Query         gi|254780790|ref|YP_003065203.1| hypothetical protein CLIBASIA_03405 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 129
No_of_seqs    107 out of 1040
Neff          7.8 
Searched_HMMs 39220
Date          Sun May 29 19:58:05 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780790.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 pfam04138 GtrA GtrA-like prote  99.9   5E-25 1.3E-29  146.4  10.8  115    6-121     1-116 (116)
  2 COG2246 Predicted membrane pro  99.9 9.9E-24 2.5E-28  139.7  13.0  123    2-125    11-138 (139)
  3 pfam04138 GtrA GtrA-like prote  98.4 1.2E-06 3.1E-11   52.0   7.4   55    2-56     61-116 (116)
  4 COG2246 Predicted membrane pro  98.3 1.8E-06 4.7E-11   51.1   5.8   63   61-124     7-69  (139)
  5 pfam03818 MadM Malonate/sodium  65.2     6.2 0.00016   17.6   2.8   23   35-57     15-37  (60)
  6 COG4818 Predicted membrane pro  37.7      25 0.00064   14.5   5.6   52   67-118    30-81  (105)
  7 PRK10621 hypothetical protein;  37.5      25 0.00065   14.4  10.3   70   10-81     25-97  (269)
  8 PRK09917 hypothetical protein;  32.3      31  0.0008   14.0   7.3   47   10-56     37-83  (157)
  9 TIGR01116 ATPase-IIA1_Ca calci  29.4      35  0.0009   13.7   2.7   25    1-25    605-629 (800)
 10 pfam06570 DUF1129 Protein of u  25.1      43  0.0011   13.3  13.1   85   34-119   113-201 (206)
 11 pfam05957 DUF883 Bacterial pro  23.9      45  0.0011   13.2   2.7   29   90-118    66-94  (94)
 12 pfam07301 DUF1453 Protein of u  21.8      50  0.0013   12.9   7.3   90   33-123    58-148 (149)
 13 pfam08566 Pam17 Mitochondrial   21.0      52  0.0013   12.9   5.0   64   50-115    27-95  (174)

No 1  
>pfam04138 GtrA GtrA-like protein. Members of this family are predicted to be integral membrane proteins with three or four transmembrane spans. They are involved in the synthesis of cell surface polysaccharides. The GtrA family are a subset of this family. GtrA is predicted to be an integral membrane protein with 4 transmembrane spans. It is involved is in O antigen modification by Shigella flexneri bacteriophage X (SfX), but does not determine the specificity of glucosylation. Its function remains unknown, but it may play a role in translocation of undecaprenyl phosphate linked glucose (UndP-Glc) across the cytoplasmic membrane. Another member of this family is a DTDP-glucose-4-keto-6-deoxy-D-glucose reductase, which catalyses the conversion of dTDP-4-keto-6-deoxy-D-glucose to dTDP-D-fucose, which is involved in the biosynthesis of the serotype-specific polysaccharide antigen of Actinobacillus actinomycetemcomitans Y4 (serotype b). This family also includes the teichoic acid glycosyla
Probab=99.92  E-value=5e-25  Score=146.35  Aligned_cols=115  Identities=23%  Similarity=0.378  Sum_probs=106.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH-HCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999999999999999999999-571138999999999999999998867205788067999999999999999999999
Q gi|254780790|r    6 IFIINIVVVFFIDVMGFFILMK-CGADPFYSRIFSIAVAFLVTWIPSRLFIFLKLRRKSFLETVRYGVMYFMLSILNYAF   84 (129)
Q Consensus         6 rF~ivG~~~~~vd~~i~~ll~~-~g~~~~~A~~ia~~~a~~~nf~lnr~~tF~~~~~~~~~~~~~~~~~~~~~~~~~~~l   84 (129)
                      ||+++|++++++|+++++++.+ .+.++..|+.+|+.+|++.||.+||+|||++++++.++|..+|..+...+..++.++
T Consensus         1 rf~ivG~~~~~v~~~~~~~l~~~~~~~~~~A~~ia~~~~~~~~f~~n~~~tF~~~~~~~~~~~~~f~~~~~~~~~~~~~~   80 (116)
T pfam04138         1 RFLLVGVLGTLVDLGVFLLLLNLLGLSYLLANAIAFLVAILFNYLLNRRWTFRSRGRGSLRQFLRFFLVSLLGLLLNLLL   80 (116)
T ss_pred             CEEEEEHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHEEECCCCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             96876399999999999999999788899999999999999999977502657999634999999999999999999999


