Query         gi|255764466|ref|YP_003064779.2| hypothetical protein CLIBASIA_01255 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 174
No_of_seqs    110 out of 666
Neff          6.7 
Searched_HMMs 39220
Date          Sun May 29 15:05:18 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 255764466.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 PRK04388 disulfide bond format 100.0 1.5E-39 3.8E-44  256.5  18.2  162   10-174     7-169 (172)
  2 pfam02600 DsbB Disulfide bond  100.0 2.4E-38 6.1E-43  249.3  17.2  154    9-167     5-158 (159)
  3 PRK02110 disulfide bond format 100.0 1.4E-36 3.5E-41  238.8  17.7  164    3-174     2-168 (169)
  4 PRK01749 disulfide bond format 100.0 9.6E-36 2.4E-40  233.7  19.2  164    1-170     1-164 (175)
  5 COG1495 DsbB Disulfide bond fo 100.0 1.8E-30 4.5E-35  202.1  17.4  158    9-174    10-170 (170)
  6 PRK04307 putative disulfide ox  99.8 2.6E-16 6.6E-21  117.1  17.6  158    3-165    14-207 (220)
  7 PRK03113 putative disulfide ox  99.7 4.6E-15 1.2E-19  109.6  15.5  120   20-167    16-136 (139)
  8 PRK00611 putative disulfide ox  99.6 2.7E-14 6.9E-19  105.0  14.5  127    7-165     3-130 (135)
  9 pfam07884 VKOR Vitamin K epoxi  88.3     1.8 4.7E-05   22.1   6.8   36  134-169    41-80  (138)
 10 smart00756 VKc Family of likel  85.7     2.6 6.5E-05   21.2   7.2   68   83-169    10-84  (142)
 11 COG0590 CumB Cytosine/adenosin  69.4     1.7 4.2E-05   22.3   0.6   10   36-45     83-92  (152)
 12 cd01285 nucleoside_deaminase N  66.8     2.2 5.5E-05   21.6   0.7   11   36-46     72-82  (109)
 13 PRK10860 tRNA-specific adenosi  63.8     2.6 6.5E-05   21.2   0.6   11   35-45     92-102 (178)
 14 KOG0324 consensus               52.6     2.8 7.1E-05   21.0  -0.8   75   85-159    29-141 (214)
 15 TIGR01478 STEVOR variant surfa  41.1      25 0.00063   15.3   3.4   28  146-174   276-303 (315)
 16 PRK12437 prolipoprotein diacyl  35.8      30 0.00077   14.8   4.1   33  141-173   229-261 (269)
 17 TIGR01477 RIFIN variant surfac  33.1      33 0.00085   14.5   3.5   15  160-174   367-381 (395)
 18 PRK13882 conjugal transfer pro  31.8      33 0.00083   14.6   2.0   10  136-145   155-164 (232)
 19 TIGR02502 type_III_YscX type I  29.3      17 0.00042   16.3   0.2   39   91-129     4-48  (126)
 20 pfam02009 Rifin_STEVOR Rifin/s  28.5      40   0.001   14.0   2.8   14  161-174   262-275 (289)
 21 KOG1018 consensus               28.2      20  0.0005   15.9   0.4   10   36-45     90-99  (169)
 22 TIGR02611 TIGR02611 conserved   28.1      36 0.00091   14.3   1.7   20  142-161    96-115 (126)
 23 pfam01790 LGT Prolipoprotein d  26.6      43  0.0011   13.8   3.6   28  143-173   230-257 (257)
 24 pfam05879 RHD3 Root hair defec  22.0      53  0.0014   13.3   3.2   45   48-97    646-690 (741)
 25 PTZ00042 stevor; Provisional    21.9      53  0.0014   13.3   7.0   32  142-174   261-292 (304)
 26 PRK10332 hypothetical protein;  21.6      54  0.0014   13.2   3.1   23  121-143    66-88  (107)
 27 PTZ00046 rifin; Provisional     20.9      56  0.0014   13.1   3.6   14  161-174   321-334 (348)

No 1  
>PRK04388 disulfide bond formation protein B; Provisional
Probab=100.00  E-value=1.5e-39  Score=256.53  Aligned_cols=162  Identities=17%  Similarity=0.213  Sum_probs=137.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             42169999999999999999999995278870557998999999999999999972011111012259999999999999
Q gi|255764466|r   10 ANIPLPRIILLNISGVIVCFLMIQHVGGYPPCDLCIQEQKIYYFGFLIALVADLSTRNHNSYWSTRLLLMTLGLLMFFNM   89 (174)
Q Consensus        10 ~~~~l~li~~l~~~~ll~~A~~~qy~~gl~PC~LCi~QR~py~~~i~i~l~~~l~~~~~~~~~~~~~~~~~~~l~~~~g~   89 (174)
                      +-+..-++.++.|.+++++|+|+||++|++|||||++||++|..+++.++++.++..  +.....+....+..+.+..|.
T Consensus         7 s~R~~~ll~fl~~~~ll~~Aly~q~~~gL~PCpLCI~QR~~~~~igl~~li~~l~~p--~~~~~r~~~~~l~~l~a~~G~   84 (172)
T PRK04388          7 SFRAQFLLGFLACAGLLAYAIYVQLHLGLEPCPLCIFQRIAFAALALLFLIGALHGP--RNAGGRKAYGVLAFIAAGVGM   84 (172)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHHHH
T ss_conf             799999999999999999999999971888878899999999999999999999573--202599999999999999999


Q ss_pred             HHHHHHHHHHHCCHHHCCCCCCCCCC-CCCCCHHHHHHHHHCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99998658875000101122223431-00026588999984289998471003321014688999999999999999999
Q gi|255764466|r   90 TISVIHVGIECGIWEKNAICMNNSKI-ESITSTVDLLTQMEQENIPSCNKTTLYVLGLSLAFWNIIVSFFLSFITSIAML  168 (174)
Q Consensus        90 ~ia~yH~giE~~~~~~~~~C~~~~~~-~~~~~~~~l~~~l~~~~~~~C~ev~w~flGlSma~wn~i~~~~l~~i~~~~~~  168 (174)
                      ++|.||+++|.++++++++|+++.++ .+..+..|.++.+. .++++|+|++|+|+|+|||+|++++|+++++++.+..+
T Consensus        85 ~~A~rhv~LQ~~p~~~~~~Cg~~l~~~~~~~p~~e~l~~~f-~g~g~Caev~W~flGlSmp~Wsli~F~~l~~~~l~~~~  163 (172)
T PRK04388         85 GIAARHVWVQIRPKDMMSSCGPPLSFLSETMGPFEVFRTVL-TGTGDCGNIDWRFLGLSMPMWSMVWFVGLALWALYAGF  163 (172)
T ss_pred             HHHHHHHHHHHCCCCCCCCCCCCHHHHHHCCCHHHHHHHHH-CCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999993885347878871667762137999999985-68998685676516828899999999999999999999


