Query         gi|254780199|ref|YP_003064612.1| outer membrane lipoprotein [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 160
No_of_seqs    20 out of 22
Neff          2.5 
Searched_HMMs 39220
Date          Mon May 23 13:08:13 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780199.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 TIGR03066 Gem_osc_para_1 Gemma  92.0       1 2.7E-05   24.7   8.6  104   23-128     4-110 (111)
  2 COG3056 Uncharacterized lipopr  87.5    0.39 9.8E-06   27.3   2.1   38    4-41     11-48  (204)
  3 PRK10477 outer membrane lipopr  82.2     3.1   8E-05   21.8   4.8   48    9-60      4-56  (177)
  4 KOG1357 consensus               66.8     4.1  0.0001   21.1   2.1   50   34-86    100-150 (519)
  5 PRK12788 flgH flagellar basal   56.5      14 0.00035   17.8   3.3   31    9-39      1-32  (231)
  6 TIGR02262 benz_CoA_lig benzoat  54.5     3.9  0.0001   21.2   0.3   43   40-86    375-417 (520)
  7 PRK10397 hypothetical protein;  52.5      14 0.00035   17.8   2.8   39   16-55      8-49  (137)
  8 PRK11627 hypothetical protein;  50.3      15 0.00039   17.6   2.7  128   10-138     4-158 (192)
  9 TIGR02299 HpaE 5-carboxymethyl  48.6     4.9 0.00012   20.6  -0.0   27   43-77      5-31  (494)
 10 TIGR00673 cynS cyanate hydrata  45.8     8.2 0.00021   19.2   0.8   21  129-151    74-94  (156)
 11 pfam05055 DUF677 Protein of un  39.6     7.3 0.00019   19.5  -0.3   35   14-49    194-228 (336)
 12 COG0033 Pgm Phosphoglucomutase  36.4      29 0.00075   15.8   2.4   33   40-74    459-491 (524)
 13 PRK00022 lolB outer membrane l  34.0      37 0.00095   15.2   8.6   99   16-125    10-111 (203)
 14 pfam06679 DUF1180 Protein of u  29.2      45  0.0011   14.7   3.7   44   26-69     39-86  (163)
 15 TIGR00104 TIGR00104 conserved   28.9      21 0.00054   16.7   0.6   15   59-73     87-101 (152)
 16 PRK12700 flgH flagellar basal   28.2      39 0.00098   15.1   1.9   34    3-38      3-38  (230)
 17 cd02858 Esterase_N_term Estera  27.5      48  0.0012   14.5   3.4   42   36-82     13-56  (85)
 18 PRK10802 peptidoglycan-associa  26.1      34 0.00087   15.4   1.3   27    1-29      1-27  (173)
 19 COG3017 LolB Outer membrane li  25.2      53  0.0013   14.3   6.1   85    9-103     7-95  (206)
 20 PRK00249 flgH flagellar basal   24.6      54  0.0014   14.2   3.2   27    9-35      4-30  (231)
 21 COG3364 Zn-ribbon containing p  24.5      55  0.0014   14.2   2.7   26   79-104    63-88  (112)
 22 pfam06085 Rz1 Lipoprotein Rz1   24.3      55  0.0014   14.2   3.0   19   12-30      8-26  (59)
 23 TIGR01004 PulS_OutS lipoprotei  22.5      60  0.0015   14.0   2.5   32    4-36      3-35  (136)
 24 pfam08194 DIM DIM protein. Dro  20.3      49  0.0013   14.5   1.2   24    5-28      2-25  (37)

No 1  
>TIGR03066 Gem_osc_para_1 Gemmata obscuriglobus paralogous family TIGR03066. This model represents an uncharacterized paralogous family in Gemmata obscuriglobus UQM 2246, a member of the Planctomycetes. This family shows sequence similarity to TIGR03067, which is also found in Gemmata obscuriglobus as well as in a few other species.
Probab=91.98  E-value=1  Score=24.67  Aligned_cols=104  Identities=21%  Similarity=0.330  Sum_probs=67.0

Q ss_pred             HHCCCCCCCCCCCCCCCCCCCEEEEEC---CCCEEEEEEECCEEEEECCCCCCCEEEEEEEEEECCCEEEEEEEECCCCC
Q ss_conf             405777656653337676562025726---89814468608789984257777466544688516857999997200388
Q gi|254780199|r   23 SCSALSVVVDSSELLPEPMDITGYWED---DNGILSYFQKDGKFKTISTDGSSSVLATGSYHVKINQDVEIKLTSLIRNT   99 (160)
Q Consensus        23 ac~~~~~~~~~~~~~P~P~gVeG~W~D---~NGivSsf~~~G~F~TrstDGTn~~LA~GTY~~~~~~~VEIn~tSlvR~T   99 (160)
                      +|.+....+...+-. -|.-+=|.|..   .-..+--|.++|++.-+-.++-....++|||...++. +-.++-+.-..-
T Consensus         4 a~~~~~~a~~~~ek~-Da~kLvGKW~~~~~~~~vviEF~kdGkl~v~~~~~Gk~vk~~GTYkl~G~k-Lt~~l~~gg~e~   81 (111)
T TIGR03066         4 ALAGGGRADDKDEKI-DAKKLVGKWETSKTKDDVVIEFAKDGKLVVTIGEKGKEVKADGTYKLDGNK-LTLTLKAGGKEK   81 (111)
T ss_pred             EECCCCCCCCCCCCC-CHHHHEEEEEECCCCCEEEEEEECCCEEEEEECCCCEEEEECCEEEEECCE-EEEEEECCCEEE
T ss_conf             981455368864235-877933541617877507999914987999975698389835479974578-789980587062


