities=21%  Similarity=0.340  Sum_probs=24.4

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH
Q ss_conf             570299999999999999999998---76358999999997310
Q gi|254780730|r   14 SGATAIEYGLLASLVSVAIISAVS---TLGDRMKGVYQTISTEL   54 (120)
Q Consensus        14 sGATAIEYgLIaALIaVAIIaavt---~LGt~L~~~FttVst~L   54 (120)
                      +|=|.+|  +|+.+|.+.+.+++.   .++..=...-+...++|
T Consensus         1 ~GFTLlE--~~VVlvIlGLLaalv~P~l~s~~d~A~~~~a~~qi   42 (137)
T TIGR01710         1 RGFTLLE--IMVVLVILGLLAALVVPKLFSQADKAKAQVAKAQI   42 (137)
T ss_pred             CCCHHHH--HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
T ss_conf             9732678--89999999999999865534875535788899999


No 24 
>pfam10731 Anophelin Thrombin inhibitor from mosquito. Members of this family are all inhibitors of thrombin, the peptidase that is at the end of the blood coagulation cascade and which creates the clot by cleaving fibrinogen. The interaction between thrombin and fibrinogen involves two different areas of contact - via the thrombin active site and via a second substrate-binding site known as an exosite. The inhibitor acts by blocking the exosite, rather than by interacting with the active site. The inhibitors are from mosquitoes that feed on human blood and which, by inhibiting thrombin, prevent the blood from clotting and keep it flowing.
Probab=33.67  E-value=41  Score=15.52  Aligned_cols=41  Identities=27%  Similarity=0.553  Sum_probs=28.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             9999999999999987635899999999731014789876788755786778774324588
Q gi|254780730|r   23 LLASLVSVAIISAVSTLGDRMKGVYQTISTELDKGDVPPTKPGSVPMQPESSNPSTRLQPP   83 (120)
Q Consensus        23 LIaALIaVAIIaavt~LGt~L~~~FttVst~LnkG~~pp~~p~~~~~~~~~~~~~~~~~~~   83 (120)
                      ++.+|+++++++.++                    ..|--+||..|---|...-+..|+|-
T Consensus         6 ~vialLC~aLvavvQ--------------------~APQYa~GeePtYDEdd~d~e~l~ph   46 (65)
T pfam10731         6 IVIALLCVALVAVVQ--------------------SAPQYAPGDEPTYDEDDDDDEPLKPH   46 (65)
T ss_pred             HHHHHHHHHHHHHHH--------------------CCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             279999999999994--------------------07544789998767667765555668


No 25 
>TIGR02523 type_IV_pilV type IV pilus modification protein PilV; InterPro: IPR013362    Pilus systems categorized as type IV pilins differ greatly from one another, with some showing greater similarity to type II or type III secretion systems than to each other. Members of this protein family represent the PilV protein of type IV pilus systems found in Pseudomonas aeruginosa PAO1, Pseudomonas syringae DC3000, Neisseria meningitidis MC58, Xylella fastidiosa 9a5c, and other species..
Probab=32.32  E-value=43  Score=15.39  Aligned_cols=42  Identities=14%  Similarity=0.199  Sum_probs=29.0

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHH
Q ss_conf             2570299999999999999999998763589999----99997310
Q gi|254780730|r   13 GSGATAIEYGLLASLVSVAIISAVSTLGDRMKGV----YQTISTEL   54 (120)
Q Consensus        13 EsGATAIEYgLIaALIaVAIIaavt~LGt~L~~~----FttVst~L   54 (120)
                      +.|.|+||-=+-+=+++|++.+........+.-.    ++.++..|
T Consensus         1 q~G~~miEVLvAlL~LaiGvLg~~alql~~~~~t~~A~~~~~A~~l   46 (163)
T TIGR02523         1 QAGVSMIEVLVALLVLAIGVLGMAALQLKAVRYTKSASERTIASML   46 (163)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             9751799999999999999999999998688876889999999999


No 26 
>PRK13464 F0F1 ATP synthase subunit C; Provisional
Probab=30.99  E-value=45  Score=15.26  Aligned_cols=39  Identities=28%  Similarity=0.388  Sum_probs=29.2