Q ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999962123008999999999999999999767998
Q gi|254780790|r   85 YVKLLLTFQGLQPLLATVLSAVSSMLFVFLLYIRFMT  121 (129)
Q Consensus        85 ~~~l~~~~~~~~~~~a~~i~~~~~~~~nf~~~k~~vF  121 (129)
                      . ..+.+..+.++.+|+++++++.+++||.++|+|||
T Consensus        81 ~-~~~~~~l~~~~~ia~ii~~~~~~~~ny~~~k~~vF  116 (116)
T pfam04138        81 L-YLLVDLLGLDPLLAKLIGIAVVTVVNFLLSKFWVF  116 (116)
T ss_pred             H-HHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHEEEC
T ss_conf             9-99999828558999999999999999998840329


No 2  
>COG2246 Predicted membrane protein [Function unknown]
Probab=99.91  E-value=9.9e-24  Score=139.70  Aligned_cols=123  Identities=19%  Similarity=0.256  Sum_probs=99.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH-CCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHH----HHHHHHHHH
Q ss_conf             789999999999999999999999995-711389999999999999999988672057880679999----999999999
Q gi|254780790|r    2 KQCIIFIINIVVVFFIDVMGFFILMKC-GADPFYSRIFSIAVAFLVTWIPSRLFIFLKLRRKSFLET----VRYGVMYFM   76 (129)
Q Consensus         2 rql~rF~ivG~~~~~vd~~i~~ll~~~-g~~~~~A~~ia~~~a~~~nf~lnr~~tF~~~~~~~~~~~----~~~~~~~~~   76 (129)
                      +|+.||++||+.|+++|+++++++.+. +.+|.+|+++|+++|+++||++||+|||+++++++..+.    ..+...+.+
T Consensus        11 ~~~lrF~~VG~~~t~V~~~~~~ll~~~~~~~~~~A~~~a~~~~ii~sf~~N~~wTF~~~~~~~~~~~~~~~~~~~~~~~l   90 (139)
T COG2246          11 SRLLRFAIVGGLGTLVDFAVLWLLVKALGVPYALANAIAYEAAIIFSFVLNRRWTFRDRSTSRLHEFLRRLVKFNVAVLL   90 (139)
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCEEEEEECCCCCHHHHHHHHHHHHHHHHH
T ss_conf             99999964342999999999999998145658899999999999999999741267527887699999999999999999


Q ss_pred             HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999999999999621230089999999999999999997679986767
Q gi|254780790|r   77 LSILNYAFYVKLLLTFQGLQPLLATVLSAVSSMLFVFLLYIRFMTRRVY  125 (129)
Q Consensus        77 ~~~~~~~l~~~l~~~~~~~~~~~a~~i~~~~~~~~nf~~~k~~vFrk~~  125 (129)
                      +..++.+....+.......+..+|+++++++++++||+.+|+ +|+|+.
T Consensus        91 g~~~~~~~~~~l~~~~~~~~~~~a~~i~~~~~~i~nfi~s~~-v~~~~~  138 (139)
T COG2246          91 GLAVLLLVLYILTLGLLLVAYLIANLIGIVAAFIINFLLSKR-VFWRVR  138 (139)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-EEEECC
T ss_conf             999999999999875100899999999999999999998872-464167