Q ss_pred             CEEEEEEEECCCEEEEECCCCCEEEEEEE
Q ss_conf             30589996063436676067987999973
Q gi|254780199|r  100 SGKIQCQFLDSNKLNCLAKDQKQFYLRRT  128 (160)
Q Consensus       100 ~skVnC~L~spsQLnCTS~sG~QF~L~Rt  128 (160)
                      ..-+.-....-.+|--....|..-.|.|-
T Consensus        82 k~tlTv~kltd~elv~~d~~gk~~t~~Rv  110 (111)
T TIGR03066        82 KETLTVKKLTDDELVGKDPDGKKDTLKRV  110 (111)
T ss_pred             EEEEEEEEECCCCEEEECCCCCHHHEEEC
T ss_conf             24789997136425876899980340562


No 2  
>COG3056 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]
Probab=87.45  E-value=0.39  Score=27.30  Aligned_cols=38  Identities=24%  Similarity=0.371  Sum_probs=31.7

Q ss_pred             CEEEEHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCC
Q ss_conf             03551256899999998764057776566533376765
Q gi|254780199|r    4 RCFLSLSFLFPLVAAIAVVSCSALSVVVDSSELLPEPM   41 (160)
Q Consensus         4 r~~lsl~~~~~Lv~alav~ac~~~~~~~~~~~~~P~P~   41 (160)
                      |+.+-|.++|+|++.+.++.|++++--....|-+|-|.
T Consensus        11 ~k~~t~k~L~~laa~~lLagC~a~~~tl~~tpp~~~~s   48 (204)
T COG3056          11 SKNMTKKILFPLAAIFLLAGCAAPPTTLIVTPPAPLPS   48 (204)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCCEEECCCCCCCCC
T ss_conf             17889999999999999975379975031369976644


No 3  
>PRK10477 outer membrane lipoprotein Blc; Provisional
Probab=82.17  E-value=3.1  Score=21.77  Aligned_cols=48  Identities=23%  Similarity=0.354  Sum_probs=32.3

Q ss_pred             HHHHHHHHHHHHHHHHCCCCCC-----CCCCCCCCCCCCCEEEEECCCCEEEEEEEC
Q ss_conf             2568999999987640577765-----665333767656202572689814468608
Q gi|254780199|r    9 LSFLFPLVAAIAVVSCSALSVV-----VDSSELLPEPMDITGYWEDDNGILSYFQKD   60 (160)
Q Consensus         9 l~~~~~Lv~alav~ac~~~~~~-----~~~~~~~P~P~gVeG~W~D~NGivSsf~~~   60 (160)
                      |.++.+|++++.+++|++..++     +.+.++    .---|+|-----+.+.|++|
T Consensus         4 ~~~~~~~~~~~~~~~c~~~~~p~~~~~V~~~Dl----~RYmG~WYEIAr~P~~fe~g   56 (177)
T PRK10477          4 LPVVAAVTAAFLVVACSSPTPPKGVTVVNNFDA----KRYLGTWYEIARFDHRFERG   56 (177)
T ss_pred             HHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCH----HHCCEEEEEEEECCCHHHCC
T ss_conf             789999999999976469999998841673474----46488028997048668878


No 4  
>KOG1357 consensus
Probab=66.77  E-value=4.1  Score=21.08  Aligned_cols=50  Identities=22%  Similarity=0.273  Sum_probs=37.6

Q ss_pred             CCCCCCCC-CCEEEEECCCCEEEEEEECCEEEEECCCCCCCEEEEEEEEEECCC
Q ss_conf             33376765-620257268981446860878998425777746654468851685
Q gi|254780199|r   34 SELLPEPM-DITGYWEDDNGILSYFQKDGKFKTISTDGSSSVLATGSYHVKINQ   86 (160)
Q Consensus        34 ~~~~P~P~-gVeG~W~D~NGivSsf~~~G~F~TrstDGTn~~LA~GTY~~~~~~   86 (160)
                      -+.--||. ||-|+|+|---.+|.-. |-.| .++.+ +...|--|+|+|++=.
T Consensus       100 ~Dc~~RPi~~VPG~~v~l~dR~S~D~-n~tf-k~tG~-~~~~lNlgSYNYLGFa  150 (519)
T KOG1357         100 RDCFERPICSVPGAWVDLMDRVSDDY-NWTF-KYTGT-RSRCLNLGSYNYLGFA  150 (519)
T ss_pred             HHHHCCCCCCCCCCEEEEEEEECCCC-CCEE-EECCC-EEEEEEECCCCCCCCC
T ss_conf             66533887689875688332120478-8558-84364-4665420332233423


No 5  
>PRK12788 flgH flagellar basal body L-ring protein; Reviewed
Probab=56.54  E-value=14  Score=17.83  Aligned_cols=31  Identities=16%  Similarity=0.448  Sum_probs=20.8

Q ss_pred             HHHHHHHHHHHHHHHHCCCCC-CCCCCCCCCC
Q ss_conf             256899999998764057776-5665333767
Q gi|254780199|r    9 LSFLFPLVAAIAVVSCSALSV-VVDSSELLPE   39 (160)
Q Consensus         9 l~~~~~Lv~alav~ac~~~~~-~~~~~~~~P~   39 (160)
                      |-++..+.++++++.|.+... +++.+++.|-
T Consensus         1 mr~l~~~~a~l~LsGCa~~~~~~~~~P~~sPv   32 (231)
T PRK12788          1 MRLLVAILACLALAGCANNLADALQAPRMSPI   32 (231)
T ss_pred             CCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCC
T ss_conf             90899999999976403874336789987888


No 6  
>TIGR02262 benz_CoA_lig benzoate-CoA ligase family; InterPro: IPR011957    Characterised members of this protein family include benzoate-CoA ligase, 4-hydroxybenzoate-CoA ligase, 2-aminobenzoate-CoA ligase, etc. Members are related to fatty acid and acetate CoA ligases..
Probab=54.52  E-value=3.9  Score=21.15  Aligned_cols=43  Identities=26%  Similarity=0.452  Sum_probs=35.6

Q ss_pred             CCCCEEEEECCCCEEEEEEECCEEEEECCCCCCCEEEEEEEEEECCC
Q ss_conf             65620257268981446860878998425777746654468851685
Q gi|254780199|r   40 PMDITGYWEDDNGILSYFQKDGKFKTISTDGSSSVLATGSYHVKINQ   86 (160)
Q Consensus        40 P~gVeG~W~D~NGivSsf~~~G~F~TrstDGTn~~LA~GTY~~~~~~   86 (160)
                      |--=+|+|....-.-.+|.  |-. ||+=| +=-+=++|.|+|-+=+
T Consensus       375 PSSA~~YWn~R~Ksr~TF~--G~W-TrsGD-KY~r~~dG~YtYaGR~  417 (520)
T TIGR02262       375 PSSAAGYWNNREKSRATFE--GEW-TRSGD-KYVRNDDGVYTYAGRT  417 (520)
T ss_pred             CCCCCCCCCCHHHHHCCCC--CCC-CCCCC-CEEECCCCEEEEECCC
T ss_conf             7545567988146132378--895-22487-1036378506870244


No 7  
>PRK10397 hypothetical protein; Provisional
Probab=52.54  E-value=14  Score=17.82  Aligned_cols=39  Identities=21%  Similarity=0.569  Sum_probs=25.3

Q ss_pred             HHHHHHHHHCCCCCCCCCCCCCCCCCCCEEEEECC---CCEEE
Q ss_conf             99998764057776566533376765620257268---98144
Q gi|254780199|r   16 VAAIAVVSCSALSVVVDSSELLPEPMDITGYWEDD---NGILS   55 (160)
Q Consensus        16 v~alav~ac~~~~~~~~~~~~~P~P~gVeG~W~D~---NGivS   55 (160)
                      .++++++-|...+ --..+--.|.|+|.+|+|-..   .+.+|
T Consensus         8 g~~l~LsGCa~v~-nY~~vVk~PaPagl~GyWqs~gPQs~lvS   49 (137)
T PRK10397          8 GALMLLAGCAEVE-NYNNVVKTPAPAGLAGYWQSKGPQRALVS   49 (137)
T ss_pred             HHHHHHHCCCCCC-CHHHHHCCCCCCCCCEEEECCCCCCCCCC
T ss_conf             8999973532441-06656448997332304452587233369


No 8  
>PRK11627 hypothetical protein; Provisional
Probab=50.31  E-value=15  Score=17.56  Aligned_cols=128  Identities=17%  Similarity=0.333  Sum_probs=63.3

