Query         gi|254780500|ref|YP_003064913.1| hypothetical protein CLIBASIA_01935 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 159
No_of_seqs    128 out of 302
Neff          5.3 
Searched_HMMs 39220
Date          Sun May 29 23:16:55 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780500.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 COG2913 OlmA Outer membrane li  99.9 2.3E-23   6E-28  161.0  13.9  133   17-154     7-146 (147)
  2 PRK11548 hypothetical protein;  99.8 6.9E-18 1.8E-22  128.1  10.5   93   20-122     7-106 (113)
  3 pfam04355 SmpA_OmlA SmpA / Oml  99.6 1.8E-15 4.7E-20  113.5   8.1   71   41-121     1-71  (71)
  4 PRK11251 DNA-binding transcrip  97.5 0.00043 1.1E-08   45.1   6.8   96   19-126     4-99  (109)
  5 pfam11399 DUF3192 Protein of u  93.7    0.17 4.4E-06   29.5   5.3   50   43-92     22-73  (102)
  6 TIGR03516 ppisom_GldI peptidyl  67.8     7.9  0.0002   19.5   3.8   80   20-104     4-91  (177)
  7 TIGR01781 Trep_dent_lipo Trepo  66.7     3.4 8.7E-05   21.7   1.7   28   14-41      2-29  (463)
  8 pfam11006 DUF2845 Protein of u  65.2     5.7 0.00015   20.3   2.6   28   50-77     11-38  (85)
  9 PRK10866 outer membrane protei  59.9     7.7  0.0002   19.6   2.5   21   18-38      5-25  (243)
 10 COG2088 SpoVG Uncharacterized   49.7      22 0.00055   16.8   3.5   39  104-142    18-57  (95)
 11 pfam07467 BLIP Beta-lactamase   48.6      14 0.00037   17.9   2.4   82   26-125    15-99  (183)
 12 TIGR03524 GldJ gliding motilit  48.5      17 0.00044   17.4   2.8   24   16-39      5-28  (559)
 13 TIGR03302 OM_YfiO outer membra  44.6      15 0.00038   17.8   1.9   23   19-41      3-25  (235)
 14 PRK11023 hypothetical protein;  43.4      18 0.00045   17.4   2.2   25   15-39      1-25  (191)
 15 PRK10802 peptidoglycan-associa  42.1      20  0.0005   17.1   2.2   22   18-39      7-28  (173)
 16 TIGR01661 ELAV_HUD_SF ELAV/HuD  38.7      17 0.00044   17.4   1.5   14  143-156   365-378 (436)
 17 TIGR03659 IsdE heme ABC transp  37.3      31  0.0008   15.9   2.7   51   20-70      6-57  (289)
 18 TIGR02747 TraV type IV conjuga  37.2      26 0.00066   16.4   2.2   52   20-71      7-63  (174)
 19 TIGR03114 cas_csf1 CRISPR-asso  34.1      38 0.00097   15.4   4.3   55   56-119    64-118 (202)
 20 pfam06291 Lambda_Bor Bor prote  33.8      31 0.00079   15.9   2.2   27   19-45      3-29  (97)
 21 PRK11063 metQ DL-methionine tr  33.4      37 0.00096   15.4   2.5   50   11-69      1-53  (271)
 22 TIGR03511 GldH_lipo gliding mo  31.5      33 0.00085   15.7   2.0   24   19-42      6-30  (156)
 23 PRK10215 hypothetical protein;  31.2      10 0.00026   18.8  -0.6   64   14-89      5-70  (219)
 24 COG5633 Predicted periplasmic   30.6      16 0.00041   17.6   0.3   22   57-78     45-66  (123)
 25 TIGR02722 lp_ uncharacterized   28.7      47  0.0012   14.8   2.5   94   19-125     5-108 (215)
 26 TIGR02887 spore_ger_x_C germin  27.7      40   0.001   15.2   1.9   32   18-49      3-40  (400)
 27 PRK09967 putative outer membra  27.2      46  0.0012   14.9   2.1   17   20-36      6-22  (160)
 28 pfam02323 ELH Egg-laying hormo  27.2      23 0.00059   16.7   0.6   66   20-87     11-81  (255)
 29 PRK04405 prsA peptidylprolyl i  26.8      51  0.0013   14.6   4.4   34   22-55     13-51  (298)
 30 PRK09859 multidrug efflux syst  26.3      48  0.0012   14.8   2.1   16   20-35      8-23  (385)
 31 pfam08006 DUF1700 Protein of u  25.8      49  0.0012   14.7   2.1   27   45-71     30-56  (181)
 32 pfam04218 CENP-B_N CENP-B N-te  25.7      51  0.0013   14.6   2.1   25   47-71     14-38  (53)
 33 PRK11671 mltC murein transglyc  25.2      46  0.0012   14.9   1.8  119   18-157     3-144 (360)
 34 PRK11162 mltA murein transglyc  23.8      49  0.0012   14.7   1.7   29   18-46      3-31  (362)
 35 COG4851 CamS Protein involved   23.8      58  0.0015   14.3   2.6   63   20-92      6-69  (382)
 36 smart00242 MYSc Myosin. Large   23.5      59  0.0015   14.2   3.1   64   59-153   137-204 (677)
 37 pfam10566 Glyco_hydro_97 Glyco  22.5      54  0.0014   14.5   1.7   18   22-39      9-26  (643)
 38 PRK12407 flgH flagellar basal   22.3      51  0.0013   14.6   1.6   20   19-38      2-21  (220)
 39 PRK11627 hypothetical protein;  21.8      64  0.0016   14.0   2.1   20   19-38      4-23  (192)
 40 TIGR00752 slp outer membrane l  21.1      66  0.0017   13.9   2.0   26   18-43      3-29  (190)
 41 TIGR03525 GldK gliding motilit  21.1      54  0.0014   14.4   1.5   54   19-74      3-71  (449)
 42 PRK03002 prsA peptidylprolyl i  21.1      58  0.0015   14.3   1.7   30   20-49      8-43  (285)
 43 pfam11359 gpUL132 Glycoprotein  20.2      69  0.0018   13.8   2.0  105   20-137    65-184 (235)

No 1  
>COG2913 OlmA Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]
Probab=99.91  E-value=2.3e-23  Score=161.04  Aligned_cols=133  Identities=23%  Similarity=0.330  Sum_probs=117.2

Q ss_pred             HHHHHHHHHHHHHHCCCCCC-------CEECCCCCCHHHHHHHCCCCCHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEE
Q ss_conf             89999999999984355542-------10135003878886404899999999983785212244677530488872100
Q gi|254780500|r   17 FNKALFIIVIGLVVDYHVSY-------GSISGASLDMSAISLVSQGSSRSHVIESLGSPSFSILHNGNRSQSFYYVSQKK   89 (159)
Q Consensus        17 ~~k~i~~~l~~~~~~~c~~~-------~~~~G~~id~~~i~~i~~g~tk~~V~~~LG~Ps~~~~f~~n~~~~~YYi~~k~   89 (159)
                      ...+++.+++.+.+++|...       ..++||++|+++++++++||||+||..+||+|+++++|+.|   +|||+++..
T Consensus         7 ~~~~~~a~l~~~als~Cst~~~~~~~~~i~qGn~~~~~~v~ql~~Gmtk~QV~~lLGtP~~~d~F~~~---~WyYv~~~~   83 (147)
T COG2913           7 AILAIAALLGAAALSGCSTLKVVYYNDDINQGNVLDQDAVDQLKVGMTKDQVLYLLGTPSLVDTFDTN---TWYYVFQQQ   83 (147)
T ss_pred             HHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHCCCEEECCCCCC---EEEEEEEEE
T ss_conf             89999999999983148754222345432456515988998714798899999981997012577883---489998876


Q ss_pred             ECCCHHCCCCEEEEEEEEEEEECCCCCEEEEEECCCCCCCEECCCCCCCCCCCCHHHHHHHHHCC
Q ss_conf             00000101211113578999998998684321104345614034541588885224389998533
Q gi|254780500|r   90 KWFPVKFLSPKIMEYIVLKITFGEKGVVSSVSMERLPNRRFNPNPHTIPAPIQTADGFLRRLLNP  154 (159)
Q Consensus        90 ~~~~~af~~pkvier~Vl~I~FD~~g~V~nI~~~~L~dg~~~~~~~~~~~~~~~~~~fl~~l~~~  154 (159)
                      .+. .+| .|++++|.+|+|+||++|+++++.-|...|++..+-.++.|.+++.+..+|+|++++
T Consensus        84 ~~~-~~~-~~~~~~q~~l~v~Fd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~l~~~~~~  146 (147)
T COG2913          84 RRG-VAF-GPEIVEQKTLTVYFDKDGVVTSIAVYKPADGKAFEAVNRTTPTPGKELTFLQQLVGN  146 (147)
T ss_pred             ECC-CCC-CCCCCCEEEEEEEECCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCC
T ss_conf             235-444-777652047999987898278863026565554344457889987147899876148


No 2  
>PRK11548 hypothetical protein; Provisional
Probab=99.76  E-value=6.9e-18  Score=128.12  Aligned_cols=93  Identities=16%  Similarity=0.188  Sum_probs=76.6

