Query         gi|254780578|ref|YP_003064991.1| phosphatidylserine synthase [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 298
No_of_seqs    175 out of 1932
Neff          7.6 
Searched_HMMs 39220
Date          Sun May 29 22:12:15 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780578.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 COG1183 PssA Phosphatidylserin 100.0       0       0  304.7  20.8  224   52-284     6-233 (234)
  2 TIGR00473 pssA CDP-diacylglyce 100.0 5.7E-41 1.4E-45  252.1  12.8  164   62-230     1-174 (174)
  3 pfam01066 CDP-OH_P_transf CDP-  99.7 1.8E-16 4.7E-21  112.3  10.0   77   55-131     2-78  (96)
  4 COG0558 PgsA Phosphatidylglyce  99.6   6E-15 1.5E-19  103.7  11.6   84   53-136    10-96  (192)
  5 PRK10832 phosphatidylglyceroph  99.6 4.2E-14 1.1E-18   98.9  11.5   71   54-124     2-75  (182)
  6 KOG1617 consensus               99.6 4.4E-15 1.1E-19  104.5   6.2   79   50-128    63-141 (243)
  7 PTZ00307 ethanolamine phosphot  99.5   2E-12   5E-17   89.3  14.8   79   55-133    60-149 (417)
  8 KOG2877 consensus               99.5 5.4E-13 1.4E-17   92.5  11.5   96   41-138    38-144 (389)
  9 TIGR00560 pgsA CDP-diacylglyce  99.4 7.9E-12   2E-16   85.9   9.9   77   56-132     2-98  (217)
 10 COG5050 EPT1 sn-1,2-diacylglyc  99.2 1.2E-10   3E-15   79.2  10.0   92   47-139    37-139 (384)
 11 KOG3240 consensus               99.0 1.6E-08   4E-13   67.1  12.2   77   55-132    13-89  (218)
 12 PRK10921 twin-arginine protein  89.8     1.2 3.1E-05   22.1   7.2   34  263-296   220-253 (255)
 13 pfam08009 CDP-OH_P_tran_2 CDP-  89.7    0.38 9.7E-06   24.9   3.3   36  239-274     4-39  (39)
 14 PRK10478 putative fructose-lik  81.0     1.4 3.5E-05   21.8   2.6   36   91-127   106-141 (359)
 15 COG4512 AgrB Membrane protein   78.4     4.3 0.00011   19.0   8.1   84  206-289   103-193 (198)
 16 PRK10746 putative transport pr  73.9     5.7 0.00015   18.2   9.2   30  264-293   432-461 (461)
 17 PRK10644 arginine:agmatin anti  69.8     7.1 0.00018   17.7   9.1   41  251-292   399-439 (445)
 18 PRK10655 potE putrescine trans  64.3     9.2 0.00023   17.1   8.3   36  254-290   402-437 (438)
 19 PRK09509 fieF ferrous iron eff  51.2      16  0.0004   15.8  10.4   24  104-127    33-56  (300)
 20 PRK05951 ubiA prenyltransferas  48.2      17 0.00044   15.5  16.2   83  207-289   173-267 (296)
 21 PRK08457 motB flagellar motor   45.9      18 0.00045   15.5   2.5   38  102-139     2-41  (251)
 22 KOG3059 consensus               41.1      23 0.00058   14.8  15.1  121    2-129     2-134 (292)
 23 TIGR01477 RIFIN variant surfac  39.0      24 0.00062   14.6   5.1   26  263-288   360-385 (395)
 24 COG2966 Uncharacterized conser  36.9      26 0.00067   14.5   4.5   55   52-108   120-174 (250)
 25 TIGR01478 STEVOR variant surfa  33.3      30 0.00077   14.1   4.0   38   95-132   155-194 (315)
 26 PRK05342 clpX ATP-dependent pr  32.0       4  0.0001   19.1  -2.6   49   85-133   239-302 (411)
 27 COG1219 ClpX ATP-dependent pro  30.9     9.6 0.00025   16.9  -0.8   50   84-133   226-291 (408)
 28 PRK09038 flagellar motor prote  30.9      33 0.00085   13.9   3.1   39  102-140     3-43  (285)
 29 pfam05297 Herpes_LMP1 Herpesvi  29.9      35 0.00088   13.8  11.6   49  246-296   151-200 (382)
 30 pfam05646 consensus             29.7      35 0.00089   13.8   6.2   76   53-134    22-97  (110)
 31 PRK10245 adrA diguanylate cycl  29.3      36 0.00091   13.7  10.0   97   17-129    14-114 (371)
 32 PRK03557 zinc transporter ZitB  28.9      36 0.00092   13.7   9.8   14  115-128    52-65  (312)
 33 COG0053 MMT1 Predicted Co/Zn/C  28.7      36 0.00093   13.7  10.0   26  103-128    34-59  (304)
 34 pfam03248 Rer1 Rer1 family. RE  28.7      36 0.00093   13.7   3.3   11  262-272   134-144 (175)
 35 TIGR00821 EII-GUT PTS system,   27.8      23 0.00059   14.8   0.7   14  265-278   142-155 (181)
 36 PRK00159 putative septation in  27.5      38 0.00098   13.5   4.7   33   49-81     26-58  (87)
 37 cd05142 Barstar Barstar is an   24.5      44  0.0011   13.2   1.9   26   99-124    17-42  (87)
 38 COG0530 ECM27 Ca2+/Na+ antipor  24.3      44  0.0011   13.2   7.4   39   71-109    63-106 (320)
 39 pfam05454 DAG1 Dystroglycan (D  23.8      45  0.0011   13.1   2.5   20  275-294   165-184 (290)
 40 PRK06667 motB flagellar motor   23.6      45  0.0012   13.1   2.7   35  102-136     4-40  (254)
 41 PRK10238 aromatic amino acid t  23.3      46  0.0012   13.1   6.6   14  265-278   431-444 (456)
 42 cd00489 Barstar_like Barstar i  22.6      48  0.0012   13.0   1.8   28   99-126    16-43  (85)
 43 PRK11357 frlA putative fructos  20.6      52  0.0013   12.8   7.6   25  265-289   419-443 (445)
 44 TIGR00947 2A73 inorganic carbo  20.1      45  0.0012   13.1   1.0   98   26-141   164-266 (467)

No 1  
>COG1183 PssA Phosphatidylserine synthase [Lipid metabolism]
Probab=100.00  E-value=0  Score=304.73  Aligned_cols=224  Identities=33%  Similarity=0.585  Sum_probs=191.4

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             03656778999999999999999998598799999999999997321799996197655647888889878999899999
Q gi|254780578|r   52 PFKFLFPNLVTILAICAGFSGIGSAIEGNYETAVCMVLVAAFLDGIDGRIARFMEATSKFGAQLDSLADVINFGVAPSLV  131 (298)
Q Consensus        52 ~~~~~~pn~~t~~~~~~g~~~i~~~~~~~~~~a~~~~~~a~~~D~~DG~~AR~~~~~s~~G~~ld~~~D~vsFgvaPail  131 (298)
                      ..++.+||++|++|++||++||..+.+|+++.|.+++.+|+++|++||++||++|.+|.+|+|+||++|.|||||||+++
T Consensus         6 ~~~~~~pn~iT~~~~~~G~~sI~~a~~~~~~~a~~~i~lA~i~DglDG~VAR~~~~~s~~G~~lDSLaD~VsFgVaPA~l   85 (234)
T COG1183           6 KRLYLLPNLITALGLFLGLLSIVAALEGRFEAALLLILLALILDGLDGRVARKLNAKSAFGAELDSLADLVSFGVAPALL   85 (234)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             56887525999999999999999997167999999999999980653199876078616888775798898850678999


Q ss_pred             HHHHHCCCCCCCHHHCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCHHHHH
Q ss_conf             86310234442001000024677788888776521456677554544311013442100022222201464332003899
Q gi|254780578|r  132 TYIAVLRQAHAFGWSIALMYTIAISLRLARFNIMNDCDEKDNWKSEYFVGVPAPLGAILLMLPLYINFLGFKISVIYGYG  211 (298)
Q Consensus       132 ~y~~~~~~~~~~~~~~~~~~~~~~~~rla~fn~~~~~~~~~~~~~~~F~GlP~pa~a~~i~~~~~~~~~~~~~~~~~~~~  211 (298)
                      .|.+...+ +..++..+.+|++|+++|++|||+...+      ++++|+|+|+|+++..+....+.....  ........
T Consensus        86 ~y~~~~~~-~~~~~~~a~~~~~~~alRLArFN~~~~~------~~~~F~GlPip~~a~~~~~~~~~~~~~--~~~~~~~~  156 (234)
T COG1183          86 LYSSGLNT-GPLGLLAALLYVLCGALRLARFNVKTND------DKNFFIGLPIPAAAVVVVLLVLLYHSL--PTGLATVL  156 (234)
T ss_pred             HHHHHCCC-CCHHHHHHHHHHHHHHHHHHHCCCEECC------CCCCEEECCHHHHHHHHHHHHHHHCCC--CHHHHHHH
T ss_conf             99983247-7689999999999999999972671047------788526653578999999999996223--12379999


Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999875103433501222332000799----99999999999985699999999999999999999984653
Q gi|254780578|r  212 STIYAMIISFLLCSRLPVWSGKKIHRKFVLPI----VLCSVAYIAFMIHFLWEMIIFSTLCYIMLLPISFYCWKKRY  284 (298)
Q Consensus       212 i~~~~~iis~LmVs~i~~~s~K~~~~~~~~~~----ll~i~l~i~ll~~~~~~~L~il~~~Yll~~pi~~~~~~k~~  284 (298)
                      ....+..++++|+|++|++++|+.........    .+.+.++......++|..+.+....|.+++++.+..++|++
T Consensus       157 ~~~~~~~l~~Lmvs~i~~~~~k~~~~~v~~~~~~~~~~~l~~~~~~~~~~~~~~l~~~~~~y~~~~~~~~~~~~~~~  233 (234)
T COG1183         157 LSGILLLLSILMVSNIPFPSLKKLNALVRVVLLLAGILLLALLALVLILYPWLLLLVIASGYLLSIPIRVRQWFKKL  233 (234)
T ss_pred             HHHHHHHHHHHHEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             99999999988022664687665530000899999999999999985011599999999999999999998632558


No 2  
>TIGR00473 pssA CDP-diacylglycerol--serine O-phosphatidyltransferase; InterPro: IPR004533 This enzyme, CDP-diacylglycerol--serine O-phosphatidyltransferase, is involved in phospholipid biosynthesis catalyzing the reaction CDP-diacylglycerol + L-serine = CMP + L-1-phosphatidylserine. Members of this family do not bear any significant sequence similarity to the corresponding Escherichia coli protein.; GO: 0003882 CDP-diacylglycerol-serine O-phosphatidyltransferase activity, 0008654 phospholipid biosynthetic process, 0046341 CDP-diacylglycerol metabolic process, 0016020 membrane.
Probab=100.00  E-value=5.7e-41  Score=252.09  Aligned_cols=164  Identities=34%  Similarity=0.506  Sum_probs=145.3

Q ss_pred             HHHHHHHHHHHHHHHHCCCH-------HHHHHHHHHHHHHHHHHHHHHHHCC--CCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999985987-------9999999999999732179999619--76556478888898789998999998
Q gi|254780578|r   62 TILAICAGFSGIGSAIEGNY-------ETAVCMVLVAAFLDGIDGRIARFME--ATSKFGAQLDSLADVINFGVAPSLVT  132 (298)
Q Consensus        62 t~~~~~~g~~~i~~~~~~~~-------~~a~~~~~~a~~~D~~DG~~AR~~~--~~s~~G~~ld~~~D~vsFgvaPail~  132 (298)
                      |.+|.++|++||.....+++       +.|.+++.++.++|++||++|||+|  ..|+||+||||+||.||||||||.+.
T Consensus         1 t~lN~~~G~~aI~~~l~~~~~GkPhyv~~a~~li~ls~~~D~LDG~vARktnri~~S~fG~ELDSLAD~vsFGVAPa~l~   80 (174)
T TIGR00473         1 TMLNIISGLLAILSLLRYTLRGKPHYVVEACLLILLSMIFDFLDGRVARKTNRITVSDFGKELDSLADVVSFGVAPALLA   80 (174)
T ss_pred             CHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHH
T ss_conf             95779999999999862776677079999999999999841015678886356432556641134778899888999999


Q ss_pred             HHHHCCCCCCCHHHCCHHHH-HHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCHHHHH
Q ss_conf             63102344420010000246-77788888776521456677554544311013442100022222201464332003899
Q gi|254780578|r  133 YIAVLRQAHAFGWSIALMYT-IAISLRLARFNIMNDCDEKDNWKSEYFVGVPAPLGAILLMLPLYINFLGFKISVIYGYG  211 (298)
Q Consensus       133 y~~~~~~~~~~~~~~~~~~~-~~~~~rla~fn~~~~~~~~~~~~~~~F~GlP~pa~a~~i~~~~~~~~~~~~~~~~~~~~  211 (298)
                      |..............+..+. +|+++||+|||+.+.+.++++     |+|+|+|++|+.+....................
T Consensus        81 y~~~~y~f~~~~~~~~~~f~~lcG~lRLaRFNv~~~~~~~~~-----FiG~Pip~~al~~~~~~~ldnkyhfle~~~~~~  155 (174)
T TIGR00473        81 YSVALYNFEAILILVAALFVVLCGILRLARFNVLTVKLPKDS-----FIGLPIPVAALLLVSLVLLDNKYHFLEIYSELL  155 (174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCC-----CCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf             998862224678999999999999998887333357899764-----267503345899999987077210022210899


Q ss_pred             HHHHHHHHHHHHHCCCCCH
Q ss_conf             9999999987510343350
Q gi|254780578|r  212 STIYAMIISFLLCSRLPVW  230 (298)
Q Consensus       212 i~~~~~iis~LmVs~i~~~  230 (298)
                      ....++.++.||||+++||
T Consensus       156 ~a~~~~~l~~LMvs~I~yP  174 (174)
T TIGR00473       156 AAIAAILLSVLMVSNIKYP  174 (174)
T ss_pred             HHHHHHHHHHHHCCCCCCC
T ss_conf             9999999763100157899


No 3  
>pfam01066 CDP-OH_P_transf CDP-alcohol phosphatidyltransferase. All of these members have the ability to catalyse the displacement of CMP from a CDP-alcohol by a second alcohol with formation of a phosphodiester bond and concomitant breaking of a phosphoride anhydride bond.
Probab=99.69  E-value=1.8e-16  Score=112.33  Aligned_cols=77  Identities=34%  Similarity=0.452  Sum_probs=72.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             56778999999999999999998598799999999999997321799996197655647888889878999899999
Q gi|254780578|r   55 FLFPNLVTILAICAGFSGIGSAIEGNYETAVCMVLVAAFLDGIDGRIARFMEATSKFGAQLDSLADVINFGVAPSLV  131 (298)
Q Consensus        55 ~~~pn~~t~~~~~~g~~~i~~~~~~~~~~a~~~~~~a~~~D~~DG~~AR~~~~~s~~G~~ld~~~D~vsFgvaPail  131 (298)
                      ...||.+|..++++|+.+.++...+++..+.+++.++.++|++||++||++|++|++|+++|+++|.++.+..+.-+
T Consensus         2 ~~~pN~iT~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~D~~DG~~AR~~~~~S~~G~~lD~~~D~~~~~~~~~~l   78 (96)
T pfam01066         2 GITPNLITLLRLILGLLAALLLLLGQYLLAALLLLLAGLLDGLDGKLARRTGQSSPLGALLDSVADRLSDVALLLGL   78 (96)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf             83778999999999999999999075999999999999999541999988599893798985884699999999999


No 4  
>COG0558 PgsA Phosphatidylglycerophosphate synthase [Lipid metabolism]
Probab=99.63  E-value=6e-15  Score=103.68  Aligned_cols=84  Identities=26%  Similarity=0.241  Sum_probs=70.0

Q ss_pred             HHHHHHHHHHHHH-HHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             3656778999999-99999999999859--87999999999999973217999961976556478888898789998999
Q gi|254780578|r   53 FKFLFPNLVTILA-ICAGFSGIGSAIEG--NYETAVCMVLVAAFLDGIDGRIARFMEATSKFGAQLDSLADVINFGVAPS  129 (298)
Q Consensus        53 ~~~~~pn~~t~~~-~~~g~~~i~~~~~~--~~~~a~~~~~~a~~~D~~DG~~AR~~~~~s~~G~~ld~~~D~vsFgvaPa  129 (298)
                      .+..+||.+|+.+ ++.++.+......+  .+..+.+++.+++++|++||.+||++|+.|++|+.+|+.+|.++.+.++.
T Consensus        10 ~~~~~PN~lTl~r~~l~~~~~~~~~~~~~~~~~~~~~l~~~a~l~D~lDG~lAR~~~~~S~~G~~LDp~~Dk~~~~~~l~   89 (192)
T COG0558          10 KLGNTPNQLTLLRIFLIPLFALLLLLPGLGLLLLALVLFLLAALTDALDGYLARKWGQVSRFGAFLDPVADKLLDAALLL   89 (192)
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             73169719999999999999999999856799999999999999986009999981898841657432557999999999


Q ss_pred             HHHHHHH
Q ss_conf             9986310
Q gi|254780578|r  130 LVTYIAV  136 (298)
Q Consensus       130 il~y~~~  136 (298)
                      .+.+.-.
T Consensus        90 ~l~~~~~   96 (192)
T COG0558          90 GLVALGP   96 (192)
T ss_pred             HHHHHHC
T ss_conf             9999802


