Query         gi|254780616|ref|YP_003065029.1| F0F1 ATP synthase subunit gamma [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 294
No_of_seqs    111 out of 2347
Neff          7.8 
Searched_HMMs 33803
Date          Wed Jun  1 15:22:21 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780616.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 >2hld_G ATP synthase gamma cha 100.0       0       0  538.1  29.8  277    2-294     1-277 (278)
  2 >2ck3_G ATP synthase gamma cha 100.0       0       0  520.9  16.2  272    2-294     1-272 (272)
  3 >2qe7_G ATP synthase subunit g 100.0       0       0  541.8  -5.3  285    1-294     1-285 (286)
  4 >1fs0_G ATP synthase gamma sub 100.0       0       0  404.4  22.2  230   19-255     1-230 (230)
  5 >1oao_C CODH, carbon monoxide   65.1     3.5  0.0001   20.8   1.8   23   80-103    20-43  (90)
  6 >2d0t_A Indoleamine 2,3-dioxyg  52.4     8.1 0.00024   18.4   1.9   32   67-99    106-137 (203)
  7 >1qw2_A Conserved hypothetical  49.9     5.8 0.00017   19.3   0.8   39   81-130    32-72  (102)
  8 >1u55_A Heme-based methyl-acce  39.5      24 0.00071   15.4   3.3   47   60-107   107-153 (188)
  9 >2p1l_B Beclin 1; apoptosis, a  31.3      32 0.00096   14.6   2.3   20  273-292     7-26  (31)
 10 >2pk8_A Uncharacterized protei  29.6      35   0.001   14.4   3.9   37   96-132    16-52  (103)
 11 >2k47_A Phosphoprotein, P prot  24.1      25 0.00073   15.4   0.6   12  267-278    57-68  (79)
 12 >1sfe_A ADA O6-methylguanine-D  21.1      24 0.00072   15.4   0.1   13   80-92     26-38  (88)

No 1  
>>2hld_G ATP synthase gamma chain, mitochondrial; ATP phosphorylase (H+ transporting), F1FO, F1- ATPase, hydrolase; HET: ANP; 2.80A {Saccharomyces cerevisiae} PDB: 3fks_G (G:)
Probab=100.00  E-value=0  Score=538.10  Aligned_cols=277  Identities=25%  Similarity=0.358  Sum_probs=237.4

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCEEE
Q ss_conf             88799999999875689999999999999999999999830236999999999997301575442100024433343255
Q gi|254780616|r    2 TSLKEFKSRIHSVKETQKITEAMQLISVTKLRRAKEAIQNASSYQFHIKDFFMKCVVGEHFQEYPSPFVRGTGKDKVYLL   81 (294)
Q Consensus         2 ~~lk~ik~RI~sv~~~~KITkaMkmVA~skl~ka~~~~~~~~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (294)
                      |||++||+||+||++|+|||+||||||++|++|+|+++++.+||++.+.+++.+++..     .+++....++ .++.++
T Consensus         1 Aslk~ik~RI~sv~~i~kIt~AMkmVA~akl~ka~~~~~~~~~y~~~i~~~~~~l~~~-----~~~~~~~~~~-~~~~~~   74 (278)
T 2hld_G            1 ATLKEVEMRLKSIKNIEKITKTMKIVASTRLSKAEKAKISAKKMDEAEQLFYKNAETK-----NLDVEATETG-APKELI   74 (278)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCC-----C------------CCEE
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-----CCCHHHCCCC-CCCEEE
T ss_conf             9859999999998799999999999999999999999986053999999998734222-----6530000247-875169