Q ss_pred             HHCCCC
Q ss_conf             420379
Q gi|255764466|r  169 KISRKK  174 (174)
Q Consensus       169 ~~~kkk  174 (174)
                      |.+|||
T Consensus       164 r~rr~~  169 (172)
T PRK04388        164 KARRRS  169 (172)
T ss_pred             HHCCCC
T ss_conf             852568


No 2  
>pfam02600 DsbB Disulfide bond formation protein DsbB. This family consists of disulfide bond formation protein DsbB from bacteria. The DsbB protein oxidizes the periplasmic protein DsbA which in turn oxidizes cysteines in other periplasmic proteins in order to make disulfide bonds. DsbB acts as a redox potential transducer across the cytoplasmic membrane and is an integral membrane protein. DsbB posses six cysteines four of which are necessary for it proper function in vivo.
Probab=100.00  E-value=2.4e-38  Score=249.29  Aligned_cols=154  Identities=25%  Similarity=0.377  Sum_probs=135.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             64216999999999999999999999527887055799899999999999999997201111101225999999999999
Q gi|255764466|r    9 LANIPLPRIILLNISGVIVCFLMIQHVGGYPPCDLCIQEQKIYYFGFLIALVADLSTRNHNSYWSTRLLLMTLGLLMFFN   88 (174)
Q Consensus         9 ~~~~~l~li~~l~~~~ll~~A~~~qy~~gl~PC~LCi~QR~py~~~i~i~l~~~l~~~~~~~~~~~~~~~~~~~l~~~~g   88 (174)
                      .+++....+.++.|.++++.|+|+||++|++||+||++||+||+.++.+++++++.++    +..++.......+.++.|
T Consensus         5 ~~~r~~~~~~~l~s~~~l~~Al~~q~~~gl~PC~LCi~QR~~~~~~~~~~li~~~~~~----~~~~~~~~~~~~~~~~~G   80 (159)
T pfam02600         5 SSSRLLLLLLALASLALLLGALYFQYVLGLEPCPLCIYQRIAMLALALIGLLALLAGR----RGRRRLALLLALLLALAG   80 (159)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCC----HHHHHHHHHHHHHHHHHH
T ss_conf             0137999999999999999999999983888856599999999999999999998332----048999999999999999


Q ss_pred             HHHHHHHHHHHHCCHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999986588750001011222234310002658899998428999847100332101468899999999999999999
Q gi|255764466|r   89 MTISVIHVGIECGIWEKNAICMNNSKIESITSTVDLLTQMEQENIPSCNKTTLYVLGLSLAFWNIIVSFFLSFITSIAM  167 (174)
Q Consensus        89 ~~ia~yH~giE~~~~~~~~~C~~~~~~~~~~~~~~l~~~l~~~~~~~C~ev~w~flGlSma~wn~i~~~~l~~i~~~~~  167 (174)
                      +++|.||+|+|+++|+++.+|++..+..+..+.+++.+++... .++|||++|+|+|+|||+||+++|+++++++.+..
T Consensus        81 ~~~a~~h~~le~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~-~~~C~~~~~~~lGlSma~wn~i~f~~l~i~~~~~~  158 (159)
T pfam02600        81 AGIALYHVGLQAGPWEGPPSCGALEGFPDWLPLDEWLPQVFAA-TGDCAEVAWTFLGLSMPGWSLVAFLLLALLLLLLL  158 (159)
T ss_pred             HHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCC-CCCCCCCCHHHCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             9999999999828757899888864445537899999986689-99857534576584899999999999999999998


No 3  
>PRK02110 disulfide bond formation protein B; Provisional
Probab=100.00  E-value=1.4e-36  Score=238.77  Aligned_cols=164  Identities=20%  Similarity=0.242  Sum_probs=132.3

Q ss_pred             HHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH
Q ss_conf             8999996-421699999999999999999999952788705579989999999999999999720111110122599999
Q gi|255764466|r    3 KSLLSTL-ANIPLPRIILLNISGVIVCFLMIQHVGGYPPCDLCIQEQKIYYFGFLIALVADLSTRNHNSYWSTRLLLMTL   81 (174)
Q Consensus         3 ~~~~~~~-~~~~l~li~~l~~~~ll~~A~~~qy~~gl~PC~LCi~QR~py~~~i~i~l~~~l~~~~~~~~~~~~~~~~~~   81 (174)
                      ||+.-.+ ..+..-+++++.|.+++++|+|+||++|++|||||++||++|..++++++++.+.+.+    ...+....+.
T Consensus         2 ~~~~~~~~~~R~~~lli~l~~~~ll~~AlY~Qy~lgL~PC~LCI~QR~~~~~i~l~aLl~~~~~~~----~~~~~~~~l~   77 (169)
T PRK02110          2 NNLTLMLRRERRLLVLLGLVCLALVGGALYLQYVKGEDPCPLCIIQRYAFLLIAIFAFLAAAMRNW----RGVWVLEGLI   77 (169)
T ss_pred             CCCCHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCC----CHHHHHHHHH
T ss_conf             843035407189999999999999999999999908876576999999999999999999974753----3899999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHCCHHHCCCCCCCC--CCCCCCCHHHHHHHHHCCCCCCCCCCHHHHHCCCHHHHHHHHHHHH
Q ss_conf             99999999999986588750001011222234--3100026588999984289998471003321014688999999999
Q gi|255764466|r   82 GLLMFFNMTISVIHVGIECGIWEKNAICMNNS--KIESITSTVDLLTQMEQENIPSCNKTTLYVLGLSLAFWNIIVSFFL  159 (174)
Q Consensus        82 ~l~~~~g~~ia~yH~giE~~~~~~~~~C~~~~--~~~~~~~~~~l~~~l~~~~~~~C~ev~w~flGlSma~wn~i~~~~l  159 (174)
                      .+.+..|..+|.||+|+|.++   +.+|+.++  ...+..+.+++.+.+.... ++|+|++|+|+|+|||+||+++|..+
T Consensus        78 ~l~a~~G~~~A~rhv~lq~~P---~~~Cg~~~l~~~~~~~pl~~~l~~lf~~~-g~Caev~w~flGLsmp~Wsli~F~~~  153 (169)
T PRK02110         78 VLSALGGIGTAGRHVYIQLNP---GFSCGIDALQPIVDSLPPAKWLPGVFKVD-GLCETPYPPILGLSLPGWALIAFVLI  153 (169)
T ss_pred             HHHHHHHHHHHHHHHHHHHCC---CCCCCCCHHHHHHHHCCHHHHHHHHHCCC-CCCCCCCCCCCCCCHHHHHHHHHHHH
T ss_conf             999999999999999998299---84226871554875076999999997689-99898777621678999999999999


Q ss_pred             HHHHHHHHHHHCCCC
Q ss_conf             999999999420379
Q gi|255764466|r  160 SFITSIAMLKISRKK  174 (174)
Q Consensus       160 ~~i~~~~~~~~~kkk  174 (174)
                      +++..+.++|.+||.
T Consensus       154 ~i~~l~~l~r~~kk~  168 (169)
T PRK02110        154 AVAVAVGLIRNRRRL  168 (169)
T ss_pred             HHHHHHHHHHHHHCC
T ss_conf             999999999865126


No 4  
>PRK01749 disulfide bond formation protein B; Provisional
Probab=100.00  E-value=9.6e-36  Score=233.66  Aligned_cols=164  Identities=13%  Similarity=0.144  Sum_probs=134.2

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHH
Q ss_conf             96899999642169999999999999999999995278870557998999999999999999972011111012259999
Q gi|255764466|r    1 MIKSLLSTLANIPLPRIILLNISGVIVCFLMIQHVGGYPPCDLCIQEQKIYYFGFLIALVADLSTRNHNSYWSTRLLLMT   80 (174)
Q Consensus         1 m~~~~~~~~~~~~l~li~~l~~~~ll~~A~~~qy~~gl~PC~LCi~QR~py~~~i~i~l~~~l~~~~~~~~~~~~~~~~~   80 (174)
                      |++-+-+..+++..-++++++|++++++|+|+||++|++||||||+||+.+..++++++++.+.+   + ...++....+
T Consensus         1 m~~~l~~~~~~R~~wlll~~~~~~L~~~ALY~Q~~lgL~PCpLCI~QR~~~~~i~l~~Li~~i~p---~-~~~r~~~~~l   76 (175)
T PRK01749          1 MLRFLNQCSRGRGAWLLLAFTALALELTALYFQHVMLLKPCVMCIYERVALFGILGAGLIGAIAP---K-TPLRYLALAI   76 (175)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHCC---C-CHHHHHHHHH
T ss_conf             95899988875599999999999999999999998188864899999999999999999999786---2-1599999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHH
Q ss_conf             99999999999998658875000101122223431000265889999842899984710033210146889999999999
Q gi|255764466|r   81 LGLLMFFNMTISVIHVGIECGIWEKNAICMNNSKIESITSTVDLLTQMEQENIPSCNKTTLYVLGLSLAFWNIIVSFFLS  160 (174)
Q Consensus        81 ~~l~~~~g~~ia~yH~giE~~~~~~~~~C~~~~~~~~~~~~~~l~~~l~~~~~~~C~ev~w~flGlSma~wn~i~~~~l~  160 (174)
                      ..++++.|..+|.||+++|.++-+ ..+|+...++++..+.+|+++.+.... ++|+|++|+|+|+|||+|.+++|.+++
T Consensus        77 ~~~sa~~G~~~A~rhv~lQ~~P~~-~~~C~~~~~fp~~~Pl~e~lp~~F~g~-G~Caev~W~flGLSmp~W~li~F~~~~  154 (175)
T PRK01749         77 WLYSAWKGLQLAYEHTDLQLNPSP-FNTCDFFVRFPEWLPLDKWFPQVFVAS-GDCSERQWQFLGLEMPQWLVGIFAAYL  154 (175)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCC-CCCCCCCCCCCCCCCHHHHHHHHHCCC-CCCCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             999999999999999999808887-888896424412076999999997588-885767857765039989999999999


Q ss_pred             HHHHHHHHHH
Q ss_conf             9999999942
Q gi|255764466|r  161 FITSIAMLKI  170 (174)
Q Consensus       161 ~i~~~~~~~~  170 (174)
                      +++.+.+.+.
T Consensus       155 iv~vl~~~~~  164 (175)
T PRK01749        155 VVAVLVVISQ  164 (175)
T ss_pred             HHHHHHHHHH
T ss_conf             9999999999


No 5  
>COG1495 DsbB Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]
Probab=99.97  E-value=1.8e-30  Score=202.06  Aligned_cols=158  Identities=20%  Similarity=0.294  Sum_probs=127.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             64216999999999999999999999527887055799899999999999999997201111101225999999999999
Q gi|255764466|r    9 LANIPLPRIILLNISGVIVCFLMIQHVGGYPPCDLCIQEQKIYYFGFLIALVADLSTRNHNSYWSTRLLLMTLGLLMFFN   88 (174)
Q Consensus         9 ~~~~~l~li~~l~~~~ll~~A~~~qy~~gl~PC~LCi~QR~py~~~i~i~l~~~l~~~~~~~~~~~~~~~~~~~l~~~~g   88 (174)
                      ..+....+..++.+...+.+|+|+||++|++|||||++||++|+.++.++.++......++       ........++.|
T Consensus        10 ~~r~~~ll~~~~~~~~~~~~al~fq~i~g~~PC~LC~~QR~~~~~~~~i~~l~~~~~~~~~-------~r~~~~~l~l~g   82 (170)
T COG1495          10 FSRLLWLLLALLGLALALLAALYFQYILGLEPCPLCLYQRIAMYGLGVILLLALLIGPLNR-------LRLYGLALALIG   82 (170)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCHHH-------HHHHHHHHHHHH
T ss_conf             7899999999999999999999999981888719799999999999999999999485264-------899999999999