Q ss_pred             HHHHHHHHHHHCCCCCC------C-EECCCCCCHHHHHHHCCCCCHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEECC
Q ss_conf             99999999984355542------1-0135003878886404899999999983785212244677530488872100000
Q gi|254780500|r   20 ALFIIVIGLVVDYHVSY------G-SISGASLDMSAISLVSQGSSRSHVIESLGSPSFSILHNGNRSQSFYYVSQKKKWF   92 (159)
Q Consensus        20 ~i~~~l~~~~~~~c~~~------~-~~~G~~id~~~i~~i~~g~tk~~V~~~LG~Ps~~~~f~~n~~~~~YYi~~k~~~~   92 (159)
                      ....+++++.+++|++-      . ..+||+++++++++|++||||+||..+||+|.++++|++|+|+|+||.+..    
T Consensus         7 ~~a~ll~~lllsgCS~~~~~vYk~dI~QGN~i~~~~v~~L~~GMTk~QV~~iLGtP~l~d~F~~~rWdYvy~~~~g----   82 (113)
T PRK11548          7 TAAAAVLLMLTAGCSTLERVVYRPDINQGNYLTPNDVAKIRVGMTQQQVAYALGTPMMSDPFGTNTWFYVFRQQPG----   82 (113)
T ss_pred             HHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCHHHHHHHCCCCCCCCCCCCCCEEEEEEEECC----
T ss_conf             9999999999801157877565765575676699999876189999999987189632388788746999999608----


Q ss_pred             CHHCCCCEEEEEEEEEEEECCCCCEEEEEE
Q ss_conf             001012111135789999989986843211
Q gi|254780500|r   93 PVKFLSPKIMEYIVLKITFGEKGVVSSVSM  122 (159)
Q Consensus        93 ~~af~~pkvier~Vl~I~FD~~g~V~nI~~  122 (159)
                            -+..+++-+.+.||++|+|.+|+-
T Consensus        83 ------~~~~~~~~ltl~Fd~~~ll~~Id~  106 (113)
T PRK11548         83 ------HEKVTQQTLTLTFNSSGVLTNIDN  106 (113)
T ss_pred             ------CCCEEEEEEEEEECCCCCEEECCC
T ss_conf             ------983588899999839997883489


No 3  
>pfam04355 SmpA_OmlA SmpA / OmlA family. Lipoprotein Bacterial outer membrane lipoprotein, possibly involved in in maintaining the structural integrity of the cell envelope. Lipid attachment site is a conserved N terminal cysteine residue. Sometimes found adjacent to the OmpA domain (pfam00691).
Probab=99.62  E-value=1.8e-15  Score=113.52  Aligned_cols=71  Identities=24%  Similarity=0.408  Sum_probs=62.0

Q ss_pred             CCCCCHHHHHHHCCCCCHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEECCCHHCCCCEEEEEEEEEEEECCCCCEEEE
Q ss_conf             50038788864048999999999837852122446775304888721000000010121111357899999899868432
Q gi|254780500|r   41 GASLDMSAISLVSQGSSRSHVIESLGSPSFSILHNGNRSQSFYYVSQKKKWFPVKFLSPKIMEYIVLKITFGEKGVVSSV  120 (159)
Q Consensus        41 G~~id~~~i~~i~~g~tk~~V~~~LG~Ps~~~~f~~n~~~~~YYi~~k~~~~~~af~~pkvier~Vl~I~FD~~g~V~nI  120 (159)
                      ||+++++++++|++||||+||..+||+|+++++|++++|   ||+.+..+       .|+..++++++|.||++++|+.+
T Consensus         1 Gn~~~~~~l~~l~~Gmtk~QV~~lLGtP~~~~~f~~~~W---~Yi~~~~~-------~~~~~~~~~l~v~Fd~~~~v~~~   70 (71)
T pfam04355         1 GNYVTQEDVDQLKPGMTKEQVRYLLGTPSLEDTFGPNTW---YYVYNFRR-------GGGAVEQQVLAVYFDDDGLVRNI   70 (71)
T ss_pred             CCCCCHHHHHHCCCCCCHHHHHHHCCCCCCCCCCCCCCE---EEEEEEEE-------CCCCEEEEEEEEEECCCCEEEEC
T ss_conf             972899999751799999999987089621177678617---99999972-------89825999999998399788621


Q ss_pred             E
Q ss_conf             1
Q gi|254780500|r  121 S  121 (159)
Q Consensus       121 ~  121 (159)
                      .
T Consensus        71 ~   71 (71)
T pfam04355        71 G   71 (71)
T ss_pred             C
T ss_conf             9


No 4  
>PRK11251 DNA-binding transcriptional activator OsmE; Provisional
Probab=97.48  E-value=0.00043  Score=45.10  Aligned_cols=96  Identities=16%  Similarity=0.181  Sum_probs=65.3

Q ss_pred             HHHHHHHHHHHHCCCCCCCEECCCCCCHHHHHHHCCCCCHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEECCCHHCCC
Q ss_conf             99999999998435554210135003878886404899999999983785212244677530488872100000001012
Q gi|254780500|r   19 KALFIIVIGLVVDYHVSYGSISGASLDMSAISLVSQGSSRSHVIESLGSPSFSILHNGNRSQSFYYVSQKKKWFPVKFLS   98 (159)
Q Consensus        19 k~i~~~l~~~~~~~c~~~~~~~G~~id~~~i~~i~~g~tk~~V~~~LG~Ps~~~~f~~n~~~~~YYi~~k~~~~~~af~~   98 (159)
                      .++..+.....+.+|..+...--++. +-.++.++.||||+||..+=|+||.+...-..+---.-|+           +.
T Consensus         4 ~~l~aaa~~~~LaGCt~~d~~~~~~~-ePlVkdV~~GMT~qqV~~igG~Pss~~~~~~~~GtC~~Yi-----------L~   71 (109)
T PRK11251          4 GILSAAAVLTMLAGCTAYDRNPVQYV-EPVVKDVKKGMTRQQVLQIGGKPSSEVSMIHARGTCQTYI-----------LG   71 (109)
T ss_pred             HHHHHHHHHHHHHHCCCCCCCHHHHC-CHHHHHHHCCCCHHHHHHHCCCCCCEEEEECCCCCCCEEE-----------EE
T ss_conf             58899999999971447767813431-5069888747579999985499864178860785220037-----------32


Q ss_pred             CEEEEEEEEEEEECCCCCEEEEEECCCC
Q ss_conf             1111357899999899868432110434
Q gi|254780500|r   99 PKIMEYIVLKITFGEKGVVSSVSMERLP  126 (159)
Q Consensus        99 pkvier~Vl~I~FD~~g~V~nI~~~~L~  126 (159)
                      .+--+++-.-|.||+.|.|.+-..-+-.
T Consensus        72 ~~dGk~q~YfVsfD~tG~V~~~GF~TC~   99 (109)
T PRK11251         72 NRDGKAQTYFVSFDDTGHVDNSGFQTCA   99 (109)
T ss_pred             CCCCCEEEEEEEECCCCCCCCCCHHHHH
T ss_conf             4689615579997789858351220588


No 5  
>pfam11399 DUF3192 Protein of unknown function (DUF3192). Some members in this family of proteins are annotated as lipoproteins however this cannot be confirmed.
Probab=93.72  E-value=0.17  Score=29.47  Aligned_cols=50  Identities=26%  Similarity=0.393  Sum_probs=36.8

Q ss_pred             CCCHHHHHHHCCCCCHHHHHHHHCCCCCCCCC--CCCCCCEEEEEEEEEECC
Q ss_conf             03878886404899999999983785212244--677530488872100000
Q gi|254780500|r   43 SLDMSAISLVSQGSSRSHVIESLGSPSFSILH--NGNRSQSFYYVSQKKKWF   92 (159)
Q Consensus        43 ~id~~~i~~i~~g~tk~~V~~~LG~Ps~~~~f--~~n~~~~~YYi~~k~~~~   92 (159)
                      ......+++|..|+++++|..+||+|-++-.+  +++.....||=.++.+.-
T Consensus        22 ~~Nr~~i~~L~lg~s~~~V~~~lG~aDfsEa~~~~~~~~qVLFYRTqh~~sD   73 (102)
T pfam11399        22 AYNRQKIAKLSLGQSKDQVLTLLGTADFSEAKTKDDKQYQVLFYRTQHVKSD   73 (102)
T ss_pred             HHHHHHHHHCCCCCCHHHHHHHHCCCCHHHHHHCCCCEEEEEEEEEEEECCC
T ss_conf             9999988753568969999998389863888423896899999865431489


No 6  
>TIGR03516 ppisom_GldI peptidyl-prolyl isomerase, gliding motility-associated. Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldI is a FKBP-type peptidyl-prolyl cis-trans isomerase (pfam00254) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockout of this gene abolishes the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. This family is only found in Bacteroidetes containing the suite of genes proposed to confer the gliding motility phenotype.
Probab=67.85  E-value=7.9  Score=19.47  Aligned_cols=80  Identities=14%  Similarity=0.147  Sum_probs=34.5