Q ss_pred             EECCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEECHHHHHHHCCCCCCEEEEECCCCCCCCHHHHHHHHHHHH
Q ss_conf             31146424420011479999999876532038850388870403798510233320111114776640368899999765
Q gi|254780616|r   82 VICTAEKGLCGGFNAQIIRFARDRIKEFIAEGKEIKLLIIGRKGYEGLRKEFSSMIIDSIELSSKKGVDFVQAHGIARQI  161 (294)
Q Consensus        82 IvitSDrGLCG~~Ns~i~k~~~~~i~~~~~~~~~~~l~~vGkKg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~~~l  161 (294)
                      |||||||||||+||++|+|.+.+++++..   +...++++|+++..++++.+...... ......++++|..+..|++.+
T Consensus        75 IvitSDrGLCG~fN~~iik~~~~~i~~~~---~~~~~~v~~k~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~i~~~~  150 (278)
T 2hld_G           75 VAITSDKGLCGSIHSQLAKAVRRHLNDQP---NADIVTIGDKIKMQLLRTHPNNIKLS-INGIGKDAPTFQESALIADKL  150 (278)
T ss_dssp             EEECCSCCCSTTHHHHHHHHHHHHHHSCT---TCEEEEESHHHHHHHHHHCTTTEEEE-EECCSSSCCCHHHHHHHHHHH
T ss_pred             EEECCCCCHHHHHHHHHHHHHHHHCCCCC---CCCCEEECCHHHHHHHHCCCCEEEEE-EECCCCCCCCHHHHHHHHHHH
T ss_conf             98528975067789999999986311234---44402332204776540346502333-301577889799887788999


Q ss_pred             HHHHHCCCCCCEEEEECCCCCCCCCCEEEEECCCCCHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             57650678750588620113443222044204788735422110036554322479967878999998999999999999
Q gi|254780616|r  162 TSLFTSNVFDLCFFIYSEFKSIIQQIPIISKIIPVDWSQDLEQKQQDILSVYRYESTLYSVLDDIVLRSISSRVFWIILE  241 (294)
Q Consensus       162 ~~~~~~~~~d~v~iiYn~f~s~~~q~p~~~~llP~~~~~~~~~~~~~~~~~~~~Ep~~~~il~~l~~~yl~~~l~~alle  241 (294)
                      ++.|.++++|+|+|+||+|+|+++|+|+++++||+++...     ....+.|+++| ++++|++|+|.|++++||+|++|
T Consensus       151 ~~~~~~~~~d~v~iiyn~f~~~~~q~~~~~~llP~~~~~~-----~~~~~~~~~~~-~~~il~~l~~~yl~~~l~~a~~e  224 (278)
T 2hld_G          151 LSVMKAGTYPKISIFYNDPVSSLSFEPSEKPIFNAKTIEQ-----SPSFGKFEIDT-DANVPRDLFEYTLANQMLTAMAQ  224 (278)
T ss_dssp             HHTSCGGGCSCEEEEEEEESSSSCEEEEEEECCCHHHHHT-----CTTGGGSCCCC-SSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCCCCEEEEECCCCCCCCCCCHHHHHCCCCCCCC-----CCCCCCCCCCC-CCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             9987446752104552112443345606764021000113-----65544332253-20038999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             99999999999999999989999999999999998988988999998525319
Q gi|254780616|r  242 NKASEVGARITAMDNATRNAGQMVDNLVLSYNRQRQMRITTELIEIIAGAEVV  294 (294)
Q Consensus       242 s~aSE~aaRm~AM~~At~Na~~~i~~L~l~~Nk~RQ~~IT~El~EIisGaeAl  294 (294)
                      |++|||+|||+||++|||||+|++++|+++|||+||++||+||+|||||||||
T Consensus       225 s~~sE~~aR~~aM~~At~Na~~~i~~L~~~yNk~RQ~~IT~El~EIvsGaeal  277 (278)
T 2hld_G          225 GYAAEISARRNAMDNASKNAGDMINRYSILYNRTRQAVITNELVDIITGASSL  277 (278)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             99999999999999899979999999999999999998899999999889864


No 2  
>>2ck3_G ATP synthase gamma chain; ATP phosphorylase, ATP phosphorylase (H+ transporting), F1FO ATP synthase, F1-ATPase, hydrolase, ATP synthesis; HET: ANP ADP; 1.9A {Bos taurus} (G:)
Probab=100.00  E-value=0  Score=520.93  Aligned_cols=272  Identities=28%  Similarity=0.426  Sum_probs=249.1