Q ss_pred             HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999996122570299999999999999999998763589
Q gi|254780730|r    5 IIKKILKNGSGATAIEYGLLASLVSVAIISAVSTLGDRM   43 (120)
Q Consensus         5 ~ikrFl~DEsGATAIEYgLIaALIaVAIIaavt~LGt~L   43 (120)
                      +.-+++.+-.|.|+|--||+.++=++.---++..+|+..
T Consensus         3 m~~q~la~iq~~taia~~i~igl~AlGtaiG~GllggKf   41 (101)
T PRK13464          3 MSLQVLGNLNGLTAVAVALLISLPALGTAIGFGVLGGKY   41 (101)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             659999999989999999999999998788898873488


No 27 
>TIGR03322 alt_F1F0_F0_C alternate F1F0 ATPase, F0 subunit C. A small number of taxonomically diverse prokaryotic species, including Methanosarcina barkeri, have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F0 subunit C of this apparent second ATP synthase.
Probab=28.82  E-value=12  Score=18.50  Aligned_cols=45  Identities=22%  Similarity=0.285  Sum_probs=20.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             998763589999999973101478987678875578677877432
Q gi|254780730|r   35 AVSTLGDRMKGVYQTISTELDKGDVPPTKPGSVPMQPESSNPSTR   79 (120)
Q Consensus        35 avt~LGt~L~~~FttVst~LnkG~~pp~~p~~~~~~~~~~~~~~~   79 (120)
                      +.+.+|-.+.--+-.+...+..|.+-..+-.++--|||.++--+|
T Consensus         8 ~~Sii~AGla~gigaiGpgiGeG~aa~~A~e~iaRqPea~~~I~~   52 (86)
T TIGR03322         8 VASIVTAGLTIAIGSIGPALGEGRAVAQALTALAQQPDASNTITR   52 (86)
T ss_pred             HHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCHHH
T ss_conf             999999999999983053245879999999998749420020499


No 28 
>COG4967 PilV Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=26.80  E-value=54  Score=14.84  Aligned_cols=38  Identities=21%  Similarity=0.273  Sum_probs=23.2

Q ss_pred             HCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             12257029999999999999999999876358999999
Q gi|254780730|r   11 KNGSGATAIEYGLLASLVSVAIISAVSTLGDRMKGVYQ   48 (120)
Q Consensus        11 ~DEsGATAIEYgLIaALIaVAIIaavt~LGt~L~~~Ft   48 (120)
                      +.++|-++||--+-+-+|++++.+......-.+...|+
T Consensus         7 ~~q~GfSLIEVLIA~lll~vglLgla~lQ~~s~~~t~~   44 (162)
T COG4967           7 KKQSGFSLIEVLIAMLLLSVGLLGLAGLQARTLRNTQE   44 (162)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             34466519999999999999999999999999998899


No 29 
>PRK10332 hypothetical protein; Provisional
Probab=26.67  E-value=54  Score=14.82  Aligned_cols=40  Identities=30%  Similarity=0.366  Sum_probs=28.3

Q ss_pred             HHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             96122570299999999999999999998763589999999
Q gi|254780730|r    9 ILKNGSGATAIEYGLLASLVSVAIISAVSTLGDRMKGVYQT   49 (120)
Q Consensus         9 Fl~DEsGATAIEYgLIaALIaVAIIaavt~LGt~L~~~Ftt   49 (120)
                      -++.++|-...| .||++++.++++.++...-..+..-|..
T Consensus         4 ~l~~Q~GFSLpE-vlvA~lLf~isl~aL~~Yqq~L~~sf~~   43 (107)
T PRK10332          4 SLKNQRGFSLPE-VLLAMVLMVMIVTALSGYQRTLMNSFAS   43 (107)
T ss_pred             CCCCCCCCCHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             221367887299-9999999999999999999999999999


No 30 
>COG1991 Uncharacterized conserved protein [Function unknown]
Probab=26.39  E-value=8.7  Score=19.27  Aligned_cols=33  Identities=27%  Similarity=0.370  Sum_probs=26.3

Q ss_pred             HHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999999612257029999999999999999999
Q gi|254780730|r    4 NIIKKILKNGSGATAIEYGLLASLVSVAIISAV   36 (120)
Q Consensus         4 n~ikrFl~DEsGATAIEYgLIaALIaVAIIaav   36 (120)
                      .++..|..+.+|+-..||.|+...+.++.+.+.
T Consensus         3 ~~i~~~~~~nkgQiSLEf~Ll~l~ivla~~i~~   35 (131)
T COG1991           3 TYITKIILSNKGQISLEFSLLLLAIVLAASIAG   35 (131)
T ss_pred             CEEEEEEECCCCCEEEEHHHHHHHHHHHHHHEE
T ss_conf             166254224666256413899999999731211


