Query         gi|254780723|ref|YP_003065136.1| hypothetical protein CLIBASIA_03050 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 137
No_of_seqs    72 out of 74
Neff          4.5 
Searched_HMMs 39220
Date          Sun May 29 19:43:11 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780723.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 COG4965 TadB Flp pilus assembl  99.6 1.3E-14 3.3E-19  110.2   8.7  116    6-137     2-122 (309)
  2 COG3167 PilO Tfp pilus assembl  95.4    0.16   4E-06   30.0   8.5   86    6-93     24-117 (211)
  3 CHL00118 atpG ATP synthase CF0  90.3     1.3 3.4E-05   24.3   6.5   30    1-30     18-48  (156)
  4 CHL00019 atpF ATP synthase CF0  89.8     1.3 3.2E-05   24.5   6.1   17   14-30     34-50  (184)
  5 PRK13453 F0F1 ATP synthase sub  87.9     2.4   6E-05   22.8   6.7   28    3-30     17-44  (173)
  6 PRK07353 F0F1 ATP synthase sub  87.3     1.9 4.8E-05   23.4   5.6   30    1-30      1-31  (140)
  7 PRK08475 F0F1 ATP synthase sub  86.6     0.6 1.5E-05   26.5   2.8   38   51-88     51-88  (170)
  8 PRK13461 F0F1 ATP synthase sub  84.6     3.5   9E-05   21.8   6.6   28    3-30      4-31  (159)
  9 PRK07352 F0F1 ATP synthase sub  82.4     4.3 0.00011   21.2   6.1   28    3-30     18-45  (174)
 10 PRK13460 F0F1 ATP synthase sub  81.9     4.5 0.00011   21.1   6.1   27    5-31     17-43  (173)
 11 PRK05759 F0F1 ATP synthase sub  81.6     4.6 0.00012   21.0   6.7   25    6-30      6-30  (156)
 12 pfam11239 DUF3040 Protein of u  80.4     5.1 0.00013   20.8   7.6   62   61-126     8-73  (82)
 13 pfam04888 SseC Secretion syste  73.7     7.8  0.0002   19.6   9.5   22   55-76     33-54  (303)
 14 PRK12705 hypothetical protein;  72.8     8.3 0.00021   19.5   8.3   26    4-29      7-32  (485)
 15 COG4235 Cytochrome c biogenesi  66.5      11 0.00027   18.8   4.2   27    4-33      1-27  (287)
 16 PRK10236 hypothetical protein;  64.3     7.4 0.00019   19.8   3.1   55   55-114   117-176 (237)
 17 TIGR01495 ETRAMP early transcr  62.4      12  0.0003   18.6   3.8   42   62-120    45-88  (99)
 18 pfam06738 DUF1212 Protein of u  60.5      15 0.00037   18.0   6.3   37   96-132   102-138 (193)
 19 pfam04156 IncA IncA protein. C  60.2      15 0.00038   17.9   7.8   22    8-29     39-60  (186)
 20 COG0711 AtpF F0F1-type ATP syn  59.4      15 0.00039   17.9   6.0   25    7-31      9-33  (161)
 21 PRK13454 F0F1 ATP synthase sub  56.6      17 0.00043   17.6   5.8   11   20-30     47-57  (181)
 22 COG2165 PulG Type II secretory  49.8      22 0.00056   16.9   5.8   52    8-59     12-63  (149)
 23 TIGR00792 gph sugar (Glycoside  47.3      24 0.00061   16.7   5.0   44   91-134   304-349 (470)
 24 PRK10361 DNA recombination pro  46.4      25 0.00063   16.6   8.2   25    6-30      4-28  (475)
 25 COG4120 ABC-type uncharacteriz  45.8      22 0.00057   16.9   3.0   23    8-30    136-158 (293)
 26 KOG2890 consensus               44.1      17 0.00042   17.6   2.1   40   49-91    285-324 (326)
 27 pfam11382 DUF3186 Protein of u  44.0      27 0.00068   16.3   3.3   14   80-93    101-114 (307)
 28 pfam08566 Pam17 Mitochondrial   43.9      20  0.0005   17.2   2.5   27    3-30     74-100 (174)
 29 pfam10779 XhlA Haemolysin XhlA  43.6      27 0.00069   16.3   4.1   57   58-118     2-59  (60)
 30 PRK06231 F0F1 ATP synthase sub  42.1      25 0.00064   16.5   2.8   22   17-38     61-83  (201)
 31 KOG1830 consensus               40.3      19 0.00049   17.2   2.0   16   61-76    163-178 (518)
 32 pfam00430 ATP-synt_B ATP synth  40.0      31 0.00079   16.0   5.7   24    7-30      2-25  (132)
 33 TIGR00883 2A0106 MFS transport  37.8      34 0.00085   15.8   4.9   54   77-135   211-270 (413)
 34 pfam06024 DUF912 Nucleopolyhed  37.5      34 0.00086   15.7   3.2   31    2-32     59-89  (101)
 35 TIGR01144 ATP_synt_b ATP synth  36.4      33 0.00085   15.8   2.7   14   54-67     71-84  (147)
 36 pfam07578 LAB_N Lipid A Biosyn  35.2      37 0.00094   15.5   3.9   36   87-122    22-57  (72)
 37 COG2966 Uncharacterized conser  34.6      38 0.00096   15.4   5.6   42   91-132   119-160 (250)
 38 pfam09340 NuA4 Histone acetylt  33.4      37 0.00095   15.5   2.5   20   51-70      5-24  (80)
 39 cd01324 cbb3_Oxidase_CcoQ Cyto  32.6      36 0.00091   15.6   2.3   33    5-42     12-44  (48)
 40 pfam07332 DUF1469 Protein of u  32.5      41   0.001   15.2   6.4   12  125-136    61-72  (121)
 41 pfam11026 DUF2721 Protein of u  31.7      42  0.0011   15.2   4.6   16   56-71     44-59  (130)
 42 TIGR02745 ccoG_rdxA_fixG cytoc  31.4      43  0.0011   15.1   3.3   21    3-23     53-73  (474)
 43 pfam04678 DUF607 Protein of un  30.5      42  0.0011   15.1   2.4   44   54-97     54-97  (171)
 44 COG1575 MenA 1,4-dihydroxy-2-n  29.9      45  0.0012   15.0   3.1   56   60-122   194-249 (303)
 45 pfam04791 LMBR1 LMBR1-like mem  29.3      46  0.0012   14.9   8.5   29   94-122   264-292 (419)
 46 PRK09174 F0F1 ATP synthase sub  28.9      47  0.0012   14.9   6.1   24    7-30     55-79  (204)
 47 PRK11404 putative PTS transpor  28.7      47  0.0012   14.8   3.8   34   99-133   127-160 (482)
 48 pfam11970 Git3_C G protein-cou  28.3      37 0.00094   15.5   1.8   14   55-68      2-15  (76)
 49 PRK03814 oxaloacetate decarbox  27.8      49  0.0013   14.7   3.7   29    1-29      1-30  (85)
 50 pfam05039 Agouti Agouti protei  27.6      49  0.0013   14.7   2.5   56   17-73      7-65  (121)
 51 pfam06120 Phage_HK97_TLTM Tail  26.5      52  0.0013   14.6   7.5   85   10-98     29-125 (311)
 52 pfam01237 Oxysterol_BP Oxyster  25.2      45  0.0011   15.0   1.8   25   66-97    289-313 (337)
 53 pfam03245 Phage_lysis Bacterio  24.0      58  0.0015   14.3   8.1   55   15-73     14-68  (151)
 54 TIGR00833 actII Transport prot  23.7      58  0.0015   14.3   3.2   50   80-129   277-329 (992)
 55 pfam06504 RepC Replication pro  23.5      59  0.0015   14.2   2.6   19   50-68    242-260 (283)
 56 PRK10947 global DNA-binding tr  23.0      61  0.0015   14.2   3.5   36   54-93     38-73  (135)
 57 TIGR01410 tatB twin arginine-t  22.8      61  0.0016   14.2   6.1   45   12-65      8-54  (82)
 58 KOG1262 consensus               22.8      52  0.0013   14.6   1.7   52    7-69     24-76  (543)
 59 pfam11022 DUF2611 Protein of u  22.2      56  0.0014   14.4   1.8   51   14-71     18-68  (70)
 60 pfam00862 Sucrose_synth Sucros  22.0      61  0.0015   14.2   1.9   32   59-90    199-232 (550)
 61 KOG2210 consensus               21.9      64  0.0016   14.1   2.2   27   65-98    336-362 (392)
 62 TIGR03488 cas_Cas5p CRISPR-ass  21.0      62  0.0016   14.1   1.8   23   53-75     61-83  (237)
 63 pfam10112 Halogen_Hydrol 5-bro  21.0      67  0.0017   13.9   4.5   10   93-102   120-129 (199)
 64 pfam00429 TLV_coat ENV polypro  20.9      67  0.0017   13.9   6.8   67   56-127   492-558 (560)
 65 PRK01021 lpxB lipid-A-disaccha  20.9      67  0.0017   13.9   4.1   10   55-64    456-465 (607)
 66 pfam05399 EVI2A Ectropic viral  20.3      69  0.0018   13.8   5.1   33    4-36    126-158 (227)
 67 COG2818 Tag 3-methyladenine DN  20.1      44  0.0011   15.0   0.9   12   81-92    146-157 (188)

No 1  
>COG4965 TadB Flp pilus assembly protein TadB [Intracellular trafficking and secretion]
Probab=99.57  E-value=1.3e-14  Score=110.21  Aligned_cols=116  Identities=18%  Similarity=0.259  Sum_probs=98.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHH-----CCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             6999999999999999999996306047789999999775420-----12205899999999999999999962237989
Q gi|254780723|r    6 SWFLVGLITVSVFCFLYAIFYNVINPGDSKSQDNAKVVRADRV-----IPTANTKRRKELREAIQKIELNHKAKIGNTKS   80 (137)
Q Consensus         6 ~l~~~gL~~vavg~laya~~yp~ls~~~~~aqrr~~~~~a~R~-----~~~~~~kRRksvq~sLKelE~rqk~~~k~~~s   80 (137)
                      .+++..++..++++++||++++. +.+++..++..++..+.-+     ...+..+|+.+++|+||++|+||+.       
T Consensus         2 ~~~~~~~~~~~~~~~~~a~~~~~-~~~~r~~~~~~~i~~~~~~~~~~~~~~~~~~r~~~~~~~l~~~~~~~~~-------   73 (309)
T COG4965           2 ILFYLVLAALSALLLAYAFLGWR-SKSKRARIRNRRIKAAATDLSSALALRDLSSRRLSAQDSLKRLDRKQPR-------   73 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHCCCHHHHHCCCHHHCCCCCCHHHHHHHHCCC-------
T ss_conf             12999999999999999998488-8788988877889997733401788547023046554046667652244-------