No 5  
>PRK10832 phosphatidylglycerophosphate synthetase; Provisional
Probab=99.57  E-value=4.2e-14  Score=98.85  Aligned_cols=71  Identities=27%  Similarity=0.255  Sum_probs=57.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH---CCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHH
Q ss_conf             656778999999999999999998---59879999999999999732179999619765564788888987899
Q gi|254780578|r   54 KFLFPNLVTILAICAGFSGIGSAI---EGNYETAVCMVLVAAFLDGIDGRIARFMEATSKFGAQLDSLADVINF  124 (298)
Q Consensus        54 ~~~~pn~~t~~~~~~g~~~i~~~~---~~~~~~a~~~~~~a~~~D~~DG~~AR~~~~~s~~G~~ld~~~D~vsF  124 (298)
                      +..+||.+|..++++-+.-+...+   ++....|.....+|++.|++||.+|||+|+.|.+|+.+|++||.+--
T Consensus         2 ~~niPN~LT~~Ri~lvP~~v~~~~~~~~~~~~~a~~lf~~a~iTD~lDG~lARk~n~~S~lG~~lDPiADKllv   75 (182)
T PRK10832          2 QFNIPTLLTLFRVILIPFFVLVFYLPFTWAPFVCALIFCVAAVTDWFDGFLARRWNQSTRFGAFLDPVADKVLV   75 (182)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHH
T ss_conf             98702899999999999999999973441899999999999999999799998769968503364478889999


No 6  
>KOG1617 consensus
Probab=99.57  E-value=4.4e-15  Score=104.46  Aligned_cols=79  Identities=30%  Similarity=0.299  Sum_probs=71.0

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             1303656778999999999999999998598799999999999997321799996197655647888889878999899
Q gi|254780578|r   50 IPPFKFLFPNLVTILAICAGFSGIGSAIEGNYETAVCMVLVAAFLDGIDGRIARFMEATSKFGAQLDSLADVINFGVAP  128 (298)
Q Consensus        50 ~~~~~~~~pn~~t~~~~~~g~~~i~~~~~~~~~~a~~~~~~a~~~D~~DG~~AR~~~~~s~~G~~ld~~~D~vsFgvaP  128 (298)
                      ....-+.+||++|++++.++.+-.++..++++..|......|++.|++||.+||+++..|.+|..||.+||++--+...
T Consensus        63 l~~kv~tiPN~Ltl~Ri~a~Pli~~lii~~~~t~A~~~Fa~Ag~TD~lDGyIARk~~l~S~~Gs~LDPlADkvlit~~~  141 (243)
T KOG1617          63 LKSKVLTIPNMLTLARIAATPLIGYLIIDENFTAAFGLFAVAGITDLLDGYIARKMRLGSIAGSVLDPLADKVLITCLT  141 (243)
T ss_pred             CCCCCCCCCHHHHHHHHHHHCEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHCCCHHHHHHHHHHHH
T ss_conf             1022112632788878743060467775133409999999987688777888863133403443027488889999999


No 7  
>PTZ00307 ethanolamine phosphotransferase; Provisional
Probab=99.50  E-value=2e-12  Score=89.33  Aligned_cols=79  Identities=24%  Similarity=0.231  Sum_probs=63.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHC------CC-----HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHH
Q ss_conf             567789999999999999999985------98-----7999999999999973217999961976556478888898789
Q gi|254780578|r   55 FLFPNLVTILAICAGFSGIGSAIE------GN-----YETAVCMVLVAAFLDGIDGRIARFMEATSKFGAQLDSLADVIN  123 (298)
Q Consensus        55 ~~~pn~~t~~~~~~g~~~i~~~~~------~~-----~~~a~~~~~~a~~~D~~DG~~AR~~~~~s~~G~~ld~~~D~vs  123 (298)
                      |+-||.+|+.|+++...+.....-      +.     +....+.+++.+.+|.+||+.|||+|++|++|+.+|+.+|.++
T Consensus        60 w~APN~iTl~G~~~~~~~~~~~~~~~~~~~~~~P~W~~~~~a~~lf~YqtlD~~DGkqARRTg~sspLGeLFDHG~Ds~~  139 (417)
T PTZ00307         60 TVAPNCITFTGFLIGMSSAALLLYFYFFEEGVYPSWVLYYAAFALFAYQTLDAIDGKQARRTGTGSPLGELFDHGCDAFL  139 (417)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCHHHHHCCCCCCCHHHHHCCCHHHH
T ss_conf             55727999999999999999987526444578974699999999999986431142878635788971776624502788


Q ss_pred             HHHHHHHHHH
Q ss_conf             9989999986
Q gi|254780578|r  124 FGVAPSLVTY  133 (298)
Q Consensus       124 FgvaPail~y  133 (298)
                      -.........
T Consensus       140 ~~~~~~~~~~  149 (417)
T PTZ00307        140 TPFVLLNVSL  149 (417)
T ss_pred             HHHHHHHHHH
T ss_conf             8999999999


No 8  
>KOG2877 consensus
Probab=99.49  E-value=5.4e-13  Score=92.54  Aligned_cols=96  Identities=25%  Similarity=0.314  Sum_probs=71.1

Q ss_pred             CHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH--CCC---------HHHHHHHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             1002333101303656778999999999999999998--598---------79999999999999732179999619765
Q gi|254780578|r   41 KRWSLQEKEIPPFKFLFPNLVTILAICAGFSGIGSAI--EGN---------YETAVCMVLVAAFLDGIDGRIARFMEATS  109 (298)
Q Consensus        41 ~~~~~~~~~~~~~~~~~pn~~t~~~~~~g~~~i~~~~--~~~---------~~~a~~~~~~a~~~D~~DG~~AR~~~~~s  109 (298)
                      |-|..-.+..|.  |+-||++|+.|+..-........  +.+         +-.+++.+++.+-+|+.||++|||+|++|
T Consensus        38 pfW~~~v~~~P~--wmAPNlITL~Gl~~~v~~~Ll~~~ydP~~~~~~P~W~y~a~alglFlYqTlDaiDGkQARRTnsSs  115 (389)
T KOG2877          38 PFWNWLVKVFPL--WMAPNLITLIGLIFNVITVLLLLYYDPNLDEPAPRWTYFAAALGLFLYQTLDAIDGKQARRTNSSS  115 (389)
T ss_pred             HHHHHHHHHCCC--CCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCHHHCCCCCCC
T ss_conf             899999987625--028508999989999999999984186568998747999999999998730355646640078999


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             56478888898789998999998631023
Q gi|254780578|r  110 KFGAQLDSLADVINFGVAPSLVTYIAVLR  138 (298)
Q Consensus       110 ~~G~~ld~~~D~vsFgvaPail~y~~~~~  138 (298)
                      ++|+.+|+.+|.++-...--.+.+..+.+
T Consensus       116 PLGELFDHG~DS~stvf~~l~~~s~~~~G  144 (389)
T KOG2877         116 PLGELFDHGCDSISTVFVTLAVCSAFGLG  144 (389)
T ss_pred             CCHHHHCCCCHHHHHHHHHHHHHHHHCCC
T ss_conf             73766513510578899999999996799


No 9  
>TIGR00560 pgsA CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; InterPro: IPR004570 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase (2.7.8.5 from EC), also known as phosphatidylglycerophosphate synthase, glycerophosphate phosphatidyltransferase and PGP synthase, catalyses the conversion ofCDP-diacylglycerol and glycerol-3-phosphate to CMP and 3-(3-phosphatidyl)-glycerol 1-phosphate in the commited step to the synthesis of acidic phospholipids. It is an integral membrane protein. A number of related enzymes are quite similar in both sequence and catalytic activity, including Saccharomyces cerevisiae (Baker's yeast) YDL142c, now known to be a cardiolipin synthase. There may be problems with incorrect transitive annotation of near homologs as authentic CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase.; GO: 0008444 CDP-diacylglycerol-glycerol-3-phosphate 3-phosphatidyltransferase activity, 0008654 phospholipid biosynthetic process, 0016021 integral to membrane.
Probab=99.35  E-value=7.9e-12  Score=85.90  Aligned_cols=77  Identities=31%  Similarity=0.313  Sum_probs=57.3

Q ss_pred             HHHHHHHHHHHHHHHHH-HHHHHCC-----------C--------HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHH
Q ss_conf             67789999999999999-9999859-----------8--------79999999999999732179999619765564788
Q gi|254780578|r   56 LFPNLVTILAICAGFSG-IGSAIEG-----------N--------YETAVCMVLVAAFLDGIDGRIARFMEATSKFGAQL  115 (298)
Q Consensus        56 ~~pn~~t~~~~~~g~~~-i~~~~~~-----------~--------~~~a~~~~~~a~~~D~~DG~~AR~~~~~s~~G~~l  115 (298)
                      .+||-+|+.+++..+-- +....++           +        ...+....++|.+.|++||.+|||+|+.|.||+.+
T Consensus         2 ~~Pn~lT~~Ri~~~~p~~~l~~l~~~~~~~~~~~vG~~~~~~~~~~~~~~~lF~~A~~TDwlDGYlARk~~~vs~fGk~l   81 (217)
T TIGR00560         2 NIPNWLTLFRIFILLPLFILIFLENLLGVLAEFGVGAVVLPIQVSLFIGGLLFLIAAVTDWLDGYLARKWNLVSNFGKFL   81 (217)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEECCEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHH
T ss_conf             76079999999999999999963200211002221300023879989999999999798777899999960212123464