No 31 
>PRK08541 flagellin; Validated
Probab=25.63  E-value=56  Score=14.74  Aligned_cols=30  Identities=23%  Similarity=0.265  Sum_probs=16.3

Q ss_pred             CCCCHHHHHHHHH-HHHHHHHHHHHHHHHHH
Q ss_conf             2257029999999-99999999999987635
Q gi|254780730|r   12 NGSGATAIEYGLL-ASLVSVAIISAVSTLGD   41 (120)
Q Consensus        12 DEsGATAIEYgLI-aALIaVAIIaavt~LGt   41 (120)
                      +++|++.||-.++ .|||-||.+++...+++
T Consensus         1 ~kkG~~GigtlIVfIAmVlVAAvaa~Vli~t   31 (212)
T PRK08541          1 MKKGAVGIGTLIVFIAMVLVAAVAASVLINT   31 (212)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHHEECC
T ss_conf             9753024208999999999999877523221


No 32 
>PRK02958 tatA twin arginine translocase protein A; Provisional
Probab=24.24  E-value=60  Score=14.56  Aligned_cols=43  Identities=12%  Similarity=0.389  Sum_probs=29.1

Q ss_pred             HHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             99999999999999--98763589999999973101478987678
Q gi|254780730|r   22 GLLASLVSVAIISA--VSTLGDRMKGVYQTISTELDKGDVPPTKP   64 (120)
Q Consensus        22 gLIaALIaVAIIaa--vt~LGt~L~~~FttVst~LnkG~~pp~~p   64 (120)
                      =||+.+|++.+.+.  +..+|..+....-..-..++..+.++..+
T Consensus         9 ~livl~iv~llFG~kkL~~lg~dlG~aik~FK~~m~~~~~~~~~~   53 (75)
T PRK02958          9 WLIVLLIVALVFGTKKLRNIGNDLGSAVKGFKDGMKEGEAPAAEA   53 (75)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCC
T ss_conf             999999999982753154688889999999998715555675643


No 33 
>TIGR02600 TIGR02600 Verrucomicrobium spinosum paralogous protein TIGR02600.
Probab=24.10  E-value=61  Score=14.55  Aligned_cols=28  Identities=11%  Similarity=0.227  Sum_probs=12.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             0299999999999999999998763589
Q gi|254780730|r   16 ATAIEYGLLASLVSVAIISAVSTLGDRM   43 (120)
Q Consensus        16 ATAIEYgLIaALIaVAIIaavt~LGt~L   43 (120)
                      ...|==-+|+|||.|.+++.+...-++.
T Consensus         2 ~ALi~vL~~lALiT~LVl~fls~v~~E~   29 (1697)
T TIGR02600         2 MALIMVLIVLALITILVLAFLSMVRTET   29 (1697)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHCHHHHH
T ss_conf             0488889999999999999871216899


No 34 
>TIGR01708 typeII_sec_gspH general secretion pathway protein H; InterPro: IPR010053   This entry represents GspH, protein H of the main terminal branch of the general secretion pathway, also called type II secretion. It transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens.; GO: 0008565 protein transporter activity, 0015628 protein secretion by the type II secretion system, 0015627 type II protein secretion system complex.
Probab=23.76  E-value=62  Score=14.51  Aligned_cols=48  Identities=21%  Similarity=0.288  Sum_probs=30.9

Q ss_pred             HCCCCHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHCCCC
Q ss_conf             122570299999999999999999998763-----589999999973101478
Q gi|254780730|r   11 KNGSGATAIEYGLLASLVSVAIISAVSTLG-----DRMKGVYQTISTELDKGD   58 (120)
Q Consensus        11 ~DEsGATAIEYgLIaALIaVAIIaavt~LG-----t~L~~~FttVst~LnkG~   58 (120)
                      +-++|=|.||-=+.+++++++--.+.-+++     ..|...-..++..|....
T Consensus         1 ~r~~GFtLiElLvVl~i~gL~aa~~~~~l~~~~~~~~l~~~a~rl~~~l~~~~   53 (175)
T TIGR01708         1 HRQSGFTLIELLVVLAIMGLVAAAAALSLDSASGTKELDQAAQRLAAELRLAQ   53 (175)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHH
T ss_conf             98775108899999999999999996116778886217899999999999999