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCCC
Q ss_conf             899999619997899999999999999999999957118999999999974887659
Q gi|254780723|r   81 IDSLISCSGLPISKQHYYIGSCVIGFICGVLSLTLSSSFFTFLCVSVSSALVFPRFF  137 (137)
Q Consensus        81 l~~rL~QAGL~~s~~~F~i~S~v~g~v~~~i~~i~g~~~l~a~g~a~~~glGLPRw~  137 (137)
                            |+|+.|+..+||++|++.+++.+++. .++.++++++ ++++++.++|||+
T Consensus        74 ------q~G~~~~~~~~~~l~~~~~l~~~~v~-~~~~~l~v~~-~~~~~~~llp~~~  122 (309)
T COG4965          74 ------QAGLRVSLARLILLSAGAGLAVALVA-WLGLSLLVAL-VALIGAALLPRLV  122 (309)
T ss_pred             ------CCCCCCCHHHHHHHHHHHHHHHHHHH-HHHCCHHHHH-HHHHHHHHHHHHH
T ss_conf             ------56656647999999999999999999-9861389999-9999999999999


No 2  
>COG3167 PilO Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.43  E-value=0.16  Score=30.01  Aligned_cols=86  Identities=12%  Similarity=0.146  Sum_probs=52.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHH--HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH--HH----CC
Q ss_conf             699999999999999999999630604778999999--97754201220589999999999999999996--22----37
Q gi|254780723|r    6 SWFLVGLITVSVFCFLYAIFYNVINPGDSKSQDNAK--VVRADRVIPTANTKRRKELREAIQKIELNHKA--KI----GN   77 (137)
Q Consensus         6 ~l~~~gL~~vavg~laya~~yp~ls~~~~~aqrr~~--~~~a~R~~~~~~~kRRksvq~sLKelE~rqk~--~~----k~   77 (137)
                      -+++..|++++|.+++|.|+.  .++-+..++.++.  ..+..=+....+.---++++++|.|+|++=..  +.    +-
T Consensus        24 rlv~~lL~~~~V~~lGy~f~~--s~k~eel~~~~~eEe~LKs~~q~K~~~aanL~~lr~Ql~emee~~~~llrQLPs~tE  101 (211)
T COG3167          24 RLVFCLLAVAAVLGLGYAFYL--SGKLEELEELEAEEEELKSTYQQKAIQAANLEALRAQLAEMEERFDILLRQLPSDTE  101 (211)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCCCCCC
T ss_conf             999999999999999999985--407888999987799999999999998735599999999999999999985886210


Q ss_pred             CCCHHHHHHHCCCCCC
Q ss_conf             9898999996199978
Q gi|254780723|r   78 TKSIDSLISCSGLPIS   93 (137)
Q Consensus        78 ~~sl~~rL~QAGL~~s   93 (137)
                      -|+|-.-+.|+|++=.
T Consensus       102 mp~Ll~dv~q~Gl~sg  117 (211)
T COG3167         102 MPNLLADVNQAGLSSG  117 (211)
T ss_pred             HHHHHHHHHHHHHCCC
T ss_conf             4679999987502247


No 3  
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=90.27  E-value=1.3  Score=24.31  Aligned_cols=30  Identities=30%  Similarity=0.514  Sum_probs=18.5

Q ss_pred             CCHHHHHHHHHHHHH-HHHHHHHHHHHHHCC
Q ss_conf             970346999999999-999999999996306
Q gi|254780723|r    1 MFDVNSWFLVGLITV-SVFCFLYAIFYNVIN   30 (137)
Q Consensus         1 m~~~~~l~~~gL~~v-avg~laya~~yp~ls   30 (137)
                      |+|.|..++..++.. ...-+.+-|+||-+.
T Consensus        18 ~~~~n~Tl~~q~i~FliL~~lL~kf~~~Pi~   48 (156)
T CHL00118         18 LFDFNATLPLMALQFLLLMVLLNAIFYKPIG   48 (156)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             7086589999999999999999999898999


No 4  
>CHL00019 atpF ATP synthase CF0 B subunit
Probab=89.77  E-value=1.3  Score=24.48  Aligned_cols=17  Identities=18%  Similarity=0.051  Sum_probs=9.1

Q ss_pred             HHHHHHHHHHHHHHHCC
Q ss_conf             99999999999996306
Q gi|254780723|r   14 TVSVFCFLYAIFYNVIN   30 (137)
Q Consensus        14 ~vavg~laya~~yp~ls   30 (137)
                      -+.+.|+.|-|.++.++
T Consensus        34 l~Ivi~iL~~f~~~~L~   50 (184)
T CHL00019         34 LSVVLGVLIYFGKGVLS   50 (184)
T ss_pred             HHHHHHHHHHHHHHHHH
T ss_conf             99999999999599999


No 5  
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=87.92  E-value=2.4  Score=22.81  Aligned_cols=28  Identities=7%  Similarity=0.163  Sum_probs=20.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             0346999999999999999999996306
Q gi|254780723|r    3 DVNSWFLVGLITVSVFCFLYAIFYNVIN   30 (137)
Q Consensus         3 ~~~~l~~~gL~~vavg~laya~~yp~ls   30 (137)
                      |..+++...+.-+....+.|-|+||-+.
T Consensus        17 dw~t~~~q~I~F~il~~ll~kf~~~pi~   44 (173)
T PRK13453         17 EWGTVIVQVLTFIVLLALLKKFAWGPLK   44 (173)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             7899999999999999999999898999


No 6  
>PRK07353 F0F1 ATP synthase subunit B'; Validated
Probab=87.29  E-value=1.9  Score=23.40  Aligned_cols=30  Identities=20%  Similarity=0.473  Sum_probs=17.1

Q ss_pred             CCHHHHHHHHHHHHHHHH-HHHHHHHHHHCC
Q ss_conf             970346999999999999-999999996306
Q gi|254780723|r    1 MFDVNSWFLVGLITVSVF-CFLYAIFYNVIN   30 (137)
Q Consensus         1 m~~~~~l~~~gL~~vavg-~laya~~yp~ls   30 (137)
                      |+|+|.-++.-++...+. -+.+-++||-+.
T Consensus         1 m~~~n~Tl~~q~i~Flil~~il~k~l~~Pi~   31 (140)
T PRK07353          1 LFDFDATLPLMAVQFVLLTFILNALFYKPVG   31 (140)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             9151288999999999999999999888899


No 7  
>PRK08475 F0F1 ATP synthase subunit B; Validated
Probab=86.61  E-value=0.6  Score=26.46  Aligned_cols=38  Identities=11%  Similarity=0.107  Sum_probs=19.1

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHC
Q ss_conf             20589999999999999999996223798989999961
Q gi|254780723|r   51 TANTKRRKELREAIQKIELNHKAKIGNTKSIDSLISCS   88 (137)
Q Consensus        51 ~~~~kRRksvq~sLKelE~rqk~~~k~~~sl~~rL~QA   88 (137)
                      +.=..||++|.+.|.|+|+++++..+...-...+|++|
T Consensus        51 ~~l~~R~~~I~~~L~eae~~~~eA~~~l~~~~~kLe~A   88 (170)
T PRK08475         51 NFYKSRINSISKRLEEIQAKLKESKEKKKDALKKLEEA   88 (170)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99998999999999999999999999999999999999


No 8  
>PRK13461 F0F1 ATP synthase subunit B; Provisional
Probab=84.61  E-value=3.5  Score=21.76  Aligned_cols=28  Identities=11%  Similarity=0.255  Sum_probs=20.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             0346999999999999999999996306
Q gi|254780723|r    3 DVNSWFLVGLITVSVFCFLYAIFYNVIN   30 (137)
Q Consensus         3 ~~~~l~~~gL~~vavg~laya~~yp~ls   30 (137)
                      |..+++...+.-+....+.+-|+||-+.
T Consensus         4 n~~t~i~q~inF~il~~il~kf~~~pi~   31 (159)
T PRK13461          4 NIPTIIATIINFIILLLILKHFFFDKIK   31 (159)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             5999999999999999999999788899


No 9  
>PRK07352 F0F1 ATP synthase subunit B; Validated
Probab=82.36  E-value=4.3  Score=21.20  Aligned_cols=28  Identities=14%  Similarity=0.110  Sum_probs=15.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             0346999999999999999999996306
Q gi|254780723|r    3 DVNSWFLVGLITVSVFCFLYAIFYNVIN   30 (137)
Q Consensus         3 ~~~~l~~~gL~~vavg~laya~~yp~ls   30 (137)
                      |.|.++.-.+.-+-..++.|-|+||-+.
T Consensus        18 n~~~l~~~iInf~Il~~iL~~f~~~pi~   45 (174)
T PRK07352         18 NLNLLETNLINLAIVIGLLYYFLRGFLG   45 (174)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             9128999999999999999999598999


No 10 
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=81.92  E-value=4.5  Score=21.10  Aligned_cols=27  Identities=15%  Similarity=0.038  Sum_probs=16.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCH
Q ss_conf             469999999999999999999963060
Q gi|254780723|r    5 NSWFLVGLITVSVFCFLYAIFYNVINP   31 (137)
Q Consensus         5 ~~l~~~gL~~vavg~laya~~yp~ls~   31 (137)
                      ..++...+.-+....+.|-|+||.+..
T Consensus        17 ~~~iw~~i~F~il~~il~kf~~~pi~~   43 (173)
T PRK13460         17 GLVVWTLVTFLVVVLVLKKFAWDVILK   43 (173)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             799999999999999999996888999


No 11 
>PRK05759 F0F1 ATP synthase subunit B; Validated
Probab=81.65  E-value=4.6  Score=21.04  Aligned_cols=25  Identities=8%  Similarity=0.021  Sum_probs=14.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             6999999999999999999996306
Q gi|254780723|r    6 SWFLVGLITVSVFCFLYAIFYNVIN   30 (137)
Q Consensus         6 ~l~~~gL~~vavg~laya~~yp~ls   30 (137)
                      |++...+..+-...+.|-|+||-+.
T Consensus         6 T~~~~~I~F~il~~ll~~~~~~pi~   30 (156)
T PRK05759          6 TLIGQLIAFLILVWFCMKFVWPPIM   30 (156)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             9999999999999999999787899