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCEEE
Q ss_conf             88799999999875689999999999999999999999830236999999999997301575442100024433343255
Q gi|254780616|r    2 TSLKEFKSRIHSVKETQKITEAMQLISVTKLRRAKEAIQNASSYQFHIKDFFMKCVVGEHFQEYPSPFVRGTGKDKVYLL   81 (294)
Q Consensus         2 ~~lk~ik~RI~sv~~~~KITkaMkmVA~skl~ka~~~~~~~~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (294)
                      +||++|++||+|+++|+|||+||||||++|++|+|+++++.+||++.+.+++.+..           ++.+ .+.++.+|
T Consensus         1 asLk~lk~ri~sv~~i~kIt~aMkmva~~kl~k~~~~~~~~~~y~~~~~~~~~~~~-----------~~~~-~~~~~~l~   68 (272)
T 2ck3_G            1 ATLKDITRRLKSIKNIQKITKSMKMVAAAKYARAERELKPARVYGVGSLALYEKAD-----------IKTP-EDKKKHLI   68 (272)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC-------------------------------CC
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHCCCC-----------CHHC-CCCCCCEE
T ss_conf             98699999999987999999999999999999999999832757988688651542-----------0101-34565116


Q ss_pred             EECCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEECHHHHHHHCCCCCCEEEEECCCCCCCCHHHHHHHHHHHH
Q ss_conf             31146424420011479999999876532038850388870403798510233320111114776640368899999765
Q gi|254780616|r   82 VICTAEKGLCGGFNAQIIRFARDRIKEFIAEGKEIKLLIIGRKGYEGLRKEFSSMIIDSIELSSKKGVDFVQAHGIARQI  161 (294)
Q Consensus        82 IvitSDrGLCG~~Ns~i~k~~~~~i~~~~~~~~~~~l~~vGkKg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~~~l  161 (294)
                      |+|||||||||+||++++|.+++.+++...+++++.+++||+||.++|.+++.+....+....+.+  ++..+..++..+
T Consensus        69 IvitSd~GlcG~~Ns~i~k~~~~~i~~~~~~~~~~~~i~iG~k~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~i~~~~  146 (272)
T 2ck3_G           69 IGVSSDRGLCGAIHSSVAKQMKSEAANLAAAGKEVKIIGVGDKIRSILHRTHSDQFLVTFKEVGRR--PPTFGDASVIAL  146 (272)
T ss_dssp             CCBCCSCCCSSSSHHHHC------------------CCCBSHHHHHHC----------CBCSCSSS--CCCHHHHHHHHH
T ss_pred             EEEECCCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHHCCCEEEEEECCCCCC--CCHHHHHHHHHH
T ss_conf             998668987665400499999998765404786038975142024566530353000110234457--733788899999


Q ss_pred             HHHHHCCCCCCEEEEECCCCCCCCCCEEEEECCCCCHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             57650678750588620113443222044204788735422110036554322479967878999998999999999999
Q gi|254780616|r  162 TSLFTSNVFDLCFFIYSEFKSIIQQIPIISKIIPVDWSQDLEQKQQDILSVYRYESTLYSVLDDIVLRSISSRVFWIILE  241 (294)
Q Consensus       162 ~~~~~~~~~d~v~iiYn~f~s~~~q~p~~~~llP~~~~~~~~~~~~~~~~~~~~Ep~~~~il~~l~~~yl~~~l~~alle  241 (294)
                      ...|..+++|+|+++||+|+|+++|+|.+++++|+++.       +....+|+|||+++++++.|+|.|+.+.||+|++|
T Consensus       147 ~~~~~~~~~~~v~ivyn~~~~~~~~~~~~~~ilP~~~~-------~~~~~~~~~ep~~~~~l~~li~~yl~~~l~~al~e  219 (272)
T 2ck3_G          147 ELLNSGYEFDEGSIIFNRFRSVISYKTEEKPIFSLDTI-------SSAESMSIYDDIDADVLRNYQEYSLANIIYYSLKE  219 (272)
T ss_dssp             HC----------CCCCCEECSSSCEECC---------------------------------------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCEEEEECCCCCCEEEEEEEEECCCCCCH-------HHHCCHHHCCCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99876642110167751555530012457633555641-------22100111034506678889999998999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             99999999999999999989999999999999998988988999998525319
Q gi|254780616|r  242 NKASEVGARITAMDNATRNAGQMVDNLVLSYNRQRQMRITTELIEIIAGAEVV  294 (294)
Q Consensus       242 s~aSE~aaRm~AM~~At~Na~~~i~~L~l~~Nk~RQ~~IT~El~EIisGaeAl  294 (294)
                      |.+|||++||+||++|||||+|++++|+++|||+||+.||+||+|||||||||
T Consensus       220 s~~sE~~aR~~AM~~A~~na~e~i~~L~~~~nr~RQ~~IT~El~eIisGaeal  272 (272)
T 2ck3_G          220 STTSEQSARMTAMDNASKNASEMIDKLTLTFNRTRQAVITKELIEIISGAAAL  272 (272)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             89999999999999999849999999999999999999999999998788439


No 3  
>>2qe7_G ATP synthase subunit gamma; blockage of ATP hydrolysis, F1-ATPase, single particle analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} (G:)
Probab=100.00  E-value=0  Score=541.80  Aligned_cols=285  Identities=33%  Similarity=0.533  Sum_probs=260.5

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCEE
Q ss_conf             98879999999987568999999999999999999999983023699999999999730157544210002443334325
Q gi|254780616|r    1 MTSLKEFKSRIHSVKETQKITEAMQLISVTKLRRAKEAIQNASSYQFHIKDFFMKCVVGEHFQEYPSPFVRGTGKDKVYL   80 (294)
Q Consensus         1 M~~lk~ik~RI~sv~~~~KITkaMkmVA~skl~ka~~~~~~~~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (294)
                      ||||++|++||+|+++|+|||+||+|||++|++|+|++++..+||+..+.+++.+++..  ..+..+|+...++. ++.+
T Consensus         1 M~~lk~ik~ri~si~~i~kIt~aMk~ia~skl~k~~~~~~~~~~y~~~~~~~~~~~~~~--~~~~~~~~~~~~~~-~~~l   77 (286)
T 2qe7_G            1 MQGMREIKRRIRSVKNTRQITKAMKMVAAAKLRRAQETAENARPYADKIKEVISSIAAG--TKDFSHPMLEARPV-KKTG   77 (286)
T ss_dssp             --CCSSSSHHHHHHHHHHHHHHHHHHHHHHHTTSTTTSSSSSSSSTTCC----------------CCSSCSCCCC-SSCC
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHH--CCCCCCCCCCCCCC-CCEE
T ss_conf             99779999999998689999999999999999999999997132999999999999974--63533420014567-7448


Q ss_pred             EEECCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEECHHHHHHHCCCCCCEEEEECCCCCCCCHHHHHHHHHHH
Q ss_conf             53114642442001147999999987653203885038887040379851023332011111477664036889999976
Q gi|254780616|r   81 LVICTAEKGLCGGFNAQIIRFARDRIKEFIAEGKEIKLLIIGRKGYEGLRKEFSSMIIDSIELSSKKGVDFVQAHGIARQ  160 (294)
Q Consensus        81 ~IvitSDrGLCG~~Ns~i~k~~~~~i~~~~~~~~~~~l~~vGkKg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~~~  160 (294)
                      ||+|||||||||+||++++|.+.+++++...++.++.+++||+||.+++.+++.+....+....+  .++|..+..+.+.
T Consensus        78 ~IvitSdrGlCG~~N~~i~k~~~~~~~~~~~~~~~~~li~iG~k~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~i~~~  155 (286)
T 2qe7_G           78 YMVITSDRGLAGPYNANILRLVSKTIEERHQSKDEYVIFAVGRKