Query         gi|254780241|ref|YP_003064654.1| preprotein translocase subunit SecY [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 444
No_of_seqs    128 out of 1544
Neff          6.2 
Searched_HMMs 39220
Date          Tue May 24 05:21:44 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780241.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 PRK09204 secY preprotein trans 100.0       0       0  928.6  44.5  424   12-437     3-427 (427)
  2 PRK12907 secY preprotein trans 100.0       0       0  922.3  45.7  420   13-438     4-434 (434)
  3 CHL00161 secY preprotein trans 100.0       0       0  903.4  44.7  413   15-435     2-417 (417)
  4 TIGR00967 3a0501s007 preprotei 100.0       0       0  873.1  39.4  407   24-430     1-489 (489)
  5 COG0201 SecY Preprotein transl 100.0       0       0  851.3  41.5  420   10-435     6-432 (436)
  6 PRK12417 secY preprotein trans 100.0       0       0  826.5  35.6  395   16-434     2-399 (399)
  7 PRK08568 preprotein translocas 100.0       0       0  776.8  37.9  394   17-436    20-463 (466)
  8 pfam00344 SecY eubacterial sec 100.0       0       0  653.1  34.6  334   80-419     1-340 (340)
  9 TIGR02920 secY_rel translocase 100.0       0       0  542.2  28.7  396   23-434     2-403 (403)
 10 PTZ00219 Sec61 protein; Provis 100.0       0       0  458.6  32.4  382   19-427    23-467 (472)
 11 KOG1373 consensus              100.0       0       0  364.4  22.7  385   18-430    24-470 (476)
 12 pfam10559 Plug_translocon Plug  86.4    0.12 3.1E-06   29.6  -0.9   33   35-75      1-33  (35)
 13 pfam05697 Trigger_N Bacterial   80.2       2 5.1E-05   21.8   3.3   37  337-373    18-60  (144)
 14 pfam03248 Rer1 Rer1 family. RE  80.2     4.2 0.00011   19.8   7.3  114  313-433    45-165 (175)
 15 TIGR00814 stp serine transport  77.0     5.2 0.00013   19.2   5.7   20   83-102    30-49  (419)
 16 PRK01490 tig trigger factor; P  73.3     3.2 8.1E-05   20.6   2.7   12   38-49     34-45  (435)
 17 pfam04923 Ninjurin Ninjurin. N  72.5     6.7 0.00017   18.5   6.0   45   89-133    51-96  (116)
 18 TIGR00945 tatC twin arginine-t  66.8     4.7 0.00012   19.5   2.4   26   20-45      5-30  (226)
 19 TIGR00858 bioF 8-amino-7-oxono  62.6     4.5 0.00011   19.6   1.7   22  340-363   328-349 (378)
 20 TIGR00915 2A0602 RND transport  61.4      11 0.00029   17.1   3.7  146  225-376   402-598 (1058)
 21 pfam07330 DUF1467 Protein of u  58.4      13 0.00032   16.7   4.2   40  349-388    31-70  (85)
 22 TIGR01271 CFTR_protein cystic   58.2      13 0.00032   16.7   5.1   91  331-432   276-383 (1534)
 23 TIGR02230 ATPase_gene1 F0F1-AT  51.7      16 0.00041   16.1   3.4   57  360-416    21-88  (100)
 24 COG0544 Tig FKBP-type peptidyl  50.2     7.8  0.0002   18.1   1.2   14  341-354   315-328 (441)
 25 cd05135 RasGAP_RASAL Ras GTPas  48.2      18 0.00047   15.7   4.3   14  166-179    94-107 (333)
 26 TIGR02204 MsbA_rel ABC transpo  44.9      21 0.00053   15.4   4.3   44  307-350   268-318 (576)
 27 PRK10517 magnesium-transportin  44.3      21 0.00054   15.3   5.5   39  392-430   858-897 (900)
 28 TIGR02876 spore_yqfD sporulati  43.5      15 0.00038   16.3   1.8   46  312-358    84-137 (406)
 29 cd05394 RasGAP_RASA2 RASA2 (or  41.6      23 0.00059   15.1   3.7   16  165-180    89-104 (313)
 30 TIGR01522 ATPase-IIA2_Ca calci  41.3      15 0.00038   16.3   1.5   89   16-112   720-823 (856)
 31 pfam08006 DUF1700 Protein of u  37.5      27 0.00068   14.7   6.4   13  165-177   102-114 (181)
 32 cd05137 RasGAP_CLA2_BUD2 CLA2/  34.2      30 0.00077   14.3   4.0   18   82-99     44-61  (395)
 33 cd05395 RasGAP_RASA4 Ras GTPas  33.9      30 0.00078   14.3   4.0   16  327-342   203-218 (337)
 34 TIGR02810 agaZ_gatZ D-tagatose  33.3     9.9 0.00025   17.4  -0.4   14   35-48    164-177 (430)
 35 PRK08470 adenylosuccinate lyas  27.6      39 0.00099   13.6   4.9   28  329-356   327-354 (442)
 36 TIGR00115 tig trigger factor;   27.6      21 0.00054   15.3   0.5   32  351-382    41-72  (475)
 37 pfam05313 Pox_P21 Poxvirus P21  27.4      39   0.001   13.6   5.6   12  175-186   104-115 (190)
 38 TIGR01373 soxB sarcosine oxida  26.8      25 0.00063   14.9   0.7   10  271-280   304-313 (407)
 39 pfam10151 DUF2359 Uncharacteri  25.7      42  0.0011   13.4   1.8   43   94-136     5-49  (469)
 40 pfam07438 DUF1514 Protein of u  24.9      43  0.0011   13.3   3.4   26  405-430    11-36  (66)
 41 PRK07380 adenylosuccinate lyas  24.6      44  0.0011   13.3   5.5   87  262-355   261-353 (431)
 42 KOG3802 consensus               24.5      44  0.0011   13.3   2.1   14  168-181   263-276 (398)
 43 pfam12263 DUF3611 Protein of u  24.2      45  0.0011   13.2  10.1   78  314-399    56-137 (183)
 44 TIGR00707 argD acetylornithine  21.9      31 0.00078   14.3   0.4   15  177-191   250-265 (402)
 45 cd05134 RasGAP_RASA3 RASA3 (or  21.8      50  0.0013   12.9   4.0   15  166-180    90-104 (310)
 46 COG1086 Predicted nucleoside-d  21.2      38 0.00097   13.7   0.8   24  340-363   484-516 (588)
 47 TIGR02854 spore_II_GA sigma-E   20.7      53  0.0013   12.8   5.2   51  127-177    76-128 (320)

No 1  
>PRK09204 secY preprotein translocase subunit SecY; Reviewed
Probab=100.00  E-value=0  Score=928.62  Aligned_cols=424  Identities=56%  Similarity=0.959  Sum_probs=405.5

Q ss_pred             CCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHCCHHHHH
Q ss_conf             58898835878899999999999999850679898739889999873035537889986427702220468735478999
Q gi|254780241|r   12 LNFASFSRAKDLKSRIVFTIIALIVYRFGTYIPLPSIDFISYSKAFQSKSAGIFGLFNMFSGGAVERMAVFSLGIMPYIS   91 (444)
Q Consensus        12 ~~~~~~~~~~el~~Kil~Tl~il~iyrlg~~IPlPGid~~~~~~~~~~~~~~~~~~l~~~sGga~~~~sif~LGI~PyIt   91 (444)
                      .+++|+||+||||||++||++++++||+|++||+||+|.+++++..+  ++++++++|+|+|||++++|+|+|||+||||
T Consensus         3 ~~~~~~~~~~~Lr~ril~Tl~iL~iyrlG~~IplPGid~~~~~~~~~--~~~~l~~~~~fsGGa~~~~SifaLGI~PyIt   80 (427)
T PRK09204          3 STLSNAFKIKELRKRILFTLGALIVFRLGSYIPVPGIDPAALAALFD--SGGILGLFNMFSGGALSRFSIFALGIMPYIS   80 (427)
T ss_pred             HHHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHH--CCCHHHHHHHHHCCCHHCCHHHHHCHHHHHH
T ss_conf             88999975799999999999999999984358889859999999874--3658999998612223116198845288999


Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             99999999852154786411463689999988699999999999999997235567622587504799999999999999
Q gi|254780241|r   92 ASIIVQLIAATVPSLENLKKEGEQGRKVINQYTRYATVLLGILQAYGIAVGLKNGQGIVSDSDYFFVFSTIITLLGGTMF  171 (444)
Q Consensus        92 ASIi~QLL~~~~P~l~~l~kege~gr~ki~~~tr~ltl~~a~iQs~~~~~~l~~~~~~~~~~~~~~~~~~il~L~aGs~i  171 (444)
                      |||+||||+..+|+++|||||||+||||+|+||||+|+++|++||++++.++.+..+...+++..+++.++++|++||++
T Consensus        81 ASII~QLL~~~~p~l~~l~kege~Gr~ki~~~tr~Ltl~~A~iQs~~~~~~~~~~~~~~~~~~~~~~~~~~l~L~aGs~~  160 (427)
T PRK09204         81 ASIIMQLLTVVIPKLEELKKEGEAGRRKINQYTRYLTLVLAVVQSIGIAAGLESGSGLVINGGIFFYLTIVITLTAGTMF  160 (427)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHH
T ss_conf             99999999874164776601358889999999999999999999999999833567532487199999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCCHHHHCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCH
Q ss_conf             99999987408898752036210146576788743333200123215899999999999999999886533232101101
Q gi|254780241|r  172 LVWLGEQITMRGIGNGVSLIIFSGIVAGLPSSLVSVLELGRVGSISTPLMLLIFSSTVAVIALVIFFERAQRRLLIQYPK  251 (444)
Q Consensus       172 l~wl~e~It~~GIGnG~SLiI~~gIi~~lp~~l~~~~~~~~~~~~~~~~~l~~~~~~l~vi~~iV~v~~~~rrIPi~y~~  251 (444)
                      +||+||+|||||||||+|++|++||++++|+++.+.++....+..+....++.+..++++++++||+|++|||||+||||
T Consensus       161 l~WL~e~It~~GIGnGiSLiI~~gIis~lp~~i~~~~~~~~~~~~~~~~~i~~~~~~~~ii~~vV~~~~~~rrIPvqyak  240 (427)
T PRK09204        161 LMWLGEQITERGIGNGISLIIFAGIVAGLPSAIGQTFELARTGSLSILVFLLLIVLFLAVIAFVVFVEQAQRRIPVQYAK  240 (427)
T ss_pred             HHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHEEEEEHHHHHH
T ss_conf             99999998436878870799999998864899999999860576529999999999999999999864304541087677


Q ss_pred             HHCCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHCCCC-CHHHHHHHHHHCCCCCCHHHHHHHHHHHHHH
Q ss_conf             211664235643114442000023799999999986888887507777-2479998875306676316999999999999
Q gi|254780241|r  252 RQVGNRMFQDDVSYLPLKLNTAGVVPSIFASSLLLLPATIMGFIDVSS-SPTWIVGLVDSLGHGRSFYMVLYSVFIVFFA  330 (444)
Q Consensus       252 ~~~~~~~~~~~~sylPiKin~aGvmPiIfassll~~p~~i~~~~~~~~-~~~~~~~~~~~~~~~~~~y~i~y~ilii~Fs  330 (444)
                      |+.+++.++++++|+|+|+|||||||+||||+++++|++++++++..+ ..+|..++.+++++++|+|.++|++++++||
T Consensus       241 ~~~g~~~~~~~~sylPlKlN~aGvmPiIfAssll~~p~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~y~ilii~F~  320 (427)
T PRK09204        241 RQVGRKMYGGQSSYLPLKVNMAGVIPVIFASSILLFPATIAQFFGNTSGWSSWLQDIANYLSPGSPLYILLYALLIIFFT  320 (427)
T ss_pred             HHHCCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHH
T ss_conf             77435566787762004434556648999999999999999981777763079999998727885099999999999999


Q ss_pred             HHHHHHCCCHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q ss_conf             99986237989999999963884476279857999999999999999999999999999999998488410025799999
Q gi|254780241|r  331 FFYTAIVFNPKEAADNLKKHGGFIPGIRPGDRTALHIDYVLTRVTVVGAGYLVCVCIFPEALIAVTGVPVSLSGTSLLII  410 (444)
Q Consensus       331 ~f~~~i~~~P~~iAe~L~k~g~~IpGiRPG~~T~~yL~~v~~rit~~Ga~~l~~la~~p~~~~~~~~~~~~~gGTslLI~  410 (444)
                      |||+++++||||+||||+|+|+||||+||||+|++||+|+++|+|++||+|++++|++|++++...+.+..|||||+||+
T Consensus       321 ~fy~~i~~np~~iAe~l~k~g~~IPGiRPG~~T~~yL~~vl~rit~~GaifL~~ia~~p~l~~~~~~~~~~~ggTslLI~  400 (427)
T PRK09204        321 FFYTAIQFNPEEIAENLKKSGGFIPGIRPGEQTAEYLDKVLTRLTLVGALYLAFIALLPELLQKALNVPFYFGGTSLLIV  400 (427)
T ss_pred             HHHHHHCCCHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCEEEE
T ss_conf             99998746889999999987985789899931499999999999999899999999999999996387703565001200


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999999999999999998526564311
Q gi|254780241|r  411 VSVVLDTIVQIQGYLIAQQYEGVFKKS  437 (444)
Q Consensus       411 Vgv~l~~~~qi~a~~~~~~Y~~~~~~~  437 (444)
                      |||++||+||+|||+.||+||+++||+
T Consensus       401 VgV~ldt~~qi~s~l~~~~Y~g~~~~~  427 (427)
T PRK09204        401 VGVALDTMKQIESQLMSRQYEGFLKKA  427 (427)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             152898999999999999888884269


No 2  
>PRK12907 secY preprotein translocase subunit SecY; Reviewed
Probab=100.00  E-value=0  Score=922.29  Aligned_cols=420  Identities=39%  Similarity=0.687  Sum_probs=381.5

Q ss_pred             CHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHCCHHHHHH
Q ss_conf             88988358788999999999999998506798987398899998730355378899864277022204687354789999
Q gi|254780241|r   13 NFASFSRAKDLKSRIVFTIIALIVYRFGTYIPLPSIDFISYSKAFQSKSAGIFGLFNMFSGGAVERMAVFSLGIMPYISA   92 (444)
Q Consensus        13 ~~~~~~~~~el~~Kil~Tl~il~iyrlg~~IPlPGid~~~~~~~~~~~~~~~~~~l~~~sGga~~~~sif~LGI~PyItA   92 (444)
                      +++|+||+||||||++||++++++||+|++||+||+|.++++.   ++++++++++|+|+|||++++|+|+|||+|||||
T Consensus         4 ~~~~~~~~~elr~rilfTl~iL~iyrlG~~IPiPgid~~~~~~---~~~~~~l~~~n~fsGGa~~~~SiFaLGI~PYItA   80 (434)
T PRK12907          4 TISNFMRVAEIRRKILFTLAMLIVFRIGTFIPVPHTNAEVLKV---QDQANVLGMLNVFGGGALQHFSIFAVGITPYITA   80 (434)
T ss_pred             HHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHH---HCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHH
T ss_conf             8999975799999999999999999961618989959999944---4123599999974063375424999655889999


Q ss_pred             HHHHHHHHH-HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC--CCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             999999985-215478641146368999998869999999999999999723556--76225875047999999999999
Q gi|254780241|r   93 SIIVQLIAA-TVPSLENLKKEGEQGRKVINQYTRYATVLLGILQAYGIAVGLKNG--QGIVSDSDYFFVFSTIITLLGGT  169 (444)
Q Consensus        93 SIi~QLL~~-~~P~l~~l~kege~gr~ki~~~tr~ltl~~a~iQs~~~~~~l~~~--~~~~~~~~~~~~~~~il~L~aGs  169 (444)
                      ||+||||+. .+|+++||+||||+||||+++||||+|+++|++||++++.++++.  .....++++...+.++++|+|||
T Consensus        81 SIi~QLL~~~~~P~l~~l~keGe~Grkki~~~TR~lTl~la~iQs~~i~~~l~~~~~~~~~~~~~~~~~l~i~~~L~aGt  160 (434)
T PRK12907         81 SIIVQLLQMDVIPKFSEWAKQGEMGRKKSAQFTRYFTIILAFIQAIGMSYGFNNIAGGQLITDQSWTTYLFIATVLTAGT  160 (434)
T ss_pred             HHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEECCCHHHHHHHHHHHHHHH
T ss_conf             99999986261521899877478768999999999999999999999999862046764122661799999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCCHHHHCCCHHHHHHHHHHHHHHHHCCCCC-----CHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999874088987520362101465767887433332001232-----1589999999999999999988653323
Q gi|254780241|r  170 MFLVWLGEQITMRGIGNGVSLIIFSGIVAGLPSSLVSVLELGRVGSI-----STPLMLLIFSSTVAVIALVIFFERAQRR  244 (444)
Q Consensus       170 ~il~wl~e~It~~GIGnG~SLiI~~gIi~~lp~~l~~~~~~~~~~~~-----~~~~~l~~~~~~l~vi~~iV~v~~~~rr  244 (444)
                      +++||+||+|||||||||+|++||+||++++|+.+.+.+.....+..     .....+++..+++++++++|++|++|||
T Consensus       161 ~~lmWLge~IT~~GIGNG~SliIf~gIvs~lP~~i~~~~~~~~~~~~~~~~~~~i~~~l~~~~~l~ii~~iV~v~~a~rr  240 (434)
T PRK12907        161 AFLLWLGEQITANGVGNGISMLIFAGLVAAIPNVANQIYLQQFQNAGDQLFMHIIKMLLIGLVILAIVVGVIYIQQAVRK  240 (434)
T ss_pred             HHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999988997517688834777798876414999999999974145216899999999999999999999999998877