Q ss_pred             HHHHHHHHHHHCCCCCCC------EECCCCCCHHHHHHHCCCCC-HHHHHHHHCC-CCCCCCCCCCCCCEEEEEEEEEEC
Q ss_conf             999999999843555421------01350038788864048999-9999998378-521224467753048887210000
Q gi|254780500|r   20 ALFIIVIGLVVDYHVSYG------SISGASLDMSAISLVSQGSS-RSHVIESLGS-PSFSILHNGNRSQSFYYVSQKKKW   91 (159)
Q Consensus        20 ~i~~~l~~~~~~~c~~~~------~~~G~~id~~~i~~i~~g~t-k~~V~~~LG~-Ps~~~~f~~n~~~~~YYi~~k~~~   91 (159)
                      .++++++.+++.+|....      ..+|.+++.+....-..-.. .+++...+-. +..+  +.....-.||++.++...
T Consensus         4 ~i~~i~~~~~~~sC~~~e~RkPi~~~s~~f~~~S~~rNK~l~a~Ee~~I~~~i~~ds~~~--y~~S~sG~~Y~~~~k~~~   81 (177)
T TIGR03516         4 LIAVILLLLLLLGCKTPEARRPISRSSGTTIKLSAERNKKLIAAEEAAIKRIISADSIVK--YETSQNGFWYYYNQKDTG   81 (177)
T ss_pred             HHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC--EEECCCCCEEEEEECCCC
T ss_conf             047898989987269964668866587514999999989999999999999998698553--568899628999623788


Q ss_pred             CCHHCCCCEEEEE
Q ss_conf             0001012111135
Q gi|254780500|r   92 FPVKFLSPKIMEY  104 (159)
Q Consensus        92 ~~~af~~pkvier  104 (159)
                      .+   ..|+.-|.
T Consensus        82 ~~---~~P~~gd~   91 (177)
T TIGR03516        82 EG---TTPEFGDL   91 (177)
T ss_pred             CC---CCCCCCCE
T ss_conf             88---89999998


No 7  
>TIGR01781 Trep_dent_lipo Treponema denticola clustered lipoprotein; InterPro: IPR010103   This entry represents a family of six predicted lipoproteins from a region of about 20 tandemly arranged genes in the Treponema denticola genome. Two other neighbouring genes share the lipoprotein signal peptide region but do not show more extensive homology. The function of this locus is unknown..
Probab=66.71  E-value=3.4  Score=21.67  Aligned_cols=28  Identities=18%  Similarity=0.090  Sum_probs=22.5

Q ss_pred             HHHHHHHHHHHHHHHHHCCCCCCCEECC
Q ss_conf             7888999999999998435554210135
Q gi|254780500|r   14 KLSFNKALFIIVIGLVVDYHVSYGSISG   41 (159)
Q Consensus        14 K~~~~k~i~~~l~~~~~~~c~~~~~~~G   41 (159)
                      |....|+||+++|+..|-||.....-+|
T Consensus         2 kKdKlKlIFIL~LAvLLFSC~ke~ke~~   29 (463)
T TIGR01781         2 KKDKLKLIFILMLAVLLFSCKKEVKESK   29 (463)
T ss_pred             CCCHHHHHHHHHHHHHHHCCCCCCCCCC
T ss_conf             6540468889999998604762113310


No 8  
>pfam11006 DUF2845 Protein of unknown function (DUF2845). This bacterial family of proteins has no known function.
Probab=65.18  E-value=5.7  Score=20.33  Aligned_cols=28  Identities=29%  Similarity=0.438  Sum_probs=23.1

Q ss_pred             HHHCCCCCHHHHHHHHCCCCCCCCCCCC
Q ss_conf             6404899999999983785212244677
Q gi|254780500|r   50 SLVSQGSSRSHVIESLGSPSFSILHNGN   77 (159)
Q Consensus        50 ~~i~~g~tk~~V~~~LG~Ps~~~~f~~n   77 (159)
                      .++..|+++.+|+..-|+|..+......
T Consensus        11 ~lVs~GDs~~eVl~KCGeP~~k~~~~~~   38 (85)
T pfam11006        11 GLVSEGDSKAEVLAKCGEPASKDQRGEP   38 (85)
T ss_pred             CEECCCCCHHHHHHHCCCCCCCEEECEE
T ss_conf             6305899779999761998753041103


No 9  
>PRK10866 outer membrane protein assembly complex subunit YfiO; Provisional
Probab=59.87  E-value=7.7  Score=19.55  Aligned_cols=21  Identities=5%  Similarity=-0.069  Sum_probs=14.7

Q ss_pred             HHHHHHHHHHHHHCCCCCCCE
Q ss_conf             999999999998435554210
Q gi|254780500|r   18 NKALFIIVIGLVVDYHVSYGS   38 (159)
Q Consensus        18 ~k~i~~~l~~~~~~~c~~~~~   38 (159)
                      .+++.++++++.++||.+.+.
T Consensus         5 k~l~~~~~l~l~l~gCs~~~~   25 (243)
T PRK10866          5 KYLVAAATLSLFLAGCSGSKE   25 (243)
T ss_pred             HHHHHHHHHHHHHHHCCCCCC
T ss_conf             999999999999987689988


No 10 
>COG2088 SpoVG Uncharacterized protein, involved in the regulation of septum location [Cell envelope biogenesis, outer membrane]
Probab=49.73  E-value=22  Score=16.84  Aligned_cols=39  Identities=18%  Similarity=0.154  Sum_probs=32.4

Q ss_pred             EEEEEEEECCCCCEEEEEECCCCCCCEECCC-CCCCCCCC
Q ss_conf             5789999989986843211043456140345-41588885
Q gi|254780500|r  104 YIVLKITFGEKGVVSSVSMERLPNRRFNPNP-HTIPAPIQ  142 (159)
Q Consensus       104 r~Vl~I~FD~~g~V~nI~~~~L~dg~~~~~~-~~~~~~~~  142 (159)
                      +-++.|+||+.=+|.++....=++|-++++. +|+|++.=
T Consensus        18 kA~vsvT~D~efVvhdirVi~G~~GlfVAMPSrrt~dgEF   57 (95)
T COG2088          18 KAYVSVTLDNEFVVHDIRVIEGNNGLFVAMPSRRTPDGEF   57 (95)
T ss_pred             EEEEEEEECCEEEEECCEEEECCCCEEEECCCCCCCCCCH
T ss_conf             9999998436289822189837862599866765899631


No 11 
>pfam07467 BLIP Beta-lactamase inhibitor (BLIP). The structure of BLIP reveals two structural domains, which form a polar, concave surface that docks onto a predominantly polar, convex protrusion on beta-lactamase. The ability of BLIP to adapt to a variety of class A beta-lactamases is thought to be due to flexibility between these two domains.
Probab=48.63  E-value=14  Score=17.90  Aligned_cols=82  Identities=15%  Similarity=0.086  Sum_probs=47.2

Q ss_pred             HHHHHCCCCCCCEECCCCCCHHHHHHHCCCCCHHHHHHHHCCC---CCCCCCCCCCCCEEEEEEEEEECCCHHCCCCEEE
Q ss_conf             9998435554210135003878886404899999999983785---2122446775304888721000000010121111
Q gi|254780500|r   26 IGLVVDYHVSYGSISGASLDMSAISLVSQGSSRSHVIESLGSP---SFSILHNGNRSQSFYYVSQKKKWFPVKFLSPKIM  102 (159)
Q Consensus        26 ~~~~~~~c~~~~~~~G~~id~~~i~~i~~g~tk~~V~~~LG~P---s~~~~f~~n~~~~~YYi~~k~~~~~~af~~pkvi  102 (159)
                      ...++.+-.+-....  -+..+...+|+-||++.||.++.|.-   +..+.+.+.   ..-|-+ ..      +..|   
T Consensus        15 agavlata~sa~a~g--~~T~eKy~qIqFGMtr~qV~~i~Gae~~C~~~G~~g~~---i~C~~~-~~------dy~~---   79 (183)
T pfam07467        15 AGAVLATAGSANAAG--GFTGEKYTQIQFGMTRQQVWDIAGAEQNCETGGSFGDS---IHCRGH-AG------DYYP---   79 (183)
T ss_pred             HHHHEECCCCCHHCC--CCCHHHHHHHHHCCCHHHHHHHHCCCCCCCCCCCCCCE---EEEECC-CC------CCCC---
T ss_conf             533121354401115--75898976666155699999985766666688867754---788545-77------7454---


Q ss_pred             EEEEEEEEECCCCCEEEEEECCC
Q ss_conf             35789999989986843211043
Q gi|254780500|r  103 EYIVLKITFGEKGVVSSVSMERL  125 (159)
Q Consensus       103 er~Vl~I~FD~~g~V~nI~~~~L  125 (159)
                         -=-..|++.+.|.+.....|
T Consensus        80 ---yg~F~Ft~adkL~~K~q~~l   99 (183)
T pfam07467        80 ---YGTFGFTSAAKLDSKRQEKL   99 (183)
T ss_pred             ---CCEEEECCHHHHCCCCCCCC
T ss_conf             ---00167525366420021533