No 3  
>pfam04138 GtrA GtrA-like protein. Members of this family are predicted to be integral membrane proteins with three or four transmembrane spans. They are involved in the synthesis of cell surface polysaccharides. The GtrA family are a subset of this family. GtrA is predicted to be an integral membrane protein with 4 transmembrane spans. It is involved is in O antigen modification by Shigella flexneri bacteriophage X (SfX), but does not determine the specificity of glucosylation. Its function remains unknown, but it may play a role in translocation of undecaprenyl phosphate linked glucose (UndP-Glc) across the cytoplasmic membrane. Another member of this family is a DTDP-glucose-4-keto-6-deoxy-D-glucose reductase, which catalyses the conversion of dTDP-4-keto-6-deoxy-D-glucose to dTDP-D-fucose, which is involved in the biosynthesis of the serotype-specific polysaccharide antigen of Actinobacillus actinomycetemcomitans Y4 (serotype b). This family also includes the teichoic acid glycosyla
Probab=98.41  E-value=1.2e-06  Score=52.02  Aligned_cols=55  Identities=22%  Similarity=0.600  Sum_probs=51.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH-HHCCHHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             7899999999999999999999999-957113899999999999999999886720
Q gi|254780790|r    2 KQCIIFIINIVVVFFIDVMGFFILM-KCGADPFYSRIFSIAVAFLVTWIPSRLFIF   56 (129)
Q Consensus         2 rql~rF~ivG~~~~~vd~~i~~ll~-~~g~~~~~A~~ia~~~a~~~nf~lnr~~tF   56 (129)
                      ||+.||.++...+.++|.++.+.+. .++.++.+|+.++-.++...||.+||+|||
T Consensus        61 ~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~~~ia~ii~~~~~~~~ny~~~k~~vF  116 (116)
T pfam04138        61 RQFLRFFLVSLLGLLLNLLLLYLLVDLLGLDPLLAKLIGIAVVTVVNFLLSKFWVF  116 (116)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHEEEC
T ss_conf             99999999999999999999999999828558999999999999999998840329


No 4  
>COG2246 Predicted membrane protein [Function unknown]
Probab=98.28  E-value=1.8e-06  Score=51.10  Aligned_cols=63  Identities=19%  Similarity=0.352  Sum_probs=54.1

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             0679999999999999999999999999962123008999999999999999999767998676
Q gi|254780790|r   61 RKSFLETVRYGVMYFMLSILNYAFYVKLLLTFQGLQPLLATVLSAVSSMLFVFLLYIRFMTRRV  124 (129)
Q Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~a~~i~~~~~~~~nf~~~k~~vFrk~  124 (129)
                      .....|..||..+...+.+++.++.. ++.+..+.++.+|++++..++.+.||+.||+|+||.-
T Consensus         7 ~~~~~~~lrF~~VG~~~t~V~~~~~~-ll~~~~~~~~~~A~~~a~~~~ii~sf~~N~~wTF~~~   69 (139)
T COG2246           7 KFTLSRLLRFAIVGGLGTLVDFAVLW-LLVKALGVPYALANAIAYEAAIIFSFVLNRRWTFRDR   69 (139)
T ss_pred             HHHHHHHHHHHHCCHHHHHHHHHHHH-HHHHHCCCCHHHHHHHHHHHHHHHHHHHHCEEEEEEC
T ss_conf             56899999996434299999999999-9998145658899999999999999999741267527


No 5  
>pfam03818 MadM Malonate/sodium symporter MadM subunit.
Probab=65.21  E-value=6.2  Score=17.59  Aligned_cols=23  Identities=13%  Similarity=0.232  Sum_probs=11.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             99999999999999998867205
Q gi|254780790|r   35 SRIFSIAVAFLVTWIPSRLFIFL   57 (129)
Q Consensus        35 A~~ia~~~a~~~nf~lnr~~tF~   57 (129)
                      +...-.-+-+-.+|++.++.|++
T Consensus        15 tAFa~VG~~m~~S~~lS~~LT~G   37 (60)
T pfam03818        15 TAFAVVGVTMYVSYLLSKYLTKG   37 (60)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             99999999999999999888579