No 12 
>pfam11239 DUF3040 Protein of unknown function (DUF3040). Some members in this family of proteins with unknown function are annotated as membrane proteins however this cannot be confirmed.
Probab=80.41  E-value=5.1  Score=20.78  Aligned_cols=62  Identities=11%  Similarity=0.055  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHHHHHHCCCCCHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHC----CHHHHHHHHH
Q ss_conf             99999999999962237989899999619997899999999999999999999957----1189999999
Q gi|254780723|r   61 REAIQKIELNHKAKIGNTKSIDSLISCSGLPISKQHYYIGSCVIGFICGVLSLTLS----SSFFTFLCVS  126 (137)
Q Consensus        61 q~sLKelE~rqk~~~k~~~sl~~rL~QAGL~~s~~~F~i~S~v~g~v~~~i~~i~g----~~~l~a~g~a  126 (137)
                      |.-|+|+|+.=.+.   .|.+...++..+..+....-. +-++++++..++.++.|    ..++..+|+.
T Consensus         8 qr~L~eiE~~L~~e---DP~fa~~~~~~~~~~~~~rr~-~~~~~~~v~Gl~~lv~Gv~~~~~~lgv~GFl   73 (82)
T pfam11239         8 QRRLEEIERALYAE---DPKFAAAVRSGRPRRPSRRRI-VLGVLAAVLGVALLVAGVVLQQPPLGVAGFL   73 (82)
T ss_pred             HHHHHHHHHHHHHC---CHHHHHHHCCCCCCCCCCHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999999843---979999751578888761269-9999999999999999999999999999999


No 13 
>pfam04888 SseC Secretion system effector C (SseC) like family. SseC is a secreted protein that forms a complex together with SecB and SecD on the surface of Salmonella. All these proteins are secreted by the type III secretion system. Many mucosal pathogens use type III secretion systems for the injection of effector proteins into target cells. SecB, SseC and SecD are inserted into the target cell membrane. where they form a small pore or translocon. In addition to SseC, this family includes the bacterial secreted proteins PopB, PepB, YopB and EspD which are thought to be directly involved in pore formation, and type III secretion system translocon.
Probab=73.74  E-value=7.8  Score=19.62  Aligned_cols=22  Identities=23%  Similarity=0.229  Sum_probs=11.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             9999999999999999996223
Q gi|254780723|r   55 KRRKELREAIQKIELNHKAKIG   76 (137)
Q Consensus        55 kRRksvq~sLKelE~rqk~~~k   76 (137)
                      ++-+..++.++|.|+++++.+|
T Consensus        33 ~k~~e~~e~i~e~~~kaeea~K   54 (303)
T pfam04888        33 KKAEEYQEQIKKAIEKAEEAKK   54 (303)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
T ss_conf             9899999999999999999986


No 14 
>PRK12705 hypothetical protein; Provisional
Probab=72.79  E-value=8.3  Score=19.48  Aligned_cols=26  Identities=19%  Similarity=0.066  Sum_probs=13.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             34699999999999999999999630
Q gi|254780723|r    4 VNSWFLVGLITVSVFCFLYAIFYNVI   29 (137)
Q Consensus         4 ~~~l~~~gL~~vavg~laya~~yp~l   29 (137)
                      +++.++.+|+.+.+|-..+.+++-..
T Consensus         7 ~~~~~i~~l~~~~ig~~lg~~~~~~~   32 (485)
T PRK12705          7 VLTILVLFLILVLIGLVLGVFIRYLY   32 (485)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999999999999999999999


No 15 
>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]
Probab=66.52  E-value=11  Score=18.80  Aligned_cols=27  Identities=11%  Similarity=0.346  Sum_probs=18.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCHHH
Q ss_conf             346999999999999999999996306047
Q gi|254780723|r    4 VNSWFLVGLITVSVFCFLYAIFYNVINPGD   33 (137)
Q Consensus         4 ~~~l~~~gL~~vavg~laya~~yp~ls~~~   33 (137)
                      |+.|+++.+-+..+.   +..+||+..+.+
T Consensus         1 m~fw~~~a~~~~~~~---~~l~~pL~~~~~   27 (287)
T COG4235           1 MAFWLAAALLTLAAA---ALLLLPLARARE   27 (287)
T ss_pred             CCHHHHHHHHHHHHH---HHHHHHHHHCCC
T ss_conf             918999999999999---999899986130


No 16 
>PRK10236 hypothetical protein; Provisional
Probab=64.30  E-value=7.4  Score=19.77  Aligned_cols=55  Identities=18%  Similarity=0.314  Sum_probs=24.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH-----CCCCCHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999999999999999999622-----379898999996199978999999999999999999999
Q gi|254780723|r   55 KRRKELREAIQKIELNHKAKI-----GNTKSIDSLISCSGLPISKQHYYIGSCVIGFICGVLSLT  114 (137)
Q Consensus        55 kRRksvq~sLKelE~rqk~~~-----k~~~sl~~rL~QAGL~~s~~~F~i~S~v~g~v~~~i~~i  114 (137)
                      -=.|-++++|.++.+.+++.-     .+.-.+...     +++....+-+.+.+.++...-++.+
T Consensus       117 lL~Kil~~sl~kMs~ee~~el~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~s~~lt~i  176 (237)
T PRK10236        117 LLEQFLRNTWKKMDEEHKQEFLHAVDARVNELEEL-----LPLLMKDKLLAKGVSHLLSSQLTRI  176 (237)
T ss_pred             HHHHHHHHHHHHCCHHHHHHHHHHHCCCCCCHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999999779999999999827764427888-----9999999999987778899999999


No 17 
>TIGR01495 ETRAMP early transcribed membrane protein (ETRAMP) family; InterPro: IPR006389   These sequences represent a family of proteins from the malaria parasite Plasmodium falciparum, several of which have been shown to be expressed specifically in the ring stage as well as the rodent parasite Plasmodium yoelii . A homolog from Plasmodium chabaudi was localized to the parasitophorous vacuole membrane . Members have an initial hydrophobic, Phe/Tyr-rich stretch long enough to span the membrane, a highly charged region rich in Lys, a second putative transmembrane region, and a second highly charged, low complexity sequence region. Some members have up to 100 residues of additional C-terminal sequence. These genes have been shown to be found in the sub-telomeric regions of both Plasmodium falciparum and P. yoelii chromosomes..
Probab=62.38  E-value=12  Score=18.55  Aligned_cols=42  Identities=12%  Similarity=0.206  Sum_probs=29.6

Q ss_pred             HHHHHHHHHHHHH-HCCCCCHHHHHHHCCCCCCHHHHHHHH-HHHHHHHHHHHHHHCCHHH
Q ss_conf             9999999999962-237989899999619997899999999-9999999999999571189
Q gi|254780723|r   62 EAIQKIELNHKAK-IGNTKSIDSLISCSGLPISKQHYYIGS-CVIGFICGVLSLTLSSSFF  120 (137)
Q Consensus        62 ~sLKelE~rqk~~-~k~~~sl~~rL~QAGL~~s~~~F~i~S-~v~g~v~~~i~~i~g~~~l  120 (137)
                      +.+|.+|+.+++| +++                 ++-.++| ++...++.++...+|.+..
T Consensus        45 kn~kkl~~~~~~KkNr~-----------------~k~ilySl~~as~lAlL~g~~~GlG~y   88 (99)
T TIGR01495        45 KNLKKLTKAEKKKKNRN-----------------KKIILYSLSIASGLALLVGAGVGLGYY   88 (99)
T ss_pred             HHHCCCCHHHHHHHHHH-----------------HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             10024218999877775-----------------227999899999999999999999998


No 18 
>pfam06738 DUF1212 Protein of unknown function (DUF1212). This family represents a conserved region within a number of hypothetical proteins of unknown function found in eukaryotes, bacteria and archaea. Some family members are membrane proteins.
Probab=60.54  E-value=15  Score=17.98  Aligned_cols=37  Identities=11%  Similarity=0.249  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHC
Q ss_conf             9999999999999999999571189999999999748
Q gi|254780723|r   96 HYYIGSCVIGFICGVLSLTLSSSFFTFLCVSVSSALV  132 (137)
Q Consensus        96 ~F~i~S~v~g~v~~~i~~i~g~~~l~a~g~a~~~glG  132 (137)
                      ..|......++.++..++++|+++.-.+..+++++++
T Consensus       102 ~~~~~~l~~~~~~~~fa~l~gG~~~~~~~a~i~g~~~  138 (193)
T pfam06738       102 PRWLVVLAAGLASAAFAVLFGGDWIDFLIAFLAGLLG  138 (193)
T ss_pred             CHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_conf             8799999999999999999879779999999999999


No 19 
>pfam04156 IncA IncA protein. Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is non-fusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA, is functionally associated with the homotypic fusion of inclusions. This family probably includes members of the wider Inc family rather than just IncA.
Probab=60.18  E-value=15  Score=17.94  Aligned_cols=22  Identities=18%  Similarity=0.196  Sum_probs=11.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             9999999999999999999630
Q gi|254780723|r    8 FLVGLITVSVFCFLYAIFYNVI   29 (137)
Q Consensus         8 ~~~gL~~vavg~laya~~yp~l   29 (137)
                      .+.|++.+++|++.+++.+-.+
T Consensus        39 ~~lg~~~la~g~vLl~~g~~~l   60 (186)
T pfam04156        39 TLLGIALLALGLVLLALGLLCL   60 (186)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
T ss_conf             9999999999999999999999


No 20 
>COG0711 AtpF F0F1-type ATP synthase, subunit b [Energy production and conversion]
Probab=59.39  E-value=15  Score=17.86  Aligned_cols=25  Identities=12%  Similarity=0.081  Sum_probs=15.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCH
Q ss_conf             9999999999999999999963060
Q gi|254780723|r    7 WFLVGLITVSVFCFLYAIFYNVINP   31 (137)
Q Consensus         7 l~~~gL~~vavg~laya~~yp~ls~   31 (137)
                      ++...+.-+--..+.|-|+||-+.+
T Consensus         9 ~~~~~i~F~ill~ll~~~~~~pi~~   33 (161)
T COG0711           9 ILWQLIAFVILLWLLKKFVWKPILK   33 (161)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             9999999999999999996867999


No 21 
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=56.59  E-value=17  Score=17.57  Aligned_cols=11  Identities=18%  Similarity=0.120  Sum_probs=5.7

Q ss_pred             HHHHHHHHHCC
Q ss_conf             99999996306
Q gi|254780723|r   20 FLYAIFYNVIN   30 (137)
Q Consensus        20 laya~~yp~ls   30 (137)
                      +.+=|+.|.++
T Consensus        47 vl~k~~lPrI~   57 (181)
T PRK13454         47 VLTRVALPRIG   57 (181)
T ss_pred             HHHHHHHHHHH
T ss_conf             99999998889


No 22 
>COG2165 PulG Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=49.80  E-value=22  Score=16.90  Aligned_cols=52  Identities=19%  Similarity=0.181  Sum_probs=33.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHH
Q ss_conf             9999999999999999999630604778999999977542012205899999
Q gi|254780723|r    8 FLVGLITVSVFCFLYAIFYNVINPGDSKSQDNAKVVRADRVIPTANTKRRKE   59 (137)
Q Consensus         8 ~~~gL~~vavg~laya~~yp~ls~~~~~aqrr~~~~~a~R~~~~~~~kRRks   59 (137)
                      ++-.|+++++.|++-++..|.+.....++++......+.+.........+..
T Consensus        12 LiElLVvl~Iigil~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   63 (149)
T COG2165          12 LIELLVVLAIIGILAALALPSLQGSIDKAKRLEAAQQALRVIRLALEEYRLD   63 (149)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             9999999999999999999999998899999999999999999999999980


No 23 
>TIGR00792 gph sugar (Glycoside-Pentoside-Hexuronide) transporter; InterPro: IPR001927   It has been shown  that integral membrane proteins that mediate the intake of a wide variety of molecules with the concomitant uptake of sodium ions (sodium symporters) can be grouped, on the basis of sequence and functional similarities into a number of distinct families. This collection of sequences represents the sodium: galactoside symporter family (SGF).   Like sugar transport proteins, these integral membrane proteins are predicted to comprise twelve membrane spanning domains. ; GO: 0005215 transporter activity, 0006814 sodium ion transport, 0016020 membrane.
Probab=47.30  E-value=24  Score=16.66  Aligned_cols=44  Identities=5%  Similarity=0.104  Sum_probs=37.8

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHC--CHHHHHHHHHHHHHHCCC
Q ss_conf             97899999999999999999999957--118999999999974887
Q gi|254780723|r   91 PISKQHYYIGSCVIGFICGVLSLTLS--SSFFTFLCVSVSSALVFP  134 (137)
Q Consensus        91 ~~s~~~F~i~S~v~g~v~~~i~~i~g--~~~l~a~g~a~~~glGLP  134 (137)
                      .+++++.|..+.++.++..++.++.+  .+.....-..+++++|.+
T Consensus       304 ~~grk~~~~~~~~~~~~g~l~~~~~~~A~~~~~~~~~~~~~~~~~~  349 (470)
T TIGR00792       304 KFGRKRLFLIGILLMVLGLLILFFVGKASNLPLILVLIIIAGFGQN  349 (470)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             6125999999999999999999873167799999999999988776


No 24 
>PRK10361 DNA recombination protein RmuC; Provisional
Probab=46.40  E-value=25  Score=16.58  Aligned_cols=25  Identities=8%  Similarity=-0.016  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             6999999999999999999996306
Q gi|254780723|r    6 SWFLVGLITVSVFCFLYAIFYNVIN   30 (137)
Q Consensus         6 ~l~~~gL~~vavg~laya~~yp~ls   30 (137)
                      |+|++.++++....++|-+.+...+
T Consensus         4 ~~~i~~i~al~G~~igwl~~~~~~~   28 (475)
T PRK10361          4 SIMVYAVIALVGVAIGWLFASYQHA   28 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             7999999999999999999998734


No 25 
>COG4120 ABC-type uncharacterized transport system, permease component [General function prediction only]
Probab=45.81  E-value=22  Score=16.85  Aligned_cols=23  Identities=0%  Similarity=0.128  Sum_probs=9.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             99999999999999999996306
Q gi|254780723|r    8 FLVGLITVSVFCFLYAIFYNVIN   30 (137)
Q Consensus         8 ~~~gL~~vavg~laya~~yp~ls   30 (137)
                      ++.+..++.+.-+.|-|+...++
T Consensus       136 li~~vlvii~~~~v~~fl~t~~G  158 (293)
T COG4120         136 LILVVLVIIAKLLVIRFLKTDLG  158 (293)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             99999999999999999734536


No 26 
>KOG2890 consensus
Probab=44.09  E-value=17  Score=17.64  Aligned_cols=40  Identities=15%  Similarity=0.082  Sum_probs=22.4

Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHCCCC
Q ss_conf             1220589999999999999999996223798989999961999
Q gi|254780723|r   49 IPTANTKRRKELREAIQKIELNHKAKIGNTKSIDSLISCSGLP   91 (137)
Q Consensus        49 ~~~~~~kRRksvq~sLKelE~rqk~~~k~~~sl~~rL~QAGL~   91 (137)
                      .+..++.||+|  ..||++|+|=|+-+-. |..+..=.++|++
T Consensus       285 ~d~~d~eRRRQ--~alkaL~eRl~~~~~~-p~~~~~~~~~~~d  324 (326)
T KOG2890         285 LDPKDAERRRQ--LALKALEERLKKTRTA-PVASYDEWDDGDD  324 (326)
T ss_pred             CCHHHHHHHHH--HHHHHHHHHHCCCCCC-CCCCCCCHHHCCC
T ss_conf             98127889999--9999999985685547-5556652210699


No 27 
>pfam11382 DUF3186 Protein of unknown function (DUF3186). This bacterial family of proteins has no known function.
Probab=44.01  E-value=27  Score=16.35  Aligned_cols=14  Identities=7%  Similarity=0.342  Sum_probs=9.6

Q ss_pred             CHHHHHHHCCCCCC
Q ss_conf             98999996199978
Q gi|254780723|r   80 SIDSLISCSGLPIS   93 (137)
Q Consensus        80 sl~~rL~QAGL~~s   93 (137)
                      .+...|++||=+.+
T Consensus       101 ~v~~~l~~AGa~V~  114 (307)
T pfam11382       101 AVSEALTQAGATVV  114 (307)
T ss_pred             HHHHHHHHCCCEEE
T ss_conf             99999998699146


No 28 
>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=43.93  E-value=20  Score=17.19  Aligned_cols=27  Identities=15%  Similarity=0.332  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             0346999999999999999999996306
Q gi|254780723|r    3 DVNSWFLVGLITVSVFCFLYAIFYNVIN   30 (137)
Q Consensus         3 ~~~~l~~~gL~~vavg~laya~~yp~ls   30 (137)
                      -+|-+++.|+++++++++.|-+. |.++
T Consensus        74 GlDP~~~~g~~~~a~~~~G~L~G-P~iG  100 (174)
T pfam08566        74 GLDPFMVLGLATIACGALGWLLG-PFIG  100 (174)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHC-CHHH
T ss_conf             85889999999999742557516-3678


No 29 
>pfam10779 XhlA Haemolysin XhlA. XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes.
Probab=43.60  E-value=27  Score=16.31  Aligned_cols=57  Identities=25%  Similarity=0.392  Sum_probs=32.5

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHCCCCCCHHHHHHHHHHHH-HHHHHHHHHHCCH
Q ss_conf             999999999999999622379898999996199978999999999999-9999999995711
Q gi|254780723|r   58 KELREAIQKIELNHKAKIGNTKSIDSLISCSGLPISKQHYYIGSCVIG-FICGVLSLTLSSS  118 (137)
Q Consensus        58 ksvq~sLKelE~rqk~~~k~~~sl~~rL~QAGL~~s~~~F~i~S~v~g-~v~~~i~~i~g~~  118 (137)
                      |.++.-++.+|.|---..++-.+++.+|+-    ++-..-||.-.+.| ++.+++++++.++
T Consensus         2 k~l~~di~~LE~r~~v~ekdI~~in~~L~k----I~~NTtWIlRlIigaii~avl~~iikGg   59 (60)
T pfam10779         2 KELERRIRDLETRTAVNEKDIKNINKRLGK----IEDNTTWILRLIIGAIITAVLTFIIKGG   59 (60)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             278999999988744249999999989988----8401289999999999999999997077


No 30 
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=42.05  E-value=25  Score=16.54  Aligned_cols=22  Identities=5%  Similarity=0.072  Sum_probs=7.8

Q ss_pred             HHHHHHHHHHH-HCCHHHHHHHH
Q ss_conf             99999999996-30604778999
Q gi|254780723|r   17 VFCFLYAIFYN-VINPGDSKSQD   38 (137)
Q Consensus        17 vg~laya~~yp-~ls~~~~~aqr   38 (137)
                      ..-+.+-+.|+ ...-=+.|.++
T Consensus        61 Ll~lL~k~awKPI~k~Ld~R~~k   83 (201)
T PRK06231         61 LLLLGIFLFWKPTQRFLNKRKEL   83 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999787899999999999


No 31 
>KOG1830 consensus
Probab=40.28  E-value=19  Score=17.25  Aligned_cols=16  Identities=25%  Similarity=0.175  Sum_probs=8.0

Q ss_pred             HHHHHHHHHHHHHHHC
Q ss_conf             9999999999996223
Q gi|254780723|r   61 REAIQKIELNHKAKIG   76 (137)
Q Consensus        61 q~sLKelE~rqk~~~k   76 (137)
                      |+.|||.|++-|+|+|
T Consensus       163 ekmLqdted~~kekrk  178 (518)
T KOG1830         163 EKMLQDTEDKMKEKRK  178 (518)
T ss_pred             HHHHHHHHHHHHHHHH
T ss_conf             9998889998753444


No 32 
>pfam00430 ATP-synt_B ATP synthase B/B' CF(0). Part of the CF(0) (base unit) of the ATP synthase. The base unit is thought to translocate protons through membrane (inner membrane in mitochondria, thylakoid membrane in plants, cytoplasmic membrane in bacteria). The B subunits are thought to interact with the stalk of the CF(1) subunits. This domain should not be confused with the ab CF(1) proteins (in the head of the ATP synthase) which are found in pfam00006
Probab=39.98  E-value=31  Score=15.97  Aligned_cols=24  Identities=8%  Similarity=-0.079  Sum_probs=12.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             999999999999999999996306
Q gi|254780723|r    7 WFLVGLITVSVFCFLYAIFYNVIN   30 (137)
Q Consensus         7 l~~~gL~~vavg~laya~~yp~ls   30 (137)
                      ++.-.+.-+....+.+-|+||-+.
T Consensus         2 l~~qlI~F~il~~il~~~~~~pi~   25 (132)
T pfam00430         2 LETNLINFLILVGLLIYFGYKPLG   25 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             888999999999999999798899