Q ss_pred             HHHHHHHHHHHHHHHHH
Q ss_conf             88898789998999998
Q gi|254780578|r  116 DSLADVINFGVAPSLVT  132 (298)
Q Consensus       116 d~~~D~vsFgvaPail~  132 (298)
                      |++||.+---.|-.++.
T Consensus        82 DPlADK~lv~~a~~Li~   98 (217)
T TIGR00560        82 DPLADKVLVLAALVLII   98 (217)
T ss_pred             HHHHHHHHHHHHHHHHH
T ss_conf             02876999999999999


No 10 
>COG5050 EPT1 sn-1,2-diacylglycerol ethanolamine- and cholinephosphotranferases [Lipid metabolism]
Probab=99.22  E-value=1.2e-10  Score=79.20  Aligned_cols=92  Identities=18%  Similarity=0.262  Sum_probs=67.2

Q ss_pred             HHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCC---------HHH--HHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHH
Q ss_conf             3101303656778999999999999999998598---------799--99999999999732179999619765564788
Q gi|254780578|r   47 EKEIPPFKFLFPNLVTILAICAGFSGIGSAIEGN---------YET--AVCMVLVAAFLDGIDGRIARFMEATSKFGAQL  115 (298)
Q Consensus        47 ~~~~~~~~~~~pn~~t~~~~~~g~~~i~~~~~~~---------~~~--a~~~~~~a~~~D~~DG~~AR~~~~~s~~G~~l  115 (298)
                      .-|+.+. ++-||++|++|++.-...+...+..+         +.+  -.+.+++.+.+|.+||..|||+|+.|++|+.+
T Consensus        37 ll~viP~-~mAPNliTL~Gl~fiv~nvlt~l~ydp~~~~~~~~w~yfs~alg~FlYqtfD~lDG~qARRTGt~spLGeLF  115 (384)
T COG5050          37 LLRVIPY-WMAPNLITLCGLIFIVANVLTTLYYDPCLSVDGPRWTYFSYALGLFLYQTFDALDGRQARRTGTGSPLGELF  115 (384)
T ss_pred             HHHHCCC-CCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCHHHH
T ss_conf             9987010-138339999879999999999995052247786245899999999988633555647652178999718887


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             888987899989999986310234
Q gi|254780578|r  116 DSLADVINFGVAPSLVTYIAVLRQ  139 (298)
Q Consensus       116 d~~~D~vsFgvaPail~y~~~~~~  139 (298)
                      |+-.|.+.-++.-.+++-..+.+.
T Consensus       116 DH~vDsint~l~~i~~~s~~g~g~  139 (384)
T COG5050         116 DHGVDSINTTLSAIIFVSAFGMGE  139 (384)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             512888887899999999966798


No 11 
>KOG3240 consensus
Probab=98.98  E-value=1.6e-08  Score=67.05  Aligned_cols=77  Identities=26%  Similarity=0.371  Sum_probs=64.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             567789999999999999999985987999999999999973217999961976556478888898789998999998
Q gi|254780578|r   55 FLFPNLVTILAICAGFSGIGSAIEGNYETAVCMVLVAAFLDGIDGRIARFMEATSKFGAQLDSLADVINFGVAPSLVT  132 (298)
Q Consensus        55 ~~~pn~~t~~~~~~g~~~i~~~~~~~~~~a~~~~~~a~~~D~~DG~~AR~~~~~s~~G~~ld~~~D~vsFgvaPail~  132 (298)
                      +.+||++-.++.++..+|.++... +...+.++-.++..+|.+||..||++|+.|.||+.||-+-|..+-...-..++
T Consensus        13 ~~iPN~iGY~RI~laiisf~vm~~-~p~~~~~lY~~S~lLDAfDG~aAR~~NQ~S~fGA~LDmvTDR~st~~LL~~L~   89 (218)
T KOG3240          13 LYIPNLIGYMRIVLAILSFYVMSS-NPTTFSVLYLLSSLLDAFDGWAARKLNQVSRFGAMLDMVTDRCSTACLLVFLC   89 (218)
T ss_pred             EEECCHHHHHHHHHHHHHHHHHCC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             984405649999999999999526-93389999999877876527999987204258899999987762699999999


No 12 
>PRK10921 twin-arginine protein translocation system subunit TatC; Provisional
Probab=89.84  E-value=1.2  Score=22.06  Aligned_cols=34  Identities=12%  Similarity=-0.021  Sum_probs=18.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHC
Q ss_conf             9999999999999999984653023565420101
Q gi|254780578|r  263 IFSTLCYIMLLPISFYCWKKRYGIKPEQKKHKDY  296 (298)
Q Consensus       263 ~il~~~Yll~~pi~~~~~~k~~~~~~~~~~~ed~  296 (298)
                      ..+...|-+.+.+..+.-+||++.+++++.+.|.
T Consensus       220 ~Pl~~LYE~~i~i~~~~~~kr~~~~~~~~~~~~~  253 (255)
T PRK10921        220 IPMYCLFEIGVFFSRFYVGKGRNREEENDAEAES  253 (255)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             9999999999999999998664445452001002


No 13 
>pfam08009 CDP-OH_P_tran_2 CDP-alcohol phosphatidyltransferase 2. This domain is found on CDP-alcohol phosphatidyltransferases. These enzymes catalyse the displacement of CMP from a CDP-alcohol by a second alcohol with formation of a phosphodiester bond and concomitant breaking of a phosphoride anhydride bond.
Probab=89.65  E-value=0.38  Score=24.95  Aligned_cols=36  Identities=31%  Similarity=0.744  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             007999999999999998569999999999999999
Q gi|254780578|r  239 FVLPIVLCSVAYIAFMIHFLWEMIIFSTLCYIMLLP  274 (298)
Q Consensus       239 ~~~~~ll~i~l~i~ll~~~~~~~L~il~~~Yll~~p  274 (298)
                      ....++..++..+++++.+||.++.+....|+++.|
T Consensus         4 lvl~~~~~v~v~ia~lI~~PW~tLs~~~v~Yl~slP   39 (39)
T pfam08009         4 LVLPLIVLVVVFIALLITYPWLTLSVLGVLYLLSLP   39 (39)
T ss_pred             EEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             302199999999999997258999999999750389


No 14 
>PRK10478 putative fructose-like permease EIIC subunit 2; Provisional
Probab=80.98  E-value=1.4  Score=21.80  Aligned_cols=36  Identities=14%  Similarity=0.206  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             9999732179999619765564788888987899989
Q gi|254780578|r   91 AAFLDGIDGRIARFMEATSKFGAQLDSLADVINFGVA  127 (298)
Q Consensus        91 a~~~D~~DG~~AR~~~~~s~~G~~ld~~~D~vsFgva  127 (298)
                      +.+.-.+-|.++|+++. -+..+.++++-..+-.-+.
T Consensus       106 aii~GflaGy~v~~lkk-iklp~~l~~l~piliiPll  141 (359)
T PRK10478        106 ALIAGIIGGIVVHYLKK-IPVHKVLRSVMPIFIIPIV  141 (359)
T ss_pred             HHHHHHHHHHHHHHHHH-CCCCHHHHCCCCEEEHHHH
T ss_conf             99999999999999986-7996556511566526668


No 15 
>COG4512 AgrB Membrane protein putatively involved in post-translational modification of the autoinducing quorum-sensing peptide [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Transcription]
Probab=78.36  E-value=4.3  Score=18.96  Aligned_cols=84  Identities=11%  Similarity=0.021  Sum_probs=41.0

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCC-------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             00389999999999875103433-------50122233200079999999999999985699999999999999999999
Q gi|254780578|r  206 VIYGYGSTIYAMIISFLLCSRLP-------VWSGKKIHRKFVLPIVLCSVAYIAFMIHFLWEMIIFSTLCYIMLLPISFY  278 (298)
Q Consensus       206 ~~~~~~i~~~~~iis~LmVs~i~-------~~s~K~~~~~~~~~~ll~i~l~i~ll~~~~~~~L~il~~~Yll~~pi~~~  278 (298)
                      ..+++......++...++.-.-|       ....|-+.++++...+..+++....+++.++..=.++...|+=.+.+..+
T Consensus       103 ~~Nn~~vLa~~iiglL~i~~yAPa~teahplvg~e~~kr~Kk~a~im~lll~iI~liI~~~~kq~i~lg~l~q~IsllPI  182 (198)
T COG4512         103 DANNYAVLAYFIIGLLLIFKYAPADTEAHPLVGTEHRKRLKKRAAIMLLLLFIILLIIPPFSKQGIVLGSLFQGISLLPI  182 (198)
T ss_pred             CCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             62039999999999989873375510017776389999999999999999999999957999889889999865520231


Q ss_pred             HHHHHHCCCCC
Q ss_conf             98465302356
Q gi|254780578|r  279 CWKKRYGIKPE  289 (298)
Q Consensus       279 ~~~k~~~~~~~  289 (298)
                      .+++.++...+
T Consensus       183 ~ykv~~rryrn  193 (198)
T COG4512         183 TYKVLRRRYRN  193 (198)
T ss_pred             HHHHHHHHHHH
T ss_conf             13988889877


No 16 
>PRK10746 putative transport protein YifK; Provisional
Probab=73.85  E-value=5.7  Score=18.25  Aligned_cols=30  Identities=7%  Similarity=0.183  Sum_probs=16.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCCCCCCH
Q ss_conf             999999999999999984653023565420
Q gi|254780578|r  264 FSTLCYIMLLPISFYCWKKRYGIKPEQKKH  293 (298)
Q Consensus       264 il~~~Yll~~pi~~~~~~k~~~~~~~~~~~  293 (298)
                      +..+.+++.....|..|+|+|+.+..+.||
T Consensus       432 ~~~~~~~~~~~~~y~~~~~~r~~~~~~~~~  461 (461)
T PRK10746        432 FVGIIFLLAVTAIYKVFGLNRHGKAHKLEE  461 (461)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCCCCCCCCC
T ss_conf             999999999999999860022577776678


No 17 
>PRK10644 arginine:agmatin antiporter; Provisional
Probab=69.83  E-value=7.1  Score=17.71  Aligned_cols=41  Identities=10%  Similarity=0.074  Sum_probs=18.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             999998569999999999999999999998465302356542
Q gi|254780578|r  251 IAFMIHFLWEMIIFSTLCYIMLLPISFYCWKKRYGIKPEQKK  292 (298)
Q Consensus       251 i~ll~~~~~~~L~il~~~Yll~~pi~~~~~~k~~~~~~~~~~  292 (298)
                      +.++....+..+....+...+-.++ |..+++|+++++++.|
T Consensus       399 ~~~i~~~~~~~~~~~~i~~~~g~~~-Y~~~~~r~~k~~~~~~  439 (445)
T PRK10644        399 IWAVVGSGAKEVMWSFVTLMVITAF-YALNYNRLHKNPYPLD  439 (445)
T ss_pred             HHHHHHCCHHHHHHHHHHHHHHHHH-HHHHHHHHCCCCCCCC
T ss_conf             9999984099999999999999999-9998886049988777


No 18 
>PRK10655 potE putrescine transporter; Provisional
Probab=64.29  E-value=9.2  Score=17.06  Aligned_cols=36  Identities=8%  Similarity=0.113  Sum_probs=20.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             9985699999999999999999999984653023565
Q gi|254780578|r  254 MIHFLWEMIIFSTLCYIMLLPISFYCWKKRYGIKPEQ  290 (298)
Q Consensus       254 l~~~~~~~L~il~~~Yll~~pi~~~~~~k~~~~~~~~  290 (298)
                      +....+..+....+.+++ +...|.+.+||++.+|++
T Consensus       402 i~~~g~~~~~~~~i~~~i-G~~~Y~~~~~k~~~~~~~  437 (438)
T PRK10655        402 LYSSGEEAMLYGSIVTFL-GWTLYGLISPRFELKNKH  437 (438)
T ss_pred             HHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHCCC
T ss_conf             999729999999999999-999999997887642369


No 19 
>PRK09509 fieF ferrous iron efflux protein F; Reviewed
Probab=51.20  E-value=16  Score=15.76  Aligned_cols=24  Identities=25%  Similarity=0.282  Sum_probs=13.0

Q ss_pred             HCCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             619765564788888987899989
Q gi|254780578|r  104 FMEATSKFGAQLDSLADVINFGVA  127 (298)
Q Consensus       104 ~~~~~s~~G~~ld~~~D~vsFgva  127 (298)
                      ..|..+.+..-.||+.|.++..++
T Consensus        33 ~sgS~AllADa~hSl~D~~s~~~~   56 (300)
T PRK09509         33 YTGSVSILAALVDSLVDIAASLTN   56 (300)
T ss_pred             HHCHHHHHHHHHHHHHHHHHHHHH
T ss_conf             945099999899999999999999


No 20 
>PRK05951 ubiA prenyltransferase; Reviewed
Probab=48.25  E-value=17  Score=15.49  Aligned_cols=83  Identities=13%  Similarity=0.115  Sum_probs=35.6

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             0389999999999875103433501222332000------------7999999999999998569999999999999999
Q gi|254780578|r  207 IYGYGSTIYAMIISFLLCSRLPVWSGKKIHRKFV------------LPIVLCSVAYIAFMIHFLWEMIIFSTLCYIMLLP  274 (298)
Q Consensus       207 ~~~~~i~~~~~iis~LmVs~i~~~s~K~~~~~~~------------~~~ll~i~l~i~ll~~~~~~~L~il~~~Yll~~p  274 (298)
                      .....+...+....++++.+++-....+...+.+            ......+..++..+.......++.....-++..|
T Consensus       173 ~~l~s~p~gll~~~IL~~Nn~rD~e~D~~~Gk~Tl~v~lG~~~a~~~~~~l~~~~y~~~~~~~~~~~~p~~~ll~lltlP  252 (296)
T PRK05951        173 NVLAGVPLGLLVAAVLLANNLRDIEDDERLGAPTLAVIFGRKSAVALYAFALLSPYLILVILVIAILLPLISLWALLTLP  252 (296)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCHHHHHCCCCCEEEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999999999999878622154997699764878675759999999999999999999998660599999999999


Q ss_pred             HHHHHHHHHHCCCCC
Q ss_conf             999998465302356
Q gi|254780578|r  275 ISFYCWKKRYGIKPE  289 (298)
Q Consensus       275 i~~~~~~k~~~~~~~  289 (298)
                      ..+-..++.+++...
T Consensus       253 la~~l~~~~~~~~~~  267 (296)
T PRK05951        253 VAYALCLWQSRKFPH  267 (296)
T ss_pred             HHHHHHHHHHHHCCC
T ss_conf             999999999752545


No 21 
>PRK08457 motB flagellar motor protein MotB; Reviewed
Probab=45.95  E-value=18  Score=15.46  Aligned_cols=38  Identities=13%  Similarity=0.012  Sum_probs=24.1

Q ss_pred             HHHCCCCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             99619765--564788888987899989999986310234
Q gi|254780578|r  102 ARFMEATS--KFGAQLDSLADVINFGVAPSLVTYIAVLRQ  139 (298)
Q Consensus       102 AR~~~~~s--~~G~~ld~~~D~vsFgvaPail~y~~~~~~  139 (298)
                      ||+.+...  .-|+|+-+.+|++|--++-.+++|.+....
T Consensus         2 akkkk~~e~~~g~~WlvTYADlmTLLlaFFVlL~smS~~d   41 (251)
T PRK08457          2 AKKKKCPECPAGEKWAVPYADFLSLLLALFIALYAISAVN   41 (251)
T ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             9877787799996178789999999999999999986389


No 22 
>KOG3059 consensus
Probab=41.07  E-value=23  Score=14.84  Aligned_cols=121  Identities=17%  Similarity=0.102  Sum_probs=63.8

Q ss_pred             CCHHHHHHHHCCCC--CCCCCCCCCCCCCCCCHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH-C
Q ss_conf             71266665321146--65547423688987410110014321002333101303656778999999999999999998-5
Q gi|254780578|r    2 GNTLQCKEIPRGKK--KYNVLPDDFVVPSDQDEARYSFYKGKRWSLQEKEIPPFKFLFPNLVTILAICAGFSGIGSAI-E   78 (298)
Q Consensus         2 ~~~~~~~~~~~~~~--~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pn~~t~~~~~~g~~~i~~~~-~   78 (298)
                      -|..+.|+.|-++.  .+.--|++-+...+.||-|-+....+....+...      -.-++.+-....+++..++... +
T Consensus         2 ~~~~~~~~~pWkKvLy~kQ~YPDNYtDesFle~lr~ni~i~~~~~~~~v~------~~~~~~~~L~~i~~~~~if~~~l~   75 (292)
T KOG3059           2 SNLDMMTRMPWKKVLYLKQEYPDNYTDESFLEELRMNINISIYDLWSAVA------ESMVLSQHLDMITSFVVIFVSTLE   75 (292)
T ss_pred             CCCCCCCCCCHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             76444678765888752689998656889999997634223467889997------662998763445678999999988


Q ss_pred             CCHH-------HHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHH--HHHHHH
Q ss_conf             9879-------99999999999973217999961976556478888898789--998999
Q gi|254780578|r   79 GNYE-------TAVCMVLVAAFLDGIDGRIARFMEATSKFGAQLDSLADVIN--FGVAPS  129 (298)
Q Consensus        79 ~~~~-------~a~~~~~~a~~~D~~DG~~AR~~~~~s~~G~~ld~~~D~vs--FgvaPa  129 (298)
                      +++-       .-..-...-..+|.+||+--|...... .++.+.+..-.+.  +|+.|.
T Consensus        76 ~~~~~~~~l~~~~~~~~~~fL~f~~~~~~~~r~~sl~~-~~~~lks~~~vt~~ly~lsPV  134 (292)
T KOG3059          76 SNLSENKILYGSNSIPGIGFLLFDLLLSPRGRTLSLAL-LPEDLKSIFTVTLFLYGLSPV  134 (292)
T ss_pred             HHHCCHHHHCCCCCHHHHHHHHHHHHHCCCCCCCCHHH-HHHHHHHHHHHHHHHHHHHHH
T ss_conf             74000233205554037999999997043114688656-289999999999999987099