Q ss_pred             HHHHHHHHHHHHCCHHHC-CCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCC--CHHHHHCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             999998658875000101-12222343100026588999984289998471--003321014688999999999999999
Q gi|255764466|r   89 MTISVIHVGIECGIWEKN-AICMNNSKIESITSTVDLLTQMEQENIPSCNK--TTLYVLGLSLAFWNIIVSFFLSFITSI  165 (174)
Q Consensus        89 ~~ia~yH~giE~~~~~~~-~~C~~~~~~~~~~~~~~l~~~l~~~~~~~C~e--v~w~flGlSma~wn~i~~~~l~~i~~~  165 (174)
                      ++.+.||+|.|..+|++| .+|+....++. ..+.+........+.++|+|  ..|+++|+|||+||+++++..+++...
T Consensus        83 ~~~giy~a~~~~~~~~~p~~~C~~~~~f~~-~~~~~~~~~~~~~~~~~C~~~~~~~~~Lglsm~~w~~~~~~~~~~~l~~  161 (170)
T COG1495          83 AGLGIYHAGEHVVLQLGPFATCSFGLTFPE-WLPLGKWAPLVFQGTGSCSEPVAAWRLLGLSMPPWLLLIFFALLLLLLL  161 (170)
T ss_pred             HHHHHHHHHHHHHHCCCCHHHHCCCCCCHH-CCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             999999999998861586233303212201-0327776676745888865644046760587999999999999999999


Q ss_pred             HHHHHCCCC
Q ss_conf             999420379
Q gi|255764466|r  166 AMLKISRKK  174 (174)
Q Consensus       166 ~~~~~~kkk  174 (174)
                      ..++.++|+
T Consensus       162 ~~~~~~~~~  170 (170)
T COG1495         162 LLFRKKRKK  170 (170)
T ss_pred             HHHHHHHCC
T ss_conf             998764069


No 6  
>PRK04307 putative disulfide oxidoreductase; Provisional
Probab=99.75  E-value=2.6e-16  Score=117.13  Aligned_cols=158  Identities=13%  Similarity=0.169  Sum_probs=106.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHH-H
Q ss_conf             899999642169999999999999999-99999527887055799899999999999999997201111101225999-9
Q gi|255764466|r    3 KSLLSTLANIPLPRIILLNISGVIVCF-LMIQHVGGYPPCDLCIQEQKIYYFGFLIALVADLSTRNHNSYWSTRLLLM-T   80 (174)
Q Consensus         3 ~~~~~~~~~~~l~li~~l~~~~ll~~A-~~~qy~~gl~PC~LCi~QR~py~~~i~i~l~~~l~~~~~~~~~~~~~~~~-~   80 (174)
                      +++-++-+++..-++...+++++++.| +||||++++.||.+|+|||.....++.-++++.+.+.|.    ..|...+ .
T Consensus        14 ~~l~~~q~~R~~Wlll~~~~~~L~~~A~~~FQ~~l~m~PC~~CVY~R~A~~~i~~~glI~~I~P~n~----ilrligy~l   89 (220)
T PRK04307         14 DTLVRWQDQRFLWLLMAIAMGGLIILAHSFFQIYLYMAPCEQCVYIRYAMFVMAIGGVIAAINPKNI----ILKLIGYIA   89 (220)
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCCHHH----HHHHHHHHH
T ss_conf             8999857205089999999999999999999999836789999999999999999999998181468----999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCH-HHC----CCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCH---------------
Q ss_conf             99999999999998658875000-101----1222234310002658899998428999847100---------------
Q gi|255764466|r   81 LGLLMFFNMTISVIHVGIECGIW-EKN----AICMNNSKIESITSTVDLLTQMEQENIPSCNKTT---------------  140 (174)
Q Consensus        81 ~~l~~~~g~~ia~yH~giE~~~~-~~~----~~C~~~~~~~~~~~~~~l~~~l~~~~~~~C~ev~---------------  140 (174)
                      .......|...|..-.+++...- +.|    .+|+..++++..++.++++++...+. ++|.+-+               
T Consensus        90 af~G~i~G~~~sikL~~ih~a~~~~~p~fg~~~Cs~~P~FP~~LPLheW~P~~F~PT-GdCG~D~P~vp~~~~Ls~~Q~~  168 (220)
T PRK04307         90 AFYGSILGIKFSIKLNGIHHAVHNEDPLFGVQGCSTDPTFPFNLPLAEWAPEWFKPT-GDCGYDAPIVPDGVTLSSVQQW  168 (220)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCC-CCCCCCCCCCCCCCCHHHHHHH
T ss_conf             999999999999998368998717995234476728899988887899869986647-7667899899986413789999


Q ss_pred             ----------HHHHC----CCHHHHHHHHHHHHHHHHHH
Q ss_conf             ----------33210----14688999999999999999
Q gi|255764466|r  141 ----------LYVLG----LSLAFWNIIVSFFLSFITSI  165 (174)
Q Consensus       141 ----------w~flG----lSma~wn~i~~~~l~~i~~~  165 (174)
                                |...+    .+||...+|.+....++...
T Consensus       169 fv~~y~~~~gWyLip~~kF~nMA~c~~iaf~~~~v~L~~  207 (220)
T PRK04307        169 FVDLYQQSEGWYLLPPWHFMNMAQACLLAFGVCLVLLLV  207 (220)
T ss_pred             HHHCCCCCCCEEEECCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             874235678526746066720999999999999999999


No 7  
>PRK03113 putative disulfide oxidoreductase; Provisional
Probab=99.68  E-value=4.6e-15  Score=109.64  Aligned_cols=120  Identities=15%  Similarity=0.110  Sum_probs=84.3

Q ss_pred             HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999952788705579989999999999999999720111110122599999999999999999865887
Q gi|255764466|r   20 LNISGVIVCFLMIQHVGGYPPCDLCIQEQKIYYFGFLIALVADLSTRNHNSYWSTRLLLMTLGLLMFFNMTISVIHVGIE   99 (174)
Q Consensus        20 l~~~~ll~~A~~~qy~~gl~PC~LCi~QR~py~~~i~i~l~~~l~~~~~~~~~~~~~~~~~~~l~~~~g~~ia~yH~giE   99 (174)
                      +.+.......+|+-+++|++||+||+|||+..|-..++..++.+.+.....    +    ...-.++.|..+|.||..+|
T Consensus        16 ~va~~ATlGSLyfSEv~~~~PC~LCWyQRI~MYPL~iiLgia~~r~D~~v~----~----Y~lpLs~iG~~ia~YH~~lq   87 (139)
T PRK03113         16 GASFIATLGSLYFSEIMKFEPCVLCWYQRIFMYPFVLWLGIAVVKKDYRIA----S----YSLPIASIGACISLYHYAIQ   87 (139)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCEE----E----HHHHHHHHHHHHHHHHHHHH
T ss_conf             999999999999999708987189999999999999999999972466723----1----15599999999999999999


