Query         gi|254780443|ref|YP_003064856.1| hypothetical protein CLIBASIA_01640 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 141
No_of_seqs    100 out of 102
Neff          5.4 
Searched_HMMs 39220
Date          Sun May 29 19:07:00 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780443.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 pfam06282 DUF1036 Protein of u 100.0       0       0  311.6  13.2  115   20-135     1-115 (115)
  2 COG5480 Predicted integral mem 100.0 4.3E-43       0  272.9   9.5  119   18-137    28-146 (147)
  3 PRK01742 tolB translocation pr  78.7     2.9 7.3E-05   21.8   3.7   66    1-75      3-70  (430)
  4 PRK02889 tolB translocation pr  73.4     6.3 0.00016   19.8   4.3  117    1-127     4-126 (430)
  5 PRK11528 hypothetical protein;  72.4       8  0.0002   19.2   6.1   81    1-100     1-81  (254)
  6 pfam10697 DUF2502 Protein of u  71.7     2.1 5.2E-05   22.7   1.4   47    9-59      3-56  (96)
  7 PRK04792 tolB translocation pr  68.3     7.6 0.00019   19.3   3.7   67    1-75      1-69  (450)
  8 PRK11408 hypothetical protein;  51.8      20  0.0005   16.9   4.4   40   26-67     45-84  (219)
  9 TIGR03431 PhnD phosphonate ABC  49.5      18 0.00045   17.2   2.9   23    1-24      1-23  (288)
 10 KOG1113 consensus               48.0      20 0.00051   16.9   3.0   70   49-126   162-231 (368)
 11 CHL00132 psaF photosystem I su  45.8      17 0.00044   17.2   2.4   33    1-33      1-37  (185)
 12 pfam06650 DUF1162 Protein of u  45.3      25 0.00063   16.3  10.8   99   24-138   119-219 (268)
 13 pfam10946 DUF2625 Protein of u  45.3      25 0.00063   16.3   4.3   40   26-67     42-81  (208)
 14 PRK09926 putative chaperone pr  41.4      18 0.00047   17.1   2.0   79    4-83      5-120 (245)
 15 PRK05137 tolB translocation pr  41.2      27  0.0007   16.1   2.9   64    7-75      8-73  (437)
 16 PRK01029 tolB translocation pr  40.7      29 0.00075   15.9   3.8   40    1-40      1-44  (425)
 17 smart00205 THN Thaumatin famil  38.7      26 0.00065   16.2   2.4   38   25-64      1-38  (218)
 18 PRK03757 hypothetical protein;  38.5      32 0.00081   15.7   3.0   59    1-60      1-65  (191)
 19 pfam11730 DUF3297 Protein of u  37.1      15 0.00037   17.7   0.9   16   47-62     37-52  (71)
 20 TIGR02538 type_IV_pilB type IV  36.3      15 0.00038   17.6   0.9   38   23-64    462-507 (577)
 21 PRK13874 conjugal transfer pro  34.8      29 0.00075   15.9   2.2   24   10-33     14-37  (233)
 22 PRK12789 flgI flagellar basal   31.1      41   0.001   15.1   2.4   40    1-41      1-42  (367)
 23 COG5664 Predicted secreted Zn-  29.3      43  0.0011   14.9   2.3   29    1-29      4-32  (201)
 24 PHA02099 hypothetical protein   27.2      41  0.0011   15.0   1.9   31   55-85     27-57  (84)
 25 cd01776 Rin1_RA Rin1_RA   RIN1  26.6      28 0.00072   16.0   1.0   31   48-78     50-85  (87)
 26 PRK13697 cytochrome c6; Provis  25.3      44  0.0011   14.9   1.7   19    5-24      8-26  (111)
 27 TIGR01855 IMP_synth_hisH imida  24.1      43  0.0011   14.9   1.5   49   50-101   126-179 (211)
 28 PRK04922 tolB translocation pr  22.5      61  0.0015   14.0   4.1   66    4-75      6-73  (439)
 29 PRK10894 hypothetical protein;  21.9      54  0.0014   14.4   1.7   50    8-60     12-71  (184)
 30 pfam07172 GRP Glycine rich pro  21.8      28 0.00073   16.0   0.2   25   12-36     15-41  (91)
 31 COG4991 Uncharacterized protei  20.9      49  0.0013   14.6   1.3   29    1-29     10-38  (155)
 32 COG0118 HisH Glutamine amidotr  20.1      65  0.0017   13.8   1.8   34   47-80    116-150 (204)

No 1  
>pfam06282 DUF1036 Protein of unknown function (DUF1036). This family consists of several hypothetical bacterial proteins of unknown function.
Probab=100.00  E-value=0  Score=311.65  Aligned_cols=115  Identities=54%  Similarity=1.131  Sum_probs=112.6

Q ss_pred             CCCCCEEEECCCCCEEEEEEEEECCCCCEEEEEEEEECCCCEEEECCCCCCCCEEEEEEEECCCCCCCCCCEEEEECCCC
Q ss_conf             35472298318998489999997488857875468857887037405676674799999953887120575013650753
Q gi|254780443|r   20 VSFAGFRVCNGTKNLIGVAVGYPAVKGGWMTEGWWQIPGNTCETVVKGALHSRYYYLYAEGVSHSEHWAGNVQMCVGQDE   99 (141)
Q Consensus        20 ~A~A~~~vCN~T~~~v~vAigy~~~~~~W~seGWw~i~pg~C~~vl~g~l~~r~yY~yAe~~~~~~~w~G~~~~Cv~~~~   99 (141)
                      ||+|||+|||+|+++|+|||||+++ ++|+|||||+|+||+|++||+++|+++|||+|||+.+++.+|+|+++|||++++
T Consensus         1 pA~A~l~~CN~T~~~v~vAig~~~~-~~w~s~GWw~i~pg~C~~~l~g~l~~r~yY~yAe~~~g~~~w~G~~~fCv~~~~   79 (115)
T pfam06282         1 PAHAGLRVCNDTQNVVGVAIGYKDG-EGWTSEGWWTIDPGKCETLIEGPLKSRYYYLYAEDADGGGRWGGDIQFCVREDE   79 (115)
T ss_pred             CCCCCCEEECCCCCEEEEEEEEECC-CCEEEEEEEEECCCCCEEECCCCCCCCEEEEEEEECCCCCEECCCEEEEECCCC
T ss_conf             9867868730899837999999659-961870338808985406456876641799999956998510797757565873


Q ss_pred             EEEECCCCHHHCCCCCCCCEEEEECCCCEEEEEEEC
Q ss_conf             255253101227840028288760797517899707
Q gi|254780443|r  100 FNIVDIKNCYTRGYLRVGFTEYDTGQHENWTVQLTE  135 (141)
Q Consensus       100 F~i~g~~dC~~RG~~~~~F~evDtg~~~~wTv~Lt~  135 (141)
                      |+|.|++||.+|||++++|+||||+++++||+||||
T Consensus        80 F~i~g~~dC~~RG~~~~~F~~vDt~~~~~wT~~Lt~  115 (115)
T pfam06282        80 FTIVGVEDCLARGYDRAGFFEVDTGEQKSWTVQLTE  115 (115)
T ss_pred             EEECCCCCHHHCCCCCCCCEEEECCCCCCCEEECCC
T ss_conf             766284152245956138799853898604598359