No 23 
>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=38.96  E-value=24  Score=14.64  Aligned_cols=26  Identities=12%  Similarity=0.267  Sum_probs=12.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             99999999999999999846530235
Q gi|254780578|r  263 IFSTLCYIMLLPISFYCWKKRYGIKP  288 (298)
Q Consensus       263 ~il~~~Yll~~pi~~~~~~k~~~~~~  288 (298)
                      .|+.++.+..++...+.||||++++-
T Consensus       360 AIliIVLIMvIIYLILRYRRKKKMKK  385 (395)
T TIGR01477       360 AILIIVLIMVIIYLILRYRRKKKMKK  385 (395)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCH
T ss_conf             99999999999999875431122032


No 24 
>COG2966 Uncharacterized conserved protein [Function unknown]
Probab=36.94  E-value=26  Score=14.46  Aligned_cols=55  Identities=7%  Similarity=0.031  Sum_probs=32.8

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             036567789999999999999999985987999999999999973217999961976
Q gi|254780578|r   52 PFKFLFPNLVTILAICAGFSGIGSAIEGNYETAVCMVLVAAFLDGIDGRIARFMEAT  108 (298)
Q Consensus        52 ~~~~~~pn~~t~~~~~~g~~~i~~~~~~~~~~a~~~~~~a~~~D~~DG~~AR~~~~~  108 (298)
                      +.+|--|=.+-..++.||.++..+.  |++.........+.+...++=.+.|+.+..
T Consensus       120 ~~~y~~~l~~~~~g~~~~~f~~l~g--G~w~d~~iaf~~~~~~~~~~~~l~r~~~~~  174 (250)
T COG2966         120 PLRYSRWLVLLMAGLAAAAFALLFG--GGWLDFLIAFFAGLLGFLLRQYLSRKGNPD  174 (250)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHCHH
T ss_conf             6556668999999999999999908--953888999999999999999999861422


No 25 
>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=33.31  E-value=30  Score=14.11  Aligned_cols=38  Identities=16%  Similarity=0.145  Sum_probs=18.5

Q ss_pred             HHHHHHHHHHCCCC--CCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             73217999961976--556478888898789998999998
Q gi|254780578|r   95 DGIDGRIARFMEAT--SKFGAQLDSLADVINFGVAPSLVT  132 (298)
Q Consensus        95 D~~DG~~AR~~~~~--s~~G~~ld~~~D~vsFgvaPail~  132 (298)
                      |.-|-..-|-...+  +.--.+||+|=.-..=||-.+-+.
T Consensus       155 Ec~~~k~~r~~~ls~~Kv~D~YL~nLK~gC~~Gvg~C~l~  194 (315)
T TIGR01478       155 ECTNKKILRNELLSSTKVHDNYLKNLKKGCTAGVGTCALS  194 (315)
T ss_pred             CCCCCHHHCCCHHHHCCCCHHHHHHHHCCCCCHHHHHHHH
T ss_conf             1012022304223321341467741103451036898899


No 26 
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=32.05  E-value=4  Score=19.14  Aligned_cols=49  Identities=22%  Similarity=0.504  Sum_probs=27.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCC-CHHH------------HHH--HHHHHHHHHHHHHHHH
Q ss_conf             99999999997321799996197655-6478------------888--8987899989999986
Q gi|254780578|r   85 VCMVLVAAFLDGIDGRIARFMEATSK-FGAQ------------LDS--LADVINFGVAPSLVTY  133 (298)
Q Consensus        85 ~~~~~~a~~~D~~DG~~AR~~~~~s~-~G~~------------ld~--~~D~vsFgvaPail~y  133 (298)
                      =++.+.++.|+++|--++|+++.++. ||+.            ++.  -.|++.||+.|=++-.
T Consensus       239 nILFI~gGAF~GL~~II~~R~~~~~iGF~~~~~~~~~~~~~~~l~~v~p~DLi~fGlIPEfiGR  302 (411)
T PRK05342        239 NILFICGGAFDGLEKIIKQRLGKSGIGFGAEVKSKDEKDLGELLAQVEPEDLVKFGLIPEFIGR  302 (411)
T ss_pred             CEEEEECCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHCCHHHHHHCCCCHHHHCC
T ss_conf             1799911553358999986357887677887664110005678762798788873883776146


No 27 
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=30.89  E-value=9.6  Score=16.95  Aligned_cols=50  Identities=20%  Similarity=0.506  Sum_probs=33.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCCC-CCHHH-------------HHHH--HHHHHHHHHHHHHHH
Q ss_conf             99999999999732179999619765-56478-------------8888--987899989999986
Q gi|254780578|r   84 AVCMVLVAAFLDGIDGRIARFMEATS-KFGAQ-------------LDSL--ADVINFGVAPSLVTY  133 (298)
Q Consensus        84 a~~~~~~a~~~D~~DG~~AR~~~~~s-~~G~~-------------ld~~--~D~vsFgvaPail~y  133 (298)
                      .=++.+.++.||++|.-+.++++.++ -||+.             +..+  -|.+.||+.|-++-.
T Consensus       226 ~NILFIcgGAF~GlekiI~~R~~~~~iGF~a~~~~~~~~~~~~~~l~~vepeDLvkFGLIPEfIGR  291 (408)
T COG1219         226 SNILFICGGAFAGLEKIIKKRLGKKGIGFGAEVKSKSKKKEEGELLKQVEPEDLVKFGLIPEFIGR  291 (408)
T ss_pred             CCEEEEECCCCCCHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHCCHHHHHHCCCCHHHHCC
T ss_conf             634678244010399999986268742456644534444128899875486878870883887266


No 28 
>PRK09038 flagellar motor protein MotD; Reviewed
Probab=30.88  E-value=33  Score=13.87  Aligned_cols=39  Identities=23%  Similarity=0.057  Sum_probs=24.1

Q ss_pred             HHHCCCCCCC--HHHHHHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             9961976556--47888889878999899999863102344
Q gi|254780578|r  102 ARFMEATSKF--GAQLDSLADVINFGVAPSLVTYIAVLRQA  140 (298)
Q Consensus       102 AR~~~~~s~~--G~~ld~~~D~vsFgvaPail~y~~~~~~~  140 (298)
                      +|+.+.+..-  ++|+-+.+|+++--++-.+++|.+.....
T Consensus         3 ~Rrk~~~~~~~~~aW~vtyADlmTLLlaFFVlL~smS~~d~   43 (285)
T PRK09038          3 RRRRHHEEHENHERWLVSYADFITLLFAFFVVMYAISSVNE   43 (285)
T ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCH
T ss_conf             77678878999861888999999999999999999725899


No 29 
>pfam05297 Herpes_LMP1 Herpesvirus latent membrane protein 1 (LMP1). This family consists of several latent membrane protein 1 or LMP1s mostly from Epstein-Barr virus. LMP1 of EBV is a 62-65 kDa plasma membrane protein possessing six membrane spanning regions, a short cytoplasmic N-terminus and a long cytoplasmic carboxy tail of 200 amino acids. EBV latent membrane protein 1 (LMP1) is essential for EBV-mediated transformation and has been associated with several cases of malignancies. EBV-like viruses in Cynomolgus monkeys (Macaca fascicularis) have been associated with high lymphoma rates in immunosuppressed monkeys.
Probab=29.87  E-value=35  Score=13.77  Aligned_cols=49  Identities=12%  Similarity=0.173  Sum_probs=21.7

Q ss_pred             HHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHC
Q ss_conf             999999999985699999-999999999999999984653023565420101
Q gi|254780578|r  246 CSVAYIAFMIHFLWEMII-FSTLCYIMLLPISFYCWKKRYGIKPEQKKHKDY  296 (298)
Q Consensus       246 ~i~l~i~ll~~~~~~~L~-il~~~Yll~~pi~~~~~~k~~~~~~~~~~~ed~  296 (298)
                      +++++++.....-|.+++ =+....++..+..|.+++--++.+|  .+|+|.
T Consensus       151 IilLIIAv~LhqaW~T~LvDL~WLlLFLaILIW~Y~Hgprhsde--hhhdds  200 (382)
T pfam05297       151 IILLIIALYLQQNWWTLLVDLLWLLLFLAILIWMYYHGPRHSDE--HHHDDS  200 (382)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC--CCCCCC
T ss_conf             99999999999999999999999999999999975127776533--346677


No 30 
>pfam05646 consensus
Probab=29.70  E-value=35  Score=13.76  Aligned_cols=76  Identities=16%  Similarity=0.126  Sum_probs=50.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             36567789999999999999999985987999999999999973217999961976556478888898789998999998
Q gi|254780578|r   53 FKFLFPNLVTILAICAGFSGIGSAIEGNYETAVCMVLVAAFLDGIDGRIARFMEATSKFGAQLDSLADVINFGVAPSLVT  132 (298)
Q Consensus        53 ~~~~~pn~~t~~~~~~g~~~i~~~~~~~~~~a~~~~~~a~~~D~~DG~~AR~~~~~s~~G~~ld~~~D~vsFgvaPail~  132 (298)
                      +.-.+-+.-|..+++.|+.|.++-++|-....+.++......=.+   .+   +......++++|--|.+.-|+..+++-
T Consensus        22 N~~~l~~~Rt~~s~~~G~~AGILGLtgl~GFifY~~~~~~~s~~l---~~---k~~~~~~~YF~s~~~~~~~g~~~gl~t   95 (110)
T pfam05646        22 NLKVIQYCRTSLSAISGVLAGILGLNGLIGFVFYFLVMLILSVLL---MA---KAGFSWDKYFDSRRRLLTDGFLGGLMT   95 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHH---HH---HHCCCHHHHCCCHHHHHHCCHHCCHHH
T ss_conf             899999999999999878875142012189999999999999999---99---828978885087888636004122889


Q ss_pred             HH
Q ss_conf             63
Q gi|254780578|r  133 YI  134 (298)
Q Consensus       133 y~  134 (298)
                      |.
T Consensus        96 fV   97 (110)
T pfam05646        96 YV   97 (110)
T ss_pred             HH
T ss_conf             99


No 31 
>PRK10245 adrA diguanylate cyclase AdrA; Provisional
Probab=29.25  E-value=36  Score=13.71  Aligned_cols=97  Identities=15%  Similarity=0.105  Sum_probs=44.3

Q ss_pred             CCCCCCCCCCCCCCCHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHH---HHHH
Q ss_conf             5547423688987410110014321002333101303656778999999999999999998598799999999---9999
Q gi|254780578|r   17 YNVLPDDFVVPSDQDEARYSFYKGKRWSLQEKEIPPFKFLFPNLVTILAICAGFSGIGSAIEGNYETAVCMVL---VAAF   93 (298)
Q Consensus        17 ~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pn~~t~~~~~~g~~~i~~~~~~~~~~a~~~~~---~a~~   93 (298)
                      +.+.+++.+...+++|.+-+.      ....+|+.     +|-   ..|+..|++.+..++-.+-....+|.+   -+.+
T Consensus        14 ~~~~~~~~~~~~~~~~~~r~g------l~f~rR~~-----~~R---~~g~~~~f~~v~~~l~~~~~~~~~w~ll~~~~~~   79 (371)
T PRK10245         14 KAAAHGEEPPLTPQNEHQRSG------LRFARRVR-----LPR---AVGLAGMFLPIASTLVSHPPPGWWWLLLVGWAFV   79 (371)
T ss_pred             HHHCCCCCCCCCCCCCCCCCH------HHHHHHHH-----HHH---HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
T ss_conf             753134489999730000120------36899988-----889---9744356896888886346627999999999988


Q ss_pred             HHHHHHHHHHHCCCCCCCHHHHHHH-HHHHHHHHHHH
Q ss_conf             9732179999619765564788888-98789998999
Q gi|254780578|r   94 LDGIDGRIARFMEATSKFGAQLDSL-ADVINFGVAPS  129 (298)
Q Consensus        94 ~D~~DG~~AR~~~~~s~~G~~ld~~-~D~vsFgvaPa  129 (298)
                      ---+-=..||+  ...++-+|..++ .|...-|+=-+
T Consensus        80 WPh~A~~~a~r--s~~p~~~E~~Nl~~D~~~gG~Wv~  114 (371)
T PRK10245         80 WPHLAWQIASR--AVDPLSREIYNLKTDAVLAGMWVG  114 (371)
T ss_pred             HHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf             69999999871--798399999999999999899999


No 32 
>PRK03557 zinc transporter ZitB; Provisional
Probab=28.89  E-value=36  Score=13.67  Aligned_cols=14  Identities=21%  Similarity=0.019  Sum_probs=7.2

Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             88889878999899
Q gi|254780578|r  115 LDSLADVINFGVAP  128 (298)
Q Consensus       115 ld~~~D~vsFgvaP  128 (298)
                      ++++.|.++.+++-
T Consensus        52 ~H~l~D~~~~~i~l   65 (312)
T PRK03557         52 GHMLTDAAALLFAL   65 (312)
T ss_pred             HHHHHHHHHHHHHH
T ss_conf             99998999999999


No 33 
>COG0053 MMT1 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]
Probab=28.74  E-value=36  Score=13.66  Aligned_cols=26  Identities=12%  Similarity=0.195  Sum_probs=16.3

Q ss_pred             HHCCCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             96197655647888889878999899
Q gi|254780578|r  103 RFMEATSKFGAQLDSLADVINFGVAP  128 (298)
Q Consensus       103 R~~~~~s~~G~~ld~~~D~vsFgvaP  128 (298)
                      -.+|..+.+-.-++|++|.++-.++-
T Consensus        34 ~~~gS~ALlADaihs~~D~~~si~~l   59 (304)
T COG0053          34 ILTGSVALLADAIHSLSDIVASLIVL   59 (304)
T ss_pred             HCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf             40365999999998899999999999


No 34 
>pfam03248 Rer1 Rer1 family. RER1 family protein are involved in involved in the retrieval of some endoplasmic reticulum membrane proteins from the early golgi compartment. The C terminus of yeast Rer1p interacts with a coatomer complex.
Probab=28.69  E-value=36  Score=13.65  Aligned_cols=11  Identities=18%  Similarity=0.259  Sum_probs=4.0

Q ss_pred             HHHHHHHHHHH
Q ss_conf             99999999999
Q gi|254780578|r  262 IIFSTLCYIML  272 (298)
Q Consensus       262 L~il~~~Yll~  272 (298)
                      ++.+.+.|.+.
T Consensus       134 FWPiLl~Yfi~  144 (175)
T pfam03248       134 FWPILLMYFIV  144 (175)
T ss_pred             HHHHHHHHHHH
T ss_conf             47899999999


No 35 
>TIGR00821 EII-GUT PTS system, glucitol/sorbitol-specific, IIC component; InterPro: IPR004699 Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families. It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars.   The Gut family consists only of glucitol-specific transporters, but these occur both in Gram-negative and Gram-positive bacteria. Escherichia coli consists of IIA protein, a IIC protein and a IIBC protein.   This family is specific for the IIC component.; GO: 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0016021 integral to membrane.
Probab=27.75  E-value=23  Score=14.77  Aligned_cols=14  Identities=7%  Similarity=0.370  Sum_probs=7.4

Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             99999999999999
Q gi|254780578|r  265 STLCYIMLLPISFY  278 (298)
Q Consensus       265 l~~~Yll~~pi~~~  278 (298)
                      +.+-|++.+.+..+
T Consensus       142 La~~YLLVGLv~NF  155 (181)
T TIGR00821       142 LAVSYLLVGLVTNF  155 (181)
T ss_pred             HHHHHHHHHHHHHH
T ss_conf             89999999999986


No 36 
>PRK00159 putative septation inhibitor protein; Reviewed
Probab=27.46  E-value=38  Score=13.53  Aligned_cols=33  Identities=6%  Similarity=-0.060  Sum_probs=22.4

Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCH
Q ss_conf             013036567789999999999999999985987
Q gi|254780578|r   49 EIPPFKFLFPNLVTILAICAGFSGIGSAIEGNY   81 (298)
Q Consensus        49 ~~~~~~~~~pn~~t~~~~~~g~~~i~~~~~~~~   81 (298)
                      +.+.-+|+.|-.++++-+-+..+.+++..++++
T Consensus        26 ~~~sp~W~~p~m~~lmliGL~Wivv~Yis~~~~   58 (87)
T PRK00159         26 VGPSSVWYVVLMLGLMLIGLAWLMVFYLAGPAI   58 (87)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf             899985099999999999899998986515878


No 37 
>cd05142 Barstar Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell.  Barstar also binds and inhibits a ribonuclease called RNase Sa (produced by Streptomyces aureofaciens) which belongs to the same enzyme family as does barnase.
Probab=24.48  E-value=44  Score=13.20  Aligned_cols=26  Identities=19%  Similarity=0.296  Sum_probs=22.4

Q ss_pred             HHHHHHCCCCCCCHHHHHHHHHHHHH
Q ss_conf             79999619765564788888987899
Q gi|254780578|r   99 GRIARFMEATSKFGAQLDSLADVINF  124 (298)
Q Consensus        99 G~~AR~~~~~s~~G~~ld~~~D~vsF  124 (298)
                      -.+++.++....+|.-+|.+-|.+|-
T Consensus        17 ~~l~~~~~lp~~yG~NlDALWD~ltg   42 (87)
T cd05142          17 QILKKELALPEYYGENLDALWDCLTG   42 (87)
T ss_pred             HHHHHHCCCCHHHCCCHHHHHHHHHC
T ss_conf             99999839943534789999999847


No 38 
>COG0530 ECM27 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]
Probab=24.33  E-value=44  Score=13.19  Aligned_cols=39  Identities=23%  Similarity=0.273  Sum_probs=19.8

Q ss_pred             HHHHHHHCCCHHHHHHHH-----HHHHHHHHHHHHHHHHCCCCC
Q ss_conf             999999859879999999-----999999732179999619765
Q gi|254780578|r   71 SGIGSAIEGNYETAVCMV-----LVAAFLDGIDGRIARFMEATS  109 (298)
Q Consensus        71 ~~i~~~~~~~~~~a~~~~-----~~a~~~D~~DG~~AR~~~~~s  109 (298)
                      .++..+.+|+...|.--+     ..-.++=+.++.++++.-.+.
T Consensus        63 vs~~a~l~g~~~iavGnvlGSni~ni~li~gl~ali~~~~~~~~  106 (320)
T COG0530          63 VSLVAALSGNPDIAVGNVLGSNIFNILLILGLAALIAPLKVDSD  106 (320)
T ss_pred             HHHHHHHCCCCCEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999983999825115337789999999999999845675014


No 39 
>pfam05454 DAG1 Dystroglycan (Dystrophin-associated glycoprotein 1). Dystroglycan is one of the dystrophin-associated glycoproteins, which is encoded by a 5.5 kb transcript in human. The protein product is cleaved into two non-covalently associated subunits, [alpha] (N-terminal) and [beta] (C-terminal). In skeletal muscle the dystroglycan complex works as a transmembrane linkage between the extracellular matrix and the cytoskeleton. [alpha]-dystroglycan is extracellular and binds to merosin ([alpha]-2 laminin) in the basement membrane, while [beta]-dystroglycan is a transmembrane protein and binds to dystrophin, which is a large rod-like cytoskeletal protein, absent in Duchenne muscular dystrophy patients. Dystrophin binds to intracellular actin cables. In this way, the dystroglycan complex, which links the extracellular matrix to the intracellular actin cables, is thought to provide structural integrity in muscle tissues. The dystroglycan complex is also known to serve as an agrin rece
Probab=23.80  E-value=45  Score=13.13  Aligned_cols=20  Identities=20%  Similarity=0.409  Sum_probs=9.4

Q ss_pred             HHHHHHHHHHCCCCCCCCHH
Q ss_conf             99999846530235654201
Q gi|254780578|r  275 ISFYCWKKRYGIKPEQKKHK  294 (298)
Q Consensus       275 i~~~~~~k~~~~~~~~~~~e  294 (298)
                      +....||||++-+...||.+
T Consensus       165 ia~icYrrrRkGKl~~Eer~  184 (290)
T pfam05454       165 IAMICYRKKRKGKLTLEDQA  184 (290)
T ss_pred             HHHHHCCCCCCCCCCHHHHH
T ss_conf             99996502125777610666


No 40 
>PRK06667 motB flagellar motor protein MotB; Validated
Probab=23.56  E-value=45  Score=13.10  Aligned_cols=35  Identities=6%  Similarity=-0.037  Sum_probs=19.5

Q ss_pred             HHHCCCCCCC--HHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9961976556--4788888987899989999986310
Q gi|254780578|r  102 ARFMEATSKF--GAQLDSLADVINFGVAPSLVTYIAV  136 (298)
Q Consensus       102 AR~~~~~s~~--G~~ld~~~D~vsFgvaPail~y~~~  136 (298)
                      ||+.+.+.+-  +.|+-+.||++|--++-.+++|.+.
T Consensus         4 ~kkK~~e~~~g~~~WlvtyADlmTLLlaFFVlL~smS   40 (254)
T PRK06667          4 AKKKCPKCIQGAPEYMLTYGDMVTLLLCFFVMLFSLN   40 (254)
T ss_pred             CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             7778999999986188899999999999999999984


No 41 
>PRK10238 aromatic amino acid transporter; Provisional
Probab=23.30  E-value=46  Score=13.07  Aligned_cols=14  Identities=14%  Similarity=0.432  Sum_probs=5.8

Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             99999999999999
Q gi|254780578|r  265 STLCYIMLLPISFY  278 (298)
Q Consensus       265 l~~~Yll~~pi~~~  278 (298)
                      ....+++...+.|+
T Consensus       431 ~~~~~~~~l~~~y~  444 (456)
T PRK10238        431 LIPVWLIVLGIGYL  444 (456)
T ss_pred             HHHHHHHHHHHHHH
T ss_conf             99999999978873


No 42 
>cd00489 Barstar_like Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it, thus inhibiting its potentially lethal RNase activity inside the cell.  Barstar also binds and inhibits a ribonuclease called RNase Sa (produced by Streptomyces aureofaciens) which belongs  to the same enzyme family as does barnase.
Probab=22.56  E-value=48  Score=12.98  Aligned_cols=28  Identities=25%  Similarity=0.344  Sum_probs=23.8

Q ss_pred             HHHHHHCCCCCCCHHHHHHHHHHHHHHH
Q ss_conf             7999961976556478888898789998
Q gi|254780578|r   99 GRIARFMEATSKFGAQLDSLADVINFGV  126 (298)
Q Consensus        99 G~~AR~~~~~s~~G~~ld~~~D~vsFgv  126 (298)
                      -.+|+.++-..-||.-+|.+.|.+|-.+
T Consensus        16 ~~~~~~l~fP~~yG~N~DAl~D~lt~~~   43 (85)
T cd00489          16 ARLKKKLGFPDYYGHNLDALWDCLTGLV   43 (85)
T ss_pred             HHHHHHCCCCHHHCCCHHHHHHHHCCCC
T ss_conf             9999982997153264899999863665


No 43 
>PRK11357 frlA putative fructoselysine transporter; Provisional
Probab=20.65  E-value=52  Score=12.75  Aligned_cols=25  Identities=16%  Similarity=0.137  Sum_probs=14.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             9999999999999998465302356
Q gi|254780578|r  265 STLCYIMLLPISFYCWKKRYGIKPE  289 (298)
Q Consensus       265 l~~~Yll~~pi~~~~~~k~~~~~~~  289 (298)
                      .....++.+...|.+|+||++.-|+
T Consensus       419 ~~~~~~~~Gl~~Y~~~~rr~~~~~~  443 (445)
T PRK11357        419 CAVIVIATGLPAYAFWAKRSRQLNA  443 (445)
T ss_pred             HHHHHHHHHHHHHHHHEECHHHHCC
T ss_conf             9999999998999863101786635


No 44 
>TIGR00947 2A73 inorganic carbon transporter; InterPro: IPR006007    One pathway for the assimilation of ammonia and glutamate biosynthesis involves glutamate synthase (1.4.1.13 from EC) which transfers the amide group of glutamine to 2-oxoglutarate to yield two molecules of glutamate.  2 L-glutamate + NADP+ = L-glutamine + 2-oxoglutarate + NADPH + H+  This family includes both glutatate synthase small subunit and closely related paralogs of unknown function from a number of gamma and alpha subdivision Proteobacteria, including Escherichia coli.   Many photosynthetic organisms including cyanobacteria can concentrate CO_2/HCO_3^- against a greater than ten-fold concentration gradient. In cyanobacteria, the CO_2 concentrating mechanism involves: CO_2 conversion to HCO_3^- energy-dependent HCO_3^- transport, and  carbonic anhydrase-catalyzed formation of CO_2 from HCO_3^- in the carboxysomes. The gene believed to encode the transporter, possibly a Na^+:HCO_3^- symporter, is designated ictB or ORF467 in Synechococcus sp. strain PCC 7942. The protein is 467 amino acyl residues long and possesses 10 putative transmembrane alpha-helical spanners. .
Probab=20.13  E-value=45  Score=13.12  Aligned_cols=98  Identities=16%  Similarity=0.052  Sum_probs=45.2

Q ss_pred             CCCCCCHHHHCCCCCCHHHHHHHCCCCHHHH-HHHHHHHHHHHHHHHHH--HHHHCCCHH--HHHHHHHHHHHHHHHHHH
Q ss_conf             8987410110014321002333101303656-77899999999999999--999859879--999999999999732179
Q gi|254780578|r   26 VPSDQDEARYSFYKGKRWSLQEKEIPPFKFL-FPNLVTILAICAGFSGI--GSAIEGNYE--TAVCMVLVAAFLDGIDGR  100 (298)
Q Consensus        26 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~pn~~t~~~~~~g~~~i--~~~~~~~~~--~a~~~~~~a~~~D~~DG~  100 (298)
                      +...+|=+.+..+.  +...+..|..+  |+ =||++-+-=.=..-+|.  .-.-.+.+-  ++.-......+|=.    
T Consensus       164 ~~GVE~LATW~D~~--S~~~~~~RVYS--yLGNPNLLAAYLVP~T~lS~~A~~VWR~W~PKLL~~~~~~~~~LCL~----  235 (467)
T TIGR00947       164 VDGVEELATWVDRT--SVLDFASRVYS--YLGNPNLLAAYLVPTTALSLAALVVWRRWLPKLLAIAAVIVSLLCLI----  235 (467)
T ss_pred             CCCHHHHCCCCCCH--HHHHHHHHHHH--HCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----
T ss_conf             20023210357713--47765433444--12787789998533788889999988634789999999999999999----


Q ss_pred             HHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             99961976556478888898789998999998631023444
Q gi|254780578|r  101 IARFMEATSKFGAQLDSLADVINFGVAPSLVTYIAVLRQAH  141 (298)
Q Consensus       101 ~AR~~~~~s~~G~~ld~~~D~vsFgvaPail~y~~~~~~~~  141 (298)
                           =+.|. |..|.-+|=.    ..-+.++|.|......
T Consensus       236 -----lT~SR-GGWL~~~Al~----~~~~~L~~yW~~P~LP  266 (467)
T TIGR00947       236 -----LTYSR-GGWLAVLALI----AVFLLLGLYWFLPRLP  266 (467)
T ss_pred             -----HHHCC-CHHHHHHHHH----HHHHHHHHHHCCCCCC
T ss_conf             -----86057-1899999999----9999998873066888


Done!