No 35 
>PRK01026 tetrahydromethanopterin S-methyltransferase subunit G; Provisional
Probab=23.51  E-value=62  Score=14.48  Aligned_cols=26  Identities=23%  Similarity=0.249  Sum_probs=20.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             29999999999999999999876358
Q gi|254780730|r   17 TAIEYGLLASLVSVAIISAVSTLGDR   42 (120)
Q Consensus        17 TAIEYgLIaALIaVAIIaavt~LGt~   42 (120)
                      -.|=||++++++...+...+..+...
T Consensus        48 iGIlYG~viGlli~~~~~~~~~~~~~   73 (75)
T PRK01026         48 IGILYGLVIGLLIVLVYIKLLPIFMI   73 (75)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999999999999999999987


No 36 
>PRK13892 conjugal transfer protein TrbC; Provisional
Probab=23.12  E-value=63  Score=14.44  Aligned_cols=28  Identities=14%  Similarity=0.523  Sum_probs=19.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999999999999998763589999999
Q gi|254780730|r   22 GLLASLVSVAIISAVSTLGDRMKGVYQT   49 (120)
Q Consensus        22 gLIaALIaVAIIaavt~LGt~L~~~Ftt   49 (120)
                      +.-+++|++++.++.-.+|+.+++-|.+
T Consensus        62 Af~isiigiv~AGa~LIFGGElngF~Rt   89 (141)
T PRK13892         62 AFALSIIGIVVAGGILIFGGELNGFFRT   89 (141)
T ss_pred             HHHHHHHHHHHHCHHEEECCHHHHHHHH
T ss_conf             9999999999836001555127789999


No 37 
>pfam12301 CD99L2 CD99 antigen like protein 2. This family of proteins is found in eukaryotes. Proteins in this family are typically between 165 and 237 amino acids in length. CD99L2 and CD99 are involved in trans-endothelial migration of neutrophils in vitro and in the recruitment of neutrophils into inflamed peritoneum.
Probab=22.72  E-value=57  Score=14.69  Aligned_cols=28  Identities=18%  Similarity=0.315  Sum_probs=14.6

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             5702999999999999999999987635
Q gi|254780730|r   14 SGATAIEYGLLASLVSVAIISAVSTLGD   41 (120)
Q Consensus        14 sGATAIEYgLIaALIaVAIIaavt~LGt   41 (120)
                      ..-+..|-++|+++|+.+.++.+.++..
T Consensus       103 ~~~~~~~~G~IaGIvsAv~vAl~GAvSS  130 (154)
T pfam12301       103 GPEGGAETGTIAGIVSAVAVALLGAVSS  130 (154)
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHHH
T ss_conf             7655657761467999999999988999


No 38 
>PRK13470 consensus
Probab=22.66  E-value=20  Score=17.29  Aligned_cols=33  Identities=27%  Similarity=0.389  Sum_probs=14.8

Q ss_pred             HHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             999973101478987678875578677877432
Q gi|254780730|r   47 YQTISTELDKGDVPPTKPGSVPMQPESSNPSTR   79 (120)
Q Consensus        47 FttVst~LnkG~~pp~~p~~~~~~~~~~~~~~~   79 (120)
                      +-.+...+..|.+-..+-.++--|||.++--+|
T Consensus        21 igaiGp~iG~G~aa~~A~e~iaRqPea~g~i~~   53 (88)
T PRK13470         21 IGSIGPALGEGRAVATALSALAQQPDASATITR   53 (88)
T ss_pred             HHHHCCHHHHHHHHHHHHHHHHCCCCCCCHHHH
T ss_conf             984144022769999999998739420030299


No 39 
>TIGR01410 tatB twin arginine-targeting protein translocase TatB; InterPro: IPR003998   Translocation of proteins across the two membranes of Gram-negative bacteria can be carried out via a number of routes. Most proteins marked for export carry a secretion signal at their N-terminus, and are secreted by the general secretory pathway. The signal peptide is cleaved as they pass through the outer membrane. Other secretion systems include the type III system found in a select group of Gram-negative plant and animal pathogens, and the CagA system of Helicobacter pylori .   In some bacterial species, however, there exists a system that operates independently of the Sec pathway . It selectively translocates periplasmic-bound molecules that are synthesised with, or are in close association with, "partner" proteins bearing an (S/T)RRXFLK twin arginine motif at the N-terminus. The pathway is therefore termed the Twin-Arginine Translocation or TAT system. Surprisingly, the four components that make up the TAT system are structurally and mechanistically related to a pH-dependent import system in plant chloroplast thylakoid membranes . The gene products responsible for the Sec-independent pathway are called TatA, TatB, TatC and TatE.   TatB is essential for the secretion of these specific proteins, and forms a scaffold upon which TatC assembles in the membrane. Deletion studies have shown that it is crucial in the forming of the TAT complex, and is therefore necessary for the correct working of the system.; GO: 0015450 P-P-bond-hydrolysis-driven protein transmembrane transporter activity, 0009306 protein secretion, 0016020 membrane.
Probab=22.30  E-value=66  Score=14.34  Aligned_cols=35  Identities=29%  Similarity=0.569  Sum_probs=23.1