No 6  
>COG4818 Predicted membrane protein [Function unknown]
Probab=37.66  E-value=25  Score=14.46  Aligned_cols=52  Identities=21%  Similarity=0.304  Sum_probs=32.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999999999999999999999962123008999999999999999999767
Q gi|254780790|r   67 TVRYGVMYFMLSILNYAFYVKLLLTFQGLQPLLATVLSAVSSMLFVFLLYIR  118 (129)
Q Consensus        67 ~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~a~~i~~~~~~~~nf~~~k~  118 (129)
                      +.||+.+..........+...++...+.+...++..++...-..|-+-++|-
T Consensus        30 FVrFHAmQS~ltF~~l~~l~ill~~iP~Ig~lls~~v~l~a~iLwlv~mykA   81 (105)
T COG4818          30 FVRFHAMQSFLTFLGLWLLIILLAFIPYIGWLLSGLVGLAAFILWLVCMYKA   81 (105)
T ss_pred             CEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             1320369899999999999999998321599998089999999999999999


No 7  
>PRK10621 hypothetical protein; Provisional
Probab=37.49  E-value=25  Score=14.44  Aligned_cols=70  Identities=16%  Similarity=0.098  Sum_probs=40.1

Q ss_pred             HHHHHHHHHHHHHH---HHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999---9999571138999999999999999998867205788067999999999999999999
Q gi|254780790|r   10 NIVVVFFIDVMGFF---ILMKCGADPFYSRIFSIAVAFLVTWIPSRLFIFLKLRRKSFLETVRYGVMYFMLSILN   81 (129)
Q Consensus        10 vG~~~~~vd~~i~~---ll~~~g~~~~~A~~ia~~~a~~~nf~lnr~~tF~~~~~~~~~~~~~~~~~~~~~~~~~   81 (129)
                      .|.++++..=+.+.   .+...|.||..|+.-....+..-+....  +.|.++++..+++..+....+..+..+.
T Consensus        25 AG~inaiAGGGglIt~PaLl~~Glpp~~AnaTNk~a~~~g~~~a~--~~~~r~~~~~~~~~~~~~~~~~iGa~~G   97 (269)
T PRK10621         25 AGFIDSIAGGGGLLTIPALMAAGMSPAQALATNKLQACGGSFSAS--LYFIRRKVVNLKDQKLNIAMTFVGSMSG   97 (269)
T ss_pred             HHHHHHHCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH--HHHHHCCCCCHHHHHHHHHHHHHHHHHH
T ss_conf             998887706618999999998799889998874899997789999--9998614676889999999999999999


No 8  
>PRK09917 hypothetical protein; Provisional
Probab=32.31  E-value=31  Score=13.99  Aligned_cols=47  Identities=13%  Similarity=0.058  Sum_probs=33.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             99999999999999999957113899999999999999999886720
Q gi|254780790|r   10 NIVVVFFIDVMGFFILMKCGADPFYSRIFSIAVAFLVTWIPSRLFIF   56 (129)
Q Consensus        10 vG~~~~~vd~~i~~ll~~~g~~~~~A~~ia~~~a~~~nf~lnr~~tF   56 (129)
                      .-++...+.+++++++.+.|.+...|+.+|-.+-...+-.+-|++..
T Consensus        37 ~~al~Gaig~~~r~~l~~~g~~i~~atf~aA~~vg~i~~~~ar~~~~   83 (157)
T PRK09917         37 WCALLGAIGHGSRMLMMTSGLNIEWSTFMASMLVGTIGIQWSRWYLA   83 (157)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             99999999999999999839839999999999999999999998649