No 12 
>TIGR03524 GldJ gliding motility-associated lipoprotein GldJ. Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldJ is a lipoprotein linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae. Knockouts of GldJ abolish the gliding phenotype. GldJ is homologous to GldK. There is a GldJ homolog in Cytophaga hutchinsonii and several other species that has a different, shorter architecture and is represented by a separate model. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.
Probab=48.47  E-value=17  Score=17.41  Aligned_cols=24  Identities=21%  Similarity=0.191  Sum_probs=17.7

Q ss_pred             HHHHHHHHHHHHHHHCCCCCCCEE
Q ss_conf             889999999999984355542101
Q gi|254780500|r   16 SFNKALFIIVIGLVVDYHVSYGSI   39 (159)
Q Consensus        16 ~~~k~i~~~l~~~~~~~c~~~~~~   39 (159)
                      .+.|++|++++++.+.||...++.
T Consensus         5 ~~~~~~~~~~~~~~~~sC~~~~~~   28 (559)
T TIGR03524         5 NVFKITFIVFVSLLFVSCKKKSSS   28 (559)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCCC
T ss_conf             889999999999997642588888


No 13 
>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).
Probab=44.61  E-value=15  Score=17.83  Aligned_cols=23  Identities=9%  Similarity=0.065  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHHHCCCCCCCEECC
Q ss_conf             99999999998435554210135
Q gi|254780500|r   19 KALFIIVIGLVVDYHVSYGSISG   41 (159)
Q Consensus        19 k~i~~~l~~~~~~~c~~~~~~~G   41 (159)
                      ++++++++++.++||.+.+....
T Consensus         3 ~~~~~~~~~~~l~sCs~~~~~~~   25 (235)
T TIGR03302         3 LLILLLALLLLLAGCSSKKKKEA   25 (235)
T ss_pred             HHHHHHHHHHHHHHCCCCCCCCC
T ss_conf             99999999999987389976655


No 14 
>PRK11023 hypothetical protein; Provisional
Probab=43.39  E-value=18  Score=17.35  Aligned_cols=25  Identities=12%  Similarity=0.208  Sum_probs=17.6

Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCCEE
Q ss_conf             8889999999999984355542101
Q gi|254780500|r   15 LSFNKALFIIVIGLVVDYHVSYGSI   39 (159)
Q Consensus        15 ~~~~k~i~~~l~~~~~~~c~~~~~~   39 (159)
                      |.+.+.+.++++++.+++|++....
T Consensus         1 mk~~~~l~~l~~~~~L~GC~~~~i~   25 (191)
T PRK11023          1 MKALSPLAVLISALLLQGCVAAAVV   25 (191)
T ss_pred             CCHHHHHHHHHHHHHHCCCHHHEEE
T ss_conf             9448899999999997268233151


No 15 
>PRK10802 peptidoglycan-associated outer membrane lipoprotein; Provisional
Probab=42.10  E-value=20  Score=17.11  Aligned_cols=22  Identities=18%  Similarity=0.099  Sum_probs=15.1

Q ss_pred             HHHHHHHHHHHHHCCCCCCCEE
Q ss_conf             9999999999984355542101
Q gi|254780500|r   18 NKALFIIVIGLVVDYHVSYGSI   39 (159)
Q Consensus        18 ~k~i~~~l~~~~~~~c~~~~~~   39 (159)
                      .|.+++++.++.+.+|.+.+..
T Consensus         7 ~K~l~ia~~~l~LaACSS~~~~   28 (173)
T PRK10802          7 LKGLMIALPVMAIAACSSNKNA   28 (173)
T ss_pred             HHHHHHHHHHHHHHHCCCCCCC
T ss_conf             9999999999999855799988


No 16 
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor; InterPro: IPR006548   These sequences represent the ELAV/HuD subfamily of splicing factors found in metazoa. HuD stands for the human paraneoplastic encephalomyelitis antigen D of which there are 4 variants in human . ELAV stands for the Drosophila Embryonic lethal abnormalvisual protein . ELAV-like splicing factors are also known in human as HuB (ELAV-like protein 2), HuC (ELAV-like protein 3, Paraneoplastic cerebellar degeneration-associated antigen) and HuR (ELAV-like protein 1). These genes are most closely related to the sex-lethal subfamily of splicing factors found in Dipteran insects (IPR006546 from INTERPRO). ; GO: 0003723 RNA binding.
Probab=38.74  E-value=17  Score=17.44  Aligned_cols=14  Identities=36%  Similarity=0.641  Sum_probs=5.1

Q ss_pred             CHHHHHHHHHCCCC
Q ss_conf             22438999853346
Q gi|254780500|r  143 TADGFLRRLLNPNG  156 (159)
Q Consensus       143 ~~~~fl~~l~~~~G  156 (159)
                      +|+..|-||||.+|
T Consensus       365 tde~~LWQLFgpFG  378 (436)
T TIGR01661       365 TDEAVLWQLFGPFG  378 (436)
T ss_pred             CHHHHHHHHCCCCC
T ss_conf             15679987427676


No 17 
>TIGR03659 IsdE heme ABC transporter, heme-binding protein isdE. This family of ABC substrate-binding proteins is observed primarily in close proximity with proteins localized to the cell wall and bearing the NEAT (NEAr Transporter, pfam05031) heme-binding domain. IsdE has been shown to bind heme and is involved in the process of scavenging heme for the purpose of obtaining iron.
Probab=37.32  E-value=31  Score=15.88  Aligned_cols=51  Identities=12%  Similarity=0.066  Sum_probs=29.8

Q ss_pred             HHHHHHHHHHHCCCCCCCEECCCCCCHHHHHHHCCC-CCHHHHHHHHCCCCC
Q ss_conf             999999999843555421013500387888640489-999999998378521
Q gi|254780500|r   20 ALFIIVIGLVVDYHVSYGSISGASLDMSAISLVSQG-SSRSHVIESLGSPSF   70 (159)
Q Consensus        20 ~i~~~l~~~~~~~c~~~~~~~G~~id~~~i~~i~~g-~tk~~V~~~LG~Ps~   70 (159)
                      +++++++.+++.+|.+...-++.--.+..-..|+.. .+-.+++..||-+..
T Consensus         6 ~~~~~~~~~~l~~C~~~~~~~~~~~~~~~p~RIV~l~~~~~eil~~Lg~~~V   57 (289)
T TIGR03659         6 LILLALLSLGLTGCSSSKAESKVSNKKSKEERIVATSVAVTEILDKLDLDLV   57 (289)
T ss_pred             HHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEECCCCHHHHHHHCCCCEE
T ss_conf             9999999999843289987776677789996599868637999998699759


No 18 
>TIGR02747 TraV type IV conjugative transfer system protein TraV; InterPro: IPR014118   This entry includes TraV, which is a component of conjugative type IV secretion system. TraV is an outer membrane lipoprotein that is believed to interact with the secretin TraK , , . The alignment contains three conserved cysteines in the N-terminal half..
Probab=37.18  E-value=26  Score=16.38  Aligned_cols=52  Identities=12%  Similarity=0.165  Sum_probs=32.6

Q ss_pred             HHHHHHHHHHHCCCCC-CCEECCCCCCHHHH-HHHCCCCCHHHHHH---HHCCCCCC
Q ss_conf             9999999998435554-21013500387888-64048999999999---83785212
Q gi|254780500|r   20 ALFIIVIGLVVDYHVS-YGSISGASLDMSAI-SLVSQGSSRSHVIE---SLGSPSFS   71 (159)
Q Consensus        20 ~i~~~l~~~~~~~c~~-~~~~~G~~id~~~i-~~i~~g~tk~~V~~---~LG~Ps~~   71 (159)
                      ++.+.++.+.|++|++ -+.+|+--++=+.. +.+..-.+.+||-+   +|+.|-..
T Consensus         7 L~~~~~~~f~LtGCsa~~g~i~~~~f~C~~~r~~~~~C~~md~V~~~~~~l~~q~~~   63 (174)
T TIGR02747         7 LLLLACVAFLLTGCSASLGLIHNSDFSCEGTRGGVGTCATMDQVNDDKRLLKAQKEA   63 (174)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCCCCCEECCCCCCCCEEEEHHHHHHHHHHHCCCHHH
T ss_conf             999999987200257745652588975545338854200287767787642274111


No 19 
>TIGR03114 cas_csf1 CRISPR-associated protein, Csf1 family. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf1 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies closest to the repeats.
Probab=34.08  E-value=38  Score=15.36  Aligned_cols=55  Identities=15%  Similarity=0.228  Sum_probs=39.2

Q ss_pred             CCHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEECCCHHCCCCEEEEEEEEEEEECCCCCEEE
Q ss_conf             9999999983785212244677530488872100000001012111135789999989986843
Q gi|254780500|r   56 SSRSHVIESLGSPSFSILHNGNRSQSFYYVSQKKKWFPVKFLSPKIMEYIVLKITFGEKGVVSS  119 (159)
Q Consensus        56 ~tk~~V~~~LG~Ps~~~~f~~n~~~~~YYi~~k~~~~~~af~~pkvier~Vl~I~FD~~g~V~n  119 (159)
                      +++++|..-|=.| .+.+|      ...|-.++..+  +++.+|.-..|.++.+..|++.++-.
T Consensus        64 ~sn~~V~~~llnp-pepPf------va~~aTrk~qH--m~WrapVnLSrd~m~vRvgd~~L~IR  118 (202)
T TIGR03114        64 ASNVDVARGLLNP-PEPPF------VALYATRKSQH--MAWRAPVNLSRDLMYVRVGDRDLKIR  118 (202)
T ss_pred             CCHHHHHHHHHCC-CCCCE------EEEEECCHHHH--HHEECCCCCCCCEEEEEECCCEEEEE
T ss_conf             4268999998289-99988------87553011110--11006655570117999767215773