Q ss_pred             HHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCC---CCEEEE-----EC---CCCEEEEEEECCEEEEECC-CCCC-----
Q ss_conf             56899999998764057776566533376765---620257-----26---8981446860878998425-7777-----
Q gi|254780199|r   10 SFLFPLVAAIAVVSCSALSVVVDSSELLPEPM---DITGYW-----ED---DNGILSYFQKDGKFKTIST-DGSS-----   72 (160)
Q Consensus        10 ~~~~~Lv~alav~ac~~~~~~~~~~~~~P~P~---gVeG~W-----~D---~NGivSsf~~~G~F~Trst-DGTn-----   72 (160)
                      .+++||.+.+.+++|+++|--..-.|.++-|+   .+.|.=     +|   .+- +..+.++|.-++-.+ ..-.     
T Consensus         4 k~~~~l~a~~lL~gCas~p~~l~l~P~~~~~~~~~~~~~~~vsv~s~D~R~~~~-va~~~~~g~~~~L~~s~~l~~~lq~   82 (192)
T PRK11627          4 KILFPLVALFMLAGCATPPTTLEVSPKITLPQQDPSLMGVTVSINGADQRQDQA-LAKVTRDNQLVTLTPSRDLRFLLQE   82 (192)
T ss_pred             HHHHHHHHHHHHHHHCCCCCEEEECCCCCCCCCCCCCCCEEEEEEEEECCCCCE-EEEECCCCCEEEECCCCCHHHHHHH
T ss_conf             799999999999860699763786788766434554577059998775366532-6798069946770478688999999


Q ss_pred             ---CEEEEEEEEEEC--CCEEEEEEEECCCC-CCEEEEEEEECCCEEEEE--CCCCCEEEE--EEEEEECCCCCCC
Q ss_conf             ---466544688516--85799999720038-830589996063436676--067987999--9733210777786
Q gi|254780199|r   73 ---SVLATGSYHVKI--NQDVEIKLTSLIRN-TSGKIQCQFLDSNKLNCL--AKDQKQFYL--RRTHLTELPSSKP  138 (160)
Q Consensus        73 ---~~LA~GTY~~~~--~~~VEIn~tSlvR~-T~skVnC~L~spsQLnCT--S~sG~QF~L--~Rt~~~~~~~~~~  138 (160)
                         ..|.+--|....  +..+++.+--+.-+ +++.+.-.+.+..++.-+  +..|.+|+=  +++--.|-|-+--
T Consensus        83 ~l~~ql~sqG~~i~~~a~~~l~v~i~~l~a~V~q~~~~y~i~t~v~i~I~v~~~ng~k~tK~y~~~~~~eG~lsa~  158 (192)
T PRK11627         83 VLEKQMTARGYMIGPNGAVNLQIIVNQLYADVSQGNVRYNIATKADISIIATAQNGNKMTKNYRASYNVEGAFQAS  158 (192)
T ss_pred             HHHHHHHHCCEEECCCCCCEEEEEHHHHCCCCCCCEEEEEECCEEEEEEEEECCCCCEEEEEEECCEECCCCCCCC
T ss_conf             9999998588171588762599996893160255504777524799999998378977778872322115677888


No 9  
>TIGR02299 HpaE 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; InterPro: IPR011985    This entry represents the dehydrogenase responsible for the conversion of 5-carboxymethyl-2-hydroxymuconate semialdehyde to 5-carboxymethyl-2-hydroxymuconate (a tricarboxylic acid). This is the step in the degradation of 4-hydroxyphenylacetic acid via homoprotocatechuate following the oxidative opening of the aromatic ring ..
Probab=48.56  E-value=4.9  Score=20.60  Aligned_cols=27  Identities=30%  Similarity=0.485  Sum_probs=21.4

Q ss_pred             CEEEEECCCCEEEEEEECCEEEEECCCCCCCEEEE
Q ss_conf             20257268981446860878998425777746654
Q gi|254780199|r   43 ITGYWEDDNGILSYFQKDGKFKTISTDGSSSVLAT   77 (160)
Q Consensus        43 VeG~W~D~NGivSsf~~~G~F~TrstDGTn~~LA~   77 (160)
                      |+|+|++..       ++++|++..+- +|++|++
T Consensus         5 I~Ge~v~~~-------~getF~~~~P~-~~e~L~~   31 (494)
T TIGR02299         5 IDGEFVPSE-------SGETFETLSPA-TNEVLAS   31 (494)
T ss_pred             CCCEEEECC-------CCCCCCCCCCC-CCCHHHH
T ss_conf             056454267-------78848888876-6202465


No 10 
>TIGR00673 cynS cyanate hydratase; InterPro: IPR008076   Cyanase, an enzyme found in bacteria and plants, catalyses the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide, allowing the host organisms to overcome the toxicity of environmental cyanate .    The cyanate lyase monomer is composed of two domains: an N-terminal domain that shows structural similarity to the DNA-binding alpha-helix bundle motif, and a C-terminal domain that has an 'open fold' that shows no structural similarity to other proteins .    The enzyme is active as a homodecamer of 17kDa subunits, and displays half-site binding of substrates or substrate analogues. The dimer structure reveals the C-terminal domains to be intertwined; the decamer is formed from a pentamer of these dimers. The active site of the enzyme is located between dimers and comprises residues from four adjacent subunits of the homodecamer.     Synonym(s): cyanase lyase, cyanase hydrolase ; GO: 0016836 hydro-lyase activity, 0008152 metabolic process.
Probab=45.83  E-value=8.2  Score=19.21  Aligned_cols=21  Identities=33%  Similarity=0.608  Sum_probs=16.5