No 33 
>TIGR00883 2A0106 MFS transporter, metabolite:H+ symporter (MHS) family protein; InterPro: IPR004736   Recent genome-sequencing data and a wealth of biochemical and molecular genetic investigations have revealed the occurrence of dozens of families of primary and secondary transporters. Two such families have been found to occur ubiquitously in all classifications of living organisms. These are the ATP-binding cassette (ABC) superfamily and the major facilitator superfamily (MFS), also called the uniporter-symporter-antiporter family. While ABC family permeases are in general multicomponent primary active transporters, capable of transporting both small molecules and macromolecules in response to ATP hydrolysis the MFS transporters are single-polypeptide secondary carriers capable only of transporting small solutes in response to chemiosmotic ion gradients. Although well over 100 families of transporters have now been recognized and classified, the ABC superfamily and MFS account for nearly half of the solute transporters encoded within the genomes of microorganisms. They are also prevalent in higher organisms. The importance of these two families of transport systems to living organisms can therefore not be overestimated .   The MFS was originally believed to function primarily in the uptake of sugars but subsequent studies revealed that drug efflux systems, Krebs cycle metabolites, organophosphate:phosphate exchangers, oligosaccharide:H1 symport permeases, and bacterial aromatic acid permeases were all members of the MFS. These observations led to the probability that the MFS is far more widespread in nature and far more diverse in function than had been thought previously. 17 subgroups of the MFS have been identified .   Evidence suggests that the MFS permeases arose by a tandem intragenic duplication event in the early prokaryotes. This event generated a 2-transmembrane-spanner (TMS) protein topology from a primordial 6-TMS unit. Surprisingly, all currently recognized MFS permeases retain the two six-TMS units within a single polypeptide chain, although in 3 of the 17 MFS families, an additional two TMSs are found . Moreover, the well-conserved MFS specific motif between TMS2 and TMS3 and the related but less well conserved motif between TMS8 and TMS9  prove to be a characteristic of virtually all of the more than 300 MFS proteins identified.   This entry represents the metabolite-H(+) symport (MHS) subfamily of the MFS. Members include citrate-proton symporters , alpha-ketoglutarate permease , shikimate transporters , and the proline/betaine transporter ProP .; GO: 0005215 transporter activity, 0006810 transport, 0016021 integral to membrane.
Probab=37.82  E-value=34  Score=15.76  Aligned_cols=54  Identities=9%  Similarity=0.086  Sum_probs=23.3

Q ss_pred             CCCCHHHHHHHCCCCCCHHHHHHH--HHHHHHHHHHHHHHHCCHHHHHHH----HHHHHHHCCCC
Q ss_conf             798989999961999789999999--999999999999995711899999----99999748876
Q gi|254780723|r   77 NTKSIDSLISCSGLPISKQHYYIG--SCVIGFICGVLSLTLSSSFFTFLC----VSVSSALVFPR  135 (137)
Q Consensus        77 ~~~sl~~rL~QAGL~~s~~~F~i~--S~v~g~v~~~i~~i~g~~~l~a~g----~a~~~glGLPR  135 (137)
                      ++.++..-+++     .++.|+++  ..++..+++-+.-+.-++-.....    .+.+-|||+|+
T Consensus       211 ~~~p~~~~~~~-----~~~~~~~~~~~~~~~~~~fY~~t~y~~~Y~~~~~~vsEAGYA~GLg~~~  270 (413)
T TIGR00883       211 KRIPLAELLTK-----HRKAFLLVLGLVIATTTTFYLITTYLPTYLTTTLGVSEAGYALGLGLSA  270 (413)
T ss_pred             CCCCHHHHHHH-----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHCCCCH
T ss_conf             67409999872-----2299999999999989999999999999886516751456877326876


No 34 
>pfam06024 DUF912 Nucleopolyhedrovirus protein of unknown function (DUF912). This family consists of several Nucleopolyhedrovirus proteins of unknown function.
Probab=37.55  E-value=34  Score=15.73  Aligned_cols=31  Identities=32%  Similarity=0.323  Sum_probs=19.5

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHCCHH
Q ss_conf             7034699999999999999999999630604
Q gi|254780723|r    2 FDVNSWFLVGLITVSVFCFLYAIFYNVINPG   32 (137)
Q Consensus         2 ~~~~~l~~~gL~~vavg~laya~~yp~ls~~   32 (137)
                      +.+|.+++..++.+++.-+.|+.+|=.+.-+
T Consensus        59 ~~~~~ili~ll~~~~ilvlly~IyYFVILRe   89 (101)
T pfam06024        59 NAGNIILIGLLAFFCVLVLLYAIYYFVILRE   89 (101)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHEEEE
T ss_conf             0024589999999999999999998623641


No 35 
>TIGR01144 ATP_synt_b ATP synthase F0, B subunit; InterPro: IPR005864   ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (F-, V- and A-ATPases contain rotary motors) and in the type of ions they transport , .  F-ATPases (F1F0-ATPases) in mitochondria, chloroplasts and bacterial plasma membranes are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases) are primarily found in eukaryotic vacuoles, catalysing ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases) are found in Archaea and function like F-ATPases. P-ATPases (E1E2-ATPases) are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP.   F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis . These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient.   This entry represents subunit B from the F0 complex in F-ATPases found in bacterial plasma membranes. The B subunits are part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In bacterial F-ATPases, the peripheral stalk is composed of one copy of the delta subunit (homologous to OSCP in mitochondria), and two copies of subunit B .   More information about this protein can be found at Protein of the Month: ATP Synthases .; GO: 0046933 hydrogen ion transporting ATP synthase activity rotational mechanism, 0046961 hydrogen ion transporting ATPase activity rotational mechanism, 0015986 ATP synthesis coupled proton transport, 0016469 proton-transporting two-sector ATPase complex.
Probab=36.42  E-value=33  Score=15.77  Aligned_cols=14  Identities=36%  Similarity=0.423  Sum_probs=7.1

Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             89999999999999
Q gi|254780723|r   54 TKRRKELREAIQKI   67 (137)
Q Consensus        54 ~kRRksvq~sLKel   67 (137)
                      .+|+.++.+..+.-
T Consensus        71 ~k~~~~~~ee~~~~   84 (147)
T TIGR01144        71 NKRGSEILEEIKAE   84 (147)
T ss_pred             HHHHHHHHHHHHHH
T ss_conf             78888869999999


No 36 
>pfam07578 LAB_N Lipid A Biosynthesis N-terminal domain. This family is found at the N-terminus of a group of Chlamydial Lipid A biosynthesis proteins. It is also found by itself in a family of proteins of unknown function.
Probab=35.19  E-value=37  Score=15.50  Aligned_cols=36  Identities=11%  Similarity=0.085  Sum_probs=26.7

Q ss_pred             HCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHH
Q ss_conf             619997899999999999999999999957118999
Q gi|254780723|r   87 CSGLPISKQHYYIGSCVIGFICGVLSLTLSSSFFTF  122 (137)
Q Consensus        87 QAGL~~s~~~F~i~S~v~g~v~~~i~~i~g~~~l~a  122 (137)
                      .++-+..|.-||..|..=++..+.-++.-..+.++.
T Consensus        22 k~k~sviP~~FW~lSl~Gs~lll~Y~i~r~Dpv~il   57 (72)
T pfam07578        22 KAKRSVVPRLFWYLSVLGGLLMLVYFIIQSDPVNIL   57 (72)
T ss_pred             HCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCHHEE
T ss_conf             459974868999999999999999999973844024


No 37 
>COG2966 Uncharacterized conserved protein [Function unknown]
Probab=34.58  E-value=38  Score=15.44  Aligned_cols=42  Identities=12%  Similarity=0.214  Sum_probs=32.3

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHC
Q ss_conf             978999999999999999999999571189999999999748
Q gi|254780723|r   91 PISKQHYYIGSCVIGFICGVLSLTLSSSFFTFLCVSVSSALV  132 (137)
Q Consensus        91 ~~s~~~F~i~S~v~g~v~~~i~~i~g~~~l~a~g~a~~~glG  132 (137)
                      .-.+-.+|..-...|+.+..+++++|+++..++-..|++.++
T Consensus       119 ~~~~y~~~l~~~~~g~~~~~f~~l~gG~w~d~~iaf~~~~~~  160 (250)
T COG2966         119 QPLRYSRWLVLLMAGLAAAAFALLFGGGWLDFLIAFFAGLLG  160 (250)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH
T ss_conf             865566689999999999999999089538889999999999


No 38 
>pfam09340 NuA4 Histone acetyltransferase subunit NuA4. The NuA4 histone acetyltransferase (HAT) multisubunit complex is responsible for acetylation of histone H4 and H2A N-terminal tails in yeast. NuA4 complexes are highly conserved in eukaryotes and play primary roles in transcription, cellular response to DNA damage, and cell cycle control.
Probab=33.41  E-value=37  Score=15.48  Aligned_cols=20  Identities=15%  Similarity=0.331  Sum_probs=16.2

Q ss_pred             CCHHHHHHHHHHHHHHHHHH
Q ss_conf             20589999999999999999
Q gi|254780723|r   51 TANTKRRKELREAIQKIELN   70 (137)
Q Consensus        51 ~~~~kRRksvq~sLKelE~r   70 (137)
                      .+.-++|+.++++|+.+|+.
T Consensus         5 ~~ll~kK~~Le~~L~~lE~q   24 (80)
T pfam09340         5 KELLQKKKKLEKELAALERQ   24 (80)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999999999999999


No 39 
>cd01324 cbb3_Oxidase_CcoQ Cytochrome cbb oxidase CcoQ.  Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2 and simultaneously pumps protons across the membrane.  Found exclusively in proteobacteria, cbb3 is believed to be a modern enzyme that has evolved independently to perform a specialized function in microaerobic energy metabolism. The cbb3 operon contains four genes (ccoNOQP or fixNOQP), with ccoN coding for subunit I.  Instead of a CuA-containing subunit II analogous to other cytochrome oxidases, cbb3 utilizes subunits ccoO and ccoP, which contain one and two hemes, respectively, to transfer electrons to the binuclear center.  ccoQ, the fourth subunit, is a single transmembrane helix protein.  It has been shown to protect the core complex from proteolytic degradation by serine proteases.  See cd00919, cd01322
Probab=32.65  E-value=36  Score=15.58  Aligned_cols=33  Identities=30%  Similarity=0.388  Sum_probs=23.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHH
Q ss_conf             46999999999999999999996306047789999999
Q gi|254780723|r    5 NSWFLVGLITVSVFCFLYAIFYNVINPGDSKSQDNAKV   42 (137)
Q Consensus         5 ~~l~~~gL~~vavg~laya~~yp~ls~~~~~aqrr~~~   42 (137)
                      ++|.+..+...-+|.+.||+-     |+.++.-+++..
T Consensus        12 dsWgLl~~~~~Figvv~wa~~-----Pg~k~~~deaA~   44 (48)
T cd01324          12 DSWGLLYLALFFLGVVVWAFR-----PGRKKAFDEAAN   44 (48)
T ss_pred             HHHHHHHHHHHHHHHHHHHCC-----CCCCHHHHHHHC
T ss_conf             999999999999999875058-----876235788754


No 40 
>pfam07332 DUF1469 Protein of unknown function (DUF1469). This family consists of several hypothetical bacterial proteins of around 140 residues in length. The function of this family is unknown.
Probab=32.46  E-value=41  Score=15.23  Aligned_cols=12  Identities=25%  Similarity=0.470  Sum_probs=4.7

Q ss_pred             HHHHHHHCCCCC
Q ss_conf             999997488765
Q gi|254780723|r  125 VSVSSALVFPRF  136 (137)
Q Consensus       125 ~a~~~glGLPRw  136 (137)
                      .++....++|.|
T Consensus        61 ~~l~~~~~l~~w   72 (121)
T pfam07332        61 AALWEALRLPAW   72 (121)
T ss_pred             HHHHHHHHHHHH
T ss_conf             999997621689


No 41 
>pfam11026 DUF2721 Protein of unknown function (DUF2721). This family is conserved in bacteria. The function is not known.
Probab=31.73  E-value=42  Score=15.15  Aligned_cols=16  Identities=19%  Similarity=0.409  Sum_probs=8.0

Q ss_pred             HHHHHHHHHHHHHHHH
Q ss_conf             9999999999999999
Q gi|254780723|r   56 RRKELREAIQKIELNH   71 (137)
Q Consensus        56 RRksvq~sLKelE~rq   71 (137)
                      .++....+++.+++|-
T Consensus        44 ~~~~~~~ql~~L~~R~   59 (130)
T pfam11026        44 ERARIRRQIRNLRRRA   59 (130)
T ss_pred             CHHHHHHHHHHHHHHH
T ss_conf             0678999999999999


No 42 
>TIGR02745 ccoG_rdxA_fixG cytochrome c oxidase accessory protein CcoG; InterPro: IPR014116   Member of this ferredoxin-like protein family, include FixG, CcoG and RdxA,. They are found exclusively in species with an operon encoding the cbb3 type of cytochrome c oxidase (cco-cbb3), and near the cco-cbb3 operon in about half the cases. The cco-cbb3 is found in a variety of proteobacteria and almost nowhere else; it is associated with oxygen use under microaerobic conditions. Some (but not all) of these proteobacteria are also nitrogen-fixing, hence the gene symbol fixG. FixG was shown essential for functional cco-cbb3 expression in Bradyrhizobium japonicum..
Probab=31.37  E-value=43  Score=15.12  Aligned_cols=21  Identities=14%  Similarity=0.501  Sum_probs=16.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q ss_conf             034699999999999999999
Q gi|254780723|r    3 DVNSWFLVGLITVSVFCFLYA   23 (137)
Q Consensus         3 ~~~~l~~~gL~~vavg~laya   23 (137)
                      -|+..++++|..++..||.+.
T Consensus        53 pqe~~Ll~~lLi~aalgLFfi   73 (474)
T TIGR02745        53 PQEFYLLAGLLIIAALGLFFI   73 (474)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
T ss_conf             036889999999999999999


No 43 
>pfam04678 DUF607 Protein of unknown function, DUF607. This family represents a conserved region found in several uncharacterized eukaryotic proteins.
Probab=30.51  E-value=42  Score=15.14  Aligned_cols=44  Identities=18%  Similarity=0.166  Sum_probs=24.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHCCCCCCHHHH
Q ss_conf             89999999999999999996223798989999961999789999
Q gi|254780723|r   54 TKRRKELREAIQKIELNHKAKIGNTKSIDSLISCSGLPISKQHY   97 (137)
Q Consensus        54 ~kRRksvq~sLKelE~rqk~~~k~~~sl~~rL~QAGL~~s~~~F   97 (137)
                      .+|-+.+++.|..+|+.+++-+++-..-..|+..+||..-.-|+
T Consensus        54 ~~~l~~~~~~l~~le~~k~e~d~~A~~~~~r~~w~Gl~~l~~Q~   97 (171)
T pfam04678        54 RKRLEALSEELAPLEEIKKEIDRLAHRRARRLLWGGLGLLSAQW   97 (171)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             66478999999999999999999999998999999999999999


No 44 
>COG1575 MenA 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]
Probab=29.88  E-value=45  Score=14.96  Aligned_cols=56  Identities=13%  Similarity=0.121  Sum_probs=38.7

Q ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHH
Q ss_conf             999999999999962237989899999619997899999999999999999999957118999
Q gi|254780723|r   60 LREAIQKIELNHKAKIGNTKSIDSLISCSGLPISKQHYYIGSCVIGFICGVLSLTLSSSFFTF  122 (137)
Q Consensus        60 vq~sLKelE~rqk~~~k~~~sl~~rL~QAGL~~s~~~F~i~S~v~g~v~~~i~~i~g~~~l~a  122 (137)
                      .-.+++|+|+-.|. +  |.|+-.||.+..    -+++|....+...++.++..+++..++..
T Consensus       194 ~aNNirDie~D~~~-g--k~TLavrLG~~~----~~~l~~~l~~~a~l~~~~~~i~~~~~~~~  249 (303)
T COG1575         194 LANNLRDIEEDIRN-G--KYTLAVRLGRKN----ARKLYAALLVVAYLAIVIFVILGLFPVWG  249 (303)
T ss_pred             HHCCCCCCHHHHHC-C--CCCEEEEECCHH----HHHHHHHHHHHHHHHHHHHHHHHHCCHHH
T ss_conf             86213345017866-9--601134625475----89999999999999999999996221799


No 45 
>pfam04791 LMBR1 LMBR1-like membrane protein. Members of this family are integral membrane proteins that are around 500 residues in length. LMBR1 is not involved in preaxial polydactyly, as originally thought. Vertebrate members of this family may play a role in limb development. A member of this family has been shown to be a lipocalin membrane receptor
Probab=29.34  E-value=46  Score=14.90  Aligned_cols=29  Identities=21%  Similarity=0.264  Sum_probs=18.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCHHHHH
Q ss_conf             99999999999999999999957118999
Q gi|254780723|r   94 KQHYYIGSCVIGFICGVLSLTLSSSFFTF  122 (137)
Q Consensus        94 ~~~F~i~S~v~g~v~~~i~~i~g~~~l~a  122 (137)
                      ..-.+.+..++|++...+.++...+.+..
T Consensus       264 ~~l~~~~~~vl~Vv~~ilSll~~~~~~~~  292 (419)
T pfam04791       264 TLLVLTFCSILGVVTNTLSLLVVESELPF  292 (419)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999999999999999999999986


No 46 
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=28.94  E-value=47  Score=14.86  Aligned_cols=24  Identities=21%  Similarity=0.271  Sum_probs=10.1

Q ss_pred             HHHHHHHHHHHHHHHH-HHHHHHCC
Q ss_conf             9999999999999999-99996306
Q gi|254780723|r    7 WFLVGLITVSVFCFLY-AIFYNVIN   30 (137)
Q Consensus         7 l~~~gL~~vavg~lay-a~~yp~ls   30 (137)
                      -++=.+++-.++-+.. =++.|.++
T Consensus        55 QifWL~I~F~~lY~~~sk~~lPrI~   79 (204)
T PRK09174         55 QLLWLAITFGLFYLFLSRVILPRIG   79 (204)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             9999999999999999999760377


No 47 
>PRK11404 putative PTS transporter components IIBC; Provisional
Probab=28.72  E-value=47  Score=14.84  Aligned_cols=34  Identities=9%  Similarity=0.171  Sum_probs=26.1

Q ss_pred             HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCC
Q ss_conf             99999999999999995711899999999997488
Q gi|254780723|r   99 IGSCVIGFICGVLSLTLSSSFFTFLCVSVSSALVF  133 (137)
Q Consensus        99 i~S~v~g~v~~~i~~i~g~~~l~a~g~a~~~glGL  133 (137)
                      +++..+--+...+.|+..++++++++..+. ++|.
T Consensus       127 ~ykhLMtGVSyMlPfVVaGGiliAia~l~~-~~g~  160 (482)
T PRK11404        127 VMSHLMAGVSAALPFVIGGGILVALANMLV-QFGL  160 (482)
T ss_pred             HHHHHHCCCCHHHHHHHHHHHHHHHHHHHH-HCCC
T ss_conf             999998062355569999789999999987-5288


No 48 
>pfam11970 Git3_C G protein-coupled glucose receptor regulating Gpa2 C-term. Git3 is one of six proteins required for glucose-triggered adenylate cyclase activation, and is a G protein-coupled receptor responsible for the activation of adenylate cyclase through Gpa2 - heterotrimeric G protein alpha subunit, part of the glucose-detection pathway. Git3 contains seven predicted transmembrane domains, a third cytoplasmic loop and a cytoplasmic tail. This family is the conserved C-terminal domain of the member proteins.
Probab=28.26  E-value=37  Score=15.52  Aligned_cols=14  Identities=43%  Similarity=0.726  Sum_probs=11.0

Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             99999999999999
Q gi|254780723|r   55 KRRKELREAIQKIE   68 (137)
Q Consensus        55 kRRksvq~sLKelE   68 (137)
                      +||++||+++|-+=
T Consensus         2 krr~~I~rq~r~iF   15 (76)
T pfam11970         2 KRRKQIRKQLKSIF   15 (76)
T ss_pred             CHHHHHHHHHHHHH
T ss_conf             36899999998999


No 49 
>PRK03814 oxaloacetate decarboxylase subunit gamma; Provisional
Probab=27.84  E-value=49  Score=14.74  Aligned_cols=29  Identities=10%  Similarity=0.221  Sum_probs=17.0

Q ss_pred             CCHHHHHHHHHHHH-HHHHHHHHHHHHHHC
Q ss_conf             97034699999999-999999999999630
Q gi|254780723|r    1 MFDVNSWFLVGLIT-VSVFCFLYAIFYNVI   29 (137)
Q Consensus         1 m~~~~~l~~~gL~~-vavg~laya~~yp~l   29 (137)
                      |+|++.|+.-|+-- +..=|+-|.|+--++
T Consensus         1 M~~~~ell~ea~~LM~~GMg~VFvFL~lLI   30 (85)
T PRK03814          1 MTDIGSLLVDAATLMLTGMGVVFIFLTILV   30 (85)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             976899999999999986699999999999


No 50 
>pfam05039 Agouti Agouti protein. The agouti protein regulates pigmentation in the mouse hair follicle producing a black hair with a subapical yellow band. A highly homologous protein agouti signal protein (ASIP)is present in humans and is expressed at highest levels in adipose tissue where it may play a role in energy homeostasis and possibly human pigmentation.
Probab=27.64  E-value=49  Score=14.72  Aligned_cols=56  Identities=14%  Similarity=0.105  Sum_probs=24.9

Q ss_pred             HHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999996306047789999999775420---1220589999999999999999996
Q gi|254780723|r   17 VFCFLYAIFYNVINPGDSKSQDNAKVVRADRV---IPTANTKRRKELREAIQKIELNHKA   73 (137)
Q Consensus        17 vg~laya~~yp~ls~~~~~aqrr~~~~~a~R~---~~~~~~kRRksvq~sLKelE~rqk~   73 (137)
                      .+.+.+-.+|.-++++.+.+-.+.. -+.+..   ......-++++=.-+.+|.|++++.
T Consensus         7 L~~~~~l~~~shL~~ee~~~~~~~l-r~~d~~~~P~vsiv~L~k~~kk~s~~eaE~kk~~   65 (121)
T pfam05039         7 LSVLLLLTLAAHLSPEEDLSPDRGI-RRSDNALDPEVSIVGLPKGLKKFNKNEAEEKKKS   65 (121)
T ss_pred             HHHHHHHHHHHHHCHHCCCCCCCCC-CCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHH
T ss_conf             9999998888731112156752234-5665434755563213737899889999988886