No 20 
>pfam06291 Lambda_Bor Bor protein. This family consists of several Bacteriophage lambda Bor and Escherichia coli Iss proteins. Expression of bor significantly increases the survival of the Escherichia coli host cell in animal serum. This property is a well known bacterial virulence determinant indeed, bor and its adjacent sequences are highly homologous to the iss serum resistance locus of the plasmid ColV2-K94, which confers virulence in animals. It has been suggested that lysogeny may generally have a role in bacterial survival in animal hosts, and perhaps in pathogenesis.
Probab=33.82  E-value=31  Score=15.90  Aligned_cols=27  Identities=19%  Similarity=0.201  Sum_probs=19.5

Q ss_pred             HHHHHHHHHHHHCCCCCCCEECCCCCC
Q ss_conf             999999999984355542101350038
Q gi|254780500|r   19 KALFIIVIGLVVDYHVSYGSISGASLD   45 (159)
Q Consensus        19 k~i~~~l~~~~~~~c~~~~~~~G~~id   45 (159)
                      |+++.+.+++.+++|..+...=|+-.+
T Consensus         3 k~~~~~~~allLtgCa~QT~~~~~~~~   29 (97)
T pfam06291         3 KMLFAAALALLITGCAQQTFTVGNKPT   29 (97)
T ss_pred             HHHHHHHHHHHHCCCCCEEEEECCCCC
T ss_conf             259999999997213304999357877


No 21 
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=33.41  E-value=37  Score=15.40  Aligned_cols=50  Identities=12%  Similarity=-0.060  Sum_probs=29.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCCCEECCCCCCHHHHHHHCCCCC---HHHHHHHHCCCC
Q ss_conf             87778889999999999984355542101350038788864048999---999999837852
Q gi|254780500|r   11 FFGKLSFNKALFIIVIGLVVDYHVSYGSISGASLDMSAISLVSQGSS---RSHVIESLGSPS   69 (159)
Q Consensus        11 ~~~K~~~~k~i~~~l~~~~~~~c~~~~~~~G~~id~~~i~~i~~g~t---k~~V~~~LG~Ps   69 (159)
                      |-+||....++..+++.+.+++|-+...         .-+.|++|.+   .+++.+..-.|.
T Consensus         1 m~~~~k~~~~~~~l~~~l~l~gCg~~~~---------~~~~ikVG~~~gp~~ei~e~~~~~~   53 (271)
T PRK11063          1 MAFKFKTFAAVGALIGSLALVGCGQDEK---------DPNHIKVGVIVGAEQQVAEVAQKVA   53 (271)
T ss_pred             CCHHHHHHHHHHHHHHHHHHCCCCCCCC---------CCCEEEEEECCCCHHHHHHHHHHHH
T ss_conf             9602999999999999997500589856---------7981899846898799999988888


No 22 
>TIGR03511 GldH_lipo gliding motility-associated lipoprotein GldH. Members of this protein family are predicted lipoproteins, exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). Members include GldH, a protein linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Not all Bacteroidetes with members of this protein family may have gliding motility.
Probab=31.50  E-value=33  Score=15.70  Aligned_cols=24  Identities=4%  Similarity=-0.090  Sum_probs=15.0

Q ss_pred             HHHHHHHHHHHHCCCCCCC-EECCC
Q ss_conf             9999999999843555421-01350
Q gi|254780500|r   19 KALFIIVIGLVVDYHVSYG-SISGA   42 (159)
Q Consensus        19 k~i~~~l~~~~~~~c~~~~-~~~G~   42 (159)
                      ..++++++++++.||...+ ..+-|
T Consensus         6 ~~i~~~l~~~ll~SC~~~~~vy~~y   30 (156)
T TIGR03511         6 NSISFFLGACVLVSCTENTDVYHSY   30 (156)
T ss_pred             HHHHHHHHHHHEEEECCCCCEEEEE
T ss_conf             4499999999707638996335676


No 23 
>PRK10215 hypothetical protein; Provisional
Probab=31.21  E-value=10  Score=18.76  Aligned_cols=64  Identities=19%  Similarity=0.278  Sum_probs=37.1

Q ss_pred             HHHHHHHHHHHHHHHHHCCCCCCCEECCCCCCHHHHHHHCCCC--CHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEE
Q ss_conf             7888999999999998435554210135003878886404899--999999983785212244677530488872100
Q gi|254780500|r   14 KLSFNKALFIIVIGLVVDYHVSYGSISGASLDMSAISLVSQGS--SRSHVIESLGSPSFSILHNGNRSQSFYYVSQKK   89 (159)
Q Consensus        14 K~~~~k~i~~~l~~~~~~~c~~~~~~~G~~id~~~i~~i~~g~--tk~~V~~~LG~Ps~~~~f~~n~~~~~YYi~~k~   89 (159)
                      +.-+.|+..++.+...+++|.+..-+       +...-=.-|.  -|.|.+--|+..     -+.|+...|-+|.+..
T Consensus         5 ~k~~~k~~~l~~~~f~LSgC~t~~L~-------~~~~~~~~~~t~wk~D~I~~ls~a-----~~~ng~~gwvFvGe~~   70 (219)
T PRK10215          5 FKGFFKAAGLLPLAFFLSGCISFGLV-------STTAGGEKGYSQWKSDTITGLSLA-----KDSNGTKGWVFVGEHF   70 (219)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHH-------HCCCCCCCCCEEECCCEEEEEEEE-----ECCCCCEEEEEEECCC
T ss_conf             03544452476689999877665542-------302578766322047658996433-----1278833479993445


No 24 
>COG5633 Predicted periplasmic lipoprotein [General function prediction only]
Probab=30.62  E-value=16  Score=17.61  Aligned_cols=22  Identities=32%  Similarity=0.371  Sum_probs=14.2

Q ss_pred             CHHHHHHHHCCCCCCCCCCCCC
Q ss_conf             9999999837852122446775
Q gi|254780500|r   57 SRSHVIESLGSPSFSILHNGNR   78 (159)
Q Consensus        57 tk~~V~~~LG~Ps~~~~f~~n~   78 (159)
                      .+.+..+.=|+|+..+...+++
T Consensus        45 e~~~l~~sd~~~~~~s~l~N~~   66 (123)
T COG5633          45 EKPVLSESDGQPSASSVLKNKR   66 (123)
T ss_pred             CCCEEEEECCCCCEEEEEECCC
T ss_conf             5870266315321158975155


No 25 
>TIGR02722 lp_ uncharacterized lipoprotein; InterPro: IPR014094   Members of this protein family are restricted to the Proteobacteria, and all are predicted lipoproteins. In genomes that contain the thiK gene for the salvage enzyme thiamin kinase, the member of this family is encoded nearby..
Probab=28.70  E-value=47  Score=14.81  Aligned_cols=94  Identities=11%  Similarity=0.148  Sum_probs=51.6

Q ss_pred             HHHHHHHHHHHHCCCCCCC--EECCCCCC-HHHHHH---HCCCCCHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEECC
Q ss_conf             9999999999843555421--01350038-788864---04899999999983785212244677530488872100000
Q gi|254780500|r   19 KALFIIVIGLVVDYHVSYG--SISGASLD-MSAISL---VSQGSSRSHVIESLGSPSFSILHNGNRSQSFYYVSQKKKWF   92 (159)
Q Consensus        19 k~i~~~l~~~~~~~c~~~~--~~~G~~id-~~~i~~---i~~g~tk~~V~~~LG~Ps~~~~f~~n~~~~~YYi~~k~~~~   92 (159)
                      .+++++++.+++++|++..  ...++-.+ .+.+..   +........+....=.|..... |      |--..+=    
T Consensus         5 ~l~~~~~~Al~L~GC~~~~~~y~~~~~~~~~~~~~~tl~~~~~d~~~~a~~~~~pPk~~~~-d------wsm~~~P----   73 (215)
T TIGR02722         5 ILIFVALLALLLSGCVSQRVAYTDATDPQPVEPVTPTLGLSSTDLEPIANKMIQPPKVRKI-D------WSMLSSP----   73 (215)
T ss_pred             HHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCHHHHHHHCCCCCHHHH-H------HHHHCCC----
T ss_conf             7899999999985468872665688756677760577668886723347651388741256-4------6652688----


Q ss_pred             CHHCCCC----EEEEEEEEEEEECCCCCEEEEEECCC
Q ss_conf             0010121----11135789999989986843211043
Q gi|254780500|r   93 PVKFLSP----KIMEYIVLKITFGEKGVVSSVSMERL  125 (159)
Q Consensus        93 ~~af~~p----kvier~Vl~I~FD~~g~V~nI~~~~L  125 (159)
                        +|-.+    ++..+.||.|.==+|..=.+|....|
T Consensus        74 --~v~~~~~~~gv~~~~il~vd~i~N~T~~~idt~~l  108 (215)
T TIGR02722        74 --AVAQITPGDGVETRPILLVDSIKNDTSEHIDTESL  108 (215)
T ss_pred             --CCCCCCCCCCCCCCCEEEEEEEECCCCHHHHHHHH
T ss_conf             --40223677872126778985121688401338999


No 26 
>TIGR02887 spore_ger_x_C germination protein, Ger(x)C family; InterPro: IPR008844 The GerAA, -AB, and -AC proteins of the Bacillus subtilis spore are required for the germination response to L-alanine as the sole germinant. Members of GerAC family are thought to be located in the inner spore membrane. Although the function of this family is unclear, they are likely to encode the components of the germination apparatus that respond directly to this germinant, mediating the spore's response .; GO: 0009847 spore germination, 0016020 membrane.
Probab=27.67  E-value=40  Score=15.23  Aligned_cols=32  Identities=22%  Similarity=0.202  Sum_probs=23.1

Q ss_pred             HHHHHHHHHHHHHCCCCCCCEE------CCCCCCHHHH
Q ss_conf             9999999999984355542101------3500387888
Q gi|254780500|r   18 NKALFIIVIGLVVDYHVSYGSI------SGASLDMSAI   49 (159)
Q Consensus        18 ~k~i~~~l~~~~~~~c~~~~~~------~G~~id~~~i   49 (159)
                      .++++++++++.+++|-....+      +|--+|...-
T Consensus         3 ~~~~~~~~~~~lL~GCwd~~ei~~~~~v~~~g~D~~e~   40 (400)
T TIGR02887         3 LKILLLILALLLLTGCWDKREIEDLALVQGIGIDKGED   40 (400)
T ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHEEEEEEEEEECCCC
T ss_conf             66789999999832665620064211444789851357


No 27 
>PRK09967 putative outer membrane lipoprotein; Provisional
Probab=27.16  E-value=46  Score=14.88  Aligned_cols=17  Identities=18%  Similarity=0.061  Sum_probs=12.4

Q ss_pred             HHHHHHHHHHHCCCCCC
Q ss_conf             99999999984355542
Q gi|254780500|r   20 ALFIIVIGLVVDYHVSY   36 (159)
Q Consensus        20 ~i~~~l~~~~~~~c~~~   36 (159)
                      +..++++++++++|.+.
T Consensus         6 ~~~~l~~~l~lsgC~s~   22 (160)
T PRK09967          6 VAPLIFTSLILTGCQSP   22 (160)
T ss_pred             HHHHHHHHHHHHHCCCC
T ss_conf             99999999999845899


No 28 
>pfam02323 ELH Egg-laying hormone precursor. This family consists of egg-laying hormone (ELH) precursor and atrial gland peptides form little and California sea hare. The family also includes ovulation prohormone precursor from great pond snail. This family thus represents a conserved gastropoda ovulation and egg production prohormone. Note that many of the proteins present are further cleaved to give individual peptides. Neuropeptidergic bag cells of the marine mollusk Aplysia californica synthesize an egg-laying hormone (ELH) precursor protein which is cleaved to generate several bioactive peptides including ELH, bag cell peptides (BCP) and acidic peptide (AP).
Probab=27.15  E-value=23  Score=16.69  Aligned_cols=66  Identities=17%  Similarity=0.085  Sum_probs=40.3

Q ss_pred             HHHHHHHHHHHCCCCCCCEE--CCC-CCCHHHHHHHCC--CCCHHHHHHHHCCCCCCCCCCCCCCCEEEEEEE
Q ss_conf             99999999984355542101--350-038788864048--999999999837852122446775304888721
Q gi|254780500|r   20 ALFIIVIGLVVDYHVSYGSI--SGA-SLDMSAISLVSQ--GSSRSHVIESLGSPSFSILHNGNRSQSFYYVSQ   87 (159)
Q Consensus        20 ~i~~~l~~~~~~~c~~~~~~--~G~-~id~~~i~~i~~--g~tk~~V~~~LG~Ps~~~~f~~n~~~~~YYi~~   87 (159)
                      ++++++|+..-+.|++-.+.  ||. +.++.++.--.+  -.+-++--+.-+.|.....|+...  ..||...
T Consensus        11 ~~~li~Cl~lSslc~ss~S~~vhG~~f~~~Ravk~ssp~vVlSp~D~g~n~~~~~~~eafdkss--~dydd~~   81 (255)
T pfam02323        11 TMFLILCLWLSSLCVSSQSASVHGKDFATNRAVKGSSPEVVLSPEDSGSNRPQPVYGEAFDKSS--ADYDDGS   81 (255)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCCCHHCCCCCCCCCCEEEECCCCCCCCCCCCCCCCHHCCCC--CCCCCCC
T ss_conf             7899999998767653001234561000134646788637746121245577654220001353--1023675


No 29 
>PRK04405 prsA peptidylprolyl isomerase; Provisional
Probab=26.76  E-value=51  Score=14.60  Aligned_cols=34  Identities=15%  Similarity=0.022  Sum_probs=17.5

Q ss_pred             HHHHHHHHHCCCCCC----CEECCCCCCHHH-HHHHCCC
Q ss_conf             999999984355542----101350038788-8640489
Q gi|254780500|r   22 FIIVIGLVVDYHVSY----GSISGASLDMSA-ISLVSQG   55 (159)
Q Consensus        22 ~~~l~~~~~~~c~~~----~~~~G~~id~~~-i~~i~~g   55 (159)
                      ..+++.+.+++|.+.    .+++|.-+..+. .+.++..
T Consensus        13 ~~~~~~l~LaaCss~~~~Vat~kg~~IT~~e~y~~~k~~   51 (298)
T PRK04405         13 ASAGLLLSLAGCSSNNKTVATYKGGKITESQYYKEMKQS   51 (298)
T ss_pred             HHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHCC
T ss_conf             999999999871799976998639872599999998644


No 30 
>PRK09859 multidrug efflux system protein MdtE; Provisional
Probab=26.27  E-value=48  Score=14.79  Aligned_cols=16  Identities=6%  Similarity=0.113  Sum_probs=7.4

Q ss_pred             HHHHHHHHHHHCCCCC
Q ss_conf             9999999998435554
Q gi|254780500|r   20 ALFIIVIGLVVDYHVS   35 (159)
Q Consensus        20 ~i~~~l~~~~~~~c~~   35 (159)
                      ++.++++.+.+++|..
T Consensus         8 li~ll~~~~lL~gC~~   23 (385)
T PRK09859          8 LIPLLFCGAMLTACDD   23 (385)
T ss_pred             HHHHHHHHHHHHCCCC
T ss_conf             9999999999953799


No 31 
>pfam08006 DUF1700 Protein of unknown function (DUF1700). This family contains many hypothetical bacterial proteins and two putative membrane proteins.
Probab=25.80  E-value=49  Score=14.72  Aligned_cols=27  Identities=22%  Similarity=0.334  Sum_probs=20.9

Q ss_pred             CHHHHHHHCCCCCHHHHHHHHCCCCCC
Q ss_conf             878886404899999999983785212
Q gi|254780500|r   45 DMSAISLVSQGSSRSHVIESLGSPSFS   71 (159)
Q Consensus        45 d~~~i~~i~~g~tk~~V~~~LG~Ps~~   71 (159)
                      ++--.+....|.|-+|+++.||+|.--
T Consensus        30 ~e~f~~~~~~G~se~ei~~~LG~P~~i   56 (181)
T pfam08006        30 EEHFYEGEEEGKSEEEIIKELGNPKTI   56 (181)
T ss_pred             HHHHHHHHHCCCCHHHHHHHHCCHHHH
T ss_conf             999998766899999999882999999


No 32 
>pfam04218 CENP-B_N CENP-B N-terminal DNA-binding domain. Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere. Within the N-terminal 125 residues, there is a DNA-binding region, which binds to a corresponding 17bp CENP-B box sequence. CENP-B dimers either bind two separate DNA molecules or alternatively, they may bind two CENP-B boxes on one DNA molecule, with the intervening stretch of DNA forming a loop structure. The CENP-B DNA-binding domain consists of two repeating domains, RP1 and RP2. This family corresponds to RP1 has been shown to consist of four helices in a helix-turn-helix structure.
Probab=25.71  E-value=51  Score=14.61  Aligned_cols=25  Identities=16%  Similarity=0.328  Sum_probs=21.2

Q ss_pred             HHHHHHCCCCCHHHHHHHHCCCCCC
Q ss_conf             8886404899999999983785212
Q gi|254780500|r   47 SAISLVSQGSSRSHVIESLGSPSFS   71 (159)
Q Consensus        47 ~~i~~i~~g~tk~~V~~~LG~Ps~~   71 (159)
                      +.++.+..|.++++|...+|-|..+
T Consensus        14 ~iI~~~e~G~s~~~lar~~gi~~ST   38 (53)
T pfam04218        14 EVIQRSEEGESKASLARRFNVPRST   38 (53)
T ss_pred             HHHHHHHCCCCHHHHHHHHCCCHHH
T ss_conf             9999998589688999996987979


No 33 
>PRK11671 mltC murein transglycosylase C; Provisional
Probab=25.17  E-value=46  Score=14.87  Aligned_cols=119  Identities=12%  Similarity=0.135  Sum_probs=55.5

Q ss_pred             HHHHHHHHHHHHHCCCCCC-CEECCC---CCCHHHHHHHCCCCCHHHHHHHHCCC--CCCCCCCCCCCCEEEEEEEEEEC
Q ss_conf             9999999999984355542-101350---03878886404899999999983785--21224467753048887210000
Q gi|254780500|r   18 NKALFIIVIGLVVDYHVSY-GSISGA---SLDMSAISLVSQGSSRSHVIESLGSP--SFSILHNGNRSQSFYYVSQKKKW   91 (159)
Q Consensus        18 ~k~i~~~l~~~~~~~c~~~-~~~~G~---~id~~~i~~i~~g~tk~~V~~~LG~P--s~~~~f~~n~~~~~YYi~~k~~~   91 (159)
                      .|+++++++...+.+|.+. ++..-+   .=|...++.+. |.=...+..+-|.-  ...+.     .+|.=|...-..+
T Consensus         3 ~k~~~~~~~~~~l~~c~~~~~~~~~~~~~~kdt~~~~~l~-~~f~~ni~~~Wg~~e~~~a~~-----~~YVKYtd~Y~tR   76 (360)
T PRK11671          3 KKYLALALIAPLLISCSSSKKGDTYNEAWVKDTNGFDILM-GQFAHNIENIWGFKEVLIAGP-----KDYVKYTDQYQTR   76 (360)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHCCCHHHHHH-HHHHHHHHHHCCCCCCCCCCC-----CCEEEECCCCCEE
T ss_conf             4688999999999871046888763377761230799999-998765887438764313677-----5347714665301


Q ss_pred             CCHHCCCCEEEEEEEEEEEECCCCC-EEEEE--------------ECCC-CCCC-EECCCCCCCCCCCCHHHHHHHHHCC
Q ss_conf             0001012111135789999989986-84321--------------1043-4561-4034541588885224389998533
Q gi|254780500|r   92 FPVKFLSPKIMEYIVLKITFGEKGV-VSSVS--------------MERL-PNRR-FNPNPHTIPAPIQTADGFLRRLLNP  154 (159)
Q Consensus        92 ~~~af~~pkvier~Vl~I~FD~~g~-V~nI~--------------~~~L-~dg~-~~~~~~~~~~~~~~~~~fl~~l~~~  154 (159)
                      .               .|.||+.-+ |+.++              ..-. +|-+ ++-.+..-+.+...++.+..|.+++
T Consensus        77 a---------------~vdF~~G~I~vETl~~~~p~~~L~~AIv~tLL~~~Dp~~vDl~sd~~~~~~~~~PfL~gqV~D~  141 (360)
T PRK11671         77 S---------------HINFDDGTITIETIAGTNPAAHLRRAIIKTLLMGDDPSSIDLYSDVDDIPISKEPFLYGQVVDN  141 (360)
T ss_pred             E---------------EEECCCCEEEEEECCCCCHHHHHHHHHHHHHCCCCCCCHHCCCCCCCCCCCCCCCEEHHHEECC
T ss_conf             2---------------6634788399996577685799999999997688995110343555557668985345420348


Q ss_pred             CCC
Q ss_conf             467
Q gi|254780500|r  155 NGR  157 (159)
Q Consensus       155 ~Gr  157 (159)
                      -|.
T Consensus       142 ~g~  144 (360)
T PRK11671        142 TGQ  144 (360)
T ss_pred             CCC
T ss_conf             998


No 34 
>PRK11162 mltA murein transglycosylase A; Provisional
Probab=23.85  E-value=49  Score=14.73  Aligned_cols=29  Identities=14%  Similarity=0.041  Sum_probs=21.5

Q ss_pred             HHHHHHHHHHHHHCCCCCCCEECCCCCCH
Q ss_conf             99999999999843555421013500387
Q gi|254780500|r   18 NKALFIIVIGLVVDYHVSYGSISGASLDM   46 (159)
Q Consensus        18 ~k~i~~~l~~~~~~~c~~~~~~~G~~id~   46 (159)
                      .|.+...+++..+.+|.+++..+|..-++
T Consensus         3 ~~~~~~~~~~~~l~~c~~~p~~~g~qy~~   31 (362)
T PRK11162          3 VKYLLMGIVVALLAACSSKPTDRGQQYKD   31 (362)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCCCCCC
T ss_conf             89999999999997604798766755557


No 35 
>COG4851 CamS Protein involved in sex pheromone biosynthesis [General function prediction only]
Probab=23.83  E-value=58  Score=14.27  Aligned_cols=63  Identities=11%  Similarity=0.032  Sum_probs=35.1

Q ss_pred             HHHHHHHHHHHCCCCCCCEECCCCCCHHHHHH-HCCCCCHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEECC
Q ss_conf             99999999984355542101350038788864-04899999999983785212244677530488872100000
Q gi|254780500|r   20 ALFIIVIGLVVDYHVSYGSISGASLDMSAISL-VSQGSSRSHVIESLGSPSFSILHNGNRSQSFYYVSQKKKWF   92 (159)
Q Consensus        20 ~i~~~l~~~~~~~c~~~~~~~G~~id~~~i~~-i~~g~tk~~V~~~LG~Ps~~~~f~~n~~~~~YYi~~k~~~~   92 (159)
                      .|.++-+.+++++|.       ..+|...-+. -+-+.+.+|+..+.-.-.+.+-+-.-   ..+|...+.+..
T Consensus         6 ~i~~ta~vliLs~C~-------~~~dd~edkv~qk~~~sseq~k~Iv~k~nis~n~Ykt---vLpyk~~kaRGl   69 (382)
T COG4851           6 GIAATASVLILSGCF-------PFVDDTEDKVVQKEGKSSEQEKGIVPKANISENYYKT---VLPYKAGKARGL   69 (382)
T ss_pred             HHHHHHHHHHHHHCC-------CCCCCCCCHHHHCCCCCHHHCCCCCCCCCCCCCCHHE---EEEECCCCCCCH
T ss_conf             589999999986116-------7668730023430377033201121354444331322---422102444550


No 36 
>smart00242 MYSc Myosin. Large ATPases. ATPase; molecular motor. Muscle contraction consists of a cyclical interaction between myosin and actin. The core of the myosin structure is similar in fold to that of kinesin.
Probab=23.54  E-value=59  Score=14.23  Aligned_cols=64  Identities=22%  Similarity=0.363  Sum_probs=38.8

Q ss_pred             HHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEECCCHHCCCCEEEEEEEEEEEECCCCCEE--EEEECCCCCCCEECCCCC
Q ss_conf             999998378521224467753048887210000000101211113578999998998684--321104345614034541
Q gi|254780500|r   59 SHVIESLGSPSFSILHNGNRSQSFYYVSQKKKWFPVKFLSPKIMEYIVLKITFGEKGVVS--SVSMERLPNRRFNPNPHT  136 (159)
Q Consensus        59 ~~V~~~LG~Ps~~~~f~~n~~~~~YYi~~k~~~~~~af~~pkvier~Vl~I~FD~~g~V~--nI~~~~L~dg~~~~~~~~  136 (159)
                      +-|++.+|...|.  -|+|        ++|       |.       +.+.+.||+.|.+.  .|+.|-||--|++.    
T Consensus       137 npiLEAFGNAkT~--~N~N--------SSR-------FG-------K~~~l~f~~~g~i~ga~i~~yLLEksRv~~----  188 (677)
T smart00242      137 NPILEAFGNAKTV--RNNN--------SSR-------FG-------KFIEIHFDAKGKIVGAKIETYLLEKSRVVS----  188 (677)
T ss_pred             HHHHHHHCCCCCC--CCCC--------CCC-------CC-------EEEEEEECCCCCCCCEEEEEEECCCCEEEE----
T ss_conf             0499873056456--7987--------475-------00-------789999889995740488984032254443----


Q ss_pred             CCCCCCCHH--HHHHHHHC
Q ss_conf             588885224--38999853
Q gi|254780500|r  137 IPAPIQTAD--GFLRRLLN  153 (159)
Q Consensus       137 ~~~~~~~~~--~fl~~l~~  153 (159)
                         .+..|.  -+|-||+.
T Consensus       189 ---~~~gErNfHIFYqLl~  204 (677)
T smart00242      189 ---QAKGERNYHIFYQLLA  204 (677)
T ss_pred             ---CCCCCCCEEEHHHHHC
T ss_conf             ---2798764022999983


No 37 
>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=22.47  E-value=54  Score=14.47  Aligned_cols=18  Identities=0%  Similarity=-0.175  Sum_probs=6.4

Q ss_pred             HHHHHHHHHCCCCCCCEE
Q ss_conf             999999984355542101
Q gi|254780500|r   22 FIIVIGLVVDYHVSYGSI   39 (159)
Q Consensus        22 ~~~l~~~~~~~c~~~~~~   39 (159)
                      +.+++++++++++..++.
T Consensus         9 ~~~~~~~~~~~~~~~k~~   26 (643)
T pfam10566         9 LAFLLLIGNLSLAARKNY   26 (643)
T ss_pred             HHHHHHHHHHHHHHCCEE
T ss_conf             999999976567541623


No 38 
>PRK12407 flgH flagellar basal body L-ring protein; Reviewed
Probab=22.28  E-value=51  Score=14.62  Aligned_cols=20  Identities=15%  Similarity=-0.031  Sum_probs=15.0

Q ss_pred             HHHHHHHHHHHHCCCCCCCE
Q ss_conf             99999999998435554210
Q gi|254780500|r   19 KALFIIVIGLVVDYHVSYGS   38 (159)
Q Consensus        19 k~i~~~l~~~~~~~c~~~~~   38 (159)
                      |+++++++++.+++|+....
T Consensus         2 r~l~l~~~~l~LsGC~~~~~   21 (220)
T PRK12407          2 RFLILTPMVLALCGCESPAL   21 (220)
T ss_pred             CCHHHHHHHHHHHCCCCCCC
T ss_conf             15799999999736588887


No 39 
>PRK11627 hypothetical protein; Provisional
Probab=21.81  E-value=64  Score=14.02  Aligned_cols=20  Identities=20%  Similarity=0.168  Sum_probs=13.8

Q ss_pred             HHHHHHHHHHHHCCCCCCCE
Q ss_conf             99999999998435554210
Q gi|254780500|r   19 KALFIIVIGLVVDYHVSYGS   38 (159)
Q Consensus        19 k~i~~~l~~~~~~~c~~~~~   38 (159)
                      |.++.++..+.+.+|.+.++
T Consensus         4 k~~~~l~a~~lL~gCas~p~   23 (192)
T PRK11627          4 KILFPLVALFMLAGCATPPT   23 (192)
T ss_pred             HHHHHHHHHHHHHHHCCCCC
T ss_conf             79999999999986069976


No 40 
>TIGR00752 slp outer membrane lipoprotein, Slp family; InterPro: IPR004658 Slp superfamily members are present in the Gram-negative gamma proteobacteria Escherichia coli (which also contains a close paralog), Haemophilus influenzae and Pasteurella multocida and Vibrio cholerae. The known members of the family to date share a motif LX[GA]C near the N-terminus, which is compatible with the possibility that the protein is modified into a lipoprotein with Cys as the new N-terminus. Slp from E. coli is known to be a lipoprotein of the outer membrane and to be expressed in response to carbon starvation.; GO: 0019867 outer membrane.
Probab=21.15  E-value=66  Score=13.94  Aligned_cols=26  Identities=15%  Similarity=0.321  Sum_probs=20.1

Q ss_pred             HHHHHHHHHHHHHCCCCCCCEE-CCCC
Q ss_conf             9999999999984355542101-3500
Q gi|254780500|r   18 NKALFIIVIGLVVDYHVSYGSI-SGAS   43 (159)
Q Consensus        18 ~k~i~~~l~~~~~~~c~~~~~~-~G~~   43 (159)
                      .|-++++-+|+.|++|++.+.. +|+.
T Consensus         3 ~~g~l~~~l~f~L~gC~~~P~~ikg~~   29 (190)
T TIGR00752         3 KKGLLITALAFLLTGCIAVPKAIKGER   29 (190)
T ss_pred             CHHHHHHHHHHHHHHHCCCCCCCCCCC
T ss_conf             014568889988753146742345567


No 41 
>TIGR03525 GldK gliding motility-associated lipoprotein GldK. Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldK is a lipoprotein linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae. Knockouts of GldK abolish the gliding phenotype. GldK is homologous to GldJ. There is a GldK homolog in Cytophaga hutchinsonii and several other species that has a different, shorter architecture and is represented by a separate model. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.
Probab=21.12  E-value=54  Score=14.44  Aligned_cols=54  Identities=19%  Similarity=0.191  Sum_probs=27.2

Q ss_pred             HHHHHHHHHHHHCCCCCCCEECCCCCCHHHH----------HHHCCC-----CCHHHHHHHHCCCCCCCCC
Q ss_conf             9999999999843555421013500387888----------640489-----9999999983785212244
Q gi|254780500|r   19 KALFIIVIGLVVDYHVSYGSISGASLDMSAI----------SLVSQG-----SSRSHVIESLGSPSFSILH   74 (159)
Q Consensus        19 k~i~~~l~~~~~~~c~~~~~~~G~~id~~~i----------~~i~~g-----~tk~~V~~~LG~Ps~~~~f   74 (159)
                      |+++++++..++.||-+.  -+|-++-.+.-          -.|..|     .+.+|+....=.|+-+-..
T Consensus         3 k~~~~~~~~~~~~SCg~~--~~GELvGv~~~~w~~~~PyGMV~IPgGsF~MG~sDdDv~~~~~ap~k~VtV   71 (449)
T TIGR03525         3 KYLVFAALVVLVYSCGSG--DKGELVGVEGKKWYPEKPYGMVLVPGGSFIMGKSDEDIAGVMNAPTKTVTV   71 (449)
T ss_pred             HHHHHHHHHHHHHHCCCC--CCCEEEEECCCCCCCCCCCEEEEECCCEEECCCCCCCCCCCCCCCCCEEEE
T ss_conf             248999999987210589--971387314875578999835896685676688753433545588705888


No 42 
>PRK03002 prsA peptidylprolyl isomerase; Reviewed
Probab=21.08  E-value=58  Score=14.26  Aligned_cols=30  Identities=7%  Similarity=0.086  Sum_probs=15.5

Q ss_pred             HHHHHHHHHHHCCCCCC------CEECCCCCCHHHH
Q ss_conf             99999999984355542------1013500387888
Q gi|254780500|r   20 ALFIIVIGLVVDYHVSY------GSISGASLDMSAI   49 (159)
Q Consensus        20 ~i~~~l~~~~~~~c~~~------~~~~G~~id~~~i   49 (159)
                      ++..++..+.+++|.+.      -+++|.-+....+
T Consensus         8 ~~~~~~svl~LaaC~~~~~~~~VAtv~g~~IT~~df   43 (285)
T PRK03002          8 IITALISILMLSACGQKNSSATVATATDSTITKSDF   43 (285)
T ss_pred             HHHHHHHHHHHHHHCCCCCCCEEEEECCCEECHHHH
T ss_conf             999999999999845799997799868978739999


No 43 
>pfam11359 gpUL132 Glycoprotein UL132. Glycoprotein UL132 is a low-abundance structural component of Human cytomegalovirus (HCMV). The function of this protein is not fully understood.
Probab=20.16  E-value=69  Score=13.81  Aligned_cols=105  Identities=14%  Similarity=0.136  Sum_probs=48.1

Q ss_pred             HHHHHHHHHHHCCCCCCCEECCCCCCHHHHHHHCC------------CCCHHHHHHHHCCCCCC-CCCCCCCCCE-EEEE
Q ss_conf             99999999984355542101350038788864048------------99999999983785212-2446775304-8887
Q gi|254780500|r   20 ALFIIVIGLVVDYHVSYGSISGASLDMSAISLVSQ------------GSSRSHVIESLGSPSFS-ILHNGNRSQS-FYYV   85 (159)
Q Consensus        20 ~i~~~l~~~~~~~c~~~~~~~G~~id~~~i~~i~~------------g~tk~~V~~~LG~Ps~~-~~f~~n~~~~-~YYi   85 (159)
                      ..++.+.+.+.++|+-+.-.+--+-|++...+|.-            |+-|.|+-+  |+||.. -.++..-|+- |---
T Consensus        65 s~llVl~a~ly~sc~~r~gr~~~fsd~E~a~Ll~~~dd~g~sspfgsgSRRgqipa--gssSs~yqrL~~~D~de~~~~~  142 (235)
T pfam11359        65 SFLLVLVAVLYSSCHTRPGRKTKFSDQEGAKLLDDTDDSGGSSPFGSGSRRGQIPA--GSSSSKYQRLNKGDYDELWQSQ  142 (235)
T ss_pred             HHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCC--CCCCCCCCCCCCCCHHHHHHHH
T ss_conf             99999998777766417886556544777764225554566466777754565667--8886545677654466777765


Q ss_pred             EEEEECCCHHCCCCEEEEEEEEEEEECCCCCEEE-EEECCCCCCCEECCCCCC
Q ss_conf             2100000001012111135789999989986843-211043456140345415
Q gi|254780500|r   86 SQKKKWFPVKFLSPKIMEYIVLKITFGEKGVVSS-VSMERLPNRRFNPNPHTI  137 (159)
Q Consensus        86 ~~k~~~~~~af~~pkvier~Vl~I~FD~~g~V~n-I~~~~L~dg~~~~~~~~~  137 (159)
                      +..  +..+. -.|+      =+|+|+++|.+.. .-  +-.=|+=.|+...-
T Consensus       143 saa--re~m~-~Dp~------NViYF~KdGnLdTSFV--NPnYG~gSpmtIES  184 (235)
T pfam11359       143 SAA--RETMD-DDPD------NVIYFDKDGNLDTSFV--NPNYGHGSPMTIES  184 (235)
T ss_pred             HHH--HHHCC-CCCC------CEEEECCCCCCCCCEE--CCCCCCCCCEEEEC
T ss_conf             554--54203-7966------3688815887322001--77778899606641


Done!