Q ss_pred             EEECCCCCCCCHHHHHCCCCCCC
Q ss_conf             32107777860015437778888
Q gi|254780199|r  129 HLTELPSSKPQDDVAEIPEDPTT  151 (160)
Q Consensus       129 ~~~~~~~~~~~~~~~~~~~~~~~  151 (160)
                      .|+..|+.+|+++|  +|-||+-
T Consensus        74 eL~~aP~r~~~~pv--~PTDP~~   94 (156)
T TIGR00673        74 ELKDAPLREGLDPV--VPTDPLV   94 (156)
T ss_pred             HHHCCCCCCCCCCC--CCCCCHH
T ss_conf             65406666888898--9677606


No 11 
>pfam05055 DUF677 Protein of unknown function (DUF677). This family consists of AT14A like proteins from Arabidopsis thaliana. At14a has a small domain that has sequence similarities to integrins from fungi, insects and humans. Transcripts of At14a are found in all Arabidopsis tissues and localizes partly to the plasma membrane.
Probab=39.65  E-value=7.3  Score=19.52  Aligned_cols=35  Identities=26%  Similarity=0.418  Sum_probs=26.8

Q ss_pred             HHHHHHHHHHHCCCCCCCCCCCCCCCCCCCEEEEEC
Q ss_conf             999999876405777656653337676562025726
Q gi|254780199|r   14 PLVAAIAVVSCSALSVVVDSSELLPEPMDITGYWED   49 (160)
Q Consensus        14 ~Lv~alav~ac~~~~~~~~~~~~~P~P~gVeG~W~D   49 (160)
                      +|+.+ -+++|-++|++.+-+....-|-+.-|.|.+
T Consensus       194 Vli~s-vvaa~~a~p~~va~a~~~s~Pi~~~gkW~~  228 (336)
T pfam05055       194 VLVLS-VVAAAMGAPPVVGVAGALAVPLEAVGKWVG  228 (336)
T ss_pred             HHHHH-HHHHHCCCHHHHHHHHHHCCCCHHHHHHHH
T ss_conf             99999-999973754887668876166001788999


No 12 
>COG0033 Pgm Phosphoglucomutase [Carbohydrate transport and metabolism]
Probab=36.42  E-value=29  Score=15.83  Aligned_cols=33  Identities=15%  Similarity=0.189  Sum_probs=25.9

Q ss_pred             CCCCEEEEECCCCEEEEEEECCEEEEECCCCCCCE
Q ss_conf             65620257268981446860878998425777746
Q gi|254780199|r   40 PMDITGYWEDDNGILSYFQKDGKFKTISTDGSSSV   74 (160)
Q Consensus        40 P~gVeG~W~D~NGivSsf~~~G~F~TrstDGTn~~   74 (160)
                      -.-++|+=..-+|+-..|. +|+|+.|.+ ||+..
T Consensus       459 ~~~~~Gn~s~~~GLkV~~~-ng~fa~R~S-GT~~t  491 (524)
T COG0033         459 LTPAPGNGAAIGGLKVTTE-NGWFAARPS-GTEAT  491 (524)
T ss_pred             CCCCCCCHHHCCCEEEEEE-CCEEEEECC-CCCHH
T ss_conf             2579986010176699961-758998337-76413


No 13 
>PRK00022 lolB outer membrane lipoprotein LolB; Provisional
Probab=33.98  E-value=37  Score=15.21  Aligned_cols=99  Identities=14%  Similarity=0.240  Sum_probs=53.6

Q ss_pred             HHHHHHHHHCCCCCCCCCCCCCCCCCCCEEEEECCCC---EEEEEEECCEEEEECCCCCCCEEEEEEEEEECCCEEEEEE
Q ss_conf             9999876405777656653337676562025726898---1446860878998425777746654468851685799999
Q gi|254780199|r   16 VAAIAVVSCSALSVVVDSSELLPEPMDITGYWEDDNG---ILSYFQKDGKFKTISTDGSSSVLATGSYHVKINQDVEIKL   92 (160)
Q Consensus        16 v~alav~ac~~~~~~~~~~~~~P~P~gVeG~W~D~NG---ivSsf~~~G~F~TrstDGTn~~LA~GTY~~~~~~~VEIn~   92 (160)
                      .+++.+++|+++|+.-+....     ..+-.|--..-   .+..|.-.|+++-+..+ ... =|.=.... .+...+|++
T Consensus        10 ~~~llLsgCat~p~~~~~~~~-----~~~~~w~~~q~~l~~l~~w~~~Gkiav~~~~-~~~-sa~f~W~q-~~~~~~i~L   81 (203)
T PRK00022         10 LAALLLAGCASLPPPKGPGKS-----PTSPQWQQHQQQLQQIQQYQARGRFAYISPQ-QRV-SGRFDWQQ-QGDRYRLLL   81 (203)
T ss_pred             HHHHHHHHCCCCCCCCCCCCC-----CCCHHHHHHHHHHHHHHCEEEEEEEEEECCC-CEE-EEEEEEEE-CCCEEEEEE
T ss_conf             999998661489998887777-----5667499999999734234884689998788-547-89999997-598169999