No 9  
>TIGR01116 ATPase-IIA1_Ca calcium-translocating P-type ATPase, SERCA-type; InterPro: IPR005782    This model describes Ca2+ ATPases (3.6.3.8 from EC) from eukaryotes and includes significant representatives from plants. Plasma membrane Ca2+ ATPases are primarily responsible for extrusion of calcium from cytoplasmic milieu to outside, coupled to the hydrolyis of ATP. Besides Ca2+ ATPases, Na+/Ca2+ exchangers are also involved in the maintenance of Ca2+ homestasis in the cell. ; GO: 0005388 calcium-transporting ATPase activity, 0006816 calcium ion transport, 0016021 integral to membrane.
Probab=29.43  E-value=35  Score=13.72  Aligned_cols=25  Identities=24%  Similarity=0.236  Sum_probs=20.2

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9789999999999999999999999
Q gi|254780790|r    1 MKQCIIFIINIVVVFFIDVMGFFIL   25 (129)
Q Consensus         1 lrql~rF~ivG~~~~~vd~~i~~ll   25 (129)
                      ||||+||.|+.=+|=++-......|
T Consensus       605 mKqFIRYmISSNIGEVv~IFlt~aL  629 (800)
T TIGR01116       605 MKQFIRYMISSNIGEVVSIFLTSAL  629 (800)
T ss_pred             CHHHHHHHHHCCHHHHHHHHHHHHH
T ss_conf             3246566552222899999999987


No 10 
>pfam06570 DUF1129 Protein of unknown function (DUF1129). This family consists of several hypothetical bacterial proteins of unknown function.
Probab=25.10  E-value=43  Score=13.29  Aligned_cols=85  Identities=8%  Similarity=0.070  Sum_probs=38.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHH---HHHHHHHHH-HHCCCCCHHHHHHHHHHHHH
Q ss_conf             99999999999999999886720578806799999999999999999---999999999-62123008999999999999
Q gi|254780790|r   34 YSRIFSIAVAFLVTWIPSRLFIFLKLRRKSFLETVRYGVMYFMLSIL---NYAFYVKLL-LTFQGLQPLLATVLSAVSSM  109 (129)
Q Consensus        34 ~A~~ia~~~a~~~nf~lnr~~tF~~~~~~~~~~~~~~~~~~~~~~~~---~~~l~~~l~-~~~~~~~~~~a~~i~~~~~~  109 (129)
                      ++-++...+|...-+..++..+=..++++....+.++..+..++..+   -..+...+. .-.+.++|+.- ++--+++.
T Consensus       113 ~tlil~~~~gG~~m~~~~~~l~~~~~~k~kr~~~~k~i~~~~~~~v~w~~~~~~~~~lP~~INP~Lp~~v~-iiigaia~  191 (206)
T pfam06570       113 TTLLLTSLVGGLAMYYMYRYLYRYLKDKSKRPPWWKSLLILVLAVVVWMAVFTLTSMLPPVINPVLPPWVY-IIIGAIAF  191 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHH-HHHHHHHH
T ss_conf             99999999999999999999641335653242299999999999999999999999761225889866999-99999999


Q ss_pred             HHHHHHHHHH
Q ss_conf             9999997679
Q gi|254780790|r  110 LFVFLLYIRF  119 (129)
Q Consensus       110 ~~nf~~~k~~  119 (129)
                      ...|+..|++
T Consensus       192 ~~r~~lkkky  201 (206)
T pfam06570       192 GVRYYLKKKY  201 (206)
T ss_pred             HHHHHHHHHH
T ss_conf             9999999972


No 11 
>pfam05957 DUF883 Bacterial protein of unknown function (DUF883). This family consists of several hypothetical bacterial proteins of unknown function.
Probab=23.89  E-value=45  Score=13.17  Aligned_cols=29  Identities=24%  Similarity=0.214  Sum_probs=23.2

Q ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             62123008999999999999999999767
Q gi|254780790|r   90 LTFQGLQPLLATVLSAVSSMLFVFLLYIR  118 (129)
Q Consensus        90 ~~~~~~~~~~a~~i~~~~~~~~nf~~~k~  118 (129)
                      ....+-+||-+..++.++++++.++++|+
T Consensus        66 d~yV~~~Pw~svgiAagvG~llG~Ll~RR   94 (94)
T pfam05957        66 DDYVHENPWQAVGIAAGVGLLLGLLLARR   94 (94)
T ss_pred             HHHHHHCCHHHHHHHHHHHHHHHHHHHCC
T ss_conf             99998792999999999999999998259