No 51 
>pfam06120 Phage_HK97_TLTM Tail length tape measure protein. This family consists of the tail length tape measure protein from bacteriophage HK97 and related sequences from Escherichia coli O157:H7.
Probab=26.49  E-value=52  Score=14.59  Aligned_cols=85  Identities=15%  Similarity=0.234  Sum_probs=42.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHH---------CCCCHHHHHHHHHHHHHHHHHHHHHHHCCCC-
Q ss_conf             999999999999999996306047789999999775420---------1220589999999999999999996223798-
Q gi|254780723|r   10 VGLITVSVFCFLYAIFYNVINPGDSKSQDNAKVVRADRV---------IPTANTKRRKELREAIQKIELNHKAKIGNTK-   79 (137)
Q Consensus        10 ~gL~~vavg~laya~~yp~ls~~~~~aqrr~~~~~a~R~---------~~~~~~kRRksvq~sLKelE~rqk~~~k~~~-   79 (137)
                      .||+++++|+. |.+ |..-.-.+.-++..+..+-..|.         ...+..+-++++..+.++|++.+.+-..-+- 
T Consensus        29 pGlvmlaAGA~-Y~~-YQ~qeQAresA~~yA~~ideIr~kl~~Ms~~el~~n~~k~~~sL~~Qn~~i~~qeqkI~~lk~~  106 (311)
T pfam06120        29 PGILMLGAGAW-YAL-YQNQEQARESAIDYADTIEEIRDKLKEMSLPEASANEGKANEALDAQNRAIEDQEQKIAEIKDA  106 (311)
T ss_pred             HHHHHHHHHHH-HHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             78999998899-999-9989999999999997699999987737817655327789998999998899899899999999


Q ss_pred             --CHHHHHHHCCCCCCHHHHH
Q ss_conf             --9899999619997899999
Q gi|254780723|r   80 --SIDSLISCSGLPISKQHYY   98 (137)
Q Consensus        80 --sl~~rL~QAGL~~s~~~F~   98 (137)
                        -+...+.+-|  ||..-|.
T Consensus       107 i~~yq~~l~~~~--~s~~~~~  125 (311)
T pfam06120       107 ISGYNAKLAANG--ASEGGWL  125 (311)
T ss_pred             HHHHHHHHHCCC--CCCCHHH
T ss_conf             999999983788--7742245


No 52 
>pfam01237 Oxysterol_BP Oxysterol-binding protein.
Probab=25.16  E-value=45  Score=14.98  Aligned_cols=25  Identities=8%  Similarity=0.173  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHCCCCCHHHHHHHCCCCCCHHHH
Q ss_conf             99999996223798989999961999789999
Q gi|254780723|r   66 KIELNHKAKIGNTKSIDSLISCSGLPISKQHY   97 (137)
Q Consensus        66 elE~rqk~~~k~~~sl~~rL~QAGL~~s~~~F   97 (137)
                      .+|++|++++|.       -...|-.|.|+-|
T Consensus       289 ~lEe~QR~~rk~-------r~~~g~~w~P~~F  313 (337)
T pfam01237       289 RLEEKQRERRKE-------REEKGEEWKPRWF  313 (337)
T ss_pred             HHHHHHHHHHHH-------HHHCCCCCCCCCE
T ss_conf             999999999998-------8765998056707


No 53 
>pfam03245 Phage_lysis Bacteriophage lysis protein. This protein is involved in host lysis. This family is not considered to be a peptidase according to the MEROPs database.
Probab=24.02  E-value=58  Score=14.31  Aligned_cols=55  Identities=7%  Similarity=0.189  Sum_probs=19.5

Q ss_pred             HHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999963060477899999997754201220589999999999999999996
Q gi|254780723|r   15 VSVFCFLYAIFYNVINPGDSKSQDNAKVVRADRVIPTANTKRRKELREAIQKIELNHKA   73 (137)
Q Consensus        15 vavg~laya~~yp~ls~~~~~aqrr~~~~~a~R~~~~~~~kRRksvq~sLKelE~rqk~   73 (137)
                      +...++.|+ .|  -+......+.+.++...-+....+. .....-|..+-+++.|.-+
T Consensus        14 ~l~~al~w~-hy--~~~a~~~k~q~~~~~~~l~~~~a~i-~~~q~r~r~la~LD~k~tk   68 (151)
T pfam03245        14 ALLLALAWA-TY--RDNADTAERQRDQATAELALANATI-EDMQTRQRDLAALDAKHTK   68 (151)
T ss_pred             HHHHHHHHH-HH--HHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHH
T ss_conf             999999999-99--8779999999999999999999799-9999999999999789999


No 54 
>TIGR00833 actII Transport protein; InterPro: IPR004707   Characterised members of the Resistance-Nodulation-Cell Division (RND) superfamily all probably catalyze substrate efflux via an H+ antiport mechanism. These proteins are found ubiquitously in bacteria, archaea and eukaryotes.   This group includes the Streptomyces coelicolor ActII3 protein, which may play a role in drug resistance, and the Mycobacterium tuberculosis MmpL7 protein, which catalyzes export of an outer membrane lipid, phthiocerol dimycocerosate.; GO: 0016021 integral to membrane.
Probab=23.74  E-value=58  Score=14.28  Aligned_cols=50  Identities=10%  Similarity=0.070  Sum_probs=35.5

Q ss_pred             CHHHHHHHCCCCCCHHHHHHH---HHHHHHHHHHHHHHHCCHHHHHHHHHHHH
Q ss_conf             989999961999789999999---99999999999999571189999999999
Q gi|254780723|r   80 SIDSLISCSGLPISKQHYYIG---SCVIGFICGVLSLTLSSSFFTFLCVSVSS  129 (137)
Q Consensus        80 sl~~rL~QAGL~~s~~~F~i~---S~v~g~v~~~i~~i~g~~~l~a~g~a~~~  129 (137)
                      .++.=+..+|--+.-.-+-+.   -+.+.+.+.-+.++-+.++..+.|+.++.
T Consensus       277 A~~~A~r~~g~aI~gsa~tv~tsl~~~l~Ls~a~l~~f~~lG~~~avG~l~~~  329 (992)
T TIGR00833       277 ALAEALRGTGKAILGSALTVATSLVAFLALSLARLPSFKTLGVVCAVGVLVAL  329 (992)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999998889999889999999999999999875443223699999999999


No 55 
>pfam06504 RepC Replication protein C (RepC). This family consists of several bacterial replication protein C (RepC) sequences.
Probab=23.49  E-value=59  Score=14.25  Aligned_cols=19  Identities=32%  Similarity=0.463  Sum_probs=13.9

Q ss_pred             CCCHHHHHHHHHHHHHHHH
Q ss_conf             2205899999999999999
Q gi|254780723|r   50 PTANTKRRKELREAIQKIE   68 (137)
Q Consensus        50 ~~~~~kRRksvq~sLKelE   68 (137)
                      +.+.++||..+.+.|.|++
T Consensus       242 ~~~~rkRr~~vR~AL~el~  260 (283)
T pfam06504       242 GEAMKKRRQTARKALPELA  260 (283)
T ss_pred             HHHHHHHHHHHHHHHHHHH
T ss_conf             1788999999999999999


No 56 
>PRK10947 global DNA-binding transcriptional dual regulator H-NS; Provisional
Probab=22.99  E-value=61  Score=14.19  Aligned_cols=36  Identities=17%  Similarity=0.269  Sum_probs=24.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHCCCCCC
Q ss_conf             8999999999999999999622379898999996199978
Q gi|254780723|r   54 TKRRKELREAIQKIELNHKAKIGNTKSIDSLISCSGLPIS   93 (137)
Q Consensus        54 ~kRRksvq~sLKelE~rqk~~~k~~~sl~~rL~QAGL~~s   93 (137)
                      ..||+..+...++.++|+.+-.    .+...|.++|++.+
T Consensus        38 ~Erreee~~~~~e~~er~~Kl~----~~~e~l~~~Gid~~   73 (135)
T PRK10947         38 NERREEESAAAAEVEERTRKLQ----QYREMLIADGIDPN   73 (135)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHCCCCHH
T ss_conf             9999999999999999999999----99999998599999


No 57 
>TIGR01410 tatB twin arginine-targeting protein translocase TatB; InterPro: IPR003998   Translocation of proteins across the two membranes of Gram-negative bacteria can be carried out via a number of routes. Most proteins marked for export carry a secretion signal at their N-terminus, and are secreted by the general secretory pathway. The signal peptide is cleaved as they pass through the outer membrane. Other secretion systems include the type III system found in a select group of Gram-negative plant and animal pathogens, and the CagA system of Helicobacter pylori .   In some bacterial species, however, there exists a system that operates independently of the Sec pathway . It selectively translocates periplasmic-bound molecules that are synthesised with, or are in close association with, "partner" proteins bearing an (S/T)RRXFLK twin arginine motif at the N-terminus. The pathway is therefore termed the Twin-Arginine Translocation or TAT system. Surprisingly, the four components that make up the TAT system are structurally and mechanistically related to a pH-dependent import system in plant chloroplast thylakoid membranes . The gene products responsible for the Sec-independent pathway are called TatA, TatB, TatC and TatE.   TatB is essential for the secretion of these specific proteins, and forms a scaffold upon which TatC assembles in the membrane. Deletion studies have shown that it is crucial in the forming of the TAT complex, and is therefore necessary for the correct working of the system.; GO: 0015450 P-P-bond-hydrolysis-driven protein transmembrane transporter activity, 0009306 protein secretion, 0016020 membrane.
Probab=22.85  E-value=61  Score=14.17  Aligned_cols=45  Identities=24%  Similarity=0.414  Sum_probs=21.8

Q ss_pred             HHHHHHHHHHHHHHHHHCCHHH--HHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf             9999999999999996306047--78999999977542012205899999999999
Q gi|254780723|r   12 LITVSVFCFLYAIFYNVINPGD--SKSQDNAKVVRADRVIPTANTKRRKELREAIQ   65 (137)
Q Consensus        12 L~~vavg~laya~~yp~ls~~~--~~aqrr~~~~~a~R~~~~~~~kRRksvq~sLK   65 (137)
                      |..|+|.+|-      .+||++  ...+...+.+++.|...++   =|.+..+-||
T Consensus         8 LLli~vVaLv------VLGPerLP~a~R~v~~~~~~~r~~a~~---~~~~l~~el~   54 (82)
T TIGR01410         8 LLLIAVVALV------VLGPERLPVAIRAVGKFVRRLRGMASD---VKNELDEELK   54 (82)
T ss_pred             HHHHHHHHHH------HHCCHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHC
T ss_conf             9999999998------726253278999999999999998989---9999999845