Q ss_pred             EECCCCCCEEEEEEEECCCEEEEECCCCCEEEE
Q ss_conf             720038830589996063436676067987999
Q gi|254780199|r   93 TSLIRNTSGKIQCQFLDSNKLNCLAKDQKQFYL  125 (160)
Q Consensus        93 tSlvR~T~skVnC~L~spsQLnCTS~sG~QF~L  125 (160)
                      ++-+-.+...++-   ++....-...+|..++-
T Consensus        82 ~~pLG~~~~~i~~---~~~~~~L~~~~g~~~~a  111 (203)
T PRK00022         82 TSPLGSTELELTG---RPGGATLEDNNGQRYTA  111 (203)
T ss_pred             EECCCCEEEEEEE---CCCEEEEEECCCCEEEC
T ss_conf             8026654999998---79979999799988867


No 14 
>pfam06679 DUF1180 Protein of unknown function (DUF1180). This family consists of several hypothetical mammalian proteins of around 190 residues in length. The function of this family is unknown.
Probab=29.25  E-value=45  Score=14.73  Aligned_cols=44  Identities=18%  Similarity=0.101  Sum_probs=27.2

Q ss_pred             CCCCCCCCCCCCCCCC-CC---EEEEECCCCEEEEEEECCEEEEECCC
Q ss_conf             7776566533376765-62---02572689814468608789984257
Q gi|254780199|r   26 ALSVVVDSSELLPEPM-DI---TGYWEDDNGILSYFQKDGKFKTISTD   69 (160)
Q Consensus        26 ~~~~~~~~~~~~P~P~-gV---eG~W~D~NGivSsf~~~G~F~TrstD   69 (160)
                      ..|....+++..|-|. ++   -|.-.+.+|-.|+...+|..+|+.+-
T Consensus        39 ~~P~p~~~~~~pPgPtpa~pt~~~~~~~~~G~~ss~S~gg~Lat~~s~   86 (163)
T pfam06679        39 SQPGPETQPPLPPGPTPANPTALGSGDAAGGGGSSTSDGGALATRPSP   86 (163)
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECCCC
T ss_conf             998877788998989998753305554567888756668601423688


No 15 
>TIGR00104 TIGR00104 conserved hypothetical protein TIGR00104; InterPro: IPR001378 This domain had been observed is a number of proteins of archaea and bacterial origin. The function of this domain is unknown..
Probab=28.94  E-value=21  Score=16.72  Aligned_cols=15  Identities=27%  Similarity=0.388  Sum_probs=10.6

Q ss_pred             ECCEEEEECCCCCCC
Q ss_conf             087899842577774
Q gi|254780199|r   59 KDGKFKTISTDGSSS   73 (160)
Q Consensus        59 ~~G~F~TrstDGTn~   73 (160)
                      +-|.|+||++-==|=
T Consensus        87 ~~GVFaTRsp~RPNP  101 (152)
T TIGR00104        87 RRGVFATRSPHRPNP  101 (152)
T ss_pred             CCCEEECCCCCCCCC
T ss_conf             143441358787787


No 16 
>PRK12700 flgH flagellar basal body L-ring protein; Reviewed
Probab=28.18  E-value=39  Score=15.11  Aligned_cols=34  Identities=18%  Similarity=0.250  Sum_probs=14.4

Q ss_pred             CCEEEEHHHHHHHHHHHHHHHHCCCC--CCCCCCCCCC
Q ss_conf             50355125689999999876405777--6566533376
Q gi|254780199|r    3 ARCFLSLSFLFPLVAAIAVVSCSALS--VVVDSSELLP   38 (160)
Q Consensus         3 ar~~lsl~~~~~Lv~alav~ac~~~~--~~~~~~~~~P   38 (160)
                      -|.++-+.++..  ..+.++.|...+  |..+.+..+|
T Consensus         3 ~~t~~Rl~~~~~--~~~ll~GCa~~~~~p~~~~P~~a~   38 (230)
T PRK12700          3 LKTVLRLPVCAA--LLALAAGCAMIPPEPVVTGPLTAP   38 (230)
T ss_pred             HHHHHHHHHHHH--HHHHHHCCCCCCCCCCCCCCCCCC
T ss_conf             588999999999--999974446899998788988789


No 17 
>cd02858 Esterase_N_term Esterase N-terminal domain. Esterases catalyze the hydrolysis of organic esters to release an alcohol or thiol and acid. The term can be applied to enzymes that hydrolyze carboxylate, phosphate and sulphate esters, but is more often restricted to the first class of substrate. The N-terminus of esterase may be related to the immunoglobulin and/or fibronectin type III superfamilies.  These domains are associated with different types of catalytic domains at  either the N-terminal or C-terminal end and may be involved in homodimeric/tetrameric/dodecameric interactions.  Members of this family include members of the alpha amylase family, sialidase, galactose oxidase, cellulase, cellulose, hyaluronate lyase, chitobiase, and chitinase.
Probab=27.47  E-value=48  Score=14.54  Aligned_cols=42  Identities=21%  Similarity=0.419  Sum_probs=23.0