Q ss_pred             HHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             99999999999---------999876358999999997310147
Q gi|254780730|r   23 LLASLVSVAII---------SAVSTLGDRMKGVYQTISTELDKG   57 (120)
Q Consensus        23 LIaALIaVAII---------aavt~LGt~L~~~FttVst~LnkG   57 (120)
                      |+.+.|+++++         -.+..+=.++.++++++-++|++-
T Consensus         9 Lli~vVaLvVLGPerLP~a~R~v~~~~~~~r~~a~~~~~~l~~e   52 (82)
T TIGR01410         9 LLIAVVALVVLGPERLPVAIRAVGKFVRRLRGMASDVKNELDEE   52 (82)
T ss_pred             HHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999872625327899999999999999898999999998


No 40 
>COG4970 FimT Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=22.02  E-value=67  Score=14.31  Aligned_cols=49  Identities=12%  Similarity=0.289  Sum_probs=31.6

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHCCCCCCC
Q ss_conf             2570299999999999999999998763-----589999999973101478987
Q gi|254780730|r   13 GSGATAIEYGLLASLVSVAIISAVSTLG-----DRMKGVYQTISTELDKGDVPP   61 (120)
Q Consensus        13 EsGATAIEYgLIaALIaVAIIaavt~LG-----t~L~~~FttVst~LnkG~~pp   61 (120)
                      ..|-|.+|--+.+|++++-..-++-.|-     +.+.+.-+.+++.|.-+-+.+
T Consensus         7 ~rGfTL~ELliviAIlAIla~~A~P~fs~~i~~~rl~s~a~eL~a~l~lARteA   60 (181)
T COG4970           7 TRGFTLLELLIVLAILAILAVIAAPNFSQWIRSQRLRSAADELAAALQLARTEA   60 (181)
T ss_pred             CCCEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             675049999999999999999851008888778789889999999999999999


No 41 
>PRK13871 conjugal transfer protein TrbC; Provisional
Probab=21.97  E-value=51  Score=14.95  Aligned_cols=28  Identities=21%  Similarity=0.315  Sum_probs=17.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999999999999998763589999999
Q gi|254780730|r   22 GLLASLVSVAIISAVSTLGDRMKGVYQT   49 (120)
Q Consensus        22 gLIaALIaVAIIaavt~LGt~L~~~Ftt   49 (120)
                      +.-++++++++.+++-.+|+.+++-...
T Consensus        52 A~~ialiai~~AGa~LIFGGElN~F~Rr   79 (134)
T PRK13871         52 AGFIALAAVAIAGAMLIFGGELNDFARR   79 (134)
T ss_pred             HHHHHHHHHHHHCCEEEECCCHHHHHHH
T ss_conf             9999999999828235766208899999


No 42 
>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.63  E-value=68  Score=14.26  Aligned_cols=45  Identities=20%  Similarity=0.291  Sum_probs=27.5

Q ss_pred             HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHCC
Q ss_conf             2699999961225702999999999999999999987635------------899999999731014
Q gi|254780730|r    2 KMNIIKKILKNGSGATAIEYGLLASLVSVAIISAVSTLGD------------RMKGVYQTISTELDK   56 (120)
Q Consensus         2 rMn~ikrFl~DEsGATAIEYgLIaALIaVAIIaavt~LGt------------~L~~~FttVst~Lnk   56 (120)
                      ++.-|++|+++- |         -+||+.+|++....||=            .-+..|+.+...++.
T Consensus        10 ql~~ik~wwkeN-G---------k~li~gviLg~~~lfGW~ywq~~q~~q~~~AS~~Y~~~i~~~~a   66 (207)
T COG2976          10 QLEAIKDWWKEN-G---------KALIVGVILGLGGLFGWRYWQSHQVEQAQEASAQYQNAIKAVQA   66 (207)
T ss_pred             HHHHHHHHHHHC-C---------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             999999999977-9---------07899999999999988999998788888999999999999855