No 58 
>KOG1262 consensus
Probab=22.81  E-value=52  Score=14.57  Aligned_cols=52  Identities=19%  Similarity=0.378  Sum_probs=24.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH-HHH
Q ss_conf             999999999999999999996306047789999999775420122058999999999999-999
Q gi|254780723|r    7 WFLVGLITVSVFCFLYAIFYNVINPGDSKSQDNAKVVRADRVIPTANTKRRKELREAIQK-IEL   69 (137)
Q Consensus         7 l~~~gL~~vavg~laya~~yp~ls~~~~~aqrr~~~~~a~R~~~~~~~kRRksvq~sLKe-lE~   69 (137)
                      |+++.+..+-..-+.+-++|-..           ...+.-.-.+++-.+|-|.||++||| .++
T Consensus        24 wv~Vv~f~LP~S~lF~~~i~~r~-----------~~~~~~ssa~~~H~qrVkkIqkqlkew~d~   76 (543)
T KOG1262          24 WVFVVLFLLPLSFLFDLFIYFRI-----------WLVRKLSSAPREHQQRVKKIQKQLKEWLDD   76 (543)
T ss_pred             EEEEEHHHHHHHHHHHHHHHHHH-----------HHHHHHCCCCHHHHHHHHHHHHHHHHHCCC
T ss_conf             47876535359999999999999-----------999874148367899999999998751135


No 59 
>pfam11022 DUF2611 Protein of unknown function (DUF2611). This family is conserved in the Dikarya of Fungi. The function is not known.
Probab=22.23  E-value=56  Score=14.41  Aligned_cols=51  Identities=10%  Similarity=0.112  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999999999999630604778999999977542012205899999999999999999
Q gi|254780723|r   14 TVSVFCFLYAIFYNVINPGDSKSQDNAKVVRADRVIPTANTKRRKELREAIQKIELNH   71 (137)
Q Consensus        14 ~vavg~laya~~yp~ls~~~~~aqrr~~~~~a~R~~~~~~~kRRksvq~sLKelE~rq   71 (137)
                      +++..+..+.+.|+..++.+...+    .+..   .......--+-|++-|++.|..+
T Consensus        18 Ai~tLgs~~~~~~~~~~g~~~~k~----~tpp---i~asS~DEEkFI~~fl~~~~~~~   68 (70)
T pfam11022        18 AIGTLGSLFGGVALATGGKKAPKP----ATPP---INASSKDEEKFIKEFLKKHSKEE   68 (70)
T ss_pred             HHHHHHHHHHHEEECCCCCCCCCC----CCCC---CCCCCHHHHHHHHHHHHHHHHHC
T ss_conf             599999888751346778878888----9998---66788779999999999866540


No 60 
>pfam00862 Sucrose_synth Sucrose synthase. Sucrose synthases catalyse the synthesis of sucrose from UDP-glucose and fructose. This family includes the bulk of the sucrose synthase protein. However the carboxyl terminal region of the sucrose synthases belongs to the glycosyl transferase family pfam00534.
Probab=21.96  E-value=61  Score=14.18  Aligned_cols=32  Identities=19%  Similarity=0.171  Sum_probs=12.1

Q ss_pred             HHHHHHHHHHHHHHHHHCCCC--CHHHHHHHCCC
Q ss_conf             999999999999996223798--98999996199
Q gi|254780723|r   59 ELREAIQKIELNHKAKIGNTK--SIDSLISCSGL   90 (137)
Q Consensus        59 svq~sLKelE~rqk~~~k~~~--sl~~rL~QAGL   90 (137)
                      +.+.+|+..|+-=.+..+.+|  .++.++.--|+
T Consensus       199 ~L~~~l~~A~~~l~~~p~dtpy~~f~~~lq~lGf  232 (550)
T pfam00862       199 ALQSALRKAEDYLSTLPPDTPYSEFEHKFQEIGF  232 (550)
T ss_pred             HHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCC
T ss_conf             9999999999999649999986999999998378


No 61 
>KOG2210 consensus
Probab=21.93  E-value=64  Score=14.05  Aligned_cols=27  Identities=11%  Similarity=0.056  Sum_probs=17.7

Q ss_pred             HHHHHHHHHHHCCCCCHHHHHHHCCCCCCHHHHH
Q ss_conf             9999999962237989899999619997899999
Q gi|254780723|r   65 QKIELNHKAKIGNTKSIDSLISCSGLPISKQHYY   98 (137)
Q Consensus        65 KelE~rqk~~~k~~~sl~~rL~QAGL~~s~~~F~   98 (137)
                      .+||++|++..|+       =+.-|..|.++.|-
T Consensus       336 ~~iEe~QR~~ak~-------ree~g~~W~pk~F~  362 (392)
T KOG2210         336 FELEEKQRELAKK-------REESGEEWKPKLFK  362 (392)
T ss_pred             HHHHHHHHHHHHH-------HHHHCCCCEECCEE
T ss_conf             6889999999987-------88718951320045


No 62 
>TIGR03488 cas_Cas5p CRISPR-associated protein, Cas5p family. CC Members of this protein family are cas, or CRISPR-associated, proteins. The two sequences in the alignment seed are found within cas gene clusters that are adjacent to CRISPR DNA repeats in two members of the order Bacteroidales, Porphyromonas gingivalis W83 and Bacteroides forsythus ATCC 43037. This cas protein family is unique to the Pgingi (Porphyromonas gingivalis) subtype, but shows some sequence similarity to genes of the Cas5 type (see TIGR02593).
Probab=21.02  E-value=62  Score=14.12  Aligned_cols=23  Identities=26%  Similarity=0.417  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             58999999999999999999622
Q gi|254780723|r   53 NTKRRKELREAIQKIELNHKAKI   75 (137)
Q Consensus        53 ~~kRRksvq~sLKelE~rqk~~~   75 (137)
                      ..|.|+.||+-++.+.+|||+-+
T Consensus        61 ~~kdr~~i~kdie~irkk~k~~~   83 (237)
T TIGR03488        61 DRKDREAIQKDIEKIRKKQKKGH   83 (237)
T ss_pred             CCCHHHHHHHHHHHHHHHHCCCC
T ss_conf             52108999999999987500788


No 63 
>pfam10112 Halogen_Hydrol 5-bromo-4-chloroindolyl phosphate hydrolysis protein. Members of this family of prokaryotic proteins mediate the hydrolysis of 5-bromo-4-chloroindolyl phosphate bonds.
Probab=20.96  E-value=67  Score=13.93  Aligned_cols=10  Identities=10%  Similarity=0.368  Sum_probs=4.7

Q ss_pred             CHHHHHHHHH
Q ss_conf             8999999999
Q gi|254780723|r   93 SKQHYYIGSC  102 (137)
Q Consensus        93 s~~~F~i~S~  102 (137)
                      .|++|+.++-
T Consensus       120 ~P~~~~~a~~  129 (199)
T pfam10112       120 EPKRFYKAER  129 (199)
T ss_pred             CHHHHHHHHH
T ss_conf             9798888899


No 64 
>pfam00429 TLV_coat ENV polyprotein (coat polyprotein).
Probab=20.94  E-value=67  Score=13.93  Aligned_cols=67  Identities=12%  Similarity=0.024  Sum_probs=32.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHH
Q ss_conf             999999999999999996223798989999961999789999999999999999999995711899999999
Q gi|254780723|r   56 RRKELREAIQKIELNHKAKIGNTKSIDSLISCSGLPISKQHYYIGSCVIGFICGVLSLTLSSSFFTFLCVSV  127 (137)
Q Consensus        56 RRksvq~sLKelE~rqk~~~k~~~sl~~rL~QAGL~~s~~~F~i~S~v~g~v~~~i~~i~g~~~l~a~g~a~  127 (137)
                      -|++|.+-=+++|+|||+......-     -+..+.+++=--=.+|.++|.+..++.++.=++-++--.+.|
T Consensus       492 vrd~~~klre~l~~r~r~~~~~~~w-----~~~~~~~spw~~~llstl~gpl~~lll~l~fgpci~n~l~~f  558 (560)
T pfam00429       492 VRDSIAKLQERLPQRQRLLTDNQLW-----FEGLFGLSPWFTTLLSTIMGPLLLLLLILLFGPCILNRLVQF  558 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCH-----HHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             8899999999999988776614650-----013556781699998888889999999998667999988875


No 65 
>PRK01021 lpxB lipid-A-disaccharide synthase; Reviewed
Probab=20.91  E-value=67  Score=13.93  Aligned_cols=10  Identities=10%  Similarity=0.172  Sum_probs=3.5

Q ss_pred             HHHHHHHHHH
Q ss_conf             9999999999
Q gi|254780723|r   55 KRRKELREAI   64 (137)
Q Consensus        55 kRRksvq~sL   64 (137)
                      +.++.+++.+
T Consensus       456 ~~~~~i~e~l  465 (607)
T PRK01021        456 KYDHLILDVL  465 (607)
T ss_pred             HHHHHHHHHH
T ss_conf             6889999999


No 66 
>pfam05399 EVI2A Ectropic viral integration site 2A protein (EVI2A). This family contains several mammalian ectropic viral integration site 2A (EVI2A) proteins. The function of this protein is unknown although it is thought to be a membrane protein and may function as an oncogene in retrovirus induced myeloid tumours.
Probab=20.33  E-value=69  Score=13.85  Aligned_cols=33  Identities=15%  Similarity=0.192  Sum_probs=22.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHH
Q ss_conf             346999999999999999999996306047789
Q gi|254780723|r    4 VNSWFLVGLITVSVFCFLYAIFYNVINPGDSKS   36 (137)
Q Consensus         4 ~~~l~~~gL~~vavg~laya~~yp~ls~~~~~a   36 (137)
                      -|++|+.-|+.||+.-|.-.|+|...---.-+.
T Consensus       126 s~~amLIClIiIAvLfLICtfLFLSTVVlANKv  158 (227)
T pfam05399       126 SNFAMLICLIIIAALFLICTFLFLSTVVLANKV  158 (227)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             631689999999999999999999999998688


No 67 
>COG2818 Tag 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]
Probab=20.07  E-value=44  Score=15.02  Aligned_cols=12  Identities=8%  Similarity=0.301  Sum_probs=5.1

Q ss_pred             HHHHHHHCCCCC
Q ss_conf             899999619997
Q gi|254780723|r   81 IDSLISCSGLPI   92 (137)
Q Consensus        81 l~~rL~QAGL~~   92 (137)
                      |..-|...|...
T Consensus       146 mskaLKkrGf~f  157 (188)
T COG2818         146 MSKALKKRGFKF  157 (188)
T ss_pred             HHHHHHHCCCEE
T ss_conf             999999866943


Done!