Q ss_pred             HHHCCCHHHCCCCCC-CCCCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCCHHHHHHH
Q ss_conf             210110121166423-5643114442000023799999999986888887507777247999887530667631699999
Q gi|254780241|r  245 LLIQYPKRQVGNRMF-QDDVSYLPLKLNTAGVVPSIFASSLLLLPATIMGFIDVSSSPTWIVGLVDSLGHGRSFYMVLYS  323 (444)
Q Consensus       245 IPi~y~~~~~~~~~~-~~~~sylPiKin~aGvmPiIfassll~~p~~i~~~~~~~~~~~~~~~~~~~~~~~~~~y~i~y~  323 (444)
                      ||+|||||..+++.+ +++++|+|+|+|+|||||+|||||++++|++++++++...   +..|+..++++++|+|.++|+
T Consensus       241 IPvqyak~~~~~~~~~g~~~sylPlKlN~aGVmPiIFAssll~~P~~i~~~~~~~~---~~~~~~~~~~~~~~~~~~~y~  317 (434)
T PRK12907        241 IPIQYAKAVSGNNQYQGAKNTHLPLKVNSAGVIPVIFASAFLMTPRTIAQLFPDSS---VSKWLVANLDFAHPIGMTLYV  317 (434)
T ss_pred             HHHHHHHHHCCCCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHCCCCH---HHHHHHHHHCCCCCHHHHHHH
T ss_conf             75652676347666567865035664155556389999999999999999857840---889999982789829999999


Q ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC--CC
Q ss_conf             9999999999862379899999999638844762798579999999999999999999999999999999984884--10
Q gi|254780241|r  324 VFIVFFAFFYTAIVFNPKEAADNLKKHGGFIPGIRPGDRTALHIDYVLTRVTVVGAGYLVCVCIFPEALIAVTGVP--VS  401 (444)
Q Consensus       324 ilii~Fs~f~~~i~~~P~~iAe~L~k~g~~IpGiRPG~~T~~yL~~v~~rit~~Ga~~l~~la~~p~~~~~~~~~~--~~  401 (444)
                      +++++|||||+++++||||+||||||+|+||||+||||+|++||+|+++|+|++||+||+++|++|.++....+.+  ..
T Consensus       318 ~LIi~FsyFyt~i~~nP~eiAenlkK~G~fIPGiRPG~~T~~YL~~vl~rit~~GaifL~~ia~lP~i~~~~~~~~~~~~  397 (434)
T PRK12907        318 GLIVAFTYFYAFIQVNPEQMAENLKKQNGYVPGIRPGKSTEQYVTKILYRLTFIGAIFLGAISILPLVFTKIATLPPSAQ  397 (434)
T ss_pred             HHHHHHHHHHHHHHCCHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCE
T ss_conf             99999999999982484789999997698588989986579999999989889879999999999999999837886642


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             0257999999999999999999999985265643110
Q gi|254780241|r  402 LSGTSLLIIVSVVLDTIVQIQGYLIAQQYEGVFKKSR  438 (444)
Q Consensus       402 ~gGTslLI~Vgv~l~~~~qi~a~~~~~~Y~~~~~~~~  438 (444)
                      +||||+||+|||++||+||+|||+.+|||||++||+|
T Consensus       398 ~GgTslLI~VgV~ldt~~Qi~s~l~~~~Y~g~lkk~~  434 (434)
T PRK12907        398 IGGTSLLIIVGVALETMKTLESQLVKRHYKGFIKKAN  434 (434)
T ss_pred             EHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             6132034555759989999999999998677750369


No 3  
>CHL00161 secY preprotein translocase subunit SecY; Validated
Probab=100.00  E-value=0  Score=903.44  Aligned_cols=413  Identities=38%  Similarity=0.643  Sum_probs=381.6

Q ss_pred             HHHHCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHCCHHHHHHHH
Q ss_conf             98835878899999999999999850679898739889999873035537889986427702220468735478999999
Q gi|254780241|r   15 ASFSRAKDLKSRIVFTIIALIVYRFGTYIPLPSIDFISYSKAFQSKSAGIFGLFNMFSGGAVERMAVFSLGIMPYISASI   94 (444)
Q Consensus        15 ~~~~~~~el~~Kil~Tl~il~iyrlg~~IPlPGid~~~~~~~~~~~~~~~~~~l~~~sGga~~~~sif~LGI~PyItASI   94 (444)
                      +|.||+||||||++||++++++||+|++||+||+|.+++++..  +++++++++|+|+|||++++|+|+|||+|||||||
T Consensus         2 ~~~~k~~elr~kilfTl~il~iyrlG~~IpiPGid~~~~~~~~--~~~~~~~~~~~fsGGal~~~sIFaLGI~PyItASI   79 (417)
T CHL00161          2 KQMITKDNLRKRLLTTLGLLLLIRLGTFIPVPGIDHDAFYQNI--SSNPLSNFLNIFSGGGFSTIGLFALGILPYINASI   79 (417)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHH--HCCCHHHHHHHHCCCCHHHHHHHHHCHHHHHHHHH
T ss_conf             5145449999999999999999997151888983999999887--34639999999706127541799946788999999


Q ss_pred             HHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             999998521547864114-6368999998869999999999999999723556762258750479999999999999999
Q gi|254780241|r   95 IVQLIAATVPSLENLKKE-GEQGRKVINQYTRYATVLLGILQAYGIAVGLKNGQGIVSDSDYFFVFSTIITLLGGTMFLV  173 (444)
Q Consensus        95 i~QLL~~~~P~l~~l~ke-ge~gr~ki~~~tr~ltl~~a~iQs~~~~~~l~~~~~~~~~~~~~~~~~~il~L~aGs~il~  173 (444)
                      +||||+..+|.++||||| ||+||||+++||||+|+++|++||++++.+++.   ...+++..+.+.++++|+|||+++|
T Consensus        80 I~QLL~~~~P~L~~l~ke~Ge~Grkki~~~tR~lTl~la~iQs~~~~~~l~~---~~~~~~~~~~~~~vl~LtaGt~~lm  156 (417)
T CHL00161         80 IMQLLTKIIPSLEKLQKEEGELGRRKINKLTRYLTLGWALIQSIAISFWLKP---YAFNWNLLLVFEIVLALTTGAMIVM  156 (417)
T ss_pred             HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             9999998746599864303687899999999999999999999999998778---7458648999999999999999999


Q ss_pred             HHHHHHHHCCCCCCCHHHHCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHH
Q ss_conf             99998740889875203621014657678874333320012321589999999999999999988653323210110121
Q gi|254780241|r  174 WLGEQITMRGIGNGVSLIIFSGIVAGLPSSLVSVLELGRVGSISTPLMLLIFSSTVAVIALVIFFERAQRRLLIQYPKRQ  253 (444)
Q Consensus       174 wl~e~It~~GIGnG~SLiI~~gIi~~lp~~l~~~~~~~~~~~~~~~~~l~~~~~~l~vi~~iV~v~~~~rrIPi~y~~~~  253 (444)
                      |+||+|||||||||+|++|++||++++|+++.+.+.... ++......++.++.++++++++|++|++|||||+|||||.
T Consensus       157 WLge~IT~~GIGNG~SliIf~gIv~~~p~~i~~~~~~~~-~~~~~~~~~~~~~~~~~~i~~vV~~~~a~rrIPv~yak~~  235 (417)
T CHL00161        157 WLSELITEKGIGNGASLLIFINIVSGLPKNIKQKISEAN-LSITLISGLLLILLFLITILGIIFLQEGVRKIPIISAKQL  235 (417)
T ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCC-CCCHHHHHHHHHHHHHHHHHHHHHHHECCEEEEEEEHHHH
T ss_conf             999899864958881899999999987999999998505-6303899999999999999999742130242334547665


Q ss_pred             CCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             16642356431144420000237999999999868888875077772479998875306676316999999999999999
Q gi|254780241|r  254 VGNRMFQDDVSYLPLKLNTAGVVPSIFASSLLLLPATIMGFIDVSSSPTWIVGLVDSLGHGRSFYMVLYSVFIVFFAFFY  333 (444)
Q Consensus       254 ~~~~~~~~~~sylPiKin~aGvmPiIfassll~~p~~i~~~~~~~~~~~~~~~~~~~~~~~~~~y~i~y~ilii~Fs~f~  333 (444)
                      .+++.+ ++++|+|+|+|+|||||+|||||++++|++++++.... ...|..+..+.+++++|+|.++|++++++|||||
T Consensus       236 ~~~~~~-~~~sylPiKvN~aGVmPiIFAssll~~P~~i~~~~~~~-~~~~~~~~~~~~~~~~~~y~~~y~~LIi~Ft~Fy  313 (417)
T CHL00161        236 GKSSSL-ASNSYLPLRLNQGGVMPIIFASALLVLPLYIANLGLLK-ILLPVLYLFLPFKPNKILYWILYFVLILFFSYFY  313 (417)
T ss_pred             CCCCCC-CCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHCCCC-CHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHH
T ss_conf             456656-86412556543445648999999999999999975885-1378999985147887299999999999999999


Q ss_pred             HHHCCCHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC--CCHHHHHHHHH
Q ss_conf             8623798999999996388447627985799999999999999999999999999999999848841--00257999999
Q gi|254780241|r  334 TAIVFNPKEAADNLKKHGGFIPGIRPGDRTALHIDYVLTRVTVVGAGYLVCVCIFPEALIAVTGVPV--SLSGTSLLIIV  411 (444)
Q Consensus       334 ~~i~~~P~~iAe~L~k~g~~IpGiRPG~~T~~yL~~v~~rit~~Ga~~l~~la~~p~~~~~~~~~~~--~~gGTslLI~V  411 (444)
                      +++++||||+||||||+|+||||+||||+|++||+++++|+|++||+||+++|++|++++..++.+.  .+||||+||+|
T Consensus       314 t~i~~nP~eiAenl~k~G~~IpGiRPG~~T~~yL~~vl~rit~~GaifL~iia~~P~~~~~~~~~~~~~~~ggTslLI~V  393 (417)
T CHL00161        314 SSLVLNPKDISENLKKMAVSIPGIRPGKETTKYLEKVLNRLTFLGALFLAFIALLPNIVEFVLNLSIFKGLGATSLLILV  393 (417)
T ss_pred             HHHHCCHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHH
T ss_conf             99716899999999986981789899866899999999999999899999999999999998198622654253556568


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999999999999999985265643
Q gi|254780241|r  412 SVVLDTIVQIQGYLIAQQYEGVFK  435 (444)
Q Consensus       412 gv~l~~~~qi~a~~~~~~Y~~~~~  435 (444)
                      ||++||+||+|||+.|||||++++
T Consensus       394 gV~ldt~~qI~s~l~~~~Y~g~l~  417 (417)
T CHL00161        394 GVAIDTTRQIQTYVISNNYENMRD  417 (417)
T ss_pred             HHHHHHHHHHHHHHHHHHCCHHCC
T ss_conf             979989999999999965003119


No 4  
>TIGR00967 3a0501s007 preprotein translocase, SecY subunit; InterPro: IPR002208   Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component. . From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins. The translocase protein subunits are encoded on the bacterial chromosome.     The translocase itself comprises 7 proteins, including a chaperone protein (SecB), an ATPase (SecA), an integral membrane complex (SecCY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) . The chaperone protein SecB  is a highly acidic homotetrameric protein that exists as a "dimer of dimers" in the bacterial cytoplasm. SecB maintains preproteins in an unfolded state after translation, and targets these to the peripheral membrane protein ATPase SecA for secretion . The structure of the Escherichia coli SecYEG assembly revealed a sandwich of two membranes interacting through the extensive cytoplasmic domains . Each membrane is composed of dimers of SecYEG. The monomeric complex contains 15 transmembrane helices.    The eubacterial secY protein  interacts with the signal sequences of secretory proteins as well as with two other components of the protein translocation system: secA and secE. SecY is an integral plasma membrane protein of 419 to 492 amino acid residues that apparently contains 10 transmembrane (TM), 6 cytoplasmic and 5 periplasmic regions.    Cytoplasmic regions 2 and 3, and TM domains 1, 2, 4, 5, 7 and 10 are well conserved: the conserved cytoplasmic regions are believed to interact with cytoplasmic secretion factors, while the TM domains may participate in protein export . Homologs of secY are found in archaebacteria . SecY is also encoded in the chloroplast genome of some algae  where it could be involved in a prokaryotic-like protein export system across the two membranes of the chloroplast endoplasmic reticulum (CER) which is present in chromophyte and cryptophyte algae.; GO: 0015450 P-P-bond-hydrolysis-driven protein transmembrane transporter activity, 0009306 protein secretion, 0016020 membrane.
Probab=100.00  E-value=0  Score=873.14  Aligned_cols=407  Identities=47%  Similarity=0.844  Sum_probs=367.5

Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCC-CHHHHHHHHCCCCHHHHHHHHHCCHHHHHHHHHHHHHHHH
Q ss_conf             999999999999998506798987398899998730355-3788998642770222046873547899999999999852
Q gi|254780241|r   24 KSRIVFTIIALIVYRFGTYIPLPSIDFISYSKAFQSKSA-GIFGLFNMFSGGAVERMAVFSLGIMPYISASIIVQLIAAT  102 (444)
Q Consensus        24 ~~Kil~Tl~il~iyrlg~~IPlPGid~~~~~~~~~~~~~-~~~~~l~~~sGga~~~~sif~LGI~PyItASIi~QLL~~~  102 (444)
                      |+|++||+++|++||+|+|||+||||.++.++..+++.+ ++++++|+|+||++.++|+|+|||+||||||||||||+++
T Consensus         1 r~r~l~T~~~L~l~R~G~~IP~PG~~~~~~~~~~~~~~~~g~~~~ln~f~Gg~~~~~sifALGI~PYItASIi~QLL~~~   80 (489)
T TIGR00967         1 RERLLFTLGLLVLFRLGTFIPVPGIDAQAFQNSIQQNPSRGIFGLLNTFSGGALGQISIFALGISPYITASIILQLLTGD   80 (489)
T ss_pred             CHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             93799999999999996025777643777766530365751889999850231444354553104378899999999987


Q ss_pred             HHHHHHH-HCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHCCC-------CCCCCCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             1547864-1146368999998869999999999999999-72355-------6762258750479999999999999999
Q gi|254780241|r  103 VPSLENL-KKEGEQGRKVINQYTRYATVLLGILQAYGIA-VGLKN-------GQGIVSDSDYFFVFSTIITLLGGTMFLV  173 (444)
Q Consensus       103 ~P~l~~l-~kege~gr~ki~~~tr~ltl~~a~iQs~~~~-~~l~~-------~~~~~~~~~~~~~~~~il~L~aGs~il~  173 (444)
                      +|+++++ +||||+||||++++|||+|+++|++||.+++ .+.+.       ....+.|++..+++.++++|++||+++|
T Consensus        81 v~~~~~~~~~ege~GR~K~~~~Try~tl~~A~~Qs~~~~~~~~~~gLf~~~~~~~~~~~~~~~~~~~~~~~Lt~Gs~~~m  160 (489)
T TIGR00967        81 VPPLLTLQKKEGEIGRRKINQLTRYLTLILALIQSLGIVATGISPGLFNNMSSGGYVINPGLFFYLLIVIALTTGSMIVM  160 (489)
T ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             88887405465856699997657999999999999999999863431256556764333348999999999999899999


Q ss_pred             HHHHHHHH-CCCCCCCHHHHCCCHHHHHHHHHHHHHHH-----------------------HCCCCC------CHHHHHH
Q ss_conf             99998740-88987520362101465767887433332-----------------------001232------1589999
Q gi|254780241|r  174 WLGEQITM-RGIGNGVSLIIFSGIVAGLPSSLVSVLEL-----------------------GRVGSI------STPLMLL  223 (444)
Q Consensus       174 wl~e~It~-~GIGnG~SLiI~~gIi~~lp~~l~~~~~~-----------------------~~~~~~------~~~~~l~  223 (444)
                      ||||+||| ||||||+||+||+||++++|+.+.+.++.                       ...+..      ......+
T Consensus       161 wl~E~It~G~GiGnGiSl~If~gI~~~iP~~l~~~~~~n~g~G~~y~w~~~~~f~lla~~~~~~~~~~~~~~~~~l~~~~  240 (489)
T TIGR00967       161 WLGEQITEGKGIGNGISLLIFAGIVATIPSALLQTYEVNNGEGIEYEWALIALFHLLAGIQSKVGDLANAFYRAWLSFLL  240 (489)
T ss_pred             HHHHHHHCCEEEECCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHH
T ss_conf             99867635812204048999999999989987642015665750200087875123320000114300245788999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCCHHHCCCCCC--CCCCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHCCCCCH
Q ss_conf             999999999999988653323210110121166423--564311444200002379999999998688888750777724
Q gi|254780241|r  224 IFSSTVAVIALVIFFERAQRRLLIQYPKRQVGNRMF--QDDVSYLPLKLNTAGVVPSIFASSLLLLPATIMGFIDVSSSP  301 (444)
Q Consensus       224 ~~~~~l~vi~~iV~v~~~~rrIPi~y~~~~~~~~~~--~~~~sylPiKin~aGvmPiIfassll~~p~~i~~~~~~~~~~  301 (444)
                      .+.+++++++++||+|+++|||||||||++.+++.+  +++++|+|+|+|||||||||||||++.+|.+++++.......
T Consensus       241 ~~~~~~~~~~~vvf~~~~~R~iPi~~ak~~~~~~~~~~~~~~~~lPlKln~aGViPvIFASa~~~~p~~i~~~~~~~~~~  320 (489)
T TIGR00967       241 VLLATVAVIAVVVFVQQARRKIPIQSAKRQGGRRSYERGSQSTYLPLKLNQAGVIPVIFASALLSLPATIAQFLNSNQGS  320 (489)
T ss_pred             HHHHHHHHHHHHHHHCCCEEEEEEEECCEECCCCCCCCCCCCCCCCEEEECCCCHHHHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf             99999999998875301377875543662034432000345300436873666304899999999999999975202565


Q ss_pred             --------------------HHHHHHHHH---CC------CCCCHHHHHH----HHHHHHHHHHHHH-HCCCHHHHHHHH
Q ss_conf             --------------------799988753---06------6763169999----9999999999986-237989999999
Q gi|254780241|r  302 --------------------TWIVGLVDS---LG------HGRSFYMVLY----SVFIVFFAFFYTA-IVFNPKEAADNL  347 (444)
Q Consensus       302 --------------------~~~~~~~~~---~~------~~~~~y~i~y----~ilii~Fs~f~~~-i~~~P~~iAe~L  347 (444)
                                          +|..|+.+.   ++      +++|+|.++|    +++|++|||||++ +++||||+||||
T Consensus       321 nl~~lLG~y~~~G~~~~~a~gg~~~~~~~~~~~~WmWW~~~~~~~~~~~Y~~~m~~lI~~F~~fY~~t~~~NP~~~A~Nl  400 (489)
T TIGR00967       321 NLIALLGTYEISGTVNGRAVGGLAWFLNLILSLSWMWWEVLSKPLGIILYIIFMLILIIFFSYFYAETLQLNPEDLAKNL  400 (489)
T ss_pred             CCHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHEEECCHHHHHHHH
T ss_conf             32100220047846795003678888751200670154113316899999999999999977665520344889999999


Q ss_pred             HHCCCCCCCCCCCHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-CC--CCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             963884476279857-99999999999999999999999999999999848-84--100257999999999999999999
Q gi|254780241|r  348 KKHGGFIPGIRPGDR-TALHIDYVLTRVTVVGAGYLVCVCIFPEALIAVTG-VP--VSLSGTSLLIIVSVVLDTIVQIQG  423 (444)
Q Consensus       348 ~k~g~~IpGiRPG~~-T~~yL~~v~~rit~~Ga~~l~~la~~p~~~~~~~~-~~--~~~gGTslLI~Vgv~l~~~~qi~a  423 (444)
                      ||+|++|||+||||+ |+|||+|+++|+|++||+||+++|++|++++..++ +|  ..+||||+||+|||++||++|+|+
T Consensus       401 kk~G~~IPG~RpG~~~T~~yl~~~l~RLt~~Gs~fLg~ia~~P~~~~~~~~~lp~~~~lGGTSlLI~VgVa~~t~~q~~~  480 (489)
T TIGR00967       401 KKQGMFIPGIRPGKEVTEKYLKRVLNRLTFVGSLFLGLIAILPNFLEAIGGVLPQSKGLGGTSLLIVVGVAIDTMKQLES  480 (489)
T ss_pred             HHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             65386438645865799999976633578999999999999999999988642001122248999999999999999999


Q ss_pred             HHHHHH--H
Q ss_conf             999985--2
Q gi|254780241|r  424 YLIAQQ--Y  430 (444)
Q Consensus       424 ~~~~~~--Y  430 (444)
                      |+..++  |
T Consensus       481 ~~~~~n~~y  489 (489)
T TIGR00967       481 YLISRNSEY  489 (489)
T ss_pred             HHHHHHCCC
T ss_conf             987642059


No 5  
>COG0201 SecY Preprotein translocase subunit SecY [Intracellular trafficking and secretion]
Probab=100.00  E-value=0  Score=851.35  Aligned_cols=420  Identities=49%  Similarity=0.834  Sum_probs=386.5

Q ss_pred             CCCCHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHCCHHH
Q ss_conf             12588988358788999999999999998506798987398899998730355378899864277022204687354789
Q gi|254780241|r   10 SNLNFASFSRAKDLKSRIVFTIIALIVYRFGTYIPLPSIDFISYSKAFQSKSAGIFGLFNMFSGGAVERMAVFSLGIMPY   89 (444)
Q Consensus        10 ~~~~~~~~~~~~el~~Kil~Tl~il~iyrlg~~IPlPGid~~~~~~~~~~~~~~~~~~l~~~sGga~~~~sif~LGI~Py   89 (444)
                      -...+++.+|.||+|||++||++++++||+|++||+||+|.++..+.++++..  ..++|+|+|||++|+|+|+|||+||
T Consensus         6 ~~~~~~~~~~~~~l~kr~~fT~~~Livyrigs~IPvpGi~~~~~~~~~~~~~~--~~~~n~~~GGal~~~SIfaLGI~Py   83 (436)
T COG0201           6 LPEVLSPKFKVPELRKRILFTLGALIVYRIGSFIPVPGINPAALSDLFNSQRF--LILFNMFSGGALSRGSIFALGIMPY   83 (436)
T ss_pred             HHHHHCCHHCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHH--HHHHHHHCCCCCCCCHHHHHCCHHH
T ss_conf             67875501024889999999999999999807286898887899988886455--6888986165513464999755889


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC--CCCCCCCCCHHHHHHHHHHHH
Q ss_conf             999999999985215478641146368999998869999999999999999723556--762258750479999999999
Q gi|254780241|r   90 ISASIIVQLIAATVPSLENLKKEGEQGRKVINQYTRYATVLLGILQAYGIAVGLKNG--QGIVSDSDYFFVFSTIITLLG  167 (444)
Q Consensus        90 ItASIi~QLL~~~~P~l~~l~kege~gr~ki~~~tr~ltl~~a~iQs~~~~~~l~~~--~~~~~~~~~~~~~~~il~L~a  167 (444)
                      ||||||||||+...|.++||+||||+||||+|++|||+|+++|++||++++.++.+.  .+...+.+..+++.++++|++
T Consensus        84 ITASII~QLL~~~~p~l~~l~k~~e~gR~k~~~~tRyltlvla~iQa~~~~~~~~~~~~~~~~~~~~~~~~~l~il~L~~  163 (436)
T COG0201          84 ITASIIMQLLTVGSPILKKLDKEGEEGRRKIQQYTRYLTLVLAVIQALGVVLGGNNGGSPSDVGNGGIFFYLLIILQLTA  163 (436)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHH
T ss_conf             89999999999877889998734854299999999999999999999999987103577653456513799999999999


Q ss_pred             HHHHHHHHHHHHHHCCCCCCCHHHHCCCHHHHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999999999987408898752036210146576788743333200123--215899999999999999999886533232
Q gi|254780241|r  168 GTMFLVWLGEQITMRGIGNGVSLIIFSGIVAGLPSSLVSVLELGRVGS--ISTPLMLLIFSSTVAVIALVIFFERAQRRL  245 (444)
Q Consensus       168 Gs~il~wl~e~It~~GIGnG~SLiI~~gIi~~lp~~l~~~~~~~~~~~--~~~~~~l~~~~~~l~vi~~iV~v~~~~rrI  245 (444)
                      ||+++|||||+|||||||||+||+|++||++++|+.+.+.++....+.  .+....++.++.+++++.++||+|+++|||
T Consensus       164 Gt~~lmwLgE~Itk~GIGnGiSLiIfagI~~~lp~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~ii~~vvyve~~~r~I  243 (436)
T COG0201         164 GTMFLMWLGEQITKRGIGNGISLIIFAGIVASLPSAIFGIIGALPTGALFLSILFLLLLVLLTLAIIFLVVYVEQARRRI  243 (436)
T ss_pred             HHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHEEEEE
T ss_conf             99999999988860484654599999999987489999899998613158889999999999999999999750007886


Q ss_pred             HHCCCHHHCCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHCCCCC---HHHHHHHHHHCCCCCCHHHHHH
Q ss_conf             1011012116642356431144420000237999999999868888875077772---4799988753066763169999
Q gi|254780241|r  246 LIQYPKRQVGNRMFQDDVSYLPLKLNTAGVVPSIFASSLLLLPATIMGFIDVSSS---PTWIVGLVDSLGHGRSFYMVLY  322 (444)
Q Consensus       246 Pi~y~~~~~~~~~~~~~~sylPiKin~aGvmPiIfassll~~p~~i~~~~~~~~~---~~~~~~~~~~~~~~~~~y~i~y  322 (444)
                      |+||+||+    .++++++|+|+|+|||||||+|||||++++|.+++++++.+..   ..|..++.+.+.++.|.|+.+|
T Consensus       244 PI~y~~~~----~~~g~~s~lPlKln~agvIPvIfassll~~p~~i~~~l~~~~~~~~~~~~~~i~~~l~~~~~~y~~~y  319 (436)
T COG0201         244 PIQYAKRQ----SYRGQSSYLPLKLNYAGVIPVIFASSLLLFPSTIAQFLGNGGLAYYLSPLTSISDALSPGSPVYIALY  319 (436)
T ss_pred             EHHHHHHH----HCCCCCCEEEEEEECCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHCCCCHHHHHHH
T ss_conf             34543544----14786744315752457758999999999999999982777632115634668976067869999999


Q ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             99999999999862379899999999638844762798579999999999999999999999999999999984884100
Q gi|254780241|r  323 SVFIVFFAFFYTAIVFNPKEAADNLKKHGGFIPGIRPGDRTALHIDYVLTRVTVVGAGYLVCVCIFPEALIAVTGVPVSL  402 (444)
Q Consensus       323 ~ilii~Fs~f~~~i~~~P~~iAe~L~k~g~~IpGiRPG~~T~~yL~~v~~rit~~Ga~~l~~la~~p~~~~~~~~~~~~~  402 (444)
                      ++++++|||||+++++||||+||||||+|+||||+||||+|+|||+|+++|+|++||+|++++|++|++++...+.+..+
T Consensus       320 ~~lii~Fs~Fy~~i~~np~~~A~~lkksG~~IPGiRpg~~te~yL~rvi~rlt~~Ga~~l~~iailp~l~~~~~~~~~~~  399 (436)
T COG0201         320 VVLIIFFSYFYTEIQFNPEEIAENLKKSGGFIPGIRPGKDTEKYLNRVIPRLTFIGALFLGLIAILPELLGTAGGVPFYF  399 (436)
T ss_pred             HHHHHHHHHHHHHHHCCHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC
T ss_conf             99999999999998329999999999769928884997247999999999999999999999999999999850776033


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             257999999999999999999999985265643
Q gi|254780241|r  403 SGTSLLIIVSVVLDTIVQIQGYLIAQQYEGVFK  435 (444)
Q Consensus       403 gGTslLI~Vgv~l~~~~qi~a~~~~~~Y~~~~~  435 (444)
                      ||||+||+|||++|+++|+|+|+.+++|+++.+
T Consensus       400 gGTslLI~V~V~l~~~~qi~~~l~~~~Y~~~~~  432 (436)
T COG0201         400 GGTSLLIVVGVALDTYEQIEAELLMEKYPGLRR  432 (436)
T ss_pred             CCCEEEEEHHHHHHHHHHHHHHHHHHHCHHHHH
T ss_conf             670024006999999999999999851665775


No 6  
>PRK12417 secY preprotein translocase subunit SecY; Reviewed
Probab=100.00  E-value=0  Score=826.51  Aligned_cols=395  Identities=21%  Similarity=0.383  Sum_probs=353.0

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHCCHHHHHHHHH
Q ss_conf             88358788999999999999998506798987398899998730355378899864277022204687354789999999
Q gi|254780241|r   16 SFSRAKDLKSRIVFTIIALIVYRFGTYIPLPSIDFISYSKAFQSKSAGIFGLFNMFSGGAVERMAVFSLGIMPYISASII   95 (444)
Q Consensus        16 ~~~~~~el~~Kil~Tl~il~iyrlg~~IPlPGid~~~~~~~~~~~~~~~~~~l~~~sGga~~~~sif~LGI~PyItASIi   95 (444)
                      ++||+||||||++||++++++||+|++||+||+|.+++.+    +++++++++|+|+|||++|+|+|+|||+|||||||+
T Consensus         2 ~~f~~~eLrkrilfTl~il~iyRlG~~IpiPgi~~~~~~~----~~~~~~~~~~~fsGGal~~~siFaLGI~PYItASII   77 (399)
T PRK12417          2 KKFEYKIIYKKILFTCFILFIYILGSNISIPFVSYNDMQG----GDESFFKLAISNMGGNLRTLNIFSLGLGPWMTSMII   77 (399)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHH----CCCCHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_conf             7430089999999999999999953626899939999964----065699999998521187749999168889999999


Q ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99998521547864114636899999886999999999999999972355676225875047999999999999999999
Q gi|254780241|r   96 VQLIAATVPSLENLKKEGEQGRKVINQYTRYATVLLGILQAYGIAVGLKNGQGIVSDSDYFFVFSTIITLLGGTMFLVWL  175 (444)
Q Consensus        96 ~QLL~~~~P~l~~l~kege~gr~ki~~~tr~ltl~~a~iQs~~~~~~l~~~~~~~~~~~~~~~~~~il~L~aGs~il~wl  175 (444)
                      ||||+.     .+++++++++|++.+++|||+|+++|++||++++.++.+..    ..+....+.++++|+|||+++||+
T Consensus        78 ~QLLt~-----~~~~~~~~~~~~~~~~~~rylTv~la~iQs~~~~~~~~~~~----~~~~~~~~~~~~~L~aGt~~lmWL  148 (399)
T PRK12417         78 LMLFSY-----RKRDKYMKQTSEEQHYRERILTLIIAVIQSLAVIHSYPSKE----GVSQTNILLTTLILVTGTYLLVWL  148 (399)
T ss_pred             HHHHHC-----HHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHCCCC----CCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf             999806-----22346567403332322489999999999999998720336----765027999999999999999999


Q ss_pred             HHHHHHCCCCCCCHHHHCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHCC
Q ss_conf             99874088987520362101465767887433332001232158999999999999999998865332321011012116
Q gi|254780241|r  176 GEQITMRGIGNGVSLIIFSGIVAGLPSSLVSVLELGRVGSISTPLMLLIFSSTVAVIALVIFFERAQRRLLIQYPKRQVG  255 (444)
Q Consensus       176 ~e~It~~GIGnG~SLiI~~gIi~~lp~~l~~~~~~~~~~~~~~~~~l~~~~~~l~vi~~iV~v~~~~rrIPi~y~~~~~~  255 (444)
                      ||+||||||| |+|++|++||++++|+++.+.++...      ....+.....++++.++|++|++|||||+||+++..+
T Consensus       149 gE~IT~kGIG-G~SliI~~gIi~~~p~~~~~~~~~~~------~~~~l~~~~~~v~i~~iv~~~~a~rrIPv~~~~~~~~  221 (399)
T PRK12417        149 ADLNARYGIG-GPMPIVMVSMIKSIFNDIMEYIDASH------IVIALLILLTLIALYLLLFIERSEYRIPYNDIMNHNR  221 (399)
T ss_pred             HHHHHHCCCC-CCHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHEEEEEEEEEEEEEHHHHHCC
T ss_conf             8999834667-60599999999987999999999888------9999999999999998401361688876212434325


Q ss_pred             CCCCCCCCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHCCCC-CHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             64235643114442000023799999999986888887507777-24799988753066763169999999999999998
Q gi|254780241|r  256 NRMFQDDVSYLPLKLNTAGVVPSIFASSLLLLPATIMGFIDVSS-SPTWIVGLVDSLGHGRSFYMVLYSVFIVFFAFFYT  334 (444)
Q Consensus       256 ~~~~~~~~sylPiKin~aGvmPiIfassll~~p~~i~~~~~~~~-~~~~~~~~~~~~~~~~~~y~i~y~ilii~Fs~f~~  334 (444)
                      ++.    .+|+|+|+|+|||||+|||||++++|++++++++... ...+..++.+++++++|+|.++|++++++|||||+
T Consensus       222 ~~~----~sylPlKvN~aGVmPiIFAssll~~P~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~iLIi~FtyFyt  297 (399)
T PRK12417        222 FKM----YSYLSIKVNPAGGIPIMYSMSLFVFPQYIIILILSIFPNNKGISDDMPMLSFGSPVGISVYLVLQMLLSYFFS  297 (399)
T ss_pred             CCC----CEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHH
T ss_conf             786----2156675245553189999999999999999951347774389999997189984799999999999999999


Q ss_pred             HHCCCHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CCCCHHHHHHHHHH
Q ss_conf             6237989999999963884476279857999999999999999999999999999999998488--41002579999999
Q gi|254780241|r  335 AIVFNPKEAADNLKKHGGFIPGIRPGDRTALHIDYVLTRVTVVGAGYLVCVCIFPEALIAVTGV--PVSLSGTSLLIIVS  412 (444)
Q Consensus       335 ~i~~~P~~iAe~L~k~g~~IpGiRPG~~T~~yL~~v~~rit~~Ga~~l~~la~~p~~~~~~~~~--~~~~gGTslLI~Vg  412 (444)
                      ++++||+|+||||||+|+||||+||||+|++||+|+++|+|++||+||+++|++|.++....+.  ...+||||+||+||
T Consensus       298 ~i~~nP~~iAenLkK~G~fIpGIRPG~~T~~YL~~vl~rit~~GaifLaiia~lP~~~~~~~~~~~~~~~ggtslLI~Vg  377 (399)
T PRK12417        298 FVLINTKQISKRMLKSGNYIEGIYPGKDTERYLNKIARRFCWFGGFFVAVIIGIPLYFTLFVPHLLTEIYFSGQFMVFVG  377 (399)
T ss_pred             HHHCCHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHEEEEE
T ss_conf             95118999999999779858898998647999999999999977999999999889999962420343332347178774


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999999999999998526564
Q gi|254780241|r  413 VVLDTIVQIQGYLIAQQYEGVF  434 (444)
Q Consensus       413 v~l~~~~qi~a~~~~~~Y~~~~  434 (444)
                      |++||+||+|||+.||||||++
T Consensus       378 Valdt~~Qies~l~~~~Y~gfl  399 (399)
T PRK12417        378 MSFNIADEIRTYLYFDKYKPLL  399 (399)
T ss_pred             EEHHHHHHHHHHHHHHHCCCCC
T ss_conf             3061899999999996427559


No 7  
>PRK08568 preprotein translocase subunit SecY; Reviewed
Probab=100.00  E-value=0  Score=776.79  Aligned_cols=394  Identities=24%  Similarity=0.338  Sum_probs=335.0

Q ss_pred             HHCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHCCHHHHHHHHHH
Q ss_conf             83587889999999999999985067989873988999987303553788998642770222046873547899999999
Q gi|254780241|r   17 FSRAKDLKSRIVFTIIALIVYRFGTYIPLPSIDFISYSKAFQSKSAGIFGLFNMFSGGAVERMAVFSLGIMPYISASIIV   96 (444)
Q Consensus        17 ~~~~~el~~Kil~Tl~il~iyrlg~~IPlPGid~~~~~~~~~~~~~~~~~~l~~~sGga~~~~sif~LGI~PyItASIi~   96 (444)
                      -.|+++||||++||++++++||+|+|||+||||.         ++.|.++++|+|+||+.  .|+|+|||+|||||||||
T Consensus        20 p~~~~~Lr~kilfTl~~l~vyrigs~IP~pGi~~---------~~~~~~~~~~~~~gga~--~SifaLGI~PyItASIIm   88 (466)
T PRK08568         20 PERHVPFKEKLKWTAIVLILYFILTNIPLYGISQ---------ASQDLFELLRIIFAGAF--GTLLTLGIGPIVTAGIIL   88 (466)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCC---------CCCCHHHHHHHHHCCHH--HHHHHHCCHHHHHHHHHH
T ss_conf             9999988889999999999999805788999795---------75577899999866604--389993959999999999


Q ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99985215478641146368999998869999999999999999723556762258750479999999999999999999
Q gi|254780241|r   97 QLIAATVPSLENLKKEGEQGRKVINQYTRYATVLLGILQAYGIAVGLKNGQGIVSDSDYFFVFSTIITLLGGTMFLVWLG  176 (444)
Q Consensus        97 QLL~~~~P~l~~l~kege~gr~ki~~~tr~ltl~~a~iQs~~~~~~l~~~~~~~~~~~~~~~~~~il~L~aGs~il~wl~  176 (444)
                      |||+  .|++++||||||+||||+|++|||+|+++|++||.+++.+..............+.+.++++|++||+++||+|
T Consensus        89 QLL~--~~~l~~l~~~geeGR~ki~~~tR~ltv~la~iQa~~~~~~~~~~~~~~~~~~~~~~~~ii~~L~aGt~~lmwLg  166 (466)
T PRK08568         89 QLLV--GSKLINLDLSDPEDRAKFQGLQKLLAIVMIALEAAPFVLGGAFGPPTPLLAAGGIALLIFLQLALGGILIILLD  166 (466)
T ss_pred             HHHH--HCHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             9987--33076665437546999999999999999999999999988504666552048899999999999999999999


Q ss_pred             HHHHHCCCCCCCHHHHCCCHHHHHHHHHHHHHHHHCCCC----------------CC------------HHHHHHHHHHH
Q ss_conf             987408898752036210146576788743333200123----------------21------------58999999999
Q gi|254780241|r  177 EQITMRGIGNGVSLIIFSGIVAGLPSSLVSVLELGRVGS----------------IS------------TPLMLLIFSST  228 (444)
Q Consensus       177 e~It~~GIGnG~SLiI~~gIi~~lp~~l~~~~~~~~~~~----------------~~------------~~~~l~~~~~~  228 (444)
                      |+|||||||||+||+|++||++++++++.+.........                ..            ....++.+..+
T Consensus       167 E~Ite~GIGNGiSLiIfagI~~~l~~~~~~~~~~~~~~~~~g~ip~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~li~~  246 (466)
T PRK08568        167 ELVSKWGIGSGISLFIAAGVSQQIFVGLFNWLTVPGGNLPVGFIPALIYAITSGNLTLAILLGGSGRNFLLPDLLGLIAT  246 (466)
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             88751181630899999999999888742533345554400389999999997301157999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCHHHCCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHCCCC--------C
Q ss_conf             99999999886533232101101211664235643114442000023799999999986888887507777--------2
Q gi|254780241|r  229 VAVIALVIFFERAQRRLLIQYPKRQVGNRMFQDDVSYLPLKLNTAGVVPSIFASSLLLLPATIMGFIDVSS--------S  300 (444)
Q Consensus       229 l~vi~~iV~v~~~~rrIPi~y~~~~~~~~~~~~~~sylPiKin~aGvmPiIfassll~~p~~i~~~~~~~~--------~  300 (444)
                      ++++..++|+|+++||||++|+|       ++++++|+|+|+|+|||||+||||++++.|.++++++....        .
T Consensus       247 v~v~~~vvy~~~~~~~IPv~~~~-------~~g~~~~iPlKln~aGViPiIFAssll~~~~~~~~~~~~~~~~~~~~~~~  319 (466)
T PRK08568        247 ILVFLLVVYLESMRVEIPLAHGR-------VRGARGRYPLKFIYVSVLPVILVRALQANIQLFGQLLQSIGIPILGTYSG  319 (466)
T ss_pred             HHHHHEEEEEECCEEEECCCCCC-------CCCCCCEECEEECCCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHCCC
T ss_conf             99885167640114651123343-------47877501314304464469999999986999999988603056653057


Q ss_pred             HHHHHHHHHHCCCCC------------CHHHHHHHHHHHHHHHHHHHHC-CCHHHHHHHHHHCCCCCCCCCCCHHH-HHH
Q ss_conf             479998875306676------------3169999999999999998623-79899999999638844762798579-999
Q gi|254780241|r  301 PTWIVGLVDSLGHGR------------SFYMVLYSVFIVFFAFFYTAIV-FNPKEAADNLKKHGGFIPGIRPGDRT-ALH  366 (444)
Q Consensus       301 ~~~~~~~~~~~~~~~------------~~y~i~y~ilii~Fs~f~~~i~-~~P~~iAe~L~k~g~~IpGiRPG~~T-~~y  366 (444)
                      .++..++..++++..            .+|.++|++++++|+|||+.++ +||||+||||||+|++|||+|||++| ++|
T Consensus       320 ~~~~~gi~~y~~p~~~~~~~~~~p~~~~~Y~~~~~~l~i~Fs~fy~~i~~~nP~~iAenLkk~G~~IPGiRpg~~t~e~y  399 (466)
T PRK08568        320 GQPVSGLVYYLSPPNSIYDWIADPLRAVIYALFMIVLSILFAIFWVETAGLDAKDQARQLQNSGMQIPGFRRSPKVIEKV  399 (466)
T ss_pred             CCCCHHHHHHHCCCCCHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCCCCCCHHHH
T ss_conf             78617899985787634566523057899999999999999999999827898999999998698165689996409999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999999999999999999999999999848841002579999999999999999999999852656431
Q gi|254780241|r  367 IDYVLTRVTVVGAGYLVCVCIFPEALIAVTGVPVSLSGTSLLIIVSVVLDTIVQIQGYLIAQQYEGVFKK  436 (444)
Q Consensus       367 L~~v~~rit~~Ga~~l~~la~~p~~~~~~~~~~~~~gGTslLI~Vgv~l~~~~qi~a~~~~~~Y~~~~~~  436 (444)
                      |+|+++|+|++||+|++++|++|++++.++      ||||+||+|||++||++|+|+|+.||+|+++.+.
T Consensus       400 L~~vi~rlT~~Gaifl~~ia~lp~~~~~~~------gGTslLI~VgValdt~~qi~s~~~~~~Y~~l~~~  463 (466)
T PRK08568        400 LKRYIPPVTVIGGAIVGLLAVLADLLGALG------GGTGLLLTVSIVYQYYEEIAREQLMEMYPLLRRF  463 (466)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             998899999999999999999999998730------2688999999999999999999999880899987


No 8  
>pfam00344 SecY eubacterial secY protein.
Probab=100.00  E-value=0  Score=653.10  Aligned_cols=334  Identities=50%  Similarity=0.817  Sum_probs=306.6

Q ss_pred             HHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC----CCCCCCCC
Q ss_conf             46873547899999999999852154786411463689999988699999999999999997235567----62258750
Q gi|254780241|r   80 AVFSLGIMPYISASIIVQLIAATVPSLENLKKEGEQGRKVINQYTRYATVLLGILQAYGIAVGLKNGQ----GIVSDSDY  155 (444)
Q Consensus        80 sif~LGI~PyItASIi~QLL~~~~P~l~~l~kege~gr~ki~~~tr~ltl~~a~iQs~~~~~~l~~~~----~~~~~~~~  155 (444)
                      |+|+|||+|||||||+||||+.+.|+++|+|||||+||||+|++|||+|+++|++||++++.++.+..    ....+.+.
T Consensus         1 Slf~LGI~P~ItAsIi~QLL~~~~p~l~~l~~~g~~gr~k~~~~tr~ltl~~a~iqa~~~~~~~~~~~~~~~~~~~~~~~   80 (340)
T pfam00344         1 SIFALGIGPYITASIIMQLLTVVGPKLEKLDKEGEEGRKKIQQYTRYLTLVLALIQAIGIVLGLGSYGAFSNGIVLGVGF   80 (340)
T ss_pred             CEEEECCHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHH
T ss_conf             94450668999999999999988677999853287669999999999999999999999999986147655554356309


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHCCCHHHHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHHHHH
Q ss_conf             479999999999999999999987408898752036210146576788743333200123--215899999999999999
Q gi|254780241|r  156 FFVFSTIITLLGGTMFLVWLGEQITMRGIGNGVSLIIFSGIVAGLPSSLVSVLELGRVGS--ISTPLMLLIFSSTVAVIA  233 (444)
Q Consensus       156 ~~~~~~il~L~aGs~il~wl~e~It~~GIGnG~SLiI~~gIi~~lp~~l~~~~~~~~~~~--~~~~~~l~~~~~~l~vi~  233 (444)
                      .+.+.++++|++|++++||+||+|||||+|||+|++|++||++++|+++.+.+.......  .+....++.+..++++++
T Consensus        81 ~~~~~~vl~L~~Gs~i~~wL~e~It~~GiGnGiSLiI~~gI~~~i~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~i~~  160 (340)
T pfam00344        81 LNLLLIVLQLTAGTMFLMWLGELITKYGIGNGISLIIFAGIVSSIPWAIINLFSLLSSGGGLLSILYLLLLLIATLAVIL  160 (340)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHH
T ss_conf             99999999999999999999999974387776189999999999999999999987326661028999999999999999


Q ss_pred             HHHHHHHHHHHHHHCCCHHHCCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCC
Q ss_conf             99988653323210110121166423564311444200002379999999998688888750777724799988753066
Q gi|254780241|r  234 LVIFFERAQRRLLIQYPKRQVGNRMFQDDVSYLPLKLNTAGVVPSIFASSLLLLPATIMGFIDVSSSPTWIVGLVDSLGH  313 (444)
Q Consensus       234 ~iV~v~~~~rrIPi~y~~~~~~~~~~~~~~sylPiKin~aGvmPiIfassll~~p~~i~~~~~~~~~~~~~~~~~~~~~~  313 (444)
                      ++||+|+++||||+||+|+..++  .+++++|+|+|+||+||||+||||+++++|+++++++.+..++.+..++.+++++
T Consensus       161 ~~v~~~~~~~~IPi~~~~~~~~~--~~~~~~~lPiKln~agvmPiIfassll~~p~~i~~~l~~~~~~~~~~~l~~~~~~  238 (340)
T pfam00344       161 LVVYLQEARRRIPIQYAKRVVGG--GRGQSSYLPIKLNYAGVIPIIFASSLLANPQTIAQFLGSSFPLWPVSGLAYYLPI  238 (340)
T ss_pred             HHHHHCCCEEEEEEEEHHHHCCC--CCCCCEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCC
T ss_conf             99985003578765330001346--7886415446523444438999999999999999996304740079999998387


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             76316999999999999999862379899999999638844762798579999999999999999999999999999999
Q gi|254780241|r  314 GRSFYMVLYSVFIVFFAFFYTAIVFNPKEAADNLKKHGGFIPGIRPGDRTALHIDYVLTRVTVVGAGYLVCVCIFPEALI  393 (444)
Q Consensus       314 ~~~~y~i~y~ilii~Fs~f~~~i~~~P~~iAe~L~k~g~~IpGiRPG~~T~~yL~~v~~rit~~Ga~~l~~la~~p~~~~  393 (444)
                      +.++|.++|.+++++|+|||+++++||||+||||+|+|++|||+||||+|++||+|+++|+|++||++++++|++|++++
T Consensus       239 ~~~~y~~~~~~lii~Fs~f~~~~~~~p~~iAe~l~k~g~~IpGiRpG~~T~~yL~k~i~~~t~~G~~~l~~la~~p~~~~  318 (340)
T pfam00344       239 GSPVYILFYIVLIIFFSYFYTAIGFNPKDIAENLKKSGGFIPGIRPGKSTEKYLNRVIPRLTFIGAIFLGLLAVLPDLLG  318 (340)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             74899999999999999999996578899999999869861484898579999999999999999999999999999999


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             98488410025799999999999999
Q gi|254780241|r  394 AVTGVPVSLSGTSLLIIVSVVLDTIV  419 (444)
Q Consensus       394 ~~~~~~~~~gGTslLI~Vgv~l~~~~  419 (444)
                      ..+    .+||||+||+|||++||+|
T Consensus       319 ~~~----~~gGtslLI~V~v~~~~~~  340 (340)
T pfam00344       319 ALG----GFGGTSLLIAVGVALDTYE  340 (340)
T ss_pred             HHH----CCCHHHHHHHHHHHHHHCC
T ss_conf             842----7527767888786785039


No 9  
>TIGR02920 secY_rel translocase, putative; InterPro: IPR014269   Members of this entry are restricted to the Firmicutes lineage (low-GC Gram-positive bacteria) and appear to be paralogous to, and much more divergent than, the preprotein translocase SecY..
Probab=100.00  E-value=0  Score=542.21  Aligned_cols=396  Identities=26%  Similarity=0.453  Sum_probs=331.6

Q ss_pred             HHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHCCHHHHHHHHHHHHHHHH
Q ss_conf             89999999999999985067989873988999987303553788998642770222046873547899999999999852
Q gi|254780241|r   23 LKSRIVFTIIALIVYRFGTYIPLPSIDFISYSKAFQSKSAGIFGLFNMFSGGAVERMAVFSLGIMPYISASIIVQLIAAT  102 (444)
Q Consensus        23 l~~Kil~Tl~il~iyrlg~~IPlPGid~~~~~~~~~~~~~~~~~~l~~~sGga~~~~sif~LGI~PyItASIi~QLL~~~  102 (444)
                      +-||++||+++++||.+|++||+||+|..  +++++.+++.++.+..+++||++++.|+|+||++|++||+|++||++..
T Consensus         2 ~~Kk~lfT~fil~IY~lG~~I~iPfv~~s--~~~~~~~~~~f~~~~~~~~GGnl~~l~IFSlGL~P~m~sMiil~L~s~~   79 (403)
T TIGR02920         2 IYKKILFTCFILIIYVLGSYIPIPFVEVS--KKDMKGKKNSFFKLAIANTGGNLSTLSIFSLGLGPWMSSMIILQLFSFK   79 (403)
T ss_pred             CHHHHHHHHHHHHHHHHHCCCCCCCCCCC--HHHCCCCCCCHHHHHHHHHCCCCEEEEEEEECCHHHHHHHHHHHHHCCC
T ss_conf             00588999999999997155555751032--4341444540888878771664015115564213688999999984431


Q ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-CCCCCCCCCHHHHHH-HHHHHHHHHHHHHHHHHHH
Q ss_conf             15478641146368999998869999999999999999723556-762258750479999-9999999999999999874
Q gi|254780241|r  103 VPSLENLKKEGEQGRKVINQYTRYATVLLGILQAYGIAVGLKNG-QGIVSDSDYFFVFST-IITLLGGTMFLVWLGEQIT  180 (444)
Q Consensus       103 ~P~l~~l~kege~gr~ki~~~tr~ltl~~a~iQs~~~~~~l~~~-~~~~~~~~~~~~~~~-il~L~aGs~il~wl~e~It  180 (444)
                           +-+|-....+|.-+.-+|+||+++|++||++++..+.+. +++..+    ..+.+ ++.|+|||+++.||||+++
T Consensus        80 -----~~~g~~~~s~~~~~~~~~~LTLiI~~IQ~~~~~~~~~~~r~~~~~~----~~~L~n~liL~tGt~l~VWL~d~N~  150 (403)
T TIGR02920        80 -----KSDGLSAQSQKEQQYRERVLTLIIAIIQSLAVIHSFTNKRNGLSDI----NMLLLNILILVTGTLLLVWLADLNA  150 (403)
T ss_pred             -----CCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             -----0046443478999999999999999999999999876644114589----9999999999998999998983435


Q ss_pred             HCCCCCCCHHHHCCCHHH-HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHCCCCCC
Q ss_conf             088987520362101465-7678874333320012321589999999999999999988653323210110121166423
Q gi|254780241|r  181 MRGIGNGVSLIIFSGIVA-GLPSSLVSVLELGRVGSISTPLMLLIFSSTVAVIALVIFFERAQRRLLIQYPKRQVGNRMF  259 (444)
Q Consensus       181 ~~GIGnG~SLiI~~gIi~-~lp~~l~~~~~~~~~~~~~~~~~l~~~~~~l~vi~~iV~v~~~~rrIPi~y~~~~~~~~~~  259 (444)
                      +||+| |+-.+++++++. ++|+-..+.++..+.+..+.....+..+.+++......++|++|+|||+.  +  .+....
T Consensus       151 ~YGig-G~~~ivl~S~~~G~~~nI~~~~~e~~~~~~~~~~~I~L~i~l~l~~~f~L~f~e~~~Yri~v~--~--~~~~~~  225 (403)
T TIGR02920       151 KYGIG-GSMPIVLVSILKGAINNIPSDVFELLQTSYIWILLIALLILLLLVALFLLAFIERAEYRIPVN--D--ISLHNR  225 (403)
T ss_pred             CCCCC-CCHHHHHHHHHHCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEE--C--CCCCCC
T ss_conf             57655-448898877874023412678775312341289999999999999999999886410010120--3--365321


Q ss_pred             CCCCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHCCCCCH-HHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             564311444200002379999999998688888750777724-7999887530667631699999999999999986237
Q gi|254780241|r  260 QDDVSYLPLKLNTAGVVPSIFASSLLLLPATIMGFIDVSSSP-TWIVGLVDSLGHGRSFYMVLYSVFIVFFAFFYTAIVF  338 (444)
Q Consensus       260 ~~~~sylPiKin~aGvmPiIfassll~~p~~i~~~~~~~~~~-~~~~~~~~~~~~~~~~y~i~y~ilii~Fs~f~~~i~~  338 (444)
                      .+..||+|+|+||||.||.|.+.|++++|+++..+++.-.++ ..++...+.++.++|.+..+|.++.++|+||++++++
T Consensus       226 ~~~~sYl~~klNpAG~m~~M~~~s~l~~p~~~~~l~g~~F~~~s~i~~~~~~f~f~~~~Gi~iYl~~~~~Ls~~f~fv~i  305 (403)
T TIGR02920       226 LNLKSYLPIKLNPAGGMAYMVVMSLLMLPKYIIILLGRIFPNSSDINSLVKEFSFSSPVGILIYLILQMLLSYFFTFVNI  305 (403)
T ss_pred             CCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCEEECCCCHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             13552341001511333899999999999999999998723773400022503427741779999999999999997528


Q ss_pred             CHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHHH
Q ss_conf             989999999963884476279857999999999999999999999999999999998488--410025799999999999
Q gi|254780241|r  339 NPKEAADNLKKHGGFIPGIRPGDRTALHIDYVLTRVTVVGAGYLVCVCIFPEALIAVTGV--PVSLSGTSLLIIVSVVLD  416 (444)
Q Consensus       339 ~P~~iAe~L~k~g~~IpGiRPG~~T~~yL~~v~~rit~~Ga~~l~~la~~p~~~~~~~~~--~~~~gGTslLI~Vgv~l~  416 (444)
                      ||||+||+++|||.||||+||||||+|||+|.+.|++++||++.+++++.|.+..-..+-  ....=.+-++..++....
T Consensus       306 n~~~~sk~f~ksG~Yi~gi~PG~~T~ryLn~~~~~~~~fG~~~~a~~~g~Plyf~Lf~~~L~~~~~~~~~~~m~~~~~~~  385 (403)
T TIGR02920       306 NPKEKSKSFRKSGNYIPGIKPGKDTQRYLNRLARRICWFGGVLVAILLGIPLYFALFVPHLLTEAYIPGQFIMITGMSFN  385 (403)
T ss_pred             CHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEHHHHHHHHHHHHHH
T ss_conf             85899999852788178988996068898889899988889998899876234321561110002221343454223210


Q ss_pred             HHHHHHHHHHHHHHHHHH
Q ss_conf             999999999998526564
Q gi|254780241|r  417 TIVQIQGYLIAQQYEGVF  434 (444)
Q Consensus       417 ~~~qi~a~~~~~~Y~~~~  434 (444)
                      ..||+++++..++|+.++
T Consensus       386 I~d~i~~~l~~~~Y~~~l  403 (403)
T TIGR02920       386 IADEIRAILYFDKYKPLL  403 (403)
T ss_pred             HHHHHHHHHHHCCCCCCC
T ss_conf             255676442000345469


No 10 
>PTZ00219 Sec61 protein; Provisional
Probab=100.00  E-value=0  Score=458.63  Aligned_cols=382  Identities=19%  Similarity=0.265  Sum_probs=313.5

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHCCHHHHHHHHHHHH
Q ss_conf             58788999999999999998506798987398899998730355378899864277022204687354789999999999
Q gi|254780241|r   19 RAKDLKSRIVFTIIALIVYRFGTYIPLPSIDFISYSKAFQSKSAGIFGLFNMFSGGAVERMAVFSLGIMPYISASIIVQL   98 (444)
Q Consensus        19 ~~~el~~Kil~Tl~il~iyrlg~~IPlPGid~~~~~~~~~~~~~~~~~~l~~~sGga~~~~sif~LGI~PyItASIi~QL   98 (444)
                      |+..+++|++||...+++|.+++++|++|+.        .+++.|.+.+++...+  .+++|+++|||+|.+|||++|||
T Consensus        23 ~~v~f~~Kl~wT~~~l~iylv~s~iPLyGi~--------~~~~~Dpf~~~R~i~A--s~~GTLmeLGIgPIVTa~ii~QL   92 (472)
T PTZ00219         23 RKVPFKEMLLWTGVSLFVFLVCCQIPLYGAV--------TSKSSDPFYWMRVILA--SNRGTLMELGISPIVTSSMVMQL   92 (472)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCC--------CCCCCCHHHHHHHHHC--CCCCCHHHHCCHHHHHHHHHHHH
T ss_conf             8897677799999999999998087645446--------8888885999999981--57776788484378899999999


Q ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             98521547864114636899999886999999999999999972355676225875047999999999999999999998
Q gi|254780241|r   99 IAATVPSLENLKKEGEQGRKVINQYTRYATVLLGILQAYGIAVGLKNGQGIVSDSDYFFVFSTIITLLGGTMFLVWLGEQ  178 (444)
Q Consensus        99 L~~~~P~l~~l~kege~gr~ki~~~tr~ltl~~a~iQs~~~~~~l~~~~~~~~~~~~~~~~~~il~L~aGs~il~wl~e~  178 (444)
                      |++.  ++.|+|.+.++||+.+|..||.++++++++||.+++.+-.+++  ..+.+....+.+++||+.|++++++|||.
T Consensus        93 L~G~--kiI~vd~~~~edr~lfq~~QKllaii~~~~eA~~~V~sG~yg~--~~~~g~~~~~liilQL~~~giivilLDEl  168 (472)
T PTZ00219         93 LAGS--KIIDVDQSLKEDRDLFQGAQKLLGLLITLGEAVAYVISGMYGD--ISEIGTFKAILIILQLFFAGVVVILLDEL  168 (472)
T ss_pred             HHHC--CEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC--CHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             8418--8155389986789999999999999999999999971033578--00233799999999999999999999999


Q ss_pred             HHH-CCCCCCCHHHHCCCHHHHHHHHHHHHHHHHCC------CCCCHH-----------------------HHHHHHHHH
Q ss_conf             740-88987520362101465767887433332001------232158-----------------------999999999
Q gi|254780241|r  179 ITM-RGIGNGVSLIIFSGIVAGLPSSLVSVLELGRV------GSISTP-----------------------LMLLIFSST  228 (444)
Q Consensus       179 It~-~GIGnG~SLiI~~gIi~~lp~~l~~~~~~~~~------~~~~~~-----------------------~~l~~~~~~  228 (444)
                      ++| ||+|+|+||+|.+|++.++.|...+.......      |..-..                       .-+.-+..+
T Consensus       169 v~KG~G~GSGisLFIaa~v~~~i~w~~fsp~~~~~~~g~e~eGa~~~~~~~l~~~~~~~~~l~~af~r~~lpnl~~li~T  248 (472)
T PTZ00219        169 LQKGYGLGSGISLFIATNICETILWKAFSPTTINTDKGTEFEGALISLFYCLFTKSNKISALKEAFYRSHAPNVTNLLAT  248 (472)
T ss_pred             HHCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCHHHHHHH
T ss_conf             86366603589999999999999998648530368888765333999999998077527789988742257419999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCHHHCCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHCCCCC--------
Q ss_conf             999999998865332321011012116642356431144420000237999999999868888875077772--------
Q gi|254780241|r  229 VAVIALVIFFERAQRRLLIQYPKRQVGNRMFQDDVSYLPLKLNTAGVVPSIFASSLLLLPATIMGFIDVSSS--------  300 (444)
Q Consensus       229 l~vi~~iV~v~~~~rrIPi~y~~~~~~~~~~~~~~sylPiKin~aGvmPiIfassll~~p~~i~~~~~~~~~--------  300 (444)
                      ++++..+||+|..+.+||+.++|       ++|.+..+|+|+.|+++||+||++++++....+.+.+....+        
T Consensus       249 i~vf~~vvYlq~~rVeiPi~s~r-------~RG~~~~yPIkLlYtS~iPvIl~~al~sni~~~s~~l~~~~~~~~~~~lL  321 (472)
T PTZ00219        249 ALVFLIVIYLQGFRVDLSVKYQS-------VRGQQGTYPIKLFYTSNIPIILQTALVSNLYFFSQLLYRRFKNNLLVNIL  321 (472)
T ss_pred             HHHHHHHHHHHCCEEEEEECCCC-------CCCCCCCCCEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCEECCC
T ss_conf             99999999871356998632465-------68766422067610067519999999999999999999757864000003


Q ss_pred             -----------HHHHHHHHHHCCCCC--------CHHHHHH----HHHHHHHHHHHHHHC-CCHHHHHHHHHHCCCCCCC
Q ss_conf             -----------479998875306676--------3169999----999999999998623-7989999999963884476
Q gi|254780241|r  301 -----------PTWIVGLVDSLGHGR--------SFYMVLY----SVFIVFFAFFYTAIV-FNPKEAADNLKKHGGFIPG  356 (444)
Q Consensus       301 -----------~~~~~~~~~~~~~~~--------~~y~i~y----~ilii~Fs~f~~~i~-~~P~~iAe~L~k~g~~IpG  356 (444)
                                 ...+.++..+++|..        |++.++|    ...+.+|+.+|.++. .+|||+|||++++|..|||
T Consensus       322 G~~~~~~~~g~~~Pv~Gl~yYlspP~s~~~~~~dPi~~iiy~~f~i~~~~~Fs~~Wve~sG~s~kdvAkql~~~g~~ipG  401 (472)
T PTZ00219        322 GQWQETDSHGTSIPIGGIAYYISPPNSFKDIVNDPIHTLVYISFVLVSCAVFSKTWIEVSGSSAKDVAKQLRDQQIGMVG  401 (472)
T ss_pred             EEECCCCCCCCCCCCCCEEEEECCCCCHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCC
T ss_conf             12024577888663330589964996788886364478999999999999999999996098989999999974897798


Q ss_pred             CCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             27985-799999999999999999999999999999999848841002579999999999999999999999
Q gi|254780241|r  357 IRPGD-RTALHIDYVLTRVTVVGAGYLVCVCIFPEALIAVTGVPVSLSGTSLLIIVSVVLDTIVQIQGYLIA  427 (444)
Q Consensus       357 iRPG~-~T~~yL~~v~~rit~~Ga~~l~~la~~p~~~~~~~~~~~~~gGTslLI~Vgv~l~~~~qi~a~~~~  427 (444)
                      .|..+ .-+|.|+|+++.+|++||++++++|+..++++...      +||++|+.|++++++++++..+..+
T Consensus       402 ~R~~~~~~~k~L~ryIP~aa~~Gg~~vG~Lav~Ad~lG~~G------sGtGiLLaV~iiy~~yE~~~~E~~~  467 (472)
T PTZ00219        402 YRDSPPSLTKVFNRYIPTAAAFGGMCIGALTILADFLGALG------SGTGILLAVTIIYQYYEMLVKEQER  467 (472)
T ss_pred             CCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCC------CHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             55674569999845564999999999999999999855876------4277999999999999999999986


No 11 
>KOG1373 consensus
Probab=100.00  E-value=0  Score=364.43  Aligned_cols=385  Identities=20%  Similarity=0.295  Sum_probs=311.8

Q ss_pred             HCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHCCHHHHHHHHHHH
Q ss_conf             35878899999999999999850679898739889999873035537889986427702220468735478999999999
Q gi|254780241|r   18 SRAKDLKSRIVFTIIALIVYRFGTYIPLPSIDFISYSKAFQSKSAGIFGLFNMFSGGAVERMAVFSLGIMPYISASIIVQ   97 (444)
Q Consensus        18 ~~~~el~~Kil~Tl~il~iyrlg~~IPlPGid~~~~~~~~~~~~~~~~~~l~~~sGga~~~~sif~LGI~PyItASIi~Q   97 (444)
                      .++.+.|+|++||.+.+++|.++++||++|+.        ++.++|.+.+++...  |.+|.++++|||.|.+|+|.+||
T Consensus        24 erk~pf~eK~~wt~i~~~iflv~~QiPLyGi~--------ssdt~DP~yw~Rvil--asnrgTLMelGisPivtSglimQ   93 (476)
T KOG1373          24 ERKLPFREKLLWTAISLLIFLVCSQIPLYGIM--------SSDTADPFYWMRVIL--ASNRGTLMELGISPIVTSGLIMQ   93 (476)
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHHHHCCCCCCC--------CCCCCCHHHHHHHHH--HCCCCCHHHHCCCHHHHHHHHHH
T ss_conf             10284899999999999999998305414544--------677777089999998--04876332216653667889999


Q ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99852154786411463689999988699999999999999997235567622587504799999999999999999999
Q gi|254780241|r   98 LIAATVPSLENLKKEGEQGRKVINQYTRYATVLLGILQAYGIAVGLKNGQGIVSDSDYFFVFSTIITLLGGTMFLVWLGE  177 (444)
Q Consensus        98 LL~~~~P~l~~l~kege~gr~ki~~~tr~ltl~~a~iQs~~~~~~l~~~~~~~~~~~~~~~~~~il~L~aGs~il~wl~e  177 (444)
                      +|++.  ++.|.+-+-++||.-+|..||.+++++++.|+..++.+-.++.  ..|-+....+.++++|.....+++.|||
T Consensus        94 lLag~--kiIeV~~~~~~DR~Lfn~aQKl~~iii~vgqa~~yV~tG~yG~--p~dLg~~~clLii~QL~~Agiiv~lLdE  169 (476)
T KOG1373          94 LLAGS--KIIEVNFNIKEDRELFNGAQKLFAIIITVGQAVVYVMTGMYGS--PSDLGVGICLLIILQLFFAGIIVILLDE  169 (476)
T ss_pred             HHCCC--CEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC--HHHCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             97148--1898468865559999999999999999998898755045689--2442415789999999985689999999


Q ss_pred             HHHH-CCCCCCCHHHHCCCHHHHHHHHHHHHHHH------HCCCCCCHHH-----------------------HHHHHHH
Q ss_conf             8740-88987520362101465767887433332------0012321589-----------------------9999999
Q gi|254780241|r  178 QITM-RGIGNGVSLIIFSGIVAGLPSSLVSVLEL------GRVGSISTPL-----------------------MLLIFSS  227 (444)
Q Consensus       178 ~It~-~GIGnG~SLiI~~gIi~~lp~~l~~~~~~------~~~~~~~~~~-----------------------~l~~~~~  227 (444)
                      +++| ||+|||+||+|.+|||.++.|.-.+.-..      ...|+.-...                       .+.-+..
T Consensus       170 llqKGyGlgSGislfiatnice~ivwkaFsptti~tGrg~efeGAvIalfhll~tr~~k~~al~eAF~RqnLPNl~nl~a  249 (476)
T KOG1373         170 LLQKGYGLGSGISLFIATNICESIVWKAFSPTTINTGRGTEFEGAVIALFHLLATRKDKVRALREAFYRQNLPNLTNLLA  249 (476)
T ss_pred             HHHHCCCCCCCHHHHHHHHHHHHHHHHHCCCEEEECCCCCEECHHHHHHHHHHHHCCHHHHHHHHHHHHHCCCHHHHHHH
T ss_conf             99836686764143658889989999743864886278853005799999999853007999999997753616899999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCHHHCCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHH-----
Q ss_conf             999999999886533232101101211664235643114442000023799999999986888887507777247-----
Q gi|254780241|r  228 TVAVIALVIFFERAQRRLLIQYPKRQVGNRMFQDDVSYLPLKLNTAGVVPSIFASSLLLLPATIMGFIDVSSSPT-----  302 (444)
Q Consensus       228 ~l~vi~~iV~v~~~~rrIPi~y~~~~~~~~~~~~~~sylPiKin~aGvmPiIfassll~~p~~i~~~~~~~~~~~-----  302 (444)
                      +++++++++|+|..+.++|+.++|       ++|+.+.+|+|+.|.++||||+.|++.+....+.|++....+.+     
T Consensus       250 tvlif~iViYlQgfRVeLPirS~r-------~RG~~~~yPIKL~YTsn~pIilqsalvsni~~isqll~~k~~~n~~v~l  322 (476)
T KOG1373         250 TVLIFLIVIYLQGFRVELPIRSTR-------ARGQYGSYPIKLFYTSNMPIILQSALVSNIFVISQLLYKKFPGNFLVRL  322 (476)
T ss_pred             HHHHHHHHHHCCCEEEEEEECCHH-------CCCCCCCCCEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEE
T ss_conf             999999985111318983202012-------0566786324776527838999999999999999999865787669988


Q ss_pred             --------------HHHHHHHHCCCC--------CCHHHHHHHHHHH----HHHHHHHHHC-CCHHHHHHHHHHCCCCCC
Q ss_conf             --------------999887530667--------6316999999999----9999998623-798999999996388447
Q gi|254780241|r  303 --------------WIVGLVDSLGHG--------RSFYMVLYSVFIV----FFAFFYTAIV-FNPKEAADNLKKHGGFIP  355 (444)
Q Consensus       303 --------------~~~~~~~~~~~~--------~~~y~i~y~ilii----~Fs~f~~~i~-~~P~~iAe~L~k~g~~Ip  355 (444)
                                    ...++..++.|.        .|+..++|.+++.    +|+--|.++. -+|+|+|++||+++..++
T Consensus       323 lG~w~~~~~~~~~~p~~glsyy~~pp~s~~~~~~dPi~~i~Yi~fml~sca~FsktWievSgsSarDvAkqlKeQ~mvm~  402 (476)
T KOG1373         323 LGVWEDSEGGGRSMPVSGLSYYITPPESFGEALQDPIHFLVYIVFMLGSCALFSKTWIEVSGSSARDVAKQLKEQQMVMR  402 (476)
T ss_pred             EEEEECCCCCCCCCCCCCCEEECCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCEEC
T ss_conf             87542379985223156505744884777778628526789999999999998868999709997999999874665535


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             627985799999999999999999999999999999999848841002579999999999999999999999852
Q gi|254780241|r  356 GIRPGDRTALHIDYVLTRVTVVGAGYLVCVCIFPEALIAVTGVPVSLSGTSLLIIVSVVLDTIVQIQGYLIAQQY  430 (444)
Q Consensus       356 GiRPG~~T~~yL~~v~~rit~~Ga~~l~~la~~p~~~~~~~~~~~~~gGTslLI~Vgv~l~~~~qi~a~~~~~~Y  430 (444)
                      |+|.. .+.+-|+|+++...++||.+++.+.+..++++...      +||+++..|.+++++++..+-+...+.+
T Consensus       403 G~RE~-n~~keLnr~IPtAA~~Gg~~igaltV~~d~lgaiG------sgtgIlla~t~iyqy~E~~~kE~~~~~g  470 (476)
T KOG1373         403 GHRET-NMAKELNRYIPTAAAFGGLCIGALTVLADLLGAIG------SGTGILLAVTIIYQYFEIFAKEQAQEGG  470 (476)
T ss_pred             CCCHH-HHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHCCC------CCCEEEEEHHHHHHHHHHHHHHHHHCCC
T ss_conf             73025-69999986446788761269989999998754026------7751787458799999999999861178


No 12 
>pfam10559 Plug_translocon Plug domain of Sec61p. The Sec61/SecY translocon mediates translocation of proteins across the membrane and integration of membrane proteins into the lipid bilayer. The structure of the translocon revealed a plug domain blocking the pore on the lumenal side.The plug is unlikely to be important for sealing the translocation pore in yeast but it plays a role in stabilising Sec61p during translocon formation. The domain runs from residues 52-74.
Probab=86.40  E-value=0.12  Score=29.60  Aligned_cols=33  Identities=21%  Similarity=0.260  Sum_probs=26.4

Q ss_pred             HHHHHCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCC
Q ss_conf             99985067989873988999987303553788998642770
Q gi|254780241|r   35 IVYRFGTYIPLPSIDFISYSKAFQSKSAGIFGLFNMFSGGA   75 (444)
Q Consensus        35 ~iyrlg~~IPlPGid~~~~~~~~~~~~~~~~~~l~~~sGga   75 (444)
                      ++|.++++||++|++        .++++|.+.++++..+++
T Consensus         1 ~lYli~s~iPLyGi~--------~~~~~D~f~~~r~i~As~   33 (35)
T pfam10559         1 LLYLVLSQIPLYGLV--------SSDSSDPFYWLRAILASN   33 (35)
T ss_pred             CEEEEEECCCCCEEE--------CCCCCCCHHHHHHHHHHC
T ss_conf             979998456210362--------278888489999987513


No 13 
>pfam05697 Trigger_N Bacterial trigger factor protein (TF). In the E. coli cytosol, a fraction of the newly synthesized proteins requires the activity of molecular chaperones for folding to the native state. The major chaperones implicated in this folding process are the ribosome-associated Trigger Factor (TF), and the DnaK and GroEL chaperones with their respective co-chaperones. Trigger Factor is an ATP-independent chaperone and displays chaperone and peptidyl-prolyl-cis-trans-isomerase (PPIase) activities in vitro. It is composed of at least three domains, an N-terminal domain which mediates association with the large ribosomal subunit, a central substrate binding and PPIase domain with homology to FKBP proteins, and a C-terminal domain of unknown function. The positioning of TF at the peptide exit channel, together with its ability to interact with nascent chains as short as 57 residues renders TF a prime candidate for being the first chaperone that binds to the nascent polypeptide 
Probab=80.18  E-value=2  Score=21.84  Aligned_cols=37  Identities=19%  Similarity=0.256  Sum_probs=24.3

Q ss_pred             CCCHHHHHHHHHH------CCCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             3798999999996------388447627985799999999999
Q gi|254780241|r  337 VFNPKEAADNLKK------HGGFIPGIRPGDRTALHIDYVLTR  373 (444)
Q Consensus       337 ~~~P~~iAe~L~k------~g~~IpGiRPG~~T~~yL~~v~~r  373 (444)
                      .++++++.+.+.+      ..+.|||+||||.-..-+++-...
T Consensus        18 ~i~~~~~~~~~~~~~~~~~k~~~ipGFRkGKvP~~ii~k~~g~   60 (144)
T pfam05697        18 EVPAEEVEEAVDKALKELAKKVKIPGFRKGKVPRSVVKKRYGK   60 (144)
T ss_pred             EECHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHH
T ss_conf             9989999999999999998108899978998899999999879


No 14 
>pfam03248 Rer1 Rer1 family. RER1 family protein are involved in involved in the retrieval of some endoplasmic reticulum membrane proteins from the early golgi compartment. The C terminus of yeast Rer1p interacts with a coatomer complex.
Probab=80.15  E-value=4.2  Score=19.79  Aligned_cols=114  Identities=22%  Similarity=0.326  Sum_probs=56.9

Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHC--CCHHHH-HHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH-HHHH
Q ss_conf             6763169999999999999998623--798999-99999638844762798579999999999999999999999-9999
Q gi|254780241|r  313 HGRSFYMVLYSVFIVFFAFFYTAIV--FNPKEA-ADNLKKHGGFIPGIRPGDRTALHIDYVLTRVTVVGAGYLVC-VCIF  388 (444)
Q Consensus       313 ~~~~~y~i~y~ilii~Fs~f~~~i~--~~P~~i-Ae~L~k~g~~IpGiRPG~~T~~yL~~v~~rit~~Ga~~l~~-la~~  388 (444)
                      ....+|++.|++=|...+-|-.+++  .||+-- .|+-.+.|...|- |.+++=+-++++. +-..+|=+..-+. +|.+
T Consensus        45 ~~~g~YiV~Y~LgIylLnlfi~FLtPk~dp~l~~~~e~~~~g~~LP~-~~~~EFRPFiRrL-PEFkFW~s~tka~~ia~~  122 (175)
T pfam03248        45 LVQGWYVVSYALGIYLLNLFLAFLTPKFDPELEQEDEDVEEGPSLPT-RNDDEFRPFIRRL-PEFKFWYSATRATVIALF  122 (175)
T ss_pred             HHCCEEEEHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCC-HHHHHHHHHHHHHHHHHH
T ss_conf             83432520398999999999998396778310001024445778898-7765447632477-088999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999999848841002579999---999999999999999999852656
Q gi|254780241|r  389 PEALIAVTGVPVSLSGTSLLI---IVSVVLDTIVQIQGYLIAQQYEGV  433 (444)
Q Consensus       389 p~~~~~~~~~~~~~gGTslLI---~Vgv~l~~~~qi~a~~~~~~Y~~~  433 (444)
                      .++. ..+++|..--   +|.   ++=.++.-.|||+ ++...+|-++
T Consensus       123 ~TfF-~~fDiPVFWP---iLl~Yfi~Lf~~TmkrqI~-HMiKYrYvPf  165 (175)
T pfam03248       123 CTFF-SFFDVPVFWP---ILLMYFIVLFFLTMRRQIK-HMIKYKYVPF  165 (175)
T ss_pred             HHHH-HHCCCCHHHH---HHHHHHHHHHHHHHHHHHH-HHHHHCCCCC
T ss_conf             9988-7528860478---9999999999999999999-9985487664


No 15 
>TIGR00814 stp serine transporter; InterPro: IPR004694   The Hydroxy/Aromatic Amino Acid Permease (HAAAP) family includes well characterised aromatic amino acid:H+ symport permeases and hydroxy amino acid permeases. This group is specific for hydroxy amino acid transporters and includes the serine permease, SdaC and threonine permease, TdcC, of Escherichia coli.; GO: 0005215 transporter activity, 0006810 transport, 0016021 integral to membrane.
Probab=77.03  E-value=5.2  Score=19.20  Aligned_cols=20  Identities=15%  Similarity=0.079  Sum_probs=15.4

Q ss_pred             HHCCHHHHHHHHHHHHHHHH
Q ss_conf             73547899999999999852
Q gi|254780241|r   83 SLGIMPYISASIIVQLIAAT  102 (444)
Q Consensus        83 ~LGI~PyItASIi~QLL~~~  102 (444)
                      .-|+.|.+.++|+.==++-.
T Consensus        30 ~~G~w~l~~maiia~P~Ty~   49 (419)
T TIGR00814        30 LGGLWVLVLMAIIAYPLTYF   49 (419)
T ss_pred             CCCHHHHHHHHHHHHHHHHH
T ss_conf             24589999999999999999


No 16 
>PRK01490 tig trigger factor; Provisional
Probab=73.30  E-value=3.2  Score=20.58  Aligned_cols=12  Identities=8%  Similarity=0.476  Sum_probs=6.9

Q ss_pred             HHCCCCCCCCCC
Q ss_conf             850679898739
Q gi|254780241|r   38 RFGTYIPLPSID   49 (444)
Q Consensus        38 rlg~~IPlPGid   49 (444)
                      .+...+-+||..
T Consensus        34 ~~~k~~~ipGFR   45 (435)
T PRK01490         34 KLAKTVRIPGFR   45 (435)
T ss_pred             HHHCCCCCCCCC
T ss_conf             986528889989


No 17 
>pfam04923 Ninjurin Ninjurin. Ninjurin (nerve injury-induced protein) is involved in nerve regeneration and in the formation and function in some tissues.
Probab=72.54  E-value=6.7  Score=18.48  Aligned_cols=45  Identities=13%  Similarity=0.268  Sum_probs=25.3

Q ss_pred             HHHHHHHHHHHHHHH-HHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999999999998521-547864114636899999886999999999
Q gi|254780241|r   89 YISASIIVQLIAATV-PSLENLKKEGEQGRKVINQYTRYATVLLGI  133 (444)
Q Consensus        89 yItASIi~QLL~~~~-P~l~~l~kege~gr~ki~~~tr~ltl~~a~  133 (444)
                      .+..||++|++.+.. --..+++-+.++.+++.+.+--+.|.+..+
T Consensus        51 Li~~SivLQv~vgilli~~~~~ni~~~~~~~~~~~lNn~~~~~vfi   96 (116)
T pfam04923        51 LISVSLVLQVVVGVLLIIISRYNLNNVEEQRRLDRLNNLTTIGVFI   96 (116)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             9999999999999999999763246578889999998799999999


No 18 
>TIGR00945 tatC twin arginine-targeting protein translocase TatC; InterPro: IPR002033   Proteins encoded by the mttABC operon (formerly yigTUW), mediate a novel Sec-independent membrane targeting and translocation system in Escherichia coli that interacts with cofactor-containing redox proteins having a S/TRRXFLK "twin arginine" leader motif. This family contains the Escherichia coli mttB gene (TATC) .   A functional Tat system or Delta pH-dependent pathway requires three integral membrane proteins: TatA/Tha4, TatB/Hcf106 and TatC/cpTatC. The TatC protein is essential for the function of both pathways. It might be involved in twin-arginine signal peptide recognition, protein translocation and proton translocation. Sequence analysis predicts that TatC contains six transmembrane helices (TMHs), and experimental data confirmed that N and C termini of TatC or cpTatC are exposed to the cytoplasmic or stromal face of the membrane. The cytoplasmic N terminus and the first cytoplasmic loop region of the Escherichia coli TatC protein are essential for protein export. At least two TatC molecules co-exist within each Tat translocon , ..
Probab=66.79  E-value=4.7  Score=19.47  Aligned_cols=26  Identities=19%  Similarity=0.381  Sum_probs=21.9

Q ss_pred             CHHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             87889999999999999985067989
Q gi|254780241|r   20 AKDLKSRIVFTIIALIVYRFGTYIPL   45 (444)
Q Consensus        20 ~~el~~Kil~Tl~il~iyrlg~~IPl   45 (444)
                      ..|||+|+++.+..+.+-.++++.=.
T Consensus         5 L~ELR~Rll~~~~~~~~~~~~~f~~~   30 (226)
T TIGR00945         5 LEELRKRLLISLIAVLVAFVISFYFA   30 (226)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             89999999999999999999999999


No 19 
>TIGR00858 bioF 8-amino-7-oxononanoate synthase; InterPro: IPR004723   8-amino-7-oxononanoate synthase (2.3.1.47 from EC) is involved in biotin biosynthesis.   Synonym(s): AONS, 8-amino-7-ketopelargonate synthase, 7-keto-8-amino-pelargonic acid synthetase, 7-KAP synthetase; GO: 0008710 8-amino-7-oxononanoate synthase activity, 0009102 biotin biosynthetic process.
Probab=62.59  E-value=4.5  Score=19.62  Aligned_cols=22  Identities=36%  Similarity=0.605  Sum_probs=19.3

Q ss_pred             HHHHHHHHHHCCCCCCCCCCCHHH
Q ss_conf             899999999638844762798579
Q gi|254780241|r  340 PKEAADNLKKHGGFIPGIRPGDRT  363 (444)
Q Consensus       340 P~~iAe~L~k~g~~IpGiRPG~~T  363 (444)
                      .=++||.|+++|.+++.|||  ||
T Consensus       328 al~~a~~L~~~G~~v~AIRP--PT  349 (378)
T TIGR00858       328 ALALAEELQEQGIFVGAIRP--PT  349 (378)
T ss_pred             HHHHHHHHHHCCCEEECCCC--CC
T ss_conf             99999999877947910258--88


No 20 
>TIGR00915 2A0602 RND transporter, hydrophobe/amphiphile efflux-1 (HAE1) family; InterPro: IPR004764   Hydrophobe/amphiphile efflux-1 HAE1 is involved in toxin production and resistance processes.; GO: 0005215 transporter activity, 0006810 transport, 0016021 integral to membrane.
Probab=61.39  E-value=11  Score=17.07  Aligned_cols=146  Identities=19%  Similarity=0.322  Sum_probs=84.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCC--CHHHCCCCCC--CC---------CCCEEEEEECCC--HHH------HHHHHHH
Q ss_conf             9999999999998865332321011--0121166423--56---------431144420000--237------9999999
Q gi|254780241|r  225 FSSTVAVIALVIFFERAQRRLLIQY--PKRQVGNRMF--QD---------DVSYLPLKLNTA--GVV------PSIFASS  283 (444)
Q Consensus       225 ~~~~l~vi~~iV~v~~~~rrIPi~y--~~~~~~~~~~--~~---------~~sylPiKin~a--Gvm------PiIfass  283 (444)
                      +..-+++==.+|.||+-||=+.-..  ||--..+++-  .|         ...++|+.+-..  |.|      .|..|++
T Consensus       402 LAIGLlVDDAIVVVEnVER~m~~e~L~P~EAt~~~M~qi~GA~vgi~~VL~aVf~P~AFFgG~~G~iY~QFsiTIv~am~  481 (1058)
T TIGR00915       402 LAIGLLVDDAIVVVENVERIMAEEGLPPKEATKKSMGQIQGALVGIAMVLSAVFVPMAFFGGSTGAIYRQFSITIVSAMA  481 (1058)
T ss_pred             HHHHHEEECEEEEEECEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHH
T ss_conf             87741022518998231577605878848999998876326788888999877654331787735014658999999999


Q ss_pred             H------HHHHHHHHHHHCCC-------CCHHHHHHHHHHCC--------------CCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9------98688888750777-------72479998875306--------------676316999999999999999862
Q gi|254780241|r  284 L------LLLPATIMGFIDVS-------SSPTWIVGLVDSLG--------------HGRSFYMVLYSVFIVFFAFFYTAI  336 (444)
Q Consensus       284 l------l~~p~~i~~~~~~~-------~~~~~~~~~~~~~~--------------~~~~~y~i~y~ilii~Fs~f~~~i  336 (444)
                      |      ..-|..++.++.+.       ....+..|+...|+              .....|+++|++++..-.|+|..+
T Consensus       482 LSvlvALilTPALCAt~LK~~~kg~h~~~k~GFFgWFNr~F~~~~~~Y~~~V~~~l~~~~r~l~~Y~ll~~g~~~Lf~r~  561 (1058)
T TIGR00915       482 LSVLVALILTPALCATMLKPIEKGEHHEKKGGFFGWFNRMFDRSTNGYENVVGKILKRRLRYLLVYVLLVGGMVFLFVRL  561 (1058)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHEEEC
T ss_conf             99999998458889987156667887000456413677766553201226899986057504356777898576420007


Q ss_pred             --CCCHHHHHHHHHHCCCCCCCCC-CCHHHHHHHHHHHHHHHH
Q ss_conf             --3798999999996388447627-985799999999999999
Q gi|254780241|r  337 --VFNPKEAADNLKKHGGFIPGIR-PGDRTALHIDYVLTRVTV  376 (444)
Q Consensus       337 --~~~P~~iAe~L~k~g~~IpGiR-PG~~T~~yL~~v~~rit~  376 (444)
                        .|=|+|      ++|.++--|+ |--.|+++=++++..++-
T Consensus       562 PtsFLP~E------DQG~~~~~vQ~P~G~t~e~T~~Vl~~v~~  598 (1058)
T TIGR00915       562 PTSFLPEE------DQGVLMTIVQLPAGATAERTQKVLAQVEK  598 (1058)
T ss_pred             CCCCCCCC------CCCEEEEEEECCCCCCHHHHHHHHHHHHH
T ss_conf             74448887------86069999986898655789999999999


No 21 
>pfam07330 DUF1467 Protein of unknown function (DUF1467). This family consists of several bacterial proteins of around 90 residues in length. The function of this family is unknown.
Probab=58.41  E-value=13  Score=16.75  Aligned_cols=40  Identities=18%  Similarity=0.355  Sum_probs=32.9

Q ss_pred             HCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             6388447627985799999999999999999999999999
Q gi|254780241|r  349 KHGGFIPGIRPGDRTALHIDYVLTRVTVVGAGYLVCVCIF  388 (444)
Q Consensus       349 k~g~~IpGiRPG~~T~~yL~~v~~rit~~Ga~~l~~la~~  388 (444)
                      +.|..+||--||-|..-.+.|....-|.+.++.-+++..+
T Consensus        31 e~~~vv~Gt~~gAP~~p~l~kK~~~TT~is~vi~~i~~~i   70 (85)
T pfam07330        31 EDGEVVPGTDPGAPVNPRLKRKALWTTIISAVIWALIYLI   70 (85)
T ss_pred             CCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             3577567889999976038999999999999999999999


No 22 
>TIGR01271 CFTR_protein cystic fibrosis transmembrane conductor regulator (CFTR); InterPro: IPR005291   ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs.   ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain .    The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyze ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarize the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site , , .   The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis , , , , , .   Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1).    These proteins are integral membrane proteins and they are involved in the transport of chloride ions. Many of these proteins are the cystis fibrosis transmembrane conductor regulators (CFTR) in eukaryotes. The principal role of this protein is chloride ion conductance. The protein is predicted to consist of 12 transmembrane domains. Mutations or lesions in the genetic loci have been linked to the aetiology of asthma, bronchiectasis, chronic obstructive pulmonary disease etc. Disease-causing mutations have been studied by 36Cl efflux assays in vitro cell cultures and electrophysiology, all of which point to the impairment of chloride channel stability and not the biosynthetic processing per se.; GO: 0005254 chloride channel activity, 0006811 ion transport, 0016020 membrane.
Probab=58.19  E-value=13  Score=16.73  Aligned_cols=91  Identities=16%  Similarity=0.297  Sum_probs=53.2

Q ss_pred             HHHHHHCCCHHHHHHHHHHCCCCCCCCCCCHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHH
Q ss_conf             99986237989999999963884476279857999--9999999999999999999999999999984884100257999
Q gi|254780241|r  331 FFYTAIVFNPKEAADNLKKHGGFIPGIRPGDRTAL--HIDYVLTRVTVVGAGYLVCVCIFPEALIAVTGVPVSLSGTSLL  408 (444)
Q Consensus       331 ~f~~~i~~~P~~iAe~L~k~g~~IpGiRPG~~T~~--yL~~v~~rit~~Ga~~l~~la~~p~~~~~~~~~~~~~gGTslL  408 (444)
                      |-|-+.+   +++=||+++.-.        +=|++  |+++--...=||+|+|+.+++++|+-+..-.-+---|+..|--
T Consensus       276 YcWEe~M---E~iI~~iRQ~El--------~LTRK~a~~RYF~SsafFFSg~~Vv~~svvPyAl~~gI~LRrIFTT~Syc  344 (1534)
T TIGR01271       276 YCWEEAM---EKIIENIRQDEL--------KLTRKVAYVRYFSSSAFFFSGFFVVFLSVVPYALIKGIILRRIFTTISYC  344 (1534)
T ss_pred             ECHHHHH---HHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_conf             1148899---999876312345--------54423210112335889999999999987558875510333567789999


Q ss_pred             HHH------------HHHHHHH---HHHHHHHHHHHHHH
Q ss_conf             999------------9999999---99999999985265
Q gi|254780241|r  409 IIV------------SVVLDTI---VQIQGYLIAQQYEG  432 (444)
Q Consensus       409 I~V------------gv~l~~~---~qi~a~~~~~~Y~~  432 (444)
                      |+.            -..+|+.   ++|+-++..+.|+.
T Consensus       345 ~VLRMtvTRQ~P~aiQ~WYDsLg~i~KI~dfL~K~EyK~  383 (1534)
T TIGR01271       345 IVLRMTVTRQFPSAIQTWYDSLGAITKIQDFLQKEEYKT  383 (1534)
T ss_pred             HHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCCCEE
T ss_conf             999988753150478888778999999998624464126


No 23 
>TIGR02230 ATPase_gene1 F0F1-ATPase subunit, putative; InterPro: IPR011744   This model represents a protein found encoded in F1F0-ATPase operons in several genomes, including Methanosarcina barkeri (archaeal) and Chlorobium tepidum (bacterial). It is a small protein (about 100 amino acids) with long hydrophic stretches and is presumed to be a subunit of the enzyme ..
Probab=51.72  E-value=16  Score=16.06  Aligned_cols=57  Identities=28%  Similarity=0.401  Sum_probs=41.0

Q ss_pred             CHHHHHHH--HHHHHHHHHHHHHHHHHH---HHHHHHHHHHHCC------CCCCHHHHHHHHHHHHHH
Q ss_conf             85799999--999999999999999999---9999999998488------410025799999999999
Q gi|254780241|r  360 GDRTALHI--DYVLTRVTVVGAGYLVCV---CIFPEALIAVTGV------PVSLSGTSLLIIVSVVLD  416 (444)
Q Consensus       360 G~~T~~yL--~~v~~rit~~Ga~~l~~l---a~~p~~~~~~~~~------~~~~gGTslLI~Vgv~l~  416 (444)
                      |++..|-|  +|-.+|-.++|=...+++   ..+|++++...|+      |..|+=|=.||+|||.+-
T Consensus        21 g~k~~RKl~Ar~~~~Rs~W~GlgMfGliGWsvAIPTLlG~A~GiWlD~hyPs~fSWTLtmli~Gv~~G   88 (100)
T TIGR02230        21 GDKEERKLKARKDADRSVWLGLGMFGLIGWSVAIPTLLGVALGIWLDKHYPSSFSWTLTMLIVGVVVG   88 (100)
T ss_pred             CCHHHHHHHHHCCCCCEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHH
T ss_conf             84033447753078600003125753888999988899998733211468987038999999999874


No 24 
>COG0544 Tig FKBP-type peptidyl-prolyl cis-trans isomerase (trigger factor) [Posttranslational modification, protein turnover, chaperones]
Probab=50.20  E-value=7.8  Score=18.08  Aligned_cols=14  Identities=29%  Similarity=0.280  Sum_probs=8.7

Q ss_pred             HHHHHHHHHCCCCC
Q ss_conf             99999999638844
Q gi|254780241|r  341 KEAADNLKKHGGFI  354 (444)
Q Consensus       341 ~~iAe~L~k~g~~I  354 (444)
                      ++...+++.+|...
T Consensus       315 ~~~~~~l~~~~~~~  328 (441)
T COG0544         315 KQALQQLQQQGIDS  328 (441)
T ss_pred             HHHHHHHHHCCCCH
T ss_conf             99999988626524


No 25 
>cd05135 RasGAP_RASAL Ras GTPase activating-like protein (RASAL) or RASAL1 is a member of the GAP1 family, and a Ca2+ sensor responding in-phase to repetitive Ca2+ signals by associating with the plasma membrane and deactivating Ras. It contains a conserved domain structure comprising N-terminal tandem C2 domains, a highly conserved central RasGAP domain, and a C-terminal pleckstrin-homology domain that is associated with a Bruton's tyrosine kinase motif. RASAL, like Ca2+ -promoted Ras inactivator (CAPRI, or RASAL4), is a cytosolic protein that undergoes a rapid translocation to the plasma membrane in response to receptor-mediated elevation in the concentration of intracellular free Ca2+, a translocation that activates its ability to function as a RasGAP. However, unlike RASAL4, RASAL undergoes an oscillatory translocation to the plasma membrane that occurs in synchrony with repetitive Ca2+ spikes.
Probab=48.19  E-value=18  Score=15.71  Aligned_cols=14  Identities=21%  Similarity=0.043  Sum_probs=4.9

Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             99999999999987
Q gi|254780241|r  166 LGGTMFLVWLGEQI  179 (444)
Q Consensus       166 ~aGs~il~wl~e~I  179 (444)
                      ++..++--=|++.|
T Consensus        94 ~G~~YL~~tL~~~I  107 (333)
T cd05135          94 VGMPHLHEPLLPEI  107 (333)
T ss_pred             HHHHHHHHHHHHHH
T ss_conf             88999999999999


No 26 
>TIGR02204 MsbA_rel ABC transporter, permease/ATP-binding protein; InterPro: IPR011918    This protein is related to a Proteobacterial ATP transporter that exports lipid A and to eukaryotic P-glycoproteins ..
Probab=44.86  E-value=21  Score=15.39  Aligned_cols=44  Identities=16%  Similarity=0.258  Sum_probs=22.8

Q ss_pred             HHHHCCCCCCHHHHHHHHHHH----HHHHHHHHHCC---CHHHHHHHHHHC
Q ss_conf             875306676316999999999----99999986237---989999999963
Q gi|254780241|r  307 LVDSLGHGRSFYMVLYSVFIV----FFAFFYTAIVF---NPKEAADNLKKH  350 (444)
Q Consensus       307 ~~~~~~~~~~~y~i~y~ilii----~Fs~f~~~i~~---~P~~iAe~L~k~  350 (444)
                      +...++.+..-=+++|.++.=    -.|--|.++|=   =.+.+.|=|+..
T Consensus       268 ~aG~mSaG~Lg~Fv~YA~~vAgs~g~LSEVwGElQrAaGAaERl~ELL~~~  318 (576)
T TIGR02204       268 LAGKMSAGELGQFVLYAVMVAGSIGALSEVWGELQRAAGAAERLIELLQAK  318 (576)
T ss_pred             ECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             247778454899999999999889899999999998531689999985357


No 27 
>PRK10517 magnesium-transporting ATPase MgtA; Provisional
Probab=44.26  E-value=21  Score=15.33  Aligned_cols=39  Identities=18%  Similarity=0.202  Sum_probs=19.1

Q ss_pred             HHHHHCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9998488-41002579999999999999999999999852
Q gi|254780241|r  392 LIAVTGV-PVSLSGTSLLIIVSVVLDTIVQIQGYLIAQQY  430 (444)
Q Consensus       392 ~~~~~~~-~~~~gGTslLI~Vgv~l~~~~qi~a~~~~~~Y  430 (444)
                      +..+++. +...+--..++.+...+=..-|+.-....|+|
T Consensus       858 ~~~~~~~~~lp~~~~~~l~~i~~~~~~~~e~~K~~~~rr~  897 (900)
T PRK10517        858 LASYLQLQALPLSYFPWLVAILAGYMTLTQLVKGFYSRRY  897 (900)
T ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHEECC
T ss_conf             7875167138889999999999999999999999840002


No 28 
>TIGR02876 spore_yqfD sporulation protein YqfD; InterPro: IPR010690   This family consists of several putative bacterial stage IV sporulation (SpoIV) proteins. YqfD of Bacillus subtilis (P54469 from SWISSPROT) is known to be essential for efficient sporulation although its exact function is unknown ..
Probab=43.49  E-value=15  Score=16.27  Aligned_cols=46  Identities=22%  Similarity=0.406  Sum_probs=32.1

Q ss_pred             CCCCCHHHHHHHHHHHHHH-HHHH-H--HC----CCHHHHHHHHHHCCCCCCCCC
Q ss_conf             6676316999999999999-9998-6--23----798999999996388447627
Q gi|254780241|r  312 GHGRSFYMVLYSVFIVFFA-FFYT-A--IV----FNPKEAADNLKKHGGFIPGIR  358 (444)
Q Consensus       312 ~~~~~~y~i~y~ilii~Fs-~f~~-~--i~----~~P~~iAe~L~k~g~~IpGiR  358 (444)
                      +++-.+|+.++++.++++| +.|. +  +.    ..|.+|+++|+++|.. ||++
T Consensus        84 r~~~~~G~L~f~~~~~~lS~fiW~IdvrI~g~~~~~~~~i~~~L~~~G~k-~Gv~  137 (406)
T TIGR02876        84 RPGILIGILLFLAIVYLLSTFIWKIDVRITGVKGETEYEIRKELKEMGIK-PGVK  137 (406)
T ss_pred             CCCHHHHHHHHHHHHHHHCCCEEEEEEEEECCCCCCHHHHHHHHHHCCCC-CCCC
T ss_conf             50076689999999998617558999997279997789999999855875-6832


No 29 
>cd05394 RasGAP_RASA2 RASA2 (or GAP1(m)) is a member of the GAP1 family of Ras GTPase-activating proteins that includes GAP1_IP4BP (or RASA3), CAPRI, and RASAL. In vitro, RASA2 has been shown to bind inositol 1,3,4,5-tetrakisphosphate (IP4), the water soluble inositol head group of the lipid second messenger phosphatidylinositol 3,4,5-trisphosphate (PIP3). In vivo studies also demonstrated that RASA2 binds PIP3, and it is recruited to the plasma membrane following agonist stimulation of PI 3-kinase. Furthermore, the membrane translocation is a consequence of the ability of its pleckstrin homology (PH) domain to bind PIP3.
Probab=41.58  E-value=23  Score=15.07  Aligned_cols=16  Identities=19%  Similarity=0.275  Sum_probs=6.7

Q ss_pred             HHHHHHHHHHHHHHHH
Q ss_conf             9999999999999874
Q gi|254780241|r  165 LLGGTMFLVWLGEQIT  180 (444)
Q Consensus       165 L~aGs~il~wl~e~It  180 (444)
                      +++-.++--=|++.|.
T Consensus        89 ~~G~~YL~~tL~~~I~  104 (313)
T cd05394          89 IVGKHYLKVTLKPVLD  104 (313)
T ss_pred             HHHHHHHHHHHHHHHH
T ss_conf             9889999999999999


No 30 
>TIGR01522 ATPase-IIA2_Ca calcium-transporting P-type ATPase, PMR1-type; InterPro: IPR006413   This family describes the P-type ATPase responsible for translocating calcium ions across the golgi membrane of fungi and animals , , and is of particular importance in the sarcoplasmic reticulum of skeletal and cardiac muscle in vertebrates . The calcium P-type ATPases have been characterised as Type IIA based on a phylogenetic analysis which distinguishes this group from the Type IIB PMCA calcium pump  represented by IPR006408 from INTERPRO. ; GO: 0005388 calcium-transporting ATPase activity, 0006816 calcium ion transport, 0016021 integral to membrane.
Probab=41.30  E-value=15  Score=16.27  Aligned_cols=89  Identities=20%  Similarity=0.382  Sum_probs=58.1

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHH-HHHHHCCC--------CHHHHHHHHCCCCHHHHHHHHHCC
Q ss_conf             883587889999999999999985067989873988999-98730355--------378899864277022204687354
Q gi|254780241|r   16 SFSRAKDLKSRIVFTIIALIVYRFGTYIPLPSIDFISYS-KAFQSKSA--------GIFGLFNMFSGGAVERMAVFSLGI   86 (444)
Q Consensus        16 ~~~~~~el~~Kil~Tl~il~iyrlg~~IPlPGid~~~~~-~~~~~~~~--------~~~~~l~~~sGga~~~~sif~LGI   86 (444)
                      +--=+++|-+|++.+.++|++-=+--|+       ..++ +.--....        =||+++|+++--+ +.=|+|++|+
T Consensus       720 ~~ilt~~l~~k~l~sA~iIv~gT~~vF~-------~~m~eDg~vt~RDTTMTFTCFVFFDMFNALAcRs-~TKSvFeiG~  791 (856)
T TIGR01522       720 DKILTKDLLKKVLVSAVIIVVGTLLVFV-------KEMQEDGVVTARDTTMTFTCFVFFDMFNALACRS-ETKSVFEIGF  791 (856)
T ss_pred             CCCCCHHHHHHHHHHHEEEEEEEEEEEE-------EEHHCCCCCCCCCCCCCCEEEHHHHHHHHHHHHC-CCCCEEEECC
T ss_conf             8637889999998720223564354766-------1033167858888865100110323555675330-7853465124


Q ss_pred             HH------HHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             78------999999999998521547864114
Q gi|254780241|r   87 MP------YISASIIVQLIAATVPSLENLKKE  112 (444)
Q Consensus        87 ~P------yItASIi~QLL~~~~P~l~~l~ke  112 (444)
                      --      =+-+||+=|+++.-+|+||+.=|.
T Consensus       792 fSNrMF~yAvG~Sl~GQl~vvY~pplQ~vFqT  823 (856)
T TIGR01522       792 FSNRMFNYAVGGSLIGQLLVVYVPPLQSVFQT  823 (856)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHH
T ss_conf             02258999999999999998734756640221


No 31 
>pfam08006 DUF1700 Protein of unknown function (DUF1700). This family contains many hypothetical bacterial proteins and two putative membrane proteins.
Probab=37.52  E-value=27  Score=14.67  Aligned_cols=13  Identities=15%  Similarity=0.299  Sum_probs=6.3

Q ss_pred             HHHHHHHHHHHHH
Q ss_conf             9999999999999
Q gi|254780241|r  165 LLGGTMFLVWLGE  177 (444)
Q Consensus       165 L~aGs~il~wl~e  177 (444)
                      ...+..+..|.+-
T Consensus       102 ~~~~~il~l~i~~  114 (181)
T pfam08006       102 ILILLVLSLWIIG  114 (181)
T ss_pred             HHHHHHHHHHHHH
T ss_conf             9999999999999


No 32 
>cd05137 RasGAP_CLA2_BUD2 CLA2/BUD2 functions as a GTPase-activating protein (GAP) for BUD1/RSR1 and is necessary for proper bud-site selection in yeast. BUD2 has sequence similarity to the catalytic domain of RasGAPs, and stimulates the hydrolysis of BUD1-GTP to BUD1-GDP. Elimination of Bud2p activity by mutation causes a random budding pattern with no growth defect. Overproduction of Bud2p also alters the budding pattern.
Probab=34.21  E-value=30  Score=14.33  Aligned_cols=18  Identities=11%  Similarity=0.060  Sum_probs=6.9

Q ss_pred             HHHCCHHHHHHHHHHHHH
Q ss_conf             873547899999999999
Q gi|254780241|r   82 FSLGIMPYISASIIVQLI   99 (444)
Q Consensus        82 f~LGI~PyItASIi~QLL   99 (444)
                      -..=|.|--.-+=+-|+|
T Consensus        44 ~e~~VLp~~~y~~l~~lL   61 (395)
T cd05137          44 EENFVLPSNNYEKLEELL   61 (395)
T ss_pred             CCEEEECHHHHHHHHHHH
T ss_conf             422750655422899998


No 33 
>cd05395 RasGAP_RASA4 Ras GTPase activating-like 4 protein (RASAL4), also known as Ca2+ -promoted Ras inactivator (CAPRI), is a member of the GAP1 family. Members of the GAP1 family are characterized by a conserved domain structure comprising N-terminal tandem C2 domains, a highly conserved central RasGAP domain, and a C-terminal pleckstrin-homology domain that is associated with a Bruton's tyrosine kinase motif. RASAL4, like RASAL, is a cytosolic protein that undergoes a rapid translocation to the plasma membrane in response to a receptor-mediated elevation in the concentration of intracellular free Ca2+ ([Ca2+]i). However, unlike RASAL, RASAL4 does not sense oscillations in [Ca2+]i.
Probab=33.88  E-value=30  Score=14.30  Aligned_cols=16  Identities=19%  Similarity=0.492  Sum_probs=6.8

Q ss_pred             HHHHHHHHHHCCCHHH
Q ss_conf             9999999862379899
Q gi|254780241|r  327 VFFAFFYTAIVFNPKE  342 (444)
Q Consensus       327 i~Fs~f~~~i~~~P~~  342 (444)
                      ++|=-|+.--.+||+-
T Consensus       203 FiFLRFfcPAILsPkL  218 (337)
T cd05395         203 FLCLRFFSPAIMSPKL  218 (337)
T ss_pred             HHHHHHHHHHHCCHHH
T ss_conf             9999996267459776


No 34 
>TIGR02810 agaZ_gatZ D-tagatose-bisphosphate aldolase, class II, non-catalytic subunit; InterPro: IPR012062   Escherichia coli and other enteric bacteria contain two closely related D-tagatose 1,6-bisphosphate (TagBP)-specific aldolases involved in catabolism of galactitol (genes gatY gatZ) and of N-acetyl-galactosamine and D-galactosamine (genes kbaY, kbaZ, also called agaY, agaZ). The catalytic subunits GatY/KbaY alone are sufficient to show aldolase activity and contain most or all of the residues that have been identified as essential in substrate/product recognition and catalysis for class II aldolases , . However, these aldolases differ from other Class II aldolases (which are homodimeric enzymes) in that they require subunits GatZ/KbaZ for full activity and for good in vivo and in vitro stability. The Z subunits alone do not show any aldolase activity . It should be noted that the previous suggestion of a tagatose 6P-kinase function for AgaZ  and other members of this family turned out to be erroneous , .; GO: 0009024 tagatose-6-phosphate kinase activity, 0019402 galactitol metabolic process.
Probab=33.28  E-value=9.9  Score=17.42  Aligned_cols=14  Identities=43%  Similarity=0.714  Sum_probs=11.4

Q ss_pred             HHHHHCCCCCCCCC
Q ss_conf             99985067989873
Q gi|254780241|r   35 IVYRFGTYIPLPSI   48 (444)
Q Consensus        35 ~iyrlg~~IPlPGi   48 (444)
                      ..|.+||-+|+||=
T Consensus       164 p~YVIGTEVPvPGG  177 (430)
T TIGR02810       164 PVYVIGTEVPVPGG  177 (430)
T ss_pred             CCEEEEEEECCCCC
T ss_conf             50365102248878


No 35 
>PRK08470 adenylosuccinate lyase; Provisional
Probab=27.63  E-value=39  Score=13.63  Aligned_cols=28  Identities=21%  Similarity=0.387  Sum_probs=22.2

Q ss_pred             HHHHHHHHCCCHHHHHHHHHHCCCCCCC
Q ss_conf             9999986237989999999963884476
Q gi|254780241|r  329 FAFFYTAIVFNPKEAADNLKKHGGFIPG  356 (444)
Q Consensus       329 Fs~f~~~i~~~P~~iAe~L~k~g~~IpG  356 (444)
                      +.....-+.+||+.+.+||...+++|--
T Consensus       327 ~~~vl~~L~V~~~rM~~NL~~t~gli~s  354 (442)
T PRK08470        327 LNNVIENLVVYPENMMKNLNLTGGLVFS  354 (442)
T ss_pred             HHHHHCCCEECHHHHHHHHHHHCCHHHH
T ss_conf             9987603788689999999986682799


No 36 
>TIGR00115 tig trigger factor; InterPro: IPR005215   The trigger factor is found in several prokaryotes, and is involved in protein export. Trigger factor is a ribosome-associated molecular chaperone and is the first chaperone to interact with nascent polypeptide. It acts as a chaperone by maintaining the newly synthesised protein in an open conformation. Trigger factor can bind at the same time as the signal recognition particle (SRP), but is excluded by the SRP receptor (FtsY). The central domain of trigger factor has peptidyl-prolyl cis/trans isomerase activity .; GO: 0015031 protein transport.
Probab=27.60  E-value=21  Score=15.29  Aligned_cols=32  Identities=13%  Similarity=0.082  Sum_probs=18.0

Q ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             88447627985799999999999999999999
Q gi|254780241|r  351 GGFIPGIRPGDRTALHIDYVLTRVTVVGAGYL  382 (444)
Q Consensus       351 g~~IpGiRPG~~T~~yL~~v~~rit~~Ga~~l  382 (444)
                      ...|||+|+||-=..-.+.-..|.-+.-++--
T Consensus        41 ~v~I~GFR~GKVP~~l~~qr~~~AEL~~~~~q   72 (475)
T TIGR00115        41 KVKIDGFRKGKVPRNLVEQRYGKAELLASIKQ   72 (475)
T ss_pred             EECCCCCCCCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             00358635788786999854116899999999


No 37 
>pfam05313 Pox_P21 Poxvirus P21 membrane protein. The P21 membrane protein of vaccinia virus, encoded by the A17L (or A18L) gene, has been reported to localize on the inner of the two membranes of the intracellular mature virus (IMV). It has also been shown that P21 acts as a membrane anchor for the externally located fusion protein P14 (A27L gene).
Probab=27.41  E-value=39  Score=13.61  Aligned_cols=12  Identities=50%  Similarity=0.545  Sum_probs=4.8

Q ss_pred             HHHHHHHCCCCC
Q ss_conf             999874088987
Q gi|254780241|r  175 LGEQITMRGIGN  186 (444)
Q Consensus       175 l~e~It~~GIGn  186 (444)
                      ++-||...|=||
T Consensus       104 l~~qi~~~~~~~  115 (190)
T pfam05313       104 LSMQIINPGNGN  115 (190)
T ss_pred             HHHHEECCCCCC
T ss_conf             987204688876


No 38 
>TIGR01373 soxB sarcosine oxidase, beta subunit family; InterPro: IPR006278   These sequences represent the beta subunit of a family of known and putative heterotetrameric sarcosine oxidases. Five operons of such oxidases are found in Mesorhizobium loti and three in Agrobacterium tumefaciens, a high enough copy number to suggest that not all members share the same function. The model is designated as subfamily rather than equivalog for this reason.    Sarcosine oxidase catalyzes the oxidative demethylation of sarcosine to glycine. The reaction converts tetrahydrofolate to 5,10-methylene-tetrahydrofolate . Bacterial sarcosine oxidases have been isolated from over a dozen different organisms and fall into two major classes (1) monomeric form that contains only covalent flavin and (2) heterotetrameric (alpha, beta, gamma, delta) forms that contain a covalent and noncovalent flavin, this entry represents the heterotetrameric form.; GO: 0008115 sarcosine oxidase activity, 0046653 tetrahydrofolate metabolic process.
Probab=26.79  E-value=25  Score=14.88  Aligned_cols=10  Identities=20%  Similarity=0.335  Sum_probs=6.1

Q ss_pred             CCCHHHHHHH
Q ss_conf             0002379999
Q gi|254780241|r  271 NTAGVVPSIF  280 (444)
Q Consensus       271 n~aGvmPiIf  280 (444)
                      -+-|..|++=
T Consensus       304 aQrG~l~~~e  313 (407)
T TIGR01373       304 AQRGNLPILE  313 (407)
T ss_pred             ECCCCHHHHH
T ss_conf             0128807899


No 39 
>pfam10151 DUF2359 Uncharacterized conserved protein (DUF2359). This is a 450 amino acid region of a family of proteins conserved from insects to humans. The mouse protein, Q8BM55, is annotated as being a putative Vitamin K-dependent carboxylation gamma-carboxyglutamic (GLA) domain containing protein, but this could not be confirmed. The function is not known.
Probab=25.69  E-value=42  Score=13.41  Aligned_cols=43  Identities=26%  Similarity=0.243  Sum_probs=18.0

Q ss_pred             HHHHHHHHHHHHHH--HHHCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999985215478--64114636899999886999999999999
Q gi|254780241|r   94 IIVQLIAATVPSLE--NLKKEGEQGRKVINQYTRYATVLLGILQA  136 (444)
Q Consensus        94 Ii~QLL~~~~P~l~--~l~kege~gr~ki~~~tr~ltl~~a~iQs  136 (444)
                      |.+|++....|++-  ++.|.-|--|.--|+-.+-|++.+|+.|+
T Consensus         5 i~LQai~~~~Pki~t~NLak~~~Lr~S~QNR~~~cLsILWAlGQa   49 (469)
T pfam10151         5 ICIQAVLQDKPKIVTSNLDKYLELLRSHQSRPKKCLTIMWALGQA   49 (469)
T ss_pred             HHHHHHHCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCC
T ss_conf             999999636938788617889999986515625379999981356


No 40 
>pfam07438 DUF1514 Protein of unknown function (DUF1514). This family consists of several Staphylococcus aureus and related bacteriophage proteins of around 65 residues in length. The function of this family is unknown.
Probab=24.90  E-value=43  Score=13.32  Aligned_cols=26  Identities=31%  Similarity=0.299  Sum_probs=19.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             79999999999999999999999852
Q gi|254780241|r  405 TSLLIIVSVVLDTIVQIQGYLIAQQY  430 (444)
Q Consensus       405 TslLI~Vgv~l~~~~qi~a~~~~~~Y  430 (444)
                      .-+||+.|..-|-.+++||...++.|
T Consensus        11 I~LLI~lssnS~~~~ei~AL~Y~N~Y   36 (66)
T pfam07438        11 ILLLICLSSNSDRAREIQALRYINDY   36 (66)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999998321689999999999999


No 41 
>PRK07380 adenylosuccinate lyase; Provisional
Probab=24.55  E-value=44  Score=13.28  Aligned_cols=87  Identities=13%  Similarity=0.073  Sum_probs=41.0

Q ss_pred             CCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHC------CCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             43114442000023799999999986888887507------777247999887530667631699999999999999986
Q gi|254780241|r  262 DVSYLPLKLNTAGVVPSIFASSLLLLPATIMGFID------VSSSPTWIVGLVDSLGHGRSFYMVLYSVFIVFFAFFYTA  335 (444)
Q Consensus       262 ~~sylPiKin~aGvmPiIfassll~~p~~i~~~~~------~~~~~~~~~~~~~~~~~~~~~y~i~y~ilii~Fs~f~~~  335 (444)
                      -+|-+|=|-||....-+.=.+..+  +......+.      ......|-   ..+...+..+.. ....+ --......-
T Consensus       261 GSStMPhKrNPi~~E~i~~lar~~--r~~~~~~l~~~~~~hERD~~~s~---~Er~~lp~~~~~-~~~~l-~~~~~ll~~  333 (431)
T PRK07380        261 GSSAMPHKRNPIRSERLSGLARVL--RSYVVAALENVALWHERDISHSS---VERVMLPDCSIL-LHFML-REMTDLVKN  333 (431)
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHH--HHHHHHHHHHHHHHCCCCCHHHH---HHHHHHHHHHHH-HHHHH-HHHHHHHCC
T ss_conf             128878562858899999999988--87578899750886067824345---478678899999-99999-999998606


Q ss_pred             HCCCHHHHHHHHHHCCCCCC
Q ss_conf             23798999999996388447
Q gi|254780241|r  336 IVFNPKEAADNLKKHGGFIP  355 (444)
Q Consensus       336 i~~~P~~iAe~L~k~g~~Ip  355 (444)
                      +.+||+.+.+||...+++|-
T Consensus       334 L~V~~~~M~~Nl~~~~gli~  353 (431)
T PRK07380        334 LGVYPENMRRNMNIYGGVVF  353 (431)
T ss_pred             CEECHHHHHHHHHHHCCHHH
T ss_conf             88979999999988278789


No 42 
>KOG3802 consensus
Probab=24.47  E-value=44  Score=13.27  Aligned_cols=14  Identities=21%  Similarity=0.411  Sum_probs=8.4

Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             99999999998740
Q gi|254780241|r  168 GTMFLVWLGEQITM  181 (444)
Q Consensus       168 Gs~il~wl~e~It~  181 (444)
                      --++-=||.|-=+.
T Consensus       263 KPLL~KWLeEAes~  276 (398)
T KOG3802         263 KPLLEKWLEEAESR  276 (398)
T ss_pred             HHHHHHHHHHHHCC
T ss_conf             79999999998603


No 43 
>pfam12263 DUF3611 Protein of unknown function (DUF3611). This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 180 and 205 amino acids in length. There are two completely conserved residues (W and G) that may be functionally important.
Probab=24.20  E-value=45  Score=13.23  Aligned_cols=78  Identities=15%  Similarity=0.288  Sum_probs=44.5

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHH---HH
Q ss_conf             763169999999999999998623798999999996388447627985-79999999999999999999999999---99
Q gi|254780241|r  314 GRSFYMVLYSVFIVFFAFFYTAIVFNPKEAADNLKKHGGFIPGIRPGD-RTALHIDYVLTRVTVVGAGYLVCVCI---FP  389 (444)
Q Consensus       314 ~~~~y~i~y~ilii~Fs~f~~~i~~~P~~iAe~L~k~g~~IpGiRPG~-~T~~yL~~v~~rit~~Ga~~l~~la~---~p  389 (444)
                      +..++.....+++.+|+.||++--   .+++|+|++.   =|..||.| +|.+-|+.- --+...| .+++++..   .-
T Consensus        56 ~~gl~la~~glv~l~~Si~~~fry---~rlg~~L~~~---~~~~rP~r~~~~r~lr~G-l~~nLvG-ml~allG~qa~vG  127 (183)
T pfam12263        56 GIGLFLTIIGLIALGFSIFFAFRY---TRLGRRLRNP---DPAKRPSRADTVRLLRLG-LIINLLG-MFLALIGAQATVG  127 (183)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHCCC---CCCCCCCHHHHHHHHHHH-HHHHHHH-HHHHHHHHHHHHH
T ss_conf             089999999999999999999889---9999985558---887899889999999999-9999999-9999999999999


Q ss_pred             HHHHHHHCCC
Q ss_conf             9999984884
Q gi|254780241|r  390 EALIAVTGVP  399 (444)
Q Consensus       390 ~~~~~~~~~~  399 (444)
                      .++......|
T Consensus       128 ~L~~Kalsqp  137 (183)
T pfam12263       128 ILLAKALSQP  137 (183)
T ss_pred             HHHHHHHCCC
T ss_conf             9999997378


No 44 
>TIGR00707 argD acetylornithine and succinylornithine aminotransferases; InterPro: IPR004636   This family of proteins, for which ornithine aminotransferases form an outgroup, consists mostly of proteins designated acetylornithine aminotransferase. However, the two very closely related members from Escherichia coli are assigned different enzymatic activities. One is acetylornithine aminotransferase (2.6.1.11 from EC), ArgD, an enzyme of arginine biosynthesis, while another is succinylornithine aminotransferase, an enzyme of the arginine succinyltransferase pathway, an ammonia-generating pathway of arginine catabolism . Members of this family may also act on ornithine, like ornithine aminotransferase (2.6.1.13 from EC)  and on succinyldiaminopimelate, like N-succinyldiaminopmelate-aminotransferase (2.6.1.17 from EC, DapC, an enzyme of lysine biosynthesis) . ; GO: 0008483 transaminase activity, 0006525 arginine metabolic process.
Probab=21.86  E-value=31  Score=14.28  Aligned_cols=15  Identities=40%  Similarity=0.842  Sum_probs=11.4

Q ss_pred             HHHHH-CCCCCCCHHH
Q ss_conf             98740-8898752036
Q gi|254780241|r  177 EQITM-RGIGNGVSLI  191 (444)
Q Consensus       177 e~It~-~GIGnG~SLi  191 (444)
                      |.+|- ||+|||..+=
T Consensus       250 Di~T~AKgLGgG~PiG  265 (402)
T TIGR00707       250 DIITLAKGLGGGVPIG  265 (402)
T ss_pred             HHHHHHHHHHCCCHHH
T ss_conf             3875405552782022


No 45 
>cd05134 RasGAP_RASA3 RASA3 (or GAP1_IP4BP) is a member of the GAP1 family and has been shown to specifically bind 1,3,4,5-tetrakisphosphate (IP4). Thus, RASA3 may function as an IP4 receptor. The members of GAP1 family are characterized by a conserved domain structure comprising N-terminal tandem C2 domains, a highly conserved central RasGAP domain, and a C-terminal pleckstrin-homology domain that is associated with a Bruton's tyrosine kinase motif. Purified RASA3 stimulates GAP activity on Ras with about a five-fold lower potency than p120RasGAP, but shows no GAP-stimulating activity at all against Rac or Rab3A.
Probab=21.77  E-value=50  Score=12.93  Aligned_cols=15  Identities=27%  Similarity=0.140  Sum_probs=6.0

Q ss_pred             HHHHHHHHHHHHHHH
Q ss_conf             999999999999874
Q gi|254780241|r  166 LGGTMFLVWLGEQIT  180 (444)
Q Consensus       166 ~aGs~il~wl~e~It  180 (444)
                      ++..++--=|++.|+
T Consensus        90 ~G~~YL~~tL~~~I~  104 (310)
T cd05134          90 AGMHYLQVTLKPIID  104 (310)
T ss_pred             HHHHHHHHHHHHHHH
T ss_conf             828999999999999


No 46 
>COG1086 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]
Probab=21.17  E-value=38  Score=13.69  Aligned_cols=24  Identities=25%  Similarity=0.361  Sum_probs=11.3

Q ss_pred             HHHHHHHHHHCC---------CCCCCCCCCHHH
Q ss_conf             899999999638---------844762798579
Q gi|254780241|r  340 PKEAADNLKKHG---------GFIPGIRPGDRT  363 (444)
Q Consensus       340 P~~iAe~L~k~g---------~~IpGiRPG~~T  363 (444)
                      =.|+||+|-+..         -.+-|+||||+-
T Consensus       484 I~dLAk~mi~l~g~~~~~dI~I~~~GlRpGEKl  516 (588)
T COG1086         484 IIDLAKAMIELAGQTPPGDIAIKIIGLRPGEKL  516 (588)
T ss_pred             HHHHHHHHHHHHCCCCCCCCCEEEEECCCCHHH
T ss_conf             999999999981779988877699855875314


No 47 
>TIGR02854 spore_II_GA sigma-E processing peptidase SpoIIGA; InterPro: IPR005081   Peptidases are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry. Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins.   Families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule.     The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported.   This group of peptidases belong to the MEROPS peptidase family U4 (SpoIIGA peptidase family, clan U-).    Sporulation in bacteria such as Bacillus subtilis involves the formation of a polar septum, which divides the sporangium into a mother cell and a forespore. The sigma E factor, which is encoded within the spoIIG operon, is a cell-specific regulatory protein that directs gene transcription in the mother cell. Sigma E is synthesised as an inactive proprotein pro-sigma E, which is converted to the mature factor by the putative processing enzyme SpoIIGA . ; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis, 0030436 sporulation (sensu Bacteria).
Probab=20.67  E-value=53  Score=12.79  Aligned_cols=51  Identities=14%  Similarity=0.158  Sum_probs=22.0

Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHH--HHHHHHHHH
Q ss_conf             999999999999997235567622587504799999999999--999999999
Q gi|254780241|r  127 ATVLLGILQAYGIAVGLKNGQGIVSDSDYFFVFSTIITLLGG--TMFLVWLGE  177 (444)
Q Consensus       127 ltl~~a~iQs~~~~~~l~~~~~~~~~~~~~~~~~~il~L~aG--s~il~wl~e  177 (444)
                      ...+.=++-|..++...-..............+..+..+++|  .++...+.|
T Consensus        76 ~~~~~KLl~S~li~~~~f~~~~~~~~~k~~~~Fy~~~f~~gGgl~al~f~l~~  128 (320)
T TIGR02854        76 TSPIAKLLYSFLIIFIAFGKKSLRFFLKLLFLFYFVSFATGGGLFALHFFLAT  128 (320)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             77899999999999997167667899999999999999987899999998826


Done!