Query         gi|254780708|ref|YP_003065121.1| intracellular septation protein A [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 204
No_of_seqs    118 out of 525
Neff          5.6 
Searched_HMMs 39220
Date          Sun May 29 20:03:46 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780708.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 PRK00259 intracellular septati 100.0       0       0  426.6  23.0  179   11-204     1-180 (181)
  2 COG2917 Intracellular septatio 100.0       0       0  420.4  17.8  179   11-204     1-180 (180)
  3 TIGR00997 ispZ intracellular s 100.0       0       0  416.8  20.3  182   11-201     1-186 (187)
  4 pfam04279 IspA Intracellular s 100.0       0       0  410.5  22.5  175   11-200     1-176 (176)
  5 COG4648 Predicted membrane pro  98.3 0.00021 5.4E-09   44.1  17.2  125   75-201    60-194 (201)
  6 pfam11361 DUF3159 Protein of u  97.3   0.012 2.9E-07   34.2  14.4  164   17-197    11-185 (188)
  7 cd02437 CCC1_like_1 CCC1-relat  65.5     9.4 0.00024   17.5   6.2   48  139-187   120-171 (175)
  8 PRK13741 conjugal transfer ent  48.0      19 0.00048   15.8   3.7   36  124-159    47-82  (171)
  9 TIGR01478 STEVOR variant surfa  45.7      21 0.00053   15.6   3.0   23   49-71    278-300 (315)
 10 PRK01318 putative inner membra  43.6      22 0.00057   15.4   5.6   18  181-198   544-561 (565)
 11 COG0573 PstC ABC-type phosphat  38.6      27 0.00068   15.0   4.6   61   47-120    85-147 (310)
 12 pfam01169 UPF0016 Uncharacteri  37.5      28 0.00071   14.9   4.5   41   47-87     36-78  (78)
 13 COG3776 Predicted membrane pro  37.4      28 0.00071   14.8   7.2   80   11-92      1-80  (91)
 14 TIGR01876 cas_Cas5d CRISPR-ass  34.7     6.6 0.00017   18.4  -1.1   11   99-109    39-49  (235)
 15 cd01118 ArsB_permease Anion pe  34.7      31 0.00079   14.6   6.1   17   99-115   242-258 (416)
 16 KOG4609 consensus               34.5      10 0.00026   17.3  -0.2   25  122-146   226-250 (284)
 17 PTZ00122 phosphoglycerate muta  31.5      15 0.00038   16.4   0.2   55   91-145   189-261 (296)
 18 pfam11457 DUF3021 Protein of u  30.7      36 0.00092   14.2   7.7   41   77-117    46-86  (134)
 19 COG2119 Predicted membrane pro  29.6      38 0.00097   14.1   5.8  115   47-167    40-163 (190)
 20 PRK09584 tppB putative tripept  29.0      39 0.00099   14.0  14.8  189    5-204   270-493 (500)
 21 pfam07444 Ycf66_N Ycf66 protei  28.9      39 0.00099   14.0   7.1   76    4-93      4-83  (84)
 22 PRK05886 yajC preprotein trans  26.3      43  0.0011   13.7   2.2   19   11-29      1-19  (108)
 23 COG4270 Predicted membrane pro  23.9      48  0.0012   13.5   4.7  106   80-201    13-126 (131)
 24 cd00925 Cyt_c_Oxidase_VIa Cyto  23.7      49  0.0012   13.5   3.7   26  137-162    13-38  (86)
 25 PHA00736 hypothetical protein   23.5      49  0.0013   13.4   4.5   58   54-117    18-75  (79)

No 1  
>PRK00259 intracellular septation protein A; Reviewed
Probab=100.00  E-value=0  Score=426.63  Aligned_cols=179  Identities=33%  Similarity=0.613  Sum_probs=175.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999999860110001232122221479999999999999999999850878876899999999999988
Q gi|254780708|r   11 VCFLLEFSPGIAFWLCNFYGEKLFFYFPMLSNLGGIIFVSTLLFMVLTAVSLGMFWFFFREFRVIPVVSGVCVLVFGSLT   90 (204)
Q Consensus        11 mK~lle~~Pli~FFi~y~~~~~~~~~~~~~~~~~~~I~~AT~~li~at~i~~~~~~~~~kki~~~~~is~~lv~vfGglT   90 (204)
                      ||+++|++|+++||++|+++|               |+.||+++|++|++|++++|+.+||+|+||++|++++++|||+|
T Consensus         1 Mk~lle~~Pli~Ffi~y~~~~---------------i~~AT~~lm~at~i~~~~~~~~~kki~~~~~~~~~lv~vFGglT   65 (181)
T PRK00259          1 MKQLLDFLPLILFFAAYKFYG---------------IYAATAALIVATVIQLAISWIRYRKVEKMQLISLVVVVVFGGLT   65 (181)
T ss_pred             CCHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
T ss_conf             928999988999999999944---------------99999999999999999999990975377999999999999999


Q ss_pred             HHHCCCCHHEEEHHHHHHHHHHHHHHHH-HHCCCHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHH
Q ss_conf             6618700424315599999999999999-828814899872037899799999889999999999999999999809558
Q gi|254780708|r   91 VWLRDESLIKMKPTFFYFVFSVVLFVGY-LSGKSFVRFFLSQVICLDSIGWRKLTLRWAFFFLFLSFCNEIVWRNFSTET  169 (204)
Q Consensus        91 l~f~d~~FIk~KpTIi~~~fA~~Ll~~~-~~~k~llk~ll~~~~~l~~~~W~~Lt~~w~~fF~~la~lN~~va~~~s~d~  169 (204)
                      ++||||+||||||||+|++||++|++|+ ++|||++|+++|+++++||++|+|||+||++||+++|++||||||++|||+
T Consensus        66 l~l~d~~FIk~KPTIi~~~fA~~Ll~~~~~~kk~llk~ll~~~~~l~~~~W~~Lt~~W~~fF~~la~lN~~v~~~~S~d~  145 (181)
T PRK00259         66 LVFHDDTFIKWKPTIIYWLFALALLGSQFIFKKPLIKRMLGKELTLPDPVWRKLNLAWALFFIFCGLLNLYVAFNFSTDT  145 (181)
T ss_pred             HHHCCCEEEEECHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHH
T ss_conf             99378605774218999999999998898758859999987045899999999999999999999999999999779417


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             89999898999999999999999940788843369
Q gi|254780708|r  170 WIFFKAIGIFPIFLIFGIVQMNLINKHTILPEERK  204 (204)
Q Consensus       170 WV~FK~fG~~~l~~if~~~q~~~l~k~~~~~e~~k  204 (204)
                      ||+||+||.+|++++|+++|.|+++||.++||++|
T Consensus       146 WV~FK~fG~~~lt~~F~~~q~~~l~k~~~~~~~~~  180 (181)
T PRK00259        146 WVNFKVFGLTGLTLVFTLLQGPYLYRHLPEEDKNK  180 (181)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC
T ss_conf             66768999889999999999999986388645557