Q ss_pred             HCCHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCHHHHHC-CCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             5000101122223431000265889999842899984710033210-1468899999999999999999
Q gi|255764466|r  100 CGIWEKNAICMNNSKIESITSTVDLLTQMEQENIPSCNKTTLYVLG-LSLAFWNIIVSFFLSFITSIAM  167 (174)
Q Consensus       100 ~~~~~~~~~C~~~~~~~~~~~~~~l~~~l~~~~~~~C~ev~w~flG-lSma~wn~i~~~~l~~i~~~~~  167 (174)
                      +....+...+.++                    .++|+......+| +|+|-.+++.|..+.++..+..
T Consensus        88 ~~p~~~~~~~~c~--------------------~vpCs~~y~~~fGfItIP~lal~AF~~I~vl~~~~~  136 (139)
T PRK03113         88 KIAAFSAAGAACG--------------------RVPCTGEYINWFGFVTIPFLALIGFITIAVCSFIVI  136 (139)
T ss_pred             HCCCCCCCCCCCC--------------------CCCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             8066654367788--------------------999877888772671478899999999999999987


No 8  
>PRK00611 putative disulfide oxidoreductase; Provisional
Probab=99.62  E-value=2.7e-14  Score=104.99  Aligned_cols=127  Identities=13%  Similarity=0.180  Sum_probs=81.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             99642169999999999999999999995278870557998999999999999999972011111012259999999999
Q gi|255764466|r    7 STLANIPLPRIILLNISGVIVCFLMIQHVGGYPPCDLCIQEQKIYYFGFLIALVADLSTRNHNSYWSTRLLLMTLGLLMF   86 (174)
Q Consensus         7 ~~~~~~~l~li~~l~~~~ll~~A~~~qy~~gl~PC~LCi~QR~py~~~i~i~l~~~l~~~~~~~~~~~~~~~~~~~l~~~   86 (174)
                      +-..+..+...-.++.++.++ ++|+-+++|++||+||+|||+..|-..++..++.+.+.....    +    ...-.++
T Consensus         3 ~~~~~~~L~~Aw~va~~AtlG-SLyfSEv~~~~PC~LCWyQRI~MYPL~iiLgia~~r~D~~v~----~----Y~lpLs~   73 (135)
T PRK00611          3 KFLRSYALYFAWLISCIGTLM-SIYYSYILNVEPCVLCYYQRICLFPLVVILGIAAYREDSSIK----I----YALPLAL   73 (135)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH-HHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCEE----E----HHHHHHH
T ss_conf             689985999999999999999-999999628987378999999999999999999961677633----2----0779999


Q ss_pred             HHHHHHHHHHHHHHCCHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCHHHHHC-CCHHHHHHHHHHHHHHHHHH
Q ss_conf             99999998658875000101122223431000265889999842899984710033210-14688999999999999999
Q gi|255764466|r   87 FNMTISVIHVGIECGIWEKNAICMNNSKIESITSTVDLLTQMEQENIPSCNKTTLYVLG-LSLAFWNIIVSFFLSFITSI  165 (174)
Q Consensus        87 ~g~~ia~yH~giE~~~~~~~~~C~~~~~~~~~~~~~~l~~~l~~~~~~~C~ev~w~flG-lSma~wn~i~~~~l~~i~~~  165 (174)
                      .|..+|.||..+|+-. +....|.                     +.++|++. +..+| +|+|-.+++.|..++++..+
T Consensus        74 iG~~is~YH~~lq~~p-~~~~~~c---------------------~~v~C~~~-~~~fGfItIP~lal~AF~~I~~ll~l  130 (135)
T PRK00611         74 LGFGIAIYQVCLQEIP-GMTLDIC---------------------GRVSCSTK-LFLFGFITIPMASAVAFCAIACLLVL  130 (135)
T ss_pred             HHHHHHHHHHHHHHCC-CCCCCCC---------------------CCCCCCCC-CHHCCCCCHHHHHHHHHHHHHHHHHH
T ss_conf             9999999999999826-5457778---------------------89998875-23406046998999999999999987


No 9  
>pfam07884 VKOR Vitamin K epoxide reductase family. Vitamin K epoxide reductase (VKOR) recycles reduced vitamin K, which is used subsequently as a co-factor in the gamma-carboxylation of glutamic acid residues in blood coagulation enzymes. VKORC1 is a member of a large family of predicted enzymes that are present in vertebrates, Drosophila, plants, bacteria and archaea. Four cysteine residues and one residue, which is either serine or threonine, are identified as likely active-site residues. In some plant and bacterial homologues the VKORC1 homologous domain is fused with domains of the thioredoxin family of oxidoreductases.
Probab=88.30  E-value=1.8  Score=22.06  Aligned_cols=36  Identities=14%  Similarity=0.368  Sum_probs=21.2

Q ss_pred             CCCCCCH----HHHHCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9847100----33210146889999999999999999994
Q gi|255764466|r  134 PSCNKTT----LYVLGLSLAFWNIIVSFFLSFITSIAMLK  169 (174)
Q Consensus       134 ~~C~ev~----w~flGlSma~wn~i~~~~l~~i~~~~~~~  169 (174)
                      .+||+|.    =+++|+..+.+-+..+..+..+......+
T Consensus        41 ~~C~~V~~S~~a~~fGiP~s~~G~~~y~~~~~l~~~~~~~   80 (138)
T pfam07884        41 VSCSKVLNSPWATIFGIPNSLLGILAYLVVLLLGVLGLAG   80 (138)
T ss_pred             CCHHHHHCCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             8867574576598729972789999999999999999725


No 10 
>smart00756 VKc Family of likely enzymes that includes the catalytic subunit of vitamin K epoxide reductase. Bacterial homologues are fused to members of the thioredoxin family of oxidoreductases.
Probab=85.73  E-value=2.6  Score=21.19  Aligned_cols=68  Identities=19%  Similarity=0.308  Sum_probs=33.8