No 2  
>COG5480 Predicted integral membrane protein [Function unknown]
Probab=100.00  E-value=4.3e-43  Score=272.89  Aligned_cols=119  Identities=48%  Similarity=1.090  Sum_probs=114.3

Q ss_pred             CCCCCCCEEEECCCCCEEEEEEEEECCCCCEEEEEEEEECCCCEEEECCCCCCCCEEEEEEEECCCCCCCCCCEEEEECC
Q ss_conf             68354722983189984899999974888578754688578870374056766747999999538871205750136507
Q gi|254780443|r   18 SNVSFAGFRVCNGTKNLIGVAVGYPAVKGGWMTEGWWQIPGNTCETVVKGALHSRYYYLYAEGVSHSEHWAGNVQMCVGQ   97 (141)
Q Consensus        18 ~~~A~A~~~vCN~T~~~v~vAigy~~~~~~W~seGWw~i~pg~C~~vl~g~l~~r~yY~yAe~~~~~~~w~G~~~~Cv~~   97 (141)
                      ..+|||+||+||.|...|++||||+.. .+|+|||||.|+|++|.++++++|.+||||+|||+..++++|.|++.|||.+
T Consensus        28 a~sa~adfrvCN~t~~~v~vAiGyr~~-ngwvtEGWW~v~~~~Cv~~ie~~lt~ry~ylyA~d~~~~a~~~Gsi~mCv~~  106 (147)
T COG5480          28 APSAHADFRVCNYTQTLVGVAIGYRAK-NGWVTEGWWVVEASECVTLIEGELTSRYYYLYAEDAKGGARWAGSINMCVAE  106 (147)
T ss_pred             CCCCCCCEEECHHHHHHHHEEEEEECC-CCCEECCEEEECCCEEEEEECCCCEEEEEEEECCCHHCCCEECCCEEEEEEC
T ss_conf             578210026500032122114423448-8864454499559615887401000147767715511075762746478860


Q ss_pred             CCEEEECCCCHHHCCCCCCCCEEEEECCCCEEEEEEECCC
Q ss_conf             5325525310122784002828876079751789970765
Q gi|254780443|r   98 DEFNIVDIKNCYTRGYLRVGFTEYDTGQHENWTVQLTEPA  137 (141)
Q Consensus        98 ~~F~i~g~~dC~~RG~~~~~F~evDtg~~~~wTv~Lt~p~  137 (141)
                      ++|+|.|.+||.+||+++.||.|+||++|.+|+++||+..
T Consensus       107 ~rF~I~gv~Dc~arg~~a~gf~e~dt~~q~sw~v~ls~~p  146 (147)
T COG5480         107 DRFKIFGVQDCFARGFQAAGFNEYDTGEQASWMVQLSDSP  146 (147)
T ss_pred             CEEEEECCHHHHHHHHHHCCCEEECCCCCCEEEEEECCCC
T ss_conf             4568963278888887734761320477824999955889


No 3  
>PRK01742 tolB translocation protein TolB; Provisional
Probab=78.73  E-value=2.9  Score=21.80  Aligned_cols=66  Identities=12%  Similarity=0.177  Sum_probs=44.2

Q ss_pred             CHHHHHHHHHHHHHHHCCCCCCCCEEEE--CCCCCEEEEEEEEECCCCCEEEEEEEEECCCCEEEECCCCCCCCEEE
Q ss_conf             9578999999999974368354722983--18998489999997488857875468857887037405676674799
Q gi|254780443|r    1 MLRSFLICFCFGAMIFCSNVSFAGFRVC--NGTKNLIGVAVGYPAVKGGWMTEGWWQIPGNTCETVVKGALHSRYYY   75 (141)
Q Consensus         1 ~l~~~l~~~~~~~~~~~~~~A~A~~~vC--N~T~~~v~vAigy~~~~~~W~seGWw~i~pg~C~~vl~g~l~~r~yY   75 (141)
                      |++.+++++++.+.++.+..|+|.|+|=  -....++-+||.=-..++.         .|.+...||..+|...=.|
T Consensus         3 m~~~~~~~~~~l~~~~~~~~a~a~L~I~It~G~~~~~pIAi~pF~~~~~---------~~~~i~~vI~~DL~~SG~F   70 (430)
T PRK01742          3 LLKRLVSVFAVLFAVISNAFAGDEVRIVIDEGVDGARPIAVVPFKWNGS---------APEDIAKIIAADLRNSGKF   70 (430)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCEEEECCCCCCC---------CHHHHHHHHHHHHHCCCCC
T ss_conf             6999999999999998778505755999945767740459925367897---------6678999998777608472


No 4  
>PRK02889 tolB translocation protein TolB; Provisional
Probab=73.37  E-value=6.3  Score=19.80  Aligned_cols=117  Identities=15%  Similarity=0.131  Sum_probs=58.7

Q ss_pred             CHHHHHHHHHHHHHHHCCCCCCCCE--EEECCCCCEEEEEEEEECCCCCEEEEEEEEECCCCEEEECCCCCCCCEEEEEE
Q ss_conf             9578999999999974368354722--98318998489999997488857875468857887037405676674799999
Q gi|254780443|r    1 MLRSFLICFCFGAMIFCSNVSFAGF--RVCNGTKNLIGVAVGYPAVKGGWMTEGWWQIPGNTCETVVKGALHSRYYYLYA   78 (141)
Q Consensus         1 ~l~~~l~~~~~~~~~~~~~~A~A~~--~vCN~T~~~v~vAigy~~~~~~W~seGWw~i~pg~C~~vl~g~l~~r~yY~yA   78 (141)
                      |++..+.+++..++++++.+|||.|  +|--....++-+||.=-.++++         .|.+-..+|..+|...-.|- .
T Consensus         4 ~~~l~~~~~~~~~l~~~~~~A~A~L~IeIt~g~~~~~pIAV~pF~~~~~---------~~~~i~~II~~DL~~SG~F~-~   73 (430)
T PRK02889          4 MTKLGLRALVASCLIAAGGAAHAQLNVEITGVGATQFPIATANFANEAG---------LPQQVTSIVRADLARSGKFS-N   73 (430)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCEEEEEEECCCCCCC---------CHHHHHHHHHHHHHHCCCCE-E
T ss_conf             9989999999999986210202789999935788707279906578887---------50679999998887288840-0


Q ss_pred             EECCCCC-CCCCCEEE---EECCCCEEEECCCCHHHCCCCCCCCEEEEECCCC
Q ss_conf             9538871-20575013---6507532552531012278400282887607975
Q gi|254780443|r   79 EGVSHSE-HWAGNVQM---CVGQDEFNIVDIKNCYTRGYLRVGFTEYDTGQHE  127 (141)
Q Consensus        79 e~~~~~~-~w~G~~~~---Cv~~~~F~i~g~~dC~~RG~~~~~F~evDtg~~~  127 (141)
                      .+..... .-..+..|   =.-..++-+.|.=.=..-|--.+.|+-+|+-.++
T Consensus        74 l~~~~~~~~~~~~i~f~~W~~lgad~lv~G~v~~~~~g~~~v~~~L~Dv~~~~  126 (430)
T PRK02889         74 VDAGGAPVPETASVDLGAWKAKGADAFVAGSVNREPNGQYEVRFRLYDTVKQQ  126 (430)
T ss_pred             CCCCCCCCCCCCCCCHHHHHHCCCCEEEEEEEEECCCCCEEEEEEEEECCCCC
T ss_conf             58434789987886868988608989999999977898489999999746661


No 5  
>PRK11528 hypothetical protein; Provisional
Probab=72.36  E-value=8  Score=19.19  Aligned_cols=81  Identities=17%  Similarity=0.304  Sum_probs=43.4

Q ss_pred             CHHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCEEEEEEEEECCCCCEEEEEEEEECCCCEEEECCCCCCCCEEEEEEEE
Q ss_conf             95789999999999743683547229831899848999999748885787546885788703740567667479999995
Q gi|254780443|r    1 MLRSFLICFCFGAMIFCSNVSFAGFRVCNGTKNLIGVAVGYPAVKGGWMTEGWWQIPGNTCETVVKGALHSRYYYLYAEG   80 (141)
Q Consensus         1 ~l~~~l~~~~~~~~~~~~~~A~A~~~vCN~T~~~v~vAigy~~~~~~W~seGWw~i~pg~C~~vl~g~l~~r~yY~yAe~   80 (141)
                      |.+.+| ++.+.+.+..+.||||+++-     .--.|.+.|.|    |.++        .-..--...-++++-|+-.|.
T Consensus         1 m~K~ll-~ls~~~~~~~~~~a~ae~~~-----gfa~is~nylD----Ws~~--------t~~~~g~~~~k~DF~YleleG   62 (254)
T PRK11528          1 MRKSLL-ALSLLATLALAAPAQAEYKG-----GFANISLNYLD----WTSR--------TTEKSGDKSHKDDFGYLELEG   62 (254)
T ss_pred             CCHHHH-HHHHHHHHCCCCCCCHHHHC-----CEEEEECCEEE----CCCC--------CCCCCCCCCCCCCCEEEEEEC
T ss_conf             941245-68999873156642045525-----53100113232----2688--------610367554346623588723


Q ss_pred             CCCCCCCCCCEEEEECCCCE
Q ss_conf             38871205750136507532
Q gi|254780443|r   81 VSHSEHWAGNVQMCVGQDEF  100 (141)
Q Consensus        81 ~~~~~~w~G~~~~Cv~~~~F  100 (141)
                       +.+--|+.=+.|---++.+
T Consensus        63 -Gagf~wGElYgF~dlEn~~   81 (254)
T PRK11528         63 -GAGFSWGELYGFFDLENPY   81 (254)
T ss_pred             -CCCCCHHHHEEEEEEECCC
T ss_conf             -5687611305786643567


No 6  
>pfam10697 DUF2502 Protein of unknown function (DUF2502). Members of this family are all Gammaproteobacteria. The function is not known.
Probab=71.71  E-value=2.1  Score=22.66  Aligned_cols=47  Identities=15%  Similarity=0.336  Sum_probs=30.1

Q ss_pred             HHHHHHHHCCCCCCCC-EEEECCCCCEEEEEEEEECC------CCCEEEEEEEEECCC
Q ss_conf             9999997436835472-29831899848999999748------885787546885788
Q gi|254780443|r    9 FCFGAMIFCSNVSFAG-FRVCNGTKNLIGVAVGYPAV------KGGWMTEGWWQIPGN   59 (141)
Q Consensus         9 ~~~~~~~~~~~~A~A~-~~vCN~T~~~v~vAigy~~~------~~~W~seGWw~i~pg   59 (141)
                      +++++++++|.+|+|+ ++|    ---|++-||-+|.      ...|....||+-.-|
T Consensus         3 L~~sl~~~~Pl~a~a~~I~l----~Pgv~l~iGdrD~rG~YWDG~~WRd~~wW~~h~g   56 (96)
T pfam10697         3 LAASLLAVAPLAAQAGSITL----LPGVSLQIGDRDNRGNYWDGYDWRDRDWWQRHNR   56 (96)
T ss_pred             HHHHHHHHHHHHCCCCCEEE----CCCEEEEECCCCCCCCCCCCCCCCCCHHHHHCCC
T ss_conf             78999866254416551686----4743787235567765566875468177885778


No 7  
>PRK04792 tolB translocation protein TolB; Provisional
Probab=68.33  E-value=7.6  Score=19.35  Aligned_cols=67  Identities=19%  Similarity=0.289  Sum_probs=38.1

Q ss_pred             CHHHHHHHHHHHHHHHCCCCCCCCE--EEECCCCCEEEEEEEEECCCCCEEEEEEEEECCCCEEEECCCCCCCCEEE
Q ss_conf             9578999999999974368354722--98318998489999997488857875468857887037405676674799
Q gi|254780443|r    1 MLRSFLICFCFGAMIFCSNVSFAGF--RVCNGTKNLIGVAVGYPAVKGGWMTEGWWQIPGNTCETVVKGALHSRYYY   75 (141)
Q Consensus         1 ~l~~~l~~~~~~~~~~~~~~A~A~~--~vCN~T~~~v~vAigy~~~~~~W~seGWw~i~pg~C~~vl~g~l~~r~yY   75 (141)
                      ||+.+++.+++.+++| +..|+|.|  +|-.....++-+||.=-.    |..++   -.|.+...||..+|...=.|
T Consensus         1 M~k~~~~~l~lll~~~-s~~A~A~L~IeIt~G~~~~~PIAV~pF~----~~g~~---~~~~~i~~II~~DL~rSG~F   69 (450)
T PRK04792          1 MLKRLILGLFVLLLSF-SQVANAALELVITDGIDSARPIAIVPFK----WEGEG---KLPTDISAVIASDLQRSGKF   69 (450)
T ss_pred             CCHHHHHHHHHHHHHH-HHHHEEEEEEEEECCCCCCCCEEEECCC----CCCCC---CHHHHHHHHHHHHHHHCCCC
T ss_conf             9389999999999986-5752024999995477774254993754----56874---32579999999887608785


No 8  
>PRK11408 hypothetical protein; Provisional
Probab=51.77  E-value=20  Score=16.92  Aligned_cols=40  Identities=28%  Similarity=0.488  Sum_probs=31.3

Q ss_pred             EEECCCCCEEEEEEEEECCCCCEEEEEEEEECCCCEEEECCC
Q ss_conf             983189984899999974888578754688578870374056
Q gi|254780443|r   26 RVCNGTKNLIGVAVGYPAVKGGWMTEGWWQIPGNTCETVVKG   67 (141)
Q Consensus        26 ~vCN~T~~~v~vAigy~~~~~~W~seGWw~i~pg~C~~vl~g   67 (141)
                      ++==.|.++++ ||.|-.+ +..+-.||-||--..|..+.++
T Consensus        45 ~lQVtTrS~lG-Aivy~tG-GiLID~GWlRilGSG~~~LpRg   84 (219)
T PRK11408         45 GLQVSTRSPMG-AIVYETG-GILIDYGWLRILGSGNEKLPRG   84 (219)
T ss_pred             HHCCCCCCCCE-EEEECCC-CEEEECCEEEEECCCCCCCCCC
T ss_conf             73444457540-3565158-5898788899965898567786


No 9  
>TIGR03431 PhnD phosphonate ABC transporter, periplasmic phosphonate binding protein. Note that this model does not identify all phnD-subfamily genes with evident phosphonate context, but all sequences above the trusted context may be inferred to bind phosphonate compounds even in the absence of such context. Furthermore, there is ample evidence to suggest that many other members of the TIGR01098 subfamily have a different primary function.
Probab=49.53  E-value=18  Score=17.18  Aligned_cols=23  Identities=26%  Similarity=0.400  Sum_probs=14.7

Q ss_pred             CHHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             957899999999997436835472
Q gi|254780443|r    1 MLRSFLICFCFGAMIFCSNVSFAG   24 (141)
Q Consensus         1 ~l~~~l~~~~~~~~~~~~~~A~A~   24 (141)
                      |++++|+++++.+++. +.+|+|.
T Consensus         1 m~~r~l~~~~~~~~~~-~~~a~a~   23 (288)
T TIGR03431         1 MLRRLILSLVAAFMLI-SSNAQAE   23 (288)
T ss_pred             CCHHHHHHHHHHHHHH-CCHHHHC
T ss_conf             9088999999999997-4322430


No 10 
>KOG1113 consensus
Probab=47.96  E-value=20  Score=16.88  Aligned_cols=70  Identities=16%  Similarity=0.131  Sum_probs=54.3

Q ss_pred             EEEEEEEECCCCEEEECCCCCCCCEEEEEEEECCCCCCCCCCEEEEECCCCEEEECCCCHHHCCCCCCCCEEEEECCC
Q ss_conf             875468857887037405676674799999953887120575013650753255253101227840028288760797
Q gi|254780443|r   49 MTEGWWQIPGNTCETVVKGALHSRYYYLYAEGVSHSEHWAGNVQMCVGQDEFNIVDIKNCYTRGYLRVGFTEYDTGQH  126 (141)
Q Consensus        49 ~seGWw~i~pg~C~~vl~g~l~~r~yY~yAe~~~~~~~w~G~~~~Cv~~~~F~i~g~~dC~~RG~~~~~F~evDtg~~  126 (141)
                      ..---+-|+.|+|.....+.        |...++.|+..+.=.-|.-.+..+|+....+|..=|+++..|++|=+++.
T Consensus       162 eGd~fYvI~kGt~dVyv~~~--------~v~~~~~g~sFGElALmyn~PRaATv~a~t~~klWgldr~SFrrIi~~s~  231 (368)
T KOG1113         162 EGDNFYVIDKGTFDVYVNGT--------YVTTYSPGGSFGELALMYNPPRAATVVAKSLKKLWGLDRTSFRRIIMKSC  231 (368)
T ss_pred             CCCCEEEEECCEEEEEECCE--------EEEECCCCCCHHHHHHHHCCCCCCCEEECCCCCEEEEEECEEEEEEECCC
T ss_conf             67717999535489997772--------76521798635564765189766522203666168985030678862010


No 11 
>CHL00132 psaF photosystem I subunit III; Validated
Probab=45.76  E-value=17  Score=17.24  Aligned_cols=33  Identities=21%  Similarity=0.354  Sum_probs=18.3

Q ss_pred             CHHHHHHH-HHHHHHHHCCCCCCC---CEEEECCCCC
Q ss_conf             95789999-999999743683547---2298318998
Q gi|254780443|r    1 MLRSFLIC-FCFGAMIFCSNVSFA---GFRVCNGTKN   33 (141)
Q Consensus         1 ~l~~~l~~-~~~~~~~~~~~~A~A---~~~vCN~T~~   33 (141)
                      |.|.+.+. +++..+.|.|.+|.|   +|+=|.+...
T Consensus         1 Mrr~~a~~l~~~l~~~~ap~~a~AdvagLtPCseS~a   37 (185)
T CHL00132          1 MKKFNLIFLLAALLLTLNPNIALADVAGLTPCKESAA   37 (185)
T ss_pred             CHHHHHHHHHHHHHHHCCCCHHHCCCCCCCCCCCCHH
T ss_conf             9069999999999993686221101138860756999


No 12 
>pfam06650 DUF1162 Protein of unknown function (DUF1162). This family represents a conserved region within several hypothetical eukaryotic proteins. Family members might be vacuolar protein sorting related-proteins.
Probab=45.35  E-value=25  Score=16.32  Aligned_cols=99  Identities=5%  Similarity=0.048  Sum_probs=54.6

Q ss_pred             CEEEECCCCCEEEEEEEEECCCCCEEEEEEEEECCCCEEEECCCC-CCCCEEEEEEEECCCCCCCCCCEEEEECCCCEEE
Q ss_conf             229831899848999999748885787546885788703740567-6674799999953887120575013650753255
Q gi|254780443|r   24 GFRVCNGTKNLIGVAVGYPAVKGGWMTEGWWQIPGNTCETVVKGA-LHSRYYYLYAEGVSHSEHWAGNVQMCVGQDEFNI  102 (141)
Q Consensus        24 ~~~vCN~T~~~v~vAigy~~~~~~W~seGWw~i~pg~C~~vl~g~-l~~r~yY~yAe~~~~~~~w~G~~~~Cv~~~~F~i  102 (141)
                      -|-|.|+++..+.+.=-   +     +.+|..|+||+|...-... ...+...+.-  .+....|+|...+..- ..+.+
T Consensus       119 ryil~N~~~~~l~v~q~---~-----~~~~~~l~~~~~~pf~~~~~~~~k~l~vr~--~~~~~~WS~~F~i~~~-g~~~~  187 (268)
T pfam06650       119 RYILINKLSEDLEIREP---G-----SSKWISLKPGELIPLHWLRNTKEKQLCVRF--PGPNCKWSSPFNISDV-GTTYV  187 (268)
T ss_pred             EEEEEECCCCCEEEEEC---C-----CCCEEEECCCCEEECCCCCCCCCEEEEEEE--CCCCCCCCCCEEEEEC-CEEEE
T ss_conf             18999579987899976---8-----888499789980530577888776999994--8988767599836364-44999


Q ss_pred             ECCCCHHHCCCCCCCCEEEEEC-CCCEEEEEEECCCC
Q ss_conf             2531012278400282887607-97517899707653
Q gi|254780443|r  103 VDIKNCYTRGYLRVGFTEYDTG-QHENWTVQLTEPAQ  138 (141)
Q Consensus       103 ~g~~dC~~RG~~~~~F~evDtg-~~~~wTv~Lt~p~~  138 (141)
                      .=..     .-...+|.+||+- +..+..+.+++..+
T Consensus       188 ~l~~-----~~~~~~~i~vdI~~~~~t~~I~fs~~~~  219 (268)
T pfam06650       188 KLLD-----ENSRQGLLRVEIILEGATIFITFSDATD  219 (268)
T ss_pred             EECC-----CCCCEEEEEEEEEECCCEEEEEEECCCC
T ss_conf             9835-----8983579999999558759999986888


No 13 
>pfam10946 DUF2625 Protein of unknown function DUF2625. Some members in this family of proteins are annotated as ybfG however currently no function is known.
Probab=45.29  E-value=25  Score=16.32  Aligned_cols=40  Identities=30%  Similarity=0.501  Sum_probs=31.1

Q ss_pred             EEECCCCCEEEEEEEEECCCCCEEEEEEEEECCCCEEEECCC
Q ss_conf             983189984899999974888578754688578870374056
Q gi|254780443|r   26 RVCNGTKNLIGVAVGYPAVKGGWMTEGWWQIPGNTCETVVKG   67 (141)
Q Consensus        26 ~vCN~T~~~v~vAigy~~~~~~W~seGWw~i~pg~C~~vl~g   67 (141)
                      ++==.|.++++ ||.|..+ +..+-.||-||--..|..+.++
T Consensus        42 ~lQVtTrS~lG-Avvy~tG-GiLID~GWlRilGSG~~~l~r~   81 (208)
T pfam10946        42 ALQVTTRSPLG-AVVYETG-GILIDGGWLRILGSGHERLPRG   81 (208)
T ss_pred             HHCCCCCCCCE-EEEECCC-CEEEECCEEEEECCCCCCCCCC
T ss_conf             73544457540-3665158-5898788899966898667887


No 14 
>PRK09926 putative chaperone protein EcpD; Provisional
Probab=41.41  E-value=18  Score=17.07  Aligned_cols=79  Identities=16%  Similarity=0.330  Sum_probs=41.7

Q ss_pred             HHHHHHHHHHHHHCCCCCCCCEEE------ECCCCCEEEEEEEEECCCCCEEEEEE-----------------------E
Q ss_conf             899999999997436835472298------31899848999999748885787546-----------------------8
Q gi|254780443|r    4 SFLICFCFGAMIFCSNVSFAGFRV------CNGTKNLIGVAVGYPAVKGGWMTEGW-----------------------W   54 (141)
Q Consensus         4 ~~l~~~~~~~~~~~~~~A~A~~~v------CN~T~~~v~vAigy~~~~~~W~seGW-----------------------w   54 (141)
                      .++.++++.++++.++.|+|++.+      =|.-...+.+.|.=.+ +..+..+-|                       .
T Consensus         5 ~~~~~l~~~~~~~~s~~a~Agi~l~~TRvIy~~~~~~~si~l~N~~-~~pyLvQsWvd~~~~~~~p~~~~~PFivtPPlf   83 (245)
T PRK09926          5 KHTTALCFATCMAFSSSSIADIVISGTRIIYKSDQKDVNVRLENKG-NNPLLVQSWLDTGDDNAEPGSIKVPFTATPPVS   83 (245)
T ss_pred             HHHHHHHHHHHHHHHHHCEEEEEECCCEEEECCCCCEEEEEEEECC-CCCEEEEEEEECCCCCCCCCCCCCCEEECCCEE
T ss_conf             7799999999999876403778978778998599947899999598-994899999977988888431357668638337


Q ss_pred             EECCCCEEEE--C-CC--CCC-CC--EEEEEEEECCC
Q ss_conf             8578870374--0-56--766-74--79999995388
Q gi|254780443|r   55 QIPGNTCETV--V-KG--ALH-SR--YYYLYAEGVSH   83 (141)
Q Consensus        55 ~i~pg~C~~v--l-~g--~l~-~r--~yY~yAe~~~~   83 (141)
                      +++|++-.++  + .+  .|. .|  .||+...+...
T Consensus        84 Rlep~~~~~lRI~~~~~~~LP~DRESlf~lnv~~IPp  120 (245)
T PRK09926         84 RIDPKRGQTIKLMYTASTALPKDRESVFWFNVLEVPP  120 (245)
T ss_pred             EECCCCCCEEEEEECCCCCCCCCEEEEEEEEEEECCC
T ss_conf             8889986379999768988985504799999676578


No 15 
>PRK05137 tolB translocation protein TolB; Provisional
Probab=41.25  E-value=27  Score=16.06  Aligned_cols=64  Identities=9%  Similarity=0.114  Sum_probs=33.3

Q ss_pred             HHHHHHHHHHCCCCCCCCE--EEECCCCCEEEEEEEEECCCCCEEEEEEEEECCCCEEEECCCCCCCCEEE
Q ss_conf             9999999974368354722--98318998489999997488857875468857887037405676674799
Q gi|254780443|r    7 ICFCFGAMIFCSNVSFAGF--RVCNGTKNLIGVAVGYPAVKGGWMTEGWWQIPGNTCETVVKGALHSRYYY   75 (141)
Q Consensus         7 ~~~~~~~~~~~~~~A~A~~--~vCN~T~~~v~vAigy~~~~~~W~seGWw~i~pg~C~~vl~g~l~~r~yY   75 (141)
                      +++.+.++++++.+|+|.+  +|=--...++-+||.--..+  +..++   .-+.+...+|..+|...=+|
T Consensus         8 ~~l~l~l~l~~~~~A~A~L~IeIt~g~~~~ipIAV~pF~~~--~~~~~---~l~~~i~~II~~DL~~SG~F   73 (437)
T PRK05137          8 LALALALALLAAQPARALLRIDITKGNVEPLPIAIPDFLAD--TGGAD---ELGADIAQVIAADLKRSGLF   73 (437)
T ss_pred             HHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCEEEECCCCC--CCCCC---HHHHHHHHHHHHHHHHCCCC
T ss_conf             99999999873121431399999467677335799366578--87641---35688999999778638895


No 16 
>PRK01029 tolB translocation protein TolB; Provisional
Probab=40.71  E-value=29  Score=15.90  Aligned_cols=40  Identities=20%  Similarity=0.208  Sum_probs=18.8

Q ss_pred             CHHHHH-HHHHHHHHHHCCCCCCCCEEEE---CCCCCEEEEEEE
Q ss_conf             957899-9999999974368354722983---189984899999
Q gi|254780443|r    1 MLRSFL-ICFCFGAMIFCSNVSFAGFRVC---NGTKNLIGVAVG   40 (141)
Q Consensus         1 ~l~~~l-~~~~~~~~~~~~~~A~A~~~vC---N~T~~~v~vAig   40 (141)
                      ||++.. +.+++.++++.+...+++++|=   +....+|.||.=
T Consensus         1 ~~~~~~~~~~l~~~~~~~~~~~~~~l~v~v~~~~~~~Pi~va~~   44 (425)
T PRK01029          1 MLRSLCFLRFLICFLCLLPSLYAEDLEVHVRSESSLLPIEVSLL   44 (425)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHEEEEEECCCCCCCCEEEEEC
T ss_conf             90166899999999998557636218999737873616799813