No 2  
>COG2917 Intracellular septation protein A [Cell division and chromosome partitioning]
Probab=100.00  E-value=0  Score=420.42  Aligned_cols=179  Identities=38%  Similarity=0.720  Sum_probs=174.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999999860110001232122221479999999999999999999850878876899999999999988
Q gi|254780708|r   11 VCFLLEFSPGIAFWLCNFYGEKLFFYFPMLSNLGGIIFVSTLLFMVLTAVSLGMFWFFFREFRVIPVVSGVCVLVFGSLT   90 (204)
Q Consensus        11 mK~lle~~Pli~FFi~y~~~~~~~~~~~~~~~~~~~I~~AT~~li~at~i~~~~~~~~~kki~~~~~is~~lv~vfGglT   90 (204)
                      |||++|++|+++||++|+.+|               |+.||+++|+||++|++++|+.+||+++||++|++++++|||+|
T Consensus         1 MK~~ld~~Pli~FF~~yk~~~---------------I~~AT~~livAt~i~l~~~w~~~rkv~km~l~s~~~v~vFG~lT   65 (180)
T COG2917           1 MKQLLDFGPLILFFAAYKVYG---------------IYAATAVLIVATVIQLAILWIKYRKVEKMQLISGVVVVVFGGLT   65 (180)
T ss_pred             CCHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             916988878999999999987---------------99999999999999999999997423888898889999851478


Q ss_pred             HHHCCCCHHEEEHHHHHHHHHHHHHHH-HHHCCCHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHH
Q ss_conf             661870042431559999999999999-9828814899872037899799999889999999999999999999809558
Q gi|254780708|r   91 VWLRDESLIKMKPTFFYFVFSVVLFVG-YLSGKSFVRFFLSQVICLDSIGWRKLTLRWAFFFLFLSFCNEIVWRNFSTET  169 (204)
Q Consensus        91 l~f~d~~FIk~KpTIi~~~fA~~Ll~~-~~~~k~llk~ll~~~~~l~~~~W~~Lt~~w~~fF~~la~lN~~va~~~s~d~  169 (204)
                      ++|||++||||||||+|++||++|++| .++|||++|+++|++++|||++|+|||+||++||++||++||||||++|+|+
T Consensus        66 l~f~~d~FIKwK~TIi~~lFa~~Llgs~~~~~k~lik~~lg~~l~Lp~~~W~~Ln~~W~~FFlf~ai~N~yV~~~~s~d~  145 (180)
T COG2917          66 LIFHNDTFIKWKPTIIYWLFALVLLGSQFLFKKPLIKRMLGKELQLPEEVWRKLNLRWALFFLFCAIANEYVARNFSTDT  145 (180)
T ss_pred             HHCCCCCEEEEEHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCE
T ss_conf             85067516973099999999999998888716827999977441799899989989999999999999999997279762


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             89999898999999999999999940788843369
Q gi|254780708|r  170 WIFFKAIGIFPIFLIFGIVQMNLINKHTILPEERK  204 (204)
Q Consensus       170 WV~FK~fG~~~l~~if~~~q~~~l~k~~~~~e~~k  204 (204)
                      |||||+||.+|+|++|++.|.||++||..++|+.|
T Consensus       146 WV~FKvfG~~~ltlvF~l~q~~~i~rhl~~~~~~~  180 (180)
T COG2917         146 WVNFKVFGLTPLTLIFTLIQGPYIYRHLPKEDKNK  180 (180)
T ss_pred             EEEEEHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC
T ss_conf             78740241419999999999899998557453579


No 3  
>TIGR00997 ispZ intracellular septation protein A; InterPro: IPR006008    Intracellular septation protein A is a family of proteins which are essential for both normal cell division and bacterial virulence and are believed to play a role in the septation process .; GO: 0016021 integral to membrane.
Probab=100.00  E-value=0  Score=416.80  Aligned_cols=182  Identities=31%  Similarity=0.549  Sum_probs=172.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCC-CCCHHHHHHHHHHHHHHHH
Q ss_conf             999999999999999998601100012321222214799999999999999999998508-7887689999999999998
Q gi|254780708|r   11 VCFLLEFSPGIAFWLCNFYGEKLFFYFPMLSNLGGIIFVSTLLFMVLTAVSLGMFWFFFR-EFRVIPVVSGVCVLVFGSL   89 (204)
Q Consensus        11 mK~lle~~Pli~FFi~y~~~~~~~~~~~~~~~~~~~I~~AT~~li~at~i~~~~~~~~~k-ki~~~~~is~~lv~vfGgl   89 (204)
                      ||+++|++|+++||++|+.+|.        ++. ..++.||.++|+|+++|++++|+++| |+||++++|.+++++|||+
T Consensus         1 mK~~~dl~Pli~FF~~Y~~~~g--------eGs-eh~~~AT~~l~va~~~~~~~~~~~~kf~v~k~~~~~~v~~~vFG~L   71 (187)
T TIGR00997         1 MKLLLDLLPLIVFFATYKVTGG--------EGS-EHIFAATIALLVATIIAIILSYVKYKFKVEKMQWISFVLIVVFGGL   71 (187)
T ss_pred             CCHHHHHHHHHHHHHHHHHCCC--------CCC-HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHH
T ss_conf             9237888999999998852488--------731-8899999999999999999999996552031566677677656789


Q ss_pred             HHHHCCCCHHEEEHHHHHHHHHHHHHHHHHHCC--CHHHHHHHCCCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             866187004243155999999999999998288--148998720378-99799999889999999999999999999809
Q gi|254780708|r   90 TVWLRDESLIKMKPTFFYFVFSVVLFVGYLSGK--SFVRFFLSQVIC-LDSIGWRKLTLRWAFFFLFLSFCNEIVWRNFS  166 (204)
Q Consensus        90 Tl~f~d~~FIk~KpTIi~~~fA~~Ll~~~~~~k--~llk~ll~~~~~-l~~~~W~~Lt~~w~~fF~~la~lN~~va~~~s  166 (204)
                      |++|||++||||||||+|++||.+|++|++.+|  |.+|+++|+.++ |||++|++||++||+||++||++|||||+++|
T Consensus        72 Tl~f~d~~fIk~K~TIIy~lFA~~L~~s~l~~kG~P~Ik~~lg~~~~Gl~~~~W~~Ln~~Wa~FF~~ma~lN~~v~~~~S  151 (187)
T TIGR00997        72 TLVFHDSRFIKWKPTIIYALFAVILLGSQLFGKGKPLIKKMLGKEFQGLTEKVWAKLNFRWALFFIFMAVLNEYVATNFS  151 (187)
T ss_pred             HHHHCCCCEEEECHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             98875886252323499999999999988861687578988778741789668677879999999999999999998668


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             55889999898999999999999999940788843
Q gi|254780708|r  167 TETWIFFKAIGIFPIFLIFGIVQMNLINKHTILPE  201 (204)
Q Consensus       167 ~d~WV~FK~fG~~~l~~if~~~q~~~l~k~~~~~e  201 (204)
                      ||.|||||+||.+++|++|+++|.||++||.++|+
T Consensus       152 ~~~WV~FK~FG~~~lt~iF~~~~~~yl~~~~~~~~  186 (187)
T TIGR00997       152 EEIWVNFKVFGVTILTLIFILIQGIYLYRNMLKDD  186 (187)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC
T ss_conf             53501343220099999999999999860378989


No 4  
>pfam04279 IspA Intracellular septation protein A.
Probab=100.00  E-value=0  Score=410.52  Aligned_cols=175  Identities=38%  Similarity=0.732  Sum_probs=170.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999999860110001232122221479999999999999999999850878876899999999999988
Q gi|254780708|r   11 VCFLLEFSPGIAFWLCNFYGEKLFFYFPMLSNLGGIIFVSTLLFMVLTAVSLGMFWFFFREFRVIPVVSGVCVLVFGSLT   90 (204)
Q Consensus        11 mK~lle~~Pli~FFi~y~~~~~~~~~~~~~~~~~~~I~~AT~~li~at~i~~~~~~~~~kki~~~~~is~~lv~vfGglT   90 (204)
                      ||+++|++|+++||++|+++|               |+.||+++|+++++|++++|+.+||+|+||++|++++++|||+|
T Consensus         1 mk~l~d~~Pli~Ffi~y~~~~---------------I~~AT~~l~~at~i~~~~~~~~~k~i~~~~~is~~lv~vfGglT   65 (176)
T pfam04279         1 MKQLLDFGPLILFFVAYKYYG---------------IYVATAALIVATLLQLAILWILTGKVEKMQLITLVLVVVFGGLT   65 (176)
T ss_pred             CCHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
T ss_conf             928999988999999999936---------------99999999999999999999990985377999999999999999


Q ss_pred             HHHCCCCHHEEEHHHHHHHHHHHHHHHHH-HCCCHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHH
Q ss_conf             66187004243155999999999999998-28814899872037899799999889999999999999999999809558
Q gi|254780708|r   91 VWLRDESLIKMKPTFFYFVFSVVLFVGYL-SGKSFVRFFLSQVICLDSIGWRKLTLRWAFFFLFLSFCNEIVWRNFSTET  169 (204)
Q Consensus        91 l~f~d~~FIk~KpTIi~~~fA~~Ll~~~~-~~k~llk~ll~~~~~l~~~~W~~Lt~~w~~fF~~la~lN~~va~~~s~d~  169 (204)
                      ++||||+||||||||+||+||+++++|++ .|||++|+++|+++++||++|+|||++|++||+++|++||||||++|||+
T Consensus        66 l~~~d~~FIk~KPTIi~~~fA~~ll~s~~~~~k~llk~~l~~~~~l~~~~W~~Lt~~W~~fF~~~a~lN~~va~~~s~d~  145 (176)
T pfam04279        66 LWFHDDTFIKWKPTIIYWLFALALLGGLLFFKKPLLKRMLGKAIELPDEGWRKLNLRWALFFLFMAVLNEYVAFNFSTDT  145 (176)
T ss_pred             HHHCCCCEEEEEHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCH
T ss_conf             99478503773189999999999998999668659999997246999999999999999999999999999999789044


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             8999989899999999999999994078884
Q gi|254780708|r  170 WIFFKAIGIFPIFLIFGIVQMNLINKHTILP  200 (204)
Q Consensus       170 WV~FK~fG~~~l~~if~~~q~~~l~k~~~~~  200 (204)
                      ||+||+||.++++++|+++|.++++||.++|
T Consensus       146 WV~FK~fG~~~lt~iF~i~q~~~l~k~~~~~  176 (176)
T pfam04279       146 WVNFKVFGLMGLTLVFTLAQGPYLYKHLLEE  176 (176)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             3343699989999999999999998657899


No 5  
>COG4648 Predicted membrane protein [Function unknown]
Probab=98.31  E-value=0.00021  Score=44.12  Aligned_cols=125  Identities=14%  Similarity=0.185  Sum_probs=97.1

Q ss_pred             HHHHHHHHHHHHH------HHHHHHCCCCHHEEEHHHHHHHHHHHHHHHHHHCCCHHHHHHHCCC-CCCHHH---HHHHH
Q ss_conf             6899999999999------9886618700424315599999999999999828814899872037-899799---99988
Q gi|254780708|r   75 IPVVSGVCVLVFG------SLTVWLRDESLIKMKPTFFYFVFSVVLFVGYLSGKSFVRFFLSQVI-CLDSIG---WRKLT  144 (204)
Q Consensus        75 ~~~is~~lv~vfG------glTl~f~d~~FIk~KpTIi~~~fA~~Ll~~~~~~k~llk~ll~~~~-~l~~~~---W~~Lt  144 (204)
                      .++++- ++.++|      ......|.|.-..+-|-.+|..+..++.++++-|.++.+++---+- +||+++   =|..|
T Consensus        60 l~ll~~-lwalag~alc~a~A~~~~~~e~~LylypV~vN~mml~vFG~tL~ag~t~verfArl~~p~LppkavRYTR~VT  138 (201)
T COG4648          60 LQLLTQ-LWALAGIALCLAVASFMLKTEQLLYLYPVVVNAMMLAVFGGTLWAGMTIVERFARLQEPDLPPKAVRYTRHVT  138 (201)
T ss_pred             HHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHCCCCCCHHHHHHHHHHH
T ss_conf             889999-9999999999766388863455663349999999999970547504079999998458999889999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             999999999999999999980955889999898999999999999999940788843
Q gi|254780708|r  145 LRWAFFFLFLSFCNEIVWRNFSTETWIFFKAIGIFPIFLIFGIVQMNLINKHTILPE  201 (204)
Q Consensus       145 ~~w~~fF~~la~lN~~va~~~s~d~WV~FK~fG~~~l~~if~~~q~~~l~k~~~~~e  201 (204)
                      -.|++||+.+|.+...++.+-+.+.|-.|.-.---++....+++..-| ||-...||
T Consensus       139 qvWc~FFi~na~iaalla~~~~~~~Wa~yng~iay~L~g~lfvgE~a~-RrlVl~p~  194 (201)
T COG4648         139 QVWCGFFIINAGIAALLALYGDMSLWAAYNGMIAYLLMGTLFVGEWAY-RRLVLKPD  194 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHCCCCC
T ss_conf             999999999879999999955548999997189999965799999999-98616820


No 6  
>pfam11361 DUF3159 Protein of unknown function (DUF3159). Some members in this family of proteins with unknown function are annotated as membrane proteins however this cannot be confirmed. Currently this family of proteins has no known function.
Probab=97.28  E-value=0.012  Score=34.19  Aligned_cols=164  Identities=15%  Similarity=0.169  Sum_probs=106.9

Q ss_pred             HHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHH-HHHHHHHHHHCC
Q ss_conf             9999999999986011000123212222147999999999999999999985087887689999999-999998866187
Q gi|254780708|r   17 FSPGIAFWLCNFYGEKLFFYFPMLSNLGGIIFVSTLLFMVLTAVSLGMFWFFFREFRVIPVVSGVCV-LVFGSLTVWLRD   95 (204)
Q Consensus        17 ~~Pli~FFi~y~~~~~~~~~~~~~~~~~~~I~~AT~~li~at~i~~~~~~~~~kki~~~~~is~~lv-~vfGglTl~f~d   95 (204)
                      -.|.++|..+|....+              +..|-.+.++...+..  .+-+-||-+..+.+++.+. .+-..+.....|
T Consensus        11 ~lP~lvFvv~~~~~~~--------------L~~ai~~al~~a~~~~--v~RLvrr~~~~~a~~Gl~GV~i~a~~A~~tG~   74 (188)
T pfam11361        11 ALPGVVFVVAFTITAG--------------LTLAIIAAVAVAVLIL--VVRLVRRESVQPALSGLFGVGISAFIALRTGR   74 (188)
T ss_pred             CCCCEEEHHHHHHHCC--------------HHHHHHHHHHHHHHHH--HHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             5771220248875422--------------1999999999999999--99999468719999999999999999998588


Q ss_pred             CCHHEEEHHHHHHHHHHHHHHHHHHCCCHHHHHHHCCCCCCHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             0042431559999999999999982881489987203789979999----------988999999999999999999980
Q gi|254780708|r   96 ESLIKMKPTFFYFVFSVVLFVGYLSGKSFVRFFLSQVICLDSIGWR----------KLTLRWAFFFLFLSFCNEIVWRNF  165 (204)
Q Consensus        96 ~~FIk~KpTIi~~~fA~~Ll~~~~~~k~llk~ll~~~~~l~~~~W~----------~Lt~~w~~fF~~la~lN~~va~~~  165 (204)
                      ..=..+-.-+.|...+.++++|...++|++..+.+....-+ ..|+          +.|+.|+..|..=.......+..-
T Consensus        75 A~dfFl~Gi~~n~~~~~v~l~SilvrwPl~G~v~g~~~g~~-~~Wr~d~~~~ray~~aT~~w~~~f~~R~~VQ~pLY~a~  153 (188)
T pfam11361        75 AKDFFLPGIWTNLAYAVVLLVSILVRWPLVGLVWGAVTGDG-TDWRRDRRAVRAYDLATLVWVAVFALRFVVQVPLYLAD  153 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCC-CCEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             85600899999999999999999983336999999990999-76025999999999999999999999999999887268


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             95588999989899999999999999994078
Q gi|254780708|r  166 STETWIFFKAIGIFPIFLIFGIVQMNLINKHT  197 (204)
Q Consensus       166 s~d~WV~FK~fG~~~l~~if~~~q~~~l~k~~  197 (204)
                      +.+.=..-|+.---|++.+-...+.-.++|-.
T Consensus       154 ~~~~Lg~arl~mG~Pl~~~~~~~s~~~~rr~~  185 (188)
T pfam11361       154 QTGALGVARIAMGWPLTALALLVTWWAVRRAN  185 (188)
T ss_pred             CCCHHHHHHHHHCCHHHHHHHHHHHHHHCCCC
T ss_conf             80499999999725899999999998622588


No 7  
>cd02437 CCC1_like_1 CCC1-related protein family. CCC1_like_1: This is a protein family closely related to CCC1, a family of proteins involved in iron and manganese transport. Yeast CCC1 is a vacuole transmembrane protein responsible for the iron and manganese accumulation in vacuole.
Probab=65.51  E-value=9.4  Score=17.54  Aligned_cols=48  Identities=15%  Similarity=0.139  Sum_probs=25.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHH----HHHHHHHHHHHHHHH
Q ss_conf             9999889999999999999999999809558899----998989999999999
Q gi|254780708|r  139 GWRKLTLRWAFFFLFLSFCNEIVWRNFSTETWIF----FKAIGIFPIFLIFGI  187 (204)
Q Consensus       139 ~W~~Lt~~w~~fF~~la~lN~~va~~~s~d~WV~----FK~fG~~~l~~if~~  187 (204)
                      .|.-....-++-++.+.++-.+.+|...+ .|..    -..-+.++..+.|.+
T Consensus       120 ~~~A~~iai~i~~~~L~~lg~~~~k~s~~-~~~~s~~~~~~~~~~~~~lv~~~  171 (175)
T cd02437         120 LWLAAGIAVAIVLAILFILGLVIGKISKI-NVAISFVWAVGMVITGISLVFSV  171 (175)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             89999999999999999999999998155-13999999999999999999986


No 8  
>PRK13741 conjugal transfer entry exclusion protein TraS; Provisional
Probab=48.01  E-value=19  Score=15.81  Aligned_cols=36  Identities=19%  Similarity=0.276  Sum_probs=20.3

Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             489987203789979999988999999999999999
Q gi|254780708|r  124 FVRFFLSQVICLDSIGWRKLTLRWAFFFLFLSFCNE  159 (204)
Q Consensus       124 llk~ll~~~~~l~~~~W~~Lt~~w~~fF~~la~lN~  159 (204)
                      ...+++.+.....+.+|.-+--.|.+|++++|+.|-
T Consensus        47 ~~~~f~~~~~~~~~~~~sv~~~g~~gfii~~~it~~   82 (171)
T PRK13741         47 TYLRFLADKVDIADAGFSVLASGVLGFIIFVAITNG   82 (171)
T ss_pred             HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             999999268509886189999789999999999975


No 9  
>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=45.69  E-value=21  Score=15.60  Aligned_cols=23  Identities=22%  Similarity=0.671  Sum_probs=12.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             99999999999999999985087
Q gi|254780708|r   49 VSTLLFMVLTAVSLGMFWFFFRE   71 (204)
Q Consensus        49 ~AT~~li~at~i~~~~~~~~~kk   71 (204)
                      +|+.||++.+++-+++.-|++||
T Consensus       278 IAAlVLi~L~V~LIiLYIWLYrR  300 (315)
T TIGR01478       278 IAALVLIILTVVLIILYIWLYRR  300 (315)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999999999998888564


No 10 
>PRK01318 putative inner membrane protein translocase component YidC; Provisional
Probab=43.59  E-value=22  Score=15.41  Aligned_cols=18  Identities=22%  Similarity=0.335  Sum_probs=12.6

Q ss_pred             HHHHHHHHHHHHHHCCCC
Q ss_conf             999999999999940788
Q gi|254780708|r  181 IFLIFGIVQMNLINKHTI  198 (204)
Q Consensus       181 l~~if~~~q~~~l~k~~~  198 (204)
                      .+-++.++|-.+++|+..
T Consensus       544 ~~~~~~~~qq~~~~~~~~  561 (565)
T PRK01318        544 VNNLLTIIQQYIINRRLE  561 (565)
T ss_pred             HHHHHHHHHHHHHHHHHH
T ss_conf             999999999999988634


No 11 
>COG0573 PstC ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]
Probab=38.60  E-value=27  Score=14.95  Aligned_cols=61  Identities=15%  Similarity=0.334  Sum_probs=29.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHCC-CCCH-HHHHHHHHHHHHHHHHHHHCCCCHHEEEHHHHHHHHHHHHHHHHHH
Q ss_conf             799999999999999999998508-7887-6899999999999988661870042431559999999999999982
Q gi|254780708|r   47 IFVSTLLFMVLTAVSLGMFWFFFR-EFRV-IPVVSGVCVLVFGSLTVWLRDESLIKMKPTFFYFVFSVVLFVGYLS  120 (204)
Q Consensus        47 I~~AT~~li~at~i~~~~~~~~~k-ki~~-~~~is~~lv~vfGglTl~f~d~~FIk~KpTIi~~~fA~~Ll~~~~~  120 (204)
                      ++.+..+++++.-+.+...-.+.. -.|+ ..-.-..++=.+.|+             |||+|+.||+..++..++
T Consensus        85 li~s~iA~liAvP~gi~~Aifl~E~~~p~~~r~~l~~~iElLAgI-------------PSVVYG~fgl~vl~P~l~  147 (310)
T COG0573          85 LITSLIALLIAVPVGIGTAIFLSEYAPPRRLRRVLKPAIELLAGI-------------PSVVYGFFGLFVLAPFLR  147 (310)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCC-------------CHHHHHHHHHHHHHHHHH
T ss_conf             999999999998788896888776358287888899999998169-------------711778999999999999


No 12 
>pfam01169 UPF0016 Uncharacterized protein family UPF0016. This family contains integral membrane proteins of unknown function. Most members of the family contain two copies of a region that contains an EXGD motif. Each of these regions contains three predicted transmembrane regions.
Probab=37.55  E-value=28  Score=14.85  Aligned_cols=41  Identities=27%  Similarity=0.408  Sum_probs=29.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCCC--HHHHHHHHHHHHHH
Q ss_conf             799999999999999999998508788--76899999999999
Q gi|254780708|r   47 IFVSTLLFMVLTAVSLGMFWFFFREFR--VIPVVSGVCVLVFG   87 (204)
Q Consensus        47 I~~AT~~li~at~i~~~~~~~~~kki~--~~~~is~~lv~vfG   87 (204)
                      ..-++.++++.+.+++.......+++|  .++++++++-++||
T Consensus        36 ~~G~~~al~~~~~lav~~G~~l~~~lp~~~i~~~a~~lFl~fG   78 (78)
T pfam01169        36 FLGATLALLLATALAVLLGRWLATLLPPRVLHFVAGVLFLAFG   78 (78)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHC
T ss_conf             9989999999999999999999977899999999999999609


No 13 
>COG3776 Predicted membrane protein [Function unknown]
Probab=37.44  E-value=28  Score=14.84  Aligned_cols=80  Identities=15%  Similarity=0.200  Sum_probs=48.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999999860110001232122221479999999999999999999850878876899999999999988
Q gi|254780708|r   11 VCFLLEFSPGIAFWLCNFYGEKLFFYFPMLSNLGGIIFVSTLLFMVLTAVSLGMFWFFFREFRVIPVVSGVCVLVFGSLT   90 (204)
Q Consensus        11 mK~lle~~Pli~FFi~y~~~~~~~~~~~~~~~~~~~I~~AT~~li~at~i~~~~~~~~~kki~~~~~is~~lv~vfGglT   90 (204)
                      ||.++.++-+..-|.=-..-=+.+.+++...  ...+++|++.+..--.+|+.+..-..++=...++.--.-|.+||-..
T Consensus         1 Mk~~l~lgkl~~l~vW~~lL~NL~~Pfp~pl--~~~l~va~~flvlmHglqllll~g~l~~~~p~~~lek~~IllFGVf~   78 (91)
T COG3776           1 MKMLLNLGKLLMLFVWLFLLLNLVHPFPRPL--NIFLNVALGFLVLMHGLQLLLLKGTLPKRGPQPWLEKLQILLFGVFE   78 (91)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHCCCCCHHH--HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHH
T ss_conf             9279989999999999999999737787138--89999999999999999999971647777997589999999999999


Q ss_pred             HH
Q ss_conf             66
Q gi|254780708|r   91 VW   92 (204)
Q Consensus        91 l~   92 (204)
                      +.
T Consensus        79 Ll   80 (91)
T COG3776          79 LL   80 (91)
T ss_pred             HH
T ss_conf             99


No 14 
>TIGR01876 cas_Cas5d CRISPR-associated protein Cas5, Dvulg subtype; InterPro: IPR010155   CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This small Cas family is represented by CT1134 of Chlorobium tepidum..
Probab=34.71  E-value=6.6  Score=18.42  Aligned_cols=11  Identities=36%  Similarity=0.615  Sum_probs=7.3

Q ss_pred             HEEEHHHHHHH
Q ss_conf             24315599999
Q gi|254780708|r   99 IKMKPTFFYFV  109 (204)
Q Consensus        99 Ik~KpTIi~~~  109 (204)
                      |.|||||.|.+
T Consensus        39 IywKPti~~~i   49 (235)
T TIGR01876        39 IYWKPTIRFVI   49 (235)
T ss_pred             EEECCEEEEEE
T ss_conf             12156046787


No 15 
>cd01118 ArsB_permease Anion permease ArsB.  These permeases have been shown to export arsenate and antimonite in eubacteria and archaea.  A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a channel-forming subunit of an ATP-driven anion pump (ArsAB).  The ArsAB complex is similar in many ways to ATP-binding cassette transporters, which have two groups of six transmembrane-spanning helical segments and two nucleotide-binding domains. The ArsB proteins belong to the ArsB/NhaD superfamily of permeases that translocate sodium, arsenate, sulfate, and organic anions across biological membranes in all three kingdoms of life.
Probab=34.68  E-value=31  Score=14.59  Aligned_cols=17  Identities=18%  Similarity=0.544  Sum_probs=6.3

Q ss_pred             HEEEHHHHHHHHHHHHH
Q ss_conf             24315599999999999
Q gi|254780708|r   99 IKMKPTFFYFVFSVVLF  115 (204)
Q Consensus        99 Ik~KpTIi~~~fA~~Ll  115 (204)
                      ....|+.+-...|.+++
T Consensus       242 ~~~~~~~ia~~~a~~~~  258 (416)
T cd01118         242 LLIPPSFIAGVLALIFL  258 (416)
T ss_pred             HCCHHHHHHHHHHHHHH
T ss_conf             23189999999999999


No 16 
>KOG4609 consensus
Probab=34.51  E-value=10  Score=17.34  Aligned_cols=25  Identities=20%  Similarity=0.711  Sum_probs=21.7

Q ss_pred             CCHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             8148998720378997999998899
Q gi|254780708|r  122 KSFVRFFLSQVICLDSIGWRKLTLR  146 (204)
Q Consensus       122 k~llk~ll~~~~~l~~~~W~~Lt~~  146 (204)
                      -|.++++.-..+|.|.+||-|+|..
T Consensus       226 aNVIRY~icRALq~PpegWlR~nln  250 (284)
T KOG4609         226 ANVIRYFICRALQFPPEGWLRMNLN  250 (284)
T ss_pred             CCHHHHHHHHHHCCCCCHHHEECCC
T ss_conf             3222443334413794043121146


No 17 
>PTZ00122 phosphoglycerate mutase; Provisional
Probab=31.48  E-value=15  Score=16.40  Aligned_cols=55  Identities=16%  Similarity=0.208  Sum_probs=34.3

Q ss_pred             HHHCCCCHHEEEHHHHHHH--HHHHHHH--HHHH--------------CCCHHHHHHHCCCCCCHHHHHHHHH
Q ss_conf             6618700424315599999--9999999--9982--------------8814899872037899799999889
Q gi|254780708|r   91 VWLRDESLIKMKPTFFYFV--FSVVLFV--GYLS--------------GKSFVRFFLSQVICLDSIGWRKLTL  145 (204)
Q Consensus        91 l~f~d~~FIk~KpTIi~~~--fA~~Ll~--~~~~--------------~k~llk~ll~~~~~l~~~~W~~Lt~  145 (204)
                      =+.-||----|||+.--..  -+-+=..  .++.              .-|.++.+.-+.+|+|.++|-|++.
T Consensus       189 Pi~P~Pp~~~wkp~~~~~~~D~aRIEaAFrkYFhRp~~~~DsyeiiVcHaNVIRYfvcRALQlPpeaWLR~sl  261 (296)
T PTZ00122        189 PYAPDPSPRGSKFDIGEIVKDKKRINKAYETYFYKPGGSEDEYQLVICHGNVIRYFLCRALQYPLFAWLRFSS  261 (296)
T ss_pred             CCCCCCCCCCCCCCHHHHHCCHHHHHHHHHHHCCCCCCCCCCEEEEEEEHHHHHHHHHHHHCCCHHHHEEECC
T ss_conf             9899999777775446674360889999997613788888737999840278999999986188066245013


No 18 
>pfam11457 DUF3021 Protein of unknown function (DUF3021). This is a bacterial family of uncharacterized proteins.
Probab=30.72  E-value=36  Score=14.20  Aligned_cols=41  Identities=17%  Similarity=0.309  Sum_probs=32.4

Q ss_pred             HHHHHHHHHHHHHHHHHCCCCHHEEEHHHHHHHHHHHHHHH
Q ss_conf             99999999999988661870042431559999999999999
Q gi|254780708|r   77 VVSGVCVLVFGSLTVWLRDESLIKMKPTFFYFVFSVVLFVG  117 (204)
Q Consensus        77 ~is~~lv~vfGglTl~f~d~~FIk~KpTIi~~~fA~~Ll~~  117 (204)
                      +....+..++|..+..|++|.+=-.|-|+++.....+....
T Consensus        46 ~~~~lig~l~g~~S~IF~~e~wSl~~q~iiHF~~~~~~~~~   86 (134)
T pfam11457        46 LSVFLIGALFGLASLIFETERWSLLKQTLIHFILTLLTFLP   86 (134)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999999999999224216999999999999999999


No 19 
>COG2119 Predicted membrane protein [Function unknown]
Probab=29.59  E-value=38  Score=14.09  Aligned_cols=115  Identities=13%  Similarity=0.096  Sum_probs=54.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCCC--HHHHHHHHHHHHHHHHHHHHCCCCHHEEEHH------HHHHHHHHHHHHHH
Q ss_conf             799999999999999999998508788--7689999999999998866187004243155------99999999999999
Q gi|254780708|r   47 IFVSTLLFMVLTAVSLGMFWFFFREFR--VIPVVSGVCVLVFGSLTVWLRDESLIKMKPT------FFYFVFSVVLFVGY  118 (204)
Q Consensus        47 I~~AT~~li~at~i~~~~~~~~~kki~--~~~~is~~lv~vfGglTl~f~d~~FIk~KpT------Ii~~~fA~~Ll~~~  118 (204)
                      ++.|+.+   -+..+.....+..--.|  ...+.+.++=+.||.-.++=+.+  .+..+.      ++--.|..+++ +-
T Consensus        40 ~~~a~~~---m~~la~~vG~~~~~~~~~~~~~~~~~~~Flafav~~l~edk~--~~~e~~~~~~~~~f~~tfi~~Fl-aE  113 (190)
T COG2119          40 IAIALFA---MHALAVLVGHAAASLLPERPLAWASGVLFLAFAVWMLIEDKE--DDEEAQAASPRGVFVTTFITFFL-AE  113 (190)
T ss_pred             HHHHHHH---HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCCC--CCCCCCCCCCCCHHHHHHHHHHH-HH
T ss_conf             9999999---999999998887514844579999999999999998066221--31133445540489999999999-99


Q ss_pred             HHCCC-HHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCH
Q ss_conf             82881-48998720378997999998899999999999999999998095
Q gi|254780708|r  119 LSGKS-FVRFFLSQVICLDSIGWRKLTLRWAFFFLFLSFCNEIVWRNFST  167 (204)
Q Consensus       119 ~~~k~-llk~ll~~~~~l~~~~W~~Lt~~w~~fF~~la~lN~~va~~~s~  167 (204)
                      +..|+ +--..|+...+-+-..|---+....+-=..-...-.++++-.++
T Consensus       114 ~GDKTQiATIaLaA~~~~~~~V~~Gt~lg~~l~s~laVl~G~~ia~ki~~  163 (190)
T COG2119         114 LGDKTQIATIALAADYHSPWAVFAGTTLGMILASVLAVLLGKLIAGKLPE  163 (190)
T ss_pred             HCCHHHHHHHHHHHCCCCCEEEEHHHHHHHHHHHHHHHHHHHHHHCCCCH
T ss_conf             55388999999960379965661634899999988999977998711788


No 20 
>PRK09584 tppB putative tripeptide transporter permease; Reviewed
Probab=29.01  E-value=39  Score=14.03  Aligned_cols=189  Identities=12%  Similarity=0.080  Sum_probs=84.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCC---CCCCCH-----H---HHHHHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             46515899999999999999999860110001232---122221-----4---799999999999999999998508788
Q gi|254780708|r    5 QSQSKIVCFLLEFSPGIAFWLCNFYGEKLFFYFPM---LSNLGG-----I---IFVSTLLFMVLTAVSLGMFWFFFREFR   73 (204)
Q Consensus         5 ~~~~~~mK~lle~~Pli~FFi~y~~~~~~~~~~~~---~~~~~~-----~---I~~AT~~li~at~i~~~~~~~~~kki~   73 (204)
                      .++.++.-.+.=+.+.++|+..|.-.+.....+..   ..+..+     +   -.-+-.+.+.+-+.+....+. .||.+
T Consensus       270 ~er~r~~~~~il~~~~ivFw~~y~Q~~ssl~lfa~~~vd~~l~g~~ip~~~fqslNpl~IiilaPl~a~lw~~l-g~~~~  348 (500)
T PRK09584        270 AARRKMIVAFILMLEAIIFFVLYSQMPTSLNFFAIRNVEHSILGIAVEPEQYQALNPFWIMIGSPILAAIYNKM-GDTLP  348 (500)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEECCHHHHHHHHHHHHHHHHHHHHHHHHHH-CCCCC
T ss_conf             99835899999999999999999983489999999833421277321789998872799999899999999981-77788


Q ss_pred             HHHHHHHHHHH---HHHHHHH--HHCCCCHHEEEHHHHHHHHHHHHHH--H-HHHCCCHHHHHHHCCCCCCHHHHHHHHH
Q ss_conf             76899999999---9999886--6187004243155999999999999--9-9828814899872037899799999889
Q gi|254780708|r   74 VIPVVSGVCVL---VFGSLTV--WLRDESLIKMKPTFFYFVFSVVLFV--G-YLSGKSFVRFFLSQVICLDSIGWRKLTL  145 (204)
Q Consensus        74 ~~~~is~~lv~---vfGglTl--~f~d~~FIk~KpTIi~~~fA~~Ll~--~-~~~~k~llk~ll~~~~~l~~~~W~~Lt~  145 (204)
                      ....++..+++   -|.-+.+  -+.|+.-   |.++ +|+...-++.  | .+..---+    +-.-++.++  +-.+.
T Consensus       349 ~p~KfaiG~~l~gl~F~vl~~~~~~~~~~g---~vs~-~Wlv~~Y~l~tigEL~lSPvGL----S~vtklAP~--~~~s~  418 (500)
T PRK09584        349 MPHKFAIGMVLCSGAFLVLPLGAKFANDAG---IVSV-NWLIASYGLQSIGELMISGLGL----AMVAQLVPQ--RLMGF  418 (500)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHCCCCC---CCCH-HHHHHHHHHHHHHHHHHHHHHH----HHHHHHCHH--HHHHH
T ss_conf             369999999999999999999998626788---4068-9999999999999999758999----999987859--99999


Q ss_pred             HHHHHHHHHHHHHHHHHH---HHC--HHHH---H-------HHHHHHHH-HHHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             999999999999999999---809--5588---9-------99989899-9999999999999940788843369
Q gi|254780708|r  146 RWAFFFLFLSFCNEIVWR---NFS--TETW---I-------FFKAIGIF-PIFLIFGIVQMNLINKHTILPEERK  204 (204)
Q Consensus       146 ~w~~fF~~la~lN~~va~---~~s--~d~W---V-------~FK~fG~~-~l~~if~~~q~~~l~k~~~~~e~~k  204 (204)
                      -.+++|+..|+.|....+   ..+  +|..   .       -|...|.. ...-+....-.|.++|...+|+.||
T Consensus       419 mMG~wfls~a~gn~lag~ia~~~~~~~~~~~~~~~~~~y~~~F~~l~~~~~~~~v~l~~~~p~i~klm~~~~~~~  493 (500)
T PRK09584        419 IMGSWFLTTAGAALIAGYVAGLMAVPDNVTDPLMSLEVYGRVFMQIGIATAVIAVLMLLTAPKLHRMTQDDSADK  493 (500)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC
T ss_conf             999999999999999999999861765555355566689899999999999999999999899999707887433


No 21 
>pfam07444 Ycf66_N Ycf66 protein N-terminus. This family represents the N-terminus (approximately 80 residues) of Ycf66, a protein that seems to be restricted to eukaryotes that contain chloroplasts and to cyanobacteria.
Probab=28.89  E-value=39  Score=14.02  Aligned_cols=76  Identities=14%  Similarity=0.139  Sum_probs=47.7

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHH--
Q ss_conf             046515899999999999999999860110001232122221479999999999999999999850878876899999--
Q gi|254780708|r    4 SQSQSKIVCFLLEFSPGIAFWLCNFYGEKLFFYFPMLSNLGGIIFVSTLLFMVLTAVSLGMFWFFFREFRVIPVVSGV--   81 (204)
Q Consensus         4 ~~~~~~~mK~lle~~Pli~FFi~y~~~~~~~~~~~~~~~~~~~I~~AT~~li~at~i~~~~~~~~~kki~~~~~is~~--   81 (204)
                      +..-+.++-..+-.+-+.++|......+         ..-+.|+++++..+..+.+.     +...-|+++..+++-.  
T Consensus         4 ~~~pa~ilgi~l~~~~~~LY~~r~~~Pe---------vsRd~D~ffs~vGLl~g~IL-----~fqgwRLdPillfgQ~l~   69 (84)
T pfam07444         4 EFGPSTLLGIILAIAGIALYFLRTVKPE---------VSRDYDIFFASIGLLCGGIL-----IFQGWRLDPILLFGQVLL   69 (84)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHCCC---------CCCCCCHHHHHHHHHHHHHH-----HHHCCCCCHHHHHHHHHH
T ss_conf             3478999999999999999999983923---------02341079999999999999-----983400174999999999


Q ss_pred             --HHHHHHHHHHHH
Q ss_conf             --999999988661
Q gi|254780708|r   82 --CVLVFGSLTVWL   93 (204)
Q Consensus        82 --lv~vfGglTl~f   93 (204)
                        .++.||-=|+-+
T Consensus        70 ~~~~~~f~~etirL   83 (84)
T pfam07444        70 TGTAIFFAWESIRL   83 (84)
T ss_pred             HHHHHHHHHHHEEC
T ss_conf             99999999864034


No 22 
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=26.32  E-value=43  Score=13.75  Aligned_cols=19  Identities=21%  Similarity=0.135  Sum_probs=14.2

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q ss_conf             9999999999999999986
Q gi|254780708|r   11 VCFLLEFSPGIAFWLCNFY   29 (204)
Q Consensus        11 mK~lle~~Pli~FFi~y~~   29 (204)
                      |..+.-|.|+++.|.++++
T Consensus         1 m~sl~~flPlili~~vf~f   19 (108)
T PRK05886          1 MESLVLFLPFLLIMGGFMY   19 (108)
T ss_pred             CCHHHHHHHHHHHHHHHHH
T ss_conf             9008999999999999999


No 23 
>COG4270 Predicted membrane protein [Function unknown]
Probab=23.89  E-value=48  Score=13.48  Aligned_cols=106  Identities=13%  Similarity=0.214  Sum_probs=63.1

Q ss_pred             HHHHHHHHHHHHHHCCCCHHEEEHHHHHHHHHHHHHHHHHHCCCHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHH--H
Q ss_conf             99999999988661870042431559999999999999982881489987203789979999988999999999999--9
Q gi|254780708|r   80 GVCVLVFGSLTVWLRDESLIKMKPTFFYFVFSVVLFVGYLSGKSFVRFFLSQVICLDSIGWRKLTLRWAFFFLFLSF--C  157 (204)
Q Consensus        80 ~~lv~vfGglTl~f~d~~FIk~KpTIi~~~fA~~Ll~~~~~~k~llk~ll~~~~~l~~~~W~~Lt~~w~~fF~~la~--l  157 (204)
                      ..+-...+|++-+.+.|.|-.+-|.-+-+-+++++..|-+      |.+.|-.+-.|.  |++ .-+|+++-+.+|+  +
T Consensus        13 la~~f~~iGi~HF~r~eqf~~IVPp~vP~p~tav~VSG~f------EilgglaLlip~--~s~-~aa~gl~~l~laVfPA   83 (131)
T COG4270          13 LAAAFLLIGIGHFTRPEQFRRIVPPCVPLPKTAVLVSGIF------EILGGLALLIPA--PSQ-AAAWGLIILLLAVFPA   83 (131)
T ss_pred             HHHHHHHHHHHHCCCHHHHCCCCCCCCCCCHHHHHHHHHH------HHHHHHHHHCCC--CHH-HHHHHHHHHHHHHCCH
T ss_conf             9999999722311565653245899888604688997899------997046442478--279-8870499999997103


Q ss_pred             HHHHHHHH------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             99999980------955889999898999999999999999940788843
Q gi|254780708|r  158 NEIVWRNF------STETWIFFKAIGIFPIFLIFGIVQMNLINKHTILPE  201 (204)
Q Consensus       158 N~~va~~~------s~d~WV~FK~fG~~~l~~if~~~q~~~l~k~~~~~e  201 (204)
                      |+|.|+.-      +-..|.-.-   -.++..+.+.    +.+|+..++.
T Consensus        84 NiYMa~h~lP~~~~~~p~~ll~a---RLplQavL~g----la~~l~R~~~  126 (131)
T COG4270          84 NIYMAQHKLPDGDKPLPPWLLAA---RLPLQAVLLG----LAYKLARDEA  126 (131)
T ss_pred             HHHHHHHCCCCCCCCCCHHHHHH---HCCHHHHHHH----HHHHHHCCCC
T ss_conf             78888612876789897899999---7427999999----9999805246


No 24 
>cd00925 Cyt_c_Oxidase_VIa Cytochrome c oxidase subunit VIa.   Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes.  It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane.  The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome.  Found only in eukaryotes, subunit VIa is expressed in two tissue-specific isoforms in mammals but not fish. VIa-H is the heart and skeletal muscle isoform; VIa-L is the liver or non-muscle isoform.  Mammalian VIa-H induces a slip in CcO (decrease in proton/electron stoichiometry) at high intramitochondrial ATP/ADP ratios, while VIa-L induces a permanent slip i
Probab=23.72  E-value=49  Score=13.46  Aligned_cols=26  Identities=23%  Similarity=0.264  Sum_probs=16.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             79999988999999999999999999
Q gi|254780708|r  137 SIGWRKLTLRWAFFFLFLSFCNEIVW  162 (204)
Q Consensus       137 ~~~W~~Lt~~w~~fF~~la~lN~~va  162 (204)
                      .+-|+++|+.-++--+.++.+|-|.-
T Consensus        13 s~lWkkis~~va~P~i~l~~~n~y~~   38 (86)
T cd00925          13 SELWKKISFYVALPAVALCMLNAYLK   38 (86)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             88999989999899999999999760


No 25 
>PHA00736 hypothetical protein
Probab=23.51  E-value=49  Score=13.44  Aligned_cols=58  Identities=9%  Similarity=0.108  Sum_probs=39.4

Q ss_pred             HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCHHEEEHHHHHHHHHHHHHHH
Q ss_conf             9999999999999850878876899999999999988661870042431559999999999999
Q gi|254780708|r   54 FMVLTAVSLGMFWFFFREFRVIPVVSGVCVLVFGSLTVWLRDESLIKMKPTFFYFVFSVVLFVG  117 (204)
Q Consensus        54 li~at~i~~~~~~~~~kki~~~~~is~~lv~vfGglTl~f~d~~FIk~KpTIi~~~fA~~Ll~~  117 (204)
                      .++..+..++..|-..+|+|...      +-+-...++.|-|-.=+.|--|++..+.|...++|
T Consensus        18 aviiil~mmgltykmagkipai~------~giastf~lmfmdflplfwgi~vifgliaglvlgg   75 (79)
T PHA00736         18 AVIIILSMMGLTYKMAGKIPAII------TGIASTFVLMFMDFLPLFWGITVIFGLIAGLVLGG   75 (79)
T ss_pred             HHHHHHHHHHHHHHHHCCCCHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             99999999758999806661899------98999999999999899999999999998884068


Done!