Q ss_pred             HHHHHHHHHHHHHHHHHHCCHHHC---CCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCHH----HHHCCCHHHHHHHH
Q ss_conf             999999999998658875000101---12222343100026588999984289998471003----32101468899999
Q gi|255764466|r   83 LLMFFNMTISVIHVGIECGIWEKN---AICMNNSKIESITSTVDLLTQMEQENIPSCNKTTL----YVLGLSLAFWNIIV  155 (174)
Q Consensus        83 l~~~~g~~ia~yH~giE~~~~~~~---~~C~~~~~~~~~~~~~~l~~~l~~~~~~~C~ev~w----~flGlSma~wn~i~  155 (174)
                      +..+.|...|.|-...|++.-++|   +.|+-+                   +..+||+|.=    +++|+..|-+-+..
T Consensus        10 ~l~~iGl~~S~yL~~~~~~~~~~~~~~~~C~i~-------------------~~~~C~~V~~S~ys~~fGiP~~~~G~~~   70 (142)
T smart00756       10 ILGLIGLLASLYLTYEKLTLLEDPDYVASCDIN-------------------PVVSCGKVLSSPYASIFGIPLSLLGIAA   70 (142)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC-------------------CCCCCHHHHCCHHHHHCCCCHHHHHHHH
T ss_conf             999999999999999999743599878788989-------------------8878053646774986299608999999


Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             99999999999994
Q gi|255764466|r  156 SFFLSFITSIAMLK  169 (174)
Q Consensus       156 ~~~l~~i~~~~~~~  169 (174)
                      +..+..+......+
T Consensus        71 y~~~l~l~~~~~~~   84 (142)
T smart00756       71 YLVVLALAVLGLLG   84 (142)
T ss_pred             HHHHHHHHHHHHCC
T ss_conf             99999999999746


No 11 
>COG0590 CumB Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]
Probab=69.37  E-value=1.7  Score=22.31  Aligned_cols=10  Identities=30%  Similarity=0.899  Sum_probs=7.7

Q ss_pred             HCCCCHHHHH
Q ss_conf             2788705579
Q gi|255764466|r   36 GGYPPCDLCI   45 (174)
Q Consensus        36 ~gl~PC~LCi   45 (174)
                      .-+|||+||.
T Consensus        83 vT~EPC~MCa   92 (152)
T COG0590          83 VTLEPCPMCA   92 (152)
T ss_pred             EECCHHHHHH
T ss_conf             8668289999


No 12 
>cd01285 nucleoside_deaminase Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on the substrate. The functional enzyme is a homodimer. Cytosine deaminase catalyzes the deamination of cytosine to uracil and ammonia and is a member of the pyrimidine salvage pathway. Cytosine deaminase is found in bacteria and fungi but is not present in mammals; for this reason, the enzyme is currently of interest for antimicrobial drug design and gene therapy applications against tumors. Some members of this family are tRNA-specific adenosine deaminases that generate inosine at the first position of their anticodon (position 34) of specific tRNAs; this modification is thought to enlarge the codon recognition capacity during protei
Probab=66.79  E-value=2.2  Score=21.63  Aligned_cols=11  Identities=27%  Similarity=0.854  Sum_probs=7.2

Q ss_pred             HCCCCHHHHHH
Q ss_conf             27887055799
Q gi|255764466|r   36 GGYPPCDLCIQ   46 (174)
Q Consensus        36 ~gl~PC~LCi~   46 (174)
                      --+|||++|..
T Consensus        72 ~TlEPC~mC~~   82 (109)
T cd01285          72 TTLEPCPMCAG   82 (109)
T ss_pred             CCCCCHHHHHH
T ss_conf             48898599999


No 13 
>PRK10860 tRNA-specific adenosine deaminase; Provisional
Probab=63.77  E-value=2.6  Score=21.18  Aligned_cols=11  Identities=27%  Similarity=0.718  Sum_probs=8.5

Q ss_pred             HHCCCCHHHHH
Q ss_conf             52788705579
Q gi|255764466|r   35 VGGYPPCDLCI   45 (174)
Q Consensus        35 ~~gl~PC~LCi   45 (174)
                      +.-+|||++|.
T Consensus        92 YVTLEPC~MCa  102 (178)
T PRK10860         92 YVTLEPCVMCA  102 (178)
T ss_pred             EEECCCCHHHH
T ss_conf             96548768899


No 14 
>KOG0324 consensus
Probab=52.57  E-value=2.8  Score=20.96  Aligned_cols=75  Identities=17%  Similarity=0.216  Sum_probs=43.0

Q ss_pred             HHHHHHHHHHHHHHHHC---------C--HHHCCCCCCCCCCC--------------CCCCHHHHHHHHHCCCCCC----
Q ss_conf             99999999986588750---------0--01011222234310--------------0026588999984289998----
Q gi|255764466|r   85 MFFNMTISVIHVGIECG---------I--WEKNAICMNNSKIE--------------SITSTVDLLTQMEQENIPS----  135 (174)
Q Consensus        85 ~~~g~~ia~yH~giE~~---------~--~~~~~~C~~~~~~~--------------~~~~~~~l~~~l~~~~~~~----  135 (174)
                      .....++++||.|||-+         .  ..+..+|.++...+              ...+..+.++.+...-.++    
T Consensus        29 y~~~lGlGIfHSgIeV~g~EyayG~h~~~~sGIfe~~P~~~~~f~fr~sI~lG~Td~~~~~v~~~le~L~~ey~G~~YhL  108 (214)
T KOG0324          29 YLYWLGLGIFHSGIEVHGVEYAYGAHEYPSSGIFEVEPGNCPEFTFRKSILLGSTDLTEDDVRRILEELSEEYRGNSYHL  108 (214)
T ss_pred             HHHHHCCEEEEEEEEEECEEEECCCCCCCCCCEEEECCCCCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEHH
T ss_conf             55431110675037981214423654468887686489888888645778834777899999999999876527852213


Q ss_pred             --------CCCCHHHHHCCCHHHH-HHHHHHHH
Q ss_conf             --------4710033210146889-99999999
Q gi|255764466|r  136 --------CNKTTLYVLGLSLAFW-NIIVSFFL  159 (174)
Q Consensus       136 --------C~ev~w~flGlSma~w-n~i~~~~l  159 (174)
                              |+++.-.+-|=++|+| |=+..++.
T Consensus       109 ~~kNCNHFsn~la~~Ltgk~IP~winrLa~~~~  141 (214)
T KOG0324         109 LTKNCNHFSNELALQLTGKKIPSWVNRLARAGL  141 (214)
T ss_pred             HHHCCCHHHHHHHHHHCCCCCCHHHHHHHHHHH
T ss_conf             341540058999999718986278998888765