Q ss_pred             CCCCCC--CCEEEEECCCCEEEEEEECCEEEEECCCCCCCEEEEEEEEE
Q ss_conf             376765--62025726898144686087899842577774665446885
Q gi|254780199|r   36 LLPEPM--DITGYWEDDNGILSYFQKDGKFKTISTDGSSSVLATGSYHV   82 (160)
Q Consensus        36 ~~P~P~--gVeG~W~D~NGivSsf~~~G~F~TrstDGTn~~LA~GTY~~   82 (160)
                      .||.++  -|.|.|...+-..-.-..+|.++ .+++    -|+.|.|.|
T Consensus        13 ~AP~A~~V~V~g~~~~~~~~~MtK~~~GvWs-~t~~----pl~pg~y~Y   56 (85)
T cd02858          13 FAPKANEVQVRGSWGGAGSHPMTKDEAGVWS-VTTG----PLAPGIYTY   56 (85)
T ss_pred             ECCCCCEEEEEEECCCCCCCCCEECCCCEEE-EEEC----CCCCCEEEE
T ss_conf             8999979999815488843054588997599-9868----879824889


No 18 
>PRK10802 peptidoglycan-associated outer membrane lipoprotein; Provisional
Probab=26.07  E-value=34  Score=15.45  Aligned_cols=27  Identities=26%  Similarity=0.322  Sum_probs=15.9

Q ss_pred             CCCCEEEEHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             97503551256899999998764057776
Q gi|254780199|r    1 MQARCFLSLSFLFPLVAAIAVVSCSALSV   29 (160)
Q Consensus         1 ~~ar~~lsl~~~~~Lv~alav~ac~~~~~   29 (160)
                      |+..||+-.  +...++.+++++|++.+.
T Consensus         1 M~~nk~~K~--l~ia~~~l~LaACSS~~~   27 (173)
T PRK10802          1 MQLNKVLKG--LMIALPVMAIAACSSNKN   27 (173)
T ss_pred             CCHHHHHHH--HHHHHHHHHHHHCCCCCC
T ss_conf             960789999--999999999985579998


No 19 
>COG3017 LolB Outer membrane lipoprotein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]
Probab=25.22  E-value=53  Score=14.28  Aligned_cols=85  Identities=19%  Similarity=0.296  Sum_probs=49.3

Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCEEEEECCC----CEEEEEEECCEEEEECCCCCCCEEEEEEEEEEC
Q ss_conf             2568999999987640577765665333767656202572689----814468608789984257777466544688516
Q gi|254780199|r    9 LSFLFPLVAAIAVVSCSALSVVVDSSELLPEPMDITGYWEDDN----GILSYFQKDGKFKTISTDGSSSVLATGSYHVKI   84 (160)
Q Consensus         9 l~~~~~Lv~alav~ac~~~~~~~~~~~~~P~P~gVeG~W~D~N----GivSsf~~~G~F~TrstDGTn~~LA~GTY~~~~   84 (160)
                      +.+..+.++.+.+++|..+....-..    .|.  +-.|-...    -|-+|-+ -|+|+-++.+ - ..-+.=-..+. 
T Consensus         7 ~~~~l~~~As~LL~aC~~~~~~~~~~----~~~--~~~Wq~hq~~l~~i~~yq~-~G~~~yis~~-q-~~s~rF~Wqq~-   76 (206)
T COG3017           7 LLFLLLALASLLLTACTLTASRPPNN----SPD--SPQWQQHQQQLQEIQSYQA-RGRLAYISDQ-Q-RGSARFFWQQQ-   76 (206)
T ss_pred             HHHHHHHHHHHHHHHCCCCCCCCCCC----CCC--CHHHHHHHHHHHHHHHHHC-CCEEEEECCC-C-CCEEEEEEEEC-
T ss_conf             87899999999997565667778777----874--1667777889886465421-4237998677-6-53688999975-


Q ss_pred             CCEEEEEEEECCCCCCEEE
Q ss_conf             8579999972003883058
Q gi|254780199|r   85 NQDVEIKLTSLIRNTSGKI  103 (160)
Q Consensus        85 ~~~VEIn~tSlvR~T~skV  103 (160)
                      +....|++++.+-.|--.+
T Consensus        77 p~~y~L~Ls~pLg~t~l~L   95 (206)
T COG3017          77 PDRYRLLLSNPLGSTLLEL   95 (206)
T ss_pred             CCCEEEEEECCCCCCEEEE
T ss_conf             8847999815567612799


No 20 
>PRK00249 flgH flagellar basal body L-ring protein; Reviewed
Probab=24.57  E-value=54  Score=14.21  Aligned_cols=27  Identities=7%  Similarity=0.190  Sum_probs=18.6

Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf             256899999998764057776566533
Q gi|254780199|r    9 LSFLFPLVAAIAVVSCSALSVVVDSSE   35 (160)
Q Consensus         9 l~~~~~Lv~alav~ac~~~~~~~~~~~   35 (160)
                      +-+...|++.+.+++|...++....+.
T Consensus         4 ~~~~~~~~~~~~LsgCa~~~~~~~~p~   30 (231)
T PRK00249          4 MLIALALLLLLLLSGCASIPPKPLIPA   30 (231)
T ss_pred             HHHHHHHHHHHHHHHCCCCCCCCCCCC
T ss_conf             899999999999875348999888877


No 21 
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=24.50  E-value=55  Score=14.20  Aligned_cols=26  Identities=19%  Similarity=0.160  Sum_probs=20.3

Q ss_pred             EEEEECCCEEEEEEEECCCCCCEEEE
Q ss_conf             68851685799999720038830589
Q gi|254780199|r   79 SYHVKINQDVEIKLTSLIRNTSGKIQ  104 (160)
Q Consensus        79 TY~~~~~~~VEIn~tSlvR~T~skVn  104 (160)
                      |-...+++..|||+.||.-+..-.|.
T Consensus        63 tIrI~~pG~YeiNl~~Lld~~~iVva   88 (112)
T COG3364          63 TIRILRPGVYEINLESLLDRDEIVVA   88 (112)
T ss_pred             EEEEECCCEEEEEHHHHCCCCCEEEE
T ss_conf             89994496489744563067735999


No 22 
>pfam06085 Rz1 Lipoprotein Rz1 precursor. This family consists of several bacteria and phage lipoprotein Rz1 precursors. Rz1 is a proline-rich lipoprotein from bacteriophage lambda which is known to have fusogenic properties. Rz1-induced liposome fusion is thought to be mediated primarily by the generation of local perturbation in the bilayer lipid membrane and to a lesser extent by electrostatic forces.
Probab=24.26  E-value=55  Score=14.17  Aligned_cols=19  Identities=26%  Similarity=0.457  Sum_probs=14.3

Q ss_pred             HHHHHHHHHHHHHCCCCCC
Q ss_conf             8999999987640577765
Q gi|254780199|r   12 LFPLVAAIAVVSCSALSVV   30 (160)
Q Consensus        12 ~~~Lv~alav~ac~~~~~~   30 (160)
                      ++.|...|.|++|.+++++
T Consensus         8 l~~~m~~L~vsaC~S~p~v   26 (59)
T pfam06085         8 LCVMMLPLVVSACSSKPPV   26 (59)
T ss_pred             HHHHHHHHHHHHHCCCCCC
T ss_conf             9999989999982699986


No 23 
>TIGR01004 PulS_OutS lipoprotein, PulS/OutS family; InterPro: IPR005699    This family comprises lipoproteins from four gamma proteobacterial species: PulS protein of Klebsiella pneumoniae (P20440 from SWISSPROT), the OutS protein of Erwinia chrysanthemi (Q01567 from SWISSPROT) and Pectobacterium chrysanthemi, and the functionally uncharacterised E. coli protein EtpO. PulS and OutS have been shown to interact with and facilitate insertion of secretins into the outer membrane, suggesting a chaperone-like, or piloting function for members of this family.; GO: 0008565 protein transporter activity, 0006886 intracellular protein transport.
Probab=22.49  E-value=60  Score=13.96  Aligned_cols=32  Identities=19%  Similarity=0.453  Sum_probs=23.3

Q ss_pred             CEEE-EHHHHHHHHHHHHHHHHCCCCCCCCCCCC
Q ss_conf             0355-12568999999987640577765665333
Q gi|254780199|r    4 RCFL-SLSFLFPLVAAIAVVSCSALSVVVDSSEL   36 (160)
Q Consensus         4 r~~l-sl~~~~~Lv~alav~ac~~~~~~~~~~~~   36 (160)
                      +-|| .|.++++|+.-+.+++|+++.|+ ++.+.
T Consensus         3 ~n~lKkln~~~~~~~~v~lsgCqtPaPv-qn~~~   35 (136)
T TIGR01004         3 RNILKKLNVVLSLLVVVLLSGCQTPAPV-QNRAI   35 (136)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCCCCC-CCCCC
T ss_conf             1378999999999999986404789988-88755


No 24 
>pfam08194 DIM DIM protein. Drosophila immune-induced molecules (DIMs) are short proteins induced during the immune response of Drosophila. This family includes DIMs 1 to 4 that have masses below 5 kDa.
Probab=20.34  E-value=49  Score=14.48  Aligned_cols=24  Identities=33%  Similarity=0.383  Sum_probs=15.8

Q ss_pred             EEEEHHHHHHHHHHHHHHHHCCCC
Q ss_conf             355125689999999876405777
Q gi|254780199|r    5 CFLSLSFLFPLVAAIAVVSCSALS   28 (160)
Q Consensus         5 ~~lsl~~~~~Lv~alav~ac~~~~   28 (160)
                      |+||+.|+.-|.+.+|.+.--.+|
T Consensus         2 K~lsl~~~l~LLa~La~a~pl~pG   25 (37)
T pfam08194         2 KFLSLAFALGLLATLAFAVPLNPG   25 (37)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCC
T ss_conf             089999999999999972579997


Done!