No 17 
>smart00205 THN Thaumatin family. The thaumatin family gathers proteins related to plant pathogenesis. The thaumatin family includes very basic members with extracellular and vacuolar localization. Thaumatin itsel is a potent sweet-tasting protein. Several members of this family display significant in vitro activity of inhibiting hyphal growth or spore germination of various fungi probably by a membrane permeabilizing mechanism.
Probab=38.67  E-value=26  Score=16.23  Aligned_cols=38  Identities=13%  Similarity=0.108  Sum_probs=27.3

Q ss_pred             EEEECCCCCEEEEEEEEECCCCCEEEEEEEEECCCCEEEE
Q ss_conf             2983189984899999974888578754688578870374
Q gi|254780443|r   25 FRVCNGTKNLIGVAVGYPAVKGGWMTEGWWQIPGNTCETV   64 (141)
Q Consensus        25 ~~vCN~T~~~v~vAigy~~~~~~W~seGWw~i~pg~C~~v   64 (141)
                      |+|-|+-++.||.+|.-. +... ...|=|+++||+-..+
T Consensus         1 Fti~N~C~~tVWP~~~~~-g~~~-~~~gGf~L~~g~s~~~   38 (218)
T smart00205        1 FEFVNNCPYTVWAAALPS-GKPQ-LSGGGFELNSGASWQL   38 (218)
T ss_pred             CEEEECCCCCCCEEECCC-CCCC-CCCCCEECCCCCCEEE
T ss_conf             976848999855023688-9865-5899877189984588


No 18 
>PRK03757 hypothetical protein; Provisional
Probab=38.46  E-value=32  Score=15.69  Aligned_cols=59  Identities=12%  Similarity=0.201  Sum_probs=27.3

Q ss_pred             CHHHHHHHHHHHHHHHCCCCCCC-CEEEECC-CCCEEEEEEEEEC---CCCC-EEEEEEEEECCCC
Q ss_conf             95789999999999743683547-2298318-9984899999974---8885-7875468857887
Q gi|254780443|r    1 MLRSFLICFCFGAMIFCSNVSFA-GFRVCNG-TKNLIGVAVGYPA---VKGG-WMTEGWWQIPGNT   60 (141)
Q Consensus         1 ~l~~~l~~~~~~~~~~~~~~A~A-~~~vCN~-T~~~v~vAigy~~---~~~~-W~seGWw~i~pg~   60 (141)
                      |.+.+|.++++. +++..++|+| .+++=-+ +-+.|.-.|.+-.   ..|. =.-+|=..++|..
T Consensus         1 mkk~~l~~~l~a-~~~~~~~A~a~~y~iDp~~~Hs~v~F~v~H~G~S~~~G~F~~~~g~i~~D~~~   65 (191)
T PRK03757          1 MKKTLLGLTLGS-LLFSAGSAVAADYKIDKEGQHAFINFKISHLGYSWLYGRFNDFDGTFSFDEKN   65 (191)
T ss_pred             CCHHHHHHHHHH-HHHHCCCCCCCCEEECCCCCCEEEEEEEEEEEEEEEEEEEEEEEEEEEECCCC
T ss_conf             904399999999-98630404575278889876148999998438888999998579999988888


No 19 
>pfam11730 DUF3297 Protein of unknown function (DUF3297). This family is expressed in Proteobacteria and Actinobacteria. The function is not known.
Probab=37.15  E-value=15  Score=17.68  Aligned_cols=16  Identities=19%  Similarity=0.509  Sum_probs=12.2

Q ss_pred             CEEEEEEEEECCCCEE
Q ss_conf             5787546885788703
Q gi|254780443|r   47 GWMTEGWWQIPGNTCE   62 (141)
Q Consensus        47 ~W~seGWw~i~pg~C~   62 (141)
                      ==+||||-+|+.|+-.
T Consensus        37 YciSEGWvrv~agka~   52 (71)
T pfam11730        37 YCISEGWVRVAAGKAL   52 (71)
T ss_pred             EECCCCEEEEECCCCC
T ss_conf             6424776994168653


No 20 
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB; InterPro: IPR013374    This model describes a protein involved in type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly, and is closely related to GspE (IPR013369 from INTERPRO) of type II secretion systems (also referred to as the main terminal branch of the general secretion pathway). Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.; GO: 0005524 ATP binding, 0008565 protein transporter activity, 0009297 pilus biogenesis.
Probab=36.32  E-value=15  Score=17.63  Aligned_cols=38  Identities=24%  Similarity=0.429  Sum_probs=16.2

Q ss_pred             CCEEEECCCCCE-EEEE------EEEECCCCCEEEE-EEEEECCCCEEEE
Q ss_conf             722983189984-8999------9997488857875-4688578870374
Q gi|254780443|r   23 AGFRVCNGTKNL-IGVA------VGYPAVKGGWMTE-GWWQIPGNTCETV   64 (141)
Q Consensus        23 A~~~vCN~T~~~-v~vA------igy~~~~~~W~se-GWw~i~pg~C~~v   64 (141)
                      |. ||||+...+ ..+.      .|++. + . --. ||---.|-+|..=
T Consensus       462 AR-RLCs~CK~~~~~~p~~~Ll~lGF~~-e-d-L~~Pg~~ly~pvGC~~C  507 (577)
T TIGR02538       462 AR-RLCSHCKAPVEEVPEEALLELGFTE-E-D-LADPGLKLYGPVGCEEC  507 (577)
T ss_pred             HH-HCCCCCCCCCCCCCHHHHHHCCCCH-H-H-HCCCCCEECCCCCCCCC
T ss_conf             52-4031368776646859998568886-8-9-26999386176261003


No 21 
>PRK13874 conjugal transfer protein TrbJ; Provisional
Probab=34.78  E-value=29  Score=15.88  Aligned_cols=24  Identities=13%  Similarity=0.041  Sum_probs=14.7

Q ss_pred             HHHHHHHCCCCCCCCEEEECCCCC
Q ss_conf             999997436835472298318998
Q gi|254780443|r   10 CFGAMIFCSNVSFAGFRVCNGTKN   33 (141)
Q Consensus        10 ~~~~~~~~~~~A~A~~~vCN~T~~   33 (141)
                      ++++....+.||+|.+.|---|++
T Consensus        14 ~~~~~~~~~~pa~A~~~V~DptN~   37 (233)
T PRK13874         14 ALALSPALATPAHAQWIVYDPTNY   37 (233)
T ss_pred             HHHHCCCCCCCCCCCCEEECCHHH
T ss_conf             987423588873145024670189


No 22 
>PRK12789 flgI flagellar basal body P-ring protein; Reviewed
Probab=31.06  E-value=41  Score=15.05  Aligned_cols=40  Identities=18%  Similarity=0.207  Sum_probs=22.3

Q ss_pred             CHHHHHHHHHHHHHHHCCCCCCC-CE-EEECCCCCEEEEEEEE
Q ss_conf             95789999999999743683547-22-9831899848999999
Q gi|254780443|r    1 MLRSFLICFCFGAMIFCSNVSFA-GF-RVCNGTKNLIGVAVGY   41 (141)
Q Consensus         1 ~l~~~l~~~~~~~~~~~~~~A~A-~~-~vCN~T~~~v~vAigy   41 (141)
                      |++.+++.++++++++ +.+|+| .+ .+|+=-..+-.--|||
T Consensus         1 m~~~~~~~~~~~l~~~-~~~~~a~RIkDi~~v~GvR~NqLiGY   42 (367)
T PRK12789          1 MIRRLLLAVLLALLAG-PAAAAATRIKDIATLQGVRDNQLVGY   42 (367)
T ss_pred             CHHHHHHHHHHHHHHC-CCHHHHHHHHHHEEEEEEEECCEEEE
T ss_conf             9089999999999855-30666665640200400244355677


No 23 
>COG5664 Predicted secreted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=29.27  E-value=43  Score=14.91  Aligned_cols=29  Identities=14%  Similarity=0.374  Sum_probs=20.0

Q ss_pred             CHHHHHHHHHHHHHHHCCCCCCCCEEEEC
Q ss_conf             95789999999999743683547229831
Q gi|254780443|r    1 MLRSFLICFCFGAMIFCSNVSFAGFRVCN   29 (141)
Q Consensus         1 ~l~~~l~~~~~~~~~~~~~~A~A~~~vCN   29 (141)
                      |++..+.++++.+.++.|..|+|+++-.-
T Consensus         4 ~~~~~~~c~lla~~v~~p~~A~agwkave   32 (201)
T COG5664           4 MRSLVVTCLLLASAVMLPAQASAGWKAVE   32 (201)
T ss_pred             HHHHHHHHHHHHHHHCCCCHHHCCCEEEE
T ss_conf             79999999999987528400201663544


No 24 
>PHA02099 hypothetical protein
Probab=27.22  E-value=41  Score=15.01  Aligned_cols=31  Identities=13%  Similarity=0.083  Sum_probs=23.6

Q ss_pred             EECCCCEEEECCCCCCCCEEEEEEEECCCCC
Q ss_conf             8578870374056766747999999538871
Q gi|254780443|r   55 QIPGNTCETVVKGALHSRYYYLYAEGVSHSE   85 (141)
Q Consensus        55 ~i~pg~C~~vl~g~l~~r~yY~yAe~~~~~~   85 (141)
                      ++.||+|+.-+-.....--+-++|+.++...
T Consensus        27 rv~pg~~emhilr~~~g~diifha~gy~p~l   57 (84)
T PHA02099         27 RVGPGESEMHILRNFEGVDIVFHAEGYNPDL   57 (84)
T ss_pred             CCCCCCCEEEEEEECCCCCEEEECCCCCHHH
T ss_conf             5589971688886057742899857799789


No 25 
>cd01776 Rin1_RA Rin1_RA   RIN1 is a RAS effector that binds with specificity and high affinity to activated RAS via its carboxy-terminal RA (RAS-associated) domain. RIN1 competes directly with RAF1 for RAS binding and is thought to divert signaling away from RAF and the MAPK pathway while also shunting RAS signals through alternate pathways. In addition, Rin1 and Rin2 are Rab5-binding proteins, binding preferentially to the GTP-bound form,  that enhance the GDP-GTP exchange reaction on Rab5 that regulate the docking and fusion processes of endocytic vesicles.  In addition to the RA domain, RIN1 and RIN2 have an SH2 (Src homology 2) domain, a proline-rich SH3 domain, and a Vps9 domain.
Probab=26.56  E-value=28  Score=15.98  Aligned_cols=31  Identities=26%  Similarity=0.640  Sum_probs=22.3

Q ss_pred             EEEEEEEEECCCCEEEECCCCCC-----CCEEEEEE
Q ss_conf             78754688578870374056766-----74799999
Q gi|254780443|r   48 WMTEGWWQIPGNTCETVVKGALH-----SRYYYLYA   78 (141)
Q Consensus        48 W~seGWw~i~pg~C~~vl~g~l~-----~r~yY~yA   78 (141)
                      .+-.+|..++|++|-.-|+..|-     ..|||+|-
T Consensus        50 ~vdg~~~qL~~d~~Pq~IKa~L~~~~~~~~f~FvYr   85 (87)
T cd01776          50 FVEETWQQLAPDTYPQRIKAELHSRPQPNTFHFVYR   85 (87)
T ss_pred             EECCCEEECCCCCCHHHHHHHHHCCCCCCCEEEEEE
T ss_conf             977807767951134565798843888871479875


No 26 
>PRK13697 cytochrome c6; Provisional
Probab=25.31  E-value=44  Score=14.88  Aligned_cols=19  Identities=21%  Similarity=0.431  Sum_probs=8.8

Q ss_pred             HHHHHHHHHHHHCCCCCCCC
Q ss_conf             99999999997436835472
Q gi|254780443|r    5 FLICFCFGAMIFCSNVSFAG   24 (141)
Q Consensus         5 ~l~~~~~~~~~~~~~~A~A~   24 (141)
                      +|+++++..+.| ++||.|.
T Consensus         8 ~l~~~~~~~~~~-~~pA~Aa   26 (111)
T PRK13697          8 VLLTLLLLTFAF-TSPAFAA   26 (111)
T ss_pred             HHHHHHHHHHHC-CCHHHHH
T ss_conf             999999999980-3554441


No 27 
>TIGR01855 IMP_synth_hisH imidazole glycerol phosphate synthase, glutamine amidotransferase subunit; InterPro: IPR010139   Imidazole glycerol phosphate synthetase (IGPS) is a key metabolic enzyme, which links amino acid and nucleotide biosynthesis: it catalyses the closure of the imidazole ring within histidine biosynthesis (fifth step), and provides the substrate for de novo purine biosynthesis. IGPS consists of two different subunits: HisH, a glutamine amidotransferase (glutaminase), and HisF, a synthase (cyclase). HisH functions to provide a source of nitrogen, which is required for the synthesis of histidine and purines. In the HisH glutaminase reaction, the hydrolysis of glutamine yields ammonia, which is then used by HisF in the subsequent synthase reaction. The X-ray structure of the HisH/HisF heterodimer of IGPS reveals a putative tunnel for the transfer of ammonia from HisH to HisF via a (beta-alpha)8 barrel fold within HisF that abuts HisH . Ammonia tunnels connect the glutaminase and synthase active sites.   HisH belongs to a large group of enzymes found in diverse and fundamental anabolic pathways. These enzymes share a common domain, referred to as the type-I glutamine amidotransferase (GATase) domain, which can occur either as single polypeptides (as with HisH) or as domains of large multifunctional proteins.; GO: 0016763 transferase activity transferring pentosyl groups, 0000105 histidine biosynthetic process, 0005737 cytoplasm.
Probab=24.14  E-value=43  Score=14.92  Aligned_cols=49  Identities=14%  Similarity=0.233  Sum_probs=27.4

Q ss_pred             EEEEEEECCCCEE-EECCC-CCCCCEEEEEEEECCCCCCCCC--CE-EEEECCCCEE
Q ss_conf             7546885788703-74056-7667479999995388712057--50-1365075325
Q gi|254780443|r   50 TEGWWQIPGNTCE-TVVKG-ALHSRYYYLYAEGVSHSEHWAG--NV-QMCVGQDEFN  101 (141)
Q Consensus        50 seGWw~i~pg~C~-~vl~g-~l~~r~yY~yAe~~~~~~~w~G--~~-~~Cv~~~~F~  101 (141)
                      --||=++.+-.-. .++.| +-.++|||+|  ++... .+++  .. ..|--...|+
T Consensus       126 HmGWN~v~~~~~~C~ll~g~~~~~~~YFVH--SY~~~-~~~~S~~v~a~~~YG~~F~  179 (211)
T TIGR01855       126 HMGWNEVEPVKESCPLLKGIDKGAYFYFVH--SYYAV-CEEESEAVLAKADYGEKFT  179 (211)
T ss_pred             CCCCCEEEEHHHCCCHHCCCCCCCCEEEEE--EEEEE-CCCCHHHEEEEHHCCCCEE
T ss_conf             565642312311551130776678155688--66776-1688115011200186304


No 28 
>PRK04922 tolB translocation protein TolB; Provisional
Probab=22.49  E-value=61  Score=14.04  Aligned_cols=66  Identities=15%  Similarity=0.205  Sum_probs=36.2

Q ss_pred             HHHHHHHHHHHHHCCCCCCCCE--EEECCCCCEEEEEEEEECCCCCEEEEEEEEECCCCEEEECCCCCCCCEEE
Q ss_conf             8999999999974368354722--98318998489999997488857875468857887037405676674799
Q gi|254780443|r    4 SFLICFCFGAMIFCSNVSFAGF--RVCNGTKNLIGVAVGYPAVKGGWMTEGWWQIPGNTCETVVKGALHSRYYY   75 (141)
Q Consensus         4 ~~l~~~~~~~~~~~~~~A~A~~--~vCN~T~~~v~vAigy~~~~~~W~seGWw~i~pg~C~~vl~g~l~~r~yY   75 (141)
                      +.|.++++.++++.+.+|+|.|  +|--....++-+||.=-..++.   .   ...+.+...||..+|...=+|
T Consensus         6 ~~~~~~~~~~~~~~a~~a~a~L~IeIt~G~~~~~pIAV~pF~~~~~---~---~~~~~~i~~II~~DL~~SG~F   73 (439)
T PRK04922          6 RWLAALTALLLPLSALAQQQGLTIDIVGGSASATPIAVVPMPYQGS---G---TAPQTDVSAVVSADLDRSGQF   73 (439)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCEEEEEECCCCCCC---C---CCHHHHHHHHHHHHHHHCCCC
T ss_conf             9999999999987788616836999935777705069937565787---6---550364999998657727274


No 29 
>PRK10894 hypothetical protein; Provisional
Probab=21.93  E-value=54  Score=14.35  Aligned_cols=50  Identities=16%  Similarity=0.129  Sum_probs=26.2

Q ss_pred             HHHHHHHHHCCCCCCCCEEEECCCCCEEEEEE---EEECCC-------CCEEEEEEEEECCCC
Q ss_conf             99999997436835472298318998489999---997488-------857875468857887
Q gi|254780443|r    8 CFCFGAMIFCSNVSFAGFRVCNGTKNLIGVAV---GYPAVK-------GGWMTEGWWQIPGNT   60 (141)
Q Consensus         8 ~~~~~~~~~~~~~A~A~~~vCN~T~~~v~vAi---gy~~~~-------~~W~seGWw~i~pg~   60 (141)
                      ++++.++++++.||+|- .  .+..-||.+--   -+.+.+       .--.++|=..|....
T Consensus        12 l~l~~~ll~~S~~a~Al-~--sD~~qPI~I~AD~~~~d~~~~~avytGNVvitQGsl~I~ADk   71 (184)
T PRK10894         12 LLLASSLLAASIPAFAV-T--GDTEQPIHIDSDQQSLDMQGNVVTFTGNVVVTQGTIKINADK   71 (184)
T ss_pred             HHHHHHHHHHCCHHHHC-C--CCCCCCEEEEECEEEEECCCCEEEEEEEEEEEEEEEEEEEEE
T ss_conf             99999998716124315-5--344699899945289431599899992599996259999358


No 30 
>pfam07172 GRP Glycine rich protein family. This family of proteins includes several glycine rich proteins as well as two nodulins 16 and 24. The family also contains proteins that are induced in response to various stresses.
Probab=21.81  E-value=28  Score=15.97  Aligned_cols=25  Identities=16%  Similarity=0.243  Sum_probs=12.0

Q ss_pred             HHHHHCCCCCCCCE--EEECCCCCEEE
Q ss_conf             99974368354722--98318998489
Q gi|254780443|r   12 GAMIFCSNVSFAGF--RVCNGTKNLIG   36 (141)
Q Consensus        12 ~~~~~~~~~A~A~~--~vCN~T~~~v~   36 (141)
                      .+++.+++.+++++  +.-++..+.|.
T Consensus        15 ~~lLIsSevaa~~ls~~~K~e~e~~v~   41 (91)
T pfam07172        15 AVLLISSEVAAADLSNTEKSESENEVQ   41 (91)
T ss_pred             HHHHHHHHHHHHHHHCCCCCCCCCCEE
T ss_conf             999999999999971284555424021


No 31 
>COG4991 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]
Probab=20.90  E-value=49  Score=14.56  Aligned_cols=29  Identities=10%  Similarity=0.356  Sum_probs=18.4

Q ss_pred             CHHHHHHHHHHHHHHHCCCCCCCCEEEEC
Q ss_conf             95789999999999743683547229831
Q gi|254780443|r    1 MLRSFLICFCFGAMIFCSNVSFAGFRVCN   29 (141)
Q Consensus         1 ~l~~~l~~~~~~~~~~~~~~A~A~~~vCN   29 (141)
                      |+..++.+.++.+.++.++.|.|..+--|
T Consensus        10 ~~~~~~~A~a~~~~l~~~~~a~aa~~a~~   38 (155)
T COG4991          10 SMKTLMRASAFGLALLMPAAAYAAVSASA   38 (155)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             67789999999999874788888775213


No 32 
>COG0118 HisH Glutamine amidotransferase [Amino acid transport and metabolism]
Probab=20.09  E-value=65  Score=13.85  Aligned_cols=34  Identities=18%  Similarity=0.250  Sum_probs=22.4

Q ss_pred             CEEEEEEEEECCCCEEEECCCCCC-CCEEEEEEEE
Q ss_conf             578754688578870374056766-7479999995
Q gi|254780443|r   47 GWMTEGWWQIPGNTCETVVKGALH-SRYYYLYAEG   80 (141)
Q Consensus        47 ~W~seGWw~i~pg~C~~vl~g~l~-~r~yY~yAe~   80 (141)
                      .---.||=++.+.+...+..|-.. .++||+|.=.
T Consensus       116 kvPHMGWN~l~~~~~~~l~~gi~~~~~~YFVHSY~  150 (204)
T COG0118         116 KVPHMGWNQVEFVRGHPLFKGIPDGAYFYFVHSYY  150 (204)
T ss_pred             CCCCCCCCEEECCCCCHHHCCCCCCCEEEEEEEEE
T ss_conf             78866652231267874432899887799997876


Done!