No 12 
>pfam07301 DUF1453 Protein of unknown function (DUF1453). This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown. Members of this family seem to be found exclusively in the Order Bacillales.
Probab=21.83  E-value=50  Score=12.94  Aligned_cols=90  Identities=10%  Similarity=0.029  Sum_probs=47.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHH
Q ss_conf             8999999999999999998867205788067-999999999999999999999999996212300899999999999999
Q gi|254780790|r   33 FYSRIFSIAVAFLVTWIPSRLFIFLKLRRKS-FLETVRYGVMYFMLSILNYAFYVKLLLTFQGLQPLLATVLSAVSSMLF  111 (129)
Q Consensus        33 ~~A~~ia~~~a~~~nf~lnr~~tF~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~a~~i~~~~~~~~  111 (129)
                      ..--..|..+|.+++..+=+.-.|+.++++- .++--.|..+-.....+....- ....+..+.....+..--.+.+++.
T Consensus        58 ~~e~~eA~~vG~lFSi~LI~Ts~fE~r~~~IY~kRSkAF~~ili~LlviR~~~k-~~i~~~id~~~~~gmF~lLAfgmIv  136 (149)
T pfam07301        58 GWEVLEAAIVGLLFSIFLIKTSKFEIRDGDIYLKRSKAFIFILIGLLVIRIALK-IYLSNSIDPGELSGMFYLLAFGMIV  136 (149)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCCEEEECCEEEEEECHHHHHHHHHHHHHHHHHH-HHHHCCCCHHHHHHHHHHHHHHHHH
T ss_conf             999999999999999999981523897887898622219999999999999999-9997268898999999999999999


Q ss_pred             HHHHHHHHHHHH
Q ss_conf             999976799867
Q gi|254780790|r  112 VFLLYIRFMTRR  123 (129)
Q Consensus       112 nf~~~k~~vFrk  123 (129)
                      -+=..-+.-|||
T Consensus       137 PWRIamy~kyrk  148 (149)
T pfam07301       137 PWRIAMYIKYRK  148 (149)
T ss_pred             HHHHHHHHHHHC
T ss_conf             999999999860


No 13 
>pfam08566 Pam17 Mitochondrial import protein Pam17. The presequence translocase-associated motor (PAM) drives the completion of preprotein translocation into the mitochondrial matrix. The Pam17 subunit is required for formation of a stable complex between cochaperones Pam16 and Pam18 and promotes the association of Pam16-Pam18 with the presequence translocase. Mitochondria lacking Pam17 are selectively impaired in the import of matrix proteins.
Probab=21.03  E-value=52  Score=12.85  Aligned_cols=64  Identities=20%  Similarity=0.218  Sum_probs=29.7

Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHCCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             9886720578806799999999999999999999999999-----62123008999999999999999999
Q gi|254780790|r   50 PSRLFIFLKLRRKSFLETVRYGVMYFMLSILNYAFYVKLL-----LTFQGLQPLLATVLSAVSSMLFVFLL  115 (129)
Q Consensus        50 lnr~~tF~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~-----~~~~~~~~~~a~~i~~~~~~~~nf~~  115 (129)
                      ||.++..+.+++  ..+.......++.+.......+....     -..+|++|+....++.+....+.|++
T Consensus        27 W~~ff~LRk~rR--r~~~~~si~t~l~~~~~~~~yl~~~~~D~~~~~I~GlDP~~~~g~~~~a~~~~G~L~   95 (174)
T pfam08566        27 WNSFFKLRKQRR--RINTGSSVFTALGGAFAGLAYLSTLEIDSPTQQIMGLDPFMVLGLATIACGALGWLL   95 (174)
T ss_pred             HHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             799999999866--785573899999987778998634333542030138588999999999974255751


Done!