No 15 
>TIGR01478 STEVOR variant surface antigen, stevor family; InterPro: IPR006374   Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see .   This entry represents the stevor (short for "subtelomeric variable open reading frame") family of predicted variant surface antigens. This is the third largest variant surface antigen family in P. falciparum, with 33 genes identified in the genome of this parasite . The function of these proteins is not known, but they are expressed during several stages of the parasite life-cycle and may play a variety of roles in parasite survival and infection ..
Probab=41.12  E-value=25  Score=15.27  Aligned_cols=28  Identities=21%  Similarity=0.259  Sum_probs=17.8

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             14688999999999999999999420379
Q gi|255764466|r  146 LSLAFWNIIVSFFLSFITSIAMLKISRKK  174 (174)
Q Consensus       146 lSma~wn~i~~~~l~~i~~~~~~~~~kkk  174 (174)
                      -=||.- +++-+.+.++.++.+++.+|||
T Consensus       276 yGIAAl-VLi~L~V~LIiLYIWLYrRRK~  303 (315)
T TIGR01478       276 YGIAAL-VLIILTVVLIILYIWLYRRRKK  303 (315)
T ss_pred             HHHHHH-HHHHHHHHHHHHHHHHHHHCCH
T ss_conf             589999-9999999999998888564030


No 16 
>PRK12437 prolipoprotein diacylglyceryl transferase; Reviewed
Probab=35.83  E-value=30  Score=14.76  Aligned_cols=33  Identities=15%  Similarity=0.159  Sum_probs=19.4

Q ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             332101468899999999999999999942037
Q gi|255764466|r  141 LYVLGLSLAFWNIIVSFFLSFITSIAMLKISRK  173 (174)
Q Consensus       141 w~flGlSma~wn~i~~~~l~~i~~~~~~~~~kk  173 (174)
                      ..+.|+|+++|-.+..+...++..+...|+.+|
T Consensus       229 ~~~~~lt~~Q~lSl~~i~~G~~ll~~~~rr~~k  261 (269)
T PRK12437        229 MLTGNLRMAQVMSILGIIIGLVLLIYIRRRGLK  261 (269)
T ss_pred             HHHCCCCHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             874781199999999999999999999862655


No 17 
>TIGR01477 RIFIN variant surface antigen, rifin family; InterPro: IPR006373   Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see .   This entry represents the rifin family of variant surface antigens, encoded by the rif (short for "repetetive interspersed family") genes. This is the largest variant surface antigen family in P. falciparum, with roughly 150 genes present in the genome of this parasite . The function of these proteins is not yet known, but rifins are strongly immunogenic and high levels of anti-rifin antibodies are correlated with rapid parasite clearance and asymptomatic infections . .
Probab=33.15  E-value=33  Score=14.50  Aligned_cols=15  Identities=27%  Similarity=0.401  Sum_probs=7.4

Q ss_pred             HHHHHHHHHHHCCCC
Q ss_conf             999999999420379
Q gi|255764466|r  160 SFITSIAMLKISRKK  174 (174)
Q Consensus       160 ~~i~~~~~~~~~kkk  174 (174)
                      .-+-+|.++||+|||
T Consensus       367 IMvIIYLILRYRRKK  381 (395)
T TIGR01477       367 IMVIIYLILRYRRKK  381 (395)
T ss_pred             HHHHHHHHHHHHHHH
T ss_conf             999999987543112


No 18 
>PRK13882 conjugal transfer protein TrbP; Provisional
Probab=31.77  E-value=33  Score=14.56  Aligned_cols=10  Identities=0%  Similarity=-0.017  Sum_probs=4.0

Q ss_pred             CCCCHHHHHC
Q ss_conf             4710033210
Q gi|255764466|r  136 CNKTTLYVLG  145 (174)
Q Consensus       136 C~ev~w~flG  145 (174)
                      |+++.|+-..
T Consensus       155 ~~~~~~~~~~  164 (232)
T PRK13882        155 FRRPAWAAAA  164 (232)
T ss_pred             HCCCCHHHHH
T ss_conf             6285069999


No 19 
>TIGR02502 type_III_YscX type III secretion protein, YscX family; InterPro: IPR012672   Members of this family are encoded within bacterial type III secretion gene clusters. Among all species with type III secretion, those with this protein are found among those that target animal rather than plant cells. The member of this family in Yersinia was shown by mutation to be required for type III secretion of Yops effector proteins and therefore is believed to be part of the secretion machinery ..
Probab=29.32  E-value=17  Score=16.31  Aligned_cols=39  Identities=15%  Similarity=0.087  Sum_probs=18.9

Q ss_pred             HH-HHHHHHHHCC--HHHCCCCCCCC---CCCCCCCHHHHHHHHH
Q ss_conf             99-9865887500--01011222234---3100026588999984
Q gi|255764466|r   91 IS-VIHVGIECGI--WEKNAICMNNS---KIESITSTVDLLTQME  129 (174)
Q Consensus        91 ia-~yH~giE~~~--~~~~~~C~~~~---~~~~~~~~~~l~~~l~  129 (174)
                      ++ .+|+|||+--  -.++..|+-..   -.++.-+++.=++.+.
T Consensus         4 v~ta~hiGIE~L~~~s~eE~~~~LP~Ry~L~PDG~~VeTH~~~LY   48 (126)
T TIGR02502         4 VSTALHIGIEKLTAISAEEVDTDLPERYALLPDGQPVETHLERLY   48 (126)
T ss_pred             CCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHHHHHC
T ss_conf             123011236664033047788987611268876786224676405


No 20 
>pfam02009 Rifin_STEVOR Rifin/stevor family. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens.
Probab=28.47  E-value=40  Score=14.02  Aligned_cols=14  Identities=29%  Similarity=0.465  Sum_probs=8.6

Q ss_pred             HHHHHHHHHHCCCC
Q ss_conf             99999999420379
Q gi|255764466|r  161 FITSIAMLKISRKK  174 (174)
Q Consensus       161 ~i~~~~~~~~~kkk  174 (174)
                      .+-++.++|++|||
T Consensus       262 MvIIYLILRYRRKK  275 (289)
T pfam02009       262 MLIIYLILRYRRKK  275 (289)
T ss_pred             HHHHHHHHHHHHHH
T ss_conf             99999999873212


No 21 
>KOG1018 consensus
Probab=28.24  E-value=20  Score=15.86  Aligned_cols=10  Identities=30%  Similarity=0.883  Sum_probs=7.2

Q ss_pred             HCCCCHHHHH
Q ss_conf             2788705579
Q gi|255764466|r   36 GGYPPCDLCI   45 (174)
Q Consensus        36 ~gl~PC~LCi   45 (174)
                      --.|||++|-
T Consensus        90 vt~ePc~mC~   99 (169)
T KOG1018          90 VTCEPCPMCA   99 (169)
T ss_pred             EEECCCHHHH
T ss_conf             9955448899


No 22 
>TIGR02611 TIGR02611 conserved hypothetical protein TIGR02611; InterPro: IPR013434    Proteins in this entry are putative Actinobacterial proteins of about 150 amino acids in length, with three predicted transmembrane helices and an unusual motif with consensus sequence PGPGW..
Probab=28.15  E-value=36  Score=14.32  Aligned_cols=20  Identities=15%  Similarity=0.107  Sum_probs=7.1

Q ss_pred             HHHCCCHHHHHHHHHHHHHH
Q ss_conf             32101468899999999999
Q gi|255764466|r  142 YVLGLSLAFWNIIVSFFLSF  161 (174)
Q Consensus       142 ~flGlSma~wn~i~~~~l~~  161 (174)
                      ++=-++++.--+++-+.++.
T Consensus        96 r~R~~~~~~~~v~~~~V~~G  115 (126)
T TIGR02611        96 RVRALLVGLLIVVIWAVLAG  115 (126)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999999999999999


No 23 
>pfam01790 LGT Prolipoprotein diacylglyceryl transferase.
Probab=26.57  E-value=43  Score=13.81  Aligned_cols=28  Identities=21%  Similarity=0.209  Sum_probs=17.3

Q ss_pred             HHCCCHHHHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             2101468899999999999999999942037
Q gi|255764466|r  143 VLGLSLAFWNIIVSFFLSFITSIAMLKISRK  173 (174)
Q Consensus       143 flGlSma~wn~i~~~~l~~i~~~~~~~~~kk  173 (174)
                      ..|+|+++|   .|+.+.++....+.+.+||
T Consensus       230 ~~~lt~~Q~---~sl~~i~~G~~l~~~~~rr  257 (257)
T pfam01790       230 GGGLRMGQI---LSIPMILLGIILIIFARRK  257 (257)
T ss_pred             CCCCCHHHH---HHHHHHHHHHHHHHHHHCC
T ss_conf             288249999---9999999999999987249


No 24 
>pfam05879 RHD3 Root hair defective 3 GTP-binding protein (RHD3). This family consists of several eukaryotic root hair defective 3 like GTP-binding proteins. It has been speculated that the RHD3 protein is a member of a novel class of GTP-binding proteins that is widespread in eukaryotes and required for regulated cell enlargement. The family also contains the homologous yeast synthetic enhancement of YOP1 (SEY1) protein which is involved in membrane trafficking.
Probab=22.01  E-value=53  Score=13.28  Aligned_cols=45  Identities=20%  Similarity=0.105  Sum_probs=17.7

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999997201111101225999999999999999998658
Q gi|255764466|r   48 QKIYYFGFLIALVADLSTRNHNSYWSTRLLLMTLGLLMFFNMTISVIHVG   97 (174)
Q Consensus        48 R~py~~~i~i~l~~~l~~~~~~~~~~~~~~~~~~~l~~~~g~~ia~yH~g   97 (174)
                      ++|+|+.+++.+++.     .......|-=+++..+..+.+.++..|+.+
T Consensus       646 ~iP~w~~~lLlvLGw-----NE~m~VLrnPl~~~ll~v~~~~~y~~~~l~  690 (741)
T pfam05879       646 QIPPYFYVLLLVLGW-----NEFMAVLRNPLYFLLLFVLGLTVYVLYQLG  690 (741)
T ss_pred             CCCHHHHHHHHHHHH-----HHHHHHHHCHHHHHHHHHHHHHHHHHHHHC
T ss_conf             787999999999808-----999999988799999999999999999931


No 25 
>PTZ00042 stevor; Provisional
Probab=21.89  E-value=53  Score=13.27  Aligned_cols=32  Identities=16%  Similarity=0.108  Sum_probs=15.4

Q ss_pred             HHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             321014688999999999999999999420379
Q gi|255764466|r  142 YVLGLSLAFWNIIVSFFLSFITSIAMLKISRKK  174 (174)
Q Consensus       142 ~flGlSma~wn~i~~~~l~~i~~~~~~~~~kkk  174 (174)
                      .|..-.+|...+++-.++ ++-++.+++.+||+
T Consensus       261 ~F~P~GIaalVLlilaVv-LIILYIWLyrRRKn  292 (304)
T PTZ00042        261 AFYPCGIAALVLLILAVV-LIILYIWLYRRRKN  292 (304)
T ss_pred             HHCCCHHHHHHHHHHHHH-HHHHHHHHHHHHCC
T ss_conf             411629999999999999-99999999984124


No 26 
>PRK10332 hypothetical protein; Provisional
Probab=21.59  E-value=54  Score=13.23  Aligned_cols=23  Identities=9%  Similarity=0.167  Sum_probs=10.3

Q ss_pred             HHHHHHHHHCCCCCCCCCCHHHH
Q ss_conf             58899998428999847100332
Q gi|255764466|r  121 TVDLLTQMEQENIPSCNKTTLYV  143 (174)
Q Consensus       121 ~~~l~~~l~~~~~~~C~ev~w~f  143 (174)
                      +..+-.+-..+....|..++=+.
T Consensus        66 p~gWq~~r~qt~~a~C~~itV~v   88 (107)
T PRK10332         66 PANWQVNRMQTSQAGCVSISVTL   88 (107)
T ss_pred             CCCCCHHHEEECCCCEEEEEEEE
T ss_conf             98752010150677608999999


No 27 
>PTZ00046 rifin; Provisional
Probab=20.85  E-value=56  Score=13.14  Aligned_cols=14  Identities=29%  Similarity=0.472  Sum_probs=9.0

Q ss_pred             HHHHHHHHHHCCCC
Q ss_conf             99999999420379
Q gi|255764466|r  161 FITSIAMLKISRKK  174 (174)
Q Consensus       161 ~i~~~~~~~~~kkk  174 (174)
                      -+-++..+|++|||
T Consensus       321 MvIIYLILRYRRKK  334 (348)
T PTZ00046        321 MVIIYLILRYRRKK  334 (348)
T ss_pred             HHHHHHHHHHHHHH
T ss_conf             99999999873201


Done!