No 43 
>COG3043 NapB Nitrate reductase cytochrome c-type subunit [Energy production and conversion]
Probab=21.00  E-value=70  Score=14.19  Aligned_cols=43  Identities=26%  Similarity=0.333  Sum_probs=25.7

Q ss_pred             HHHHHHCCCC-CCCCCCCCCCCCCC-CCCC--CCCCCCCCCCCCCCC
Q ss_conf             9973101478-98767887557867-7877--432458877653432
Q gi|254780730|r   49 TISTELDKGD-VPPTKPGSVPMQPE-SSNP--STRLQPPAKPTSIPV   91 (120)
Q Consensus        49 tVst~LnkG~-~pp~~p~~~~~~~~-~~~~--~~~~~~~~~~~~~~~   91 (120)
                      .+.-+|.+++ +--+.++-.||+++ +...  +---|||--|.||--
T Consensus        33 ~~~~dl~~~~~~~~~~~~a~~~pk~~~~r~e~nYvnQPP~IPHsi~~   79 (155)
T COG3043          33 AVGPDLSQSPEVSGTEEAAHPMPKWEQTRMELNYVNQPPMIPHSIEG   79 (155)
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCC
T ss_conf             77754467864334566778788003220454268799977633467


No 44 
>PRK13471 F0F1 ATP synthase subunit C; Provisional
Probab=20.51  E-value=22  Score=16.98  Aligned_cols=52  Identities=17%  Similarity=0.215  Sum_probs=30.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             9999999998763589999999973101478987678875578677877432
Q gi|254780730|r   28 VSVAIISAVSTLGDRMKGVYQTISTELDKGDVPPTKPGSVPMQPESSNPSTR   79 (120)
Q Consensus        28 IaVAIIaavt~LGt~L~~~FttVst~LnkG~~pp~~p~~~~~~~~~~~~~~~   79 (120)
                      ++-++|.+.+.+|-.+.--+-.|...+..|.+-..+-.++--|||.++.-+|
T Consensus         7 ~~~~li~a~s~igAGlamgigaIGPgiGeG~aa~~A~eaiarqPe~~g~I~~   58 (85)
T PRK13471          7 LADALILMGKAIGAGLCMGIGAIGPGIGEGNIGAHAMDAMARQPEMVGTITT   58 (85)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCHHHHCCHHH
T ss_conf             9999999999999999999830266400879999999998759055221899


No 45 
>pfam06295 DUF1043 Protein of unknown function (DUF1043). This family consists of several hypothetical bacterial proteins of unknown function.
Probab=20.40  E-value=72  Score=14.11  Aligned_cols=12  Identities=17%  Similarity=0.473  Sum_probs=4.5

Q ss_pred             HHHHHHHHCCCC
Q ss_conf             999973101478
Q gi|254780730|r   47 YQTISTELDKGD   58 (120)
Q Consensus        47 FttVst~LnkG~   58 (120)
                      |..|-..|.+|.
T Consensus        66 Y~~ly~HlA~~a   77 (128)
T pfam06295        66 YHKLYQHMAKSS   77 (128)
T ss_pred             HHHHHHHHHHHH
T ss_conf             999999999899


No 46 
>TIGR00411 redox_disulf_1 redox-active disulfide protein 1; InterPro: IPR004502 This group of proteins includes thioredoxins, glutaredoxins, protein-disulphide isomerases, and others, some of which have several such domains. The sequence of proteins in this group at the redox-active disufide site, CPYC, matches glutaredoxins rather than thioredoxins, although overall the sequence seems closer to thioredoxins. Proteins may be involved in a ribonucleotide-reducing system component distinct from thioredoxin or glutaredoxin.; GO: 0009055 electron carrier activity, 0015035 protein disulfide oxidoreductase activity, 0045454 cell redox homeostasis.
Probab=20.24  E-value=26  Score=16.62  Aligned_cols=15  Identities=33%  Similarity=0.512  Sum_probs=11.4

Q ss_pred             CCCCHHHHHHHHHHH
Q ss_conf             225702999999999
Q gi|254780730|r   12 NGSGATAIEYGLLAS   26 (120)
Q Consensus        12 DEsGATAIEYgLIaA   26 (120)
                      ||+-.-|+||||.+.
T Consensus        40 ~e~~~kA~~yGi~aV   54 (82)
T TIGR00411        40 MEDLKKALEYGIMAV   54 (82)
T ss_pred             CCCHHHHHHCCCCCC
T ss_conf             548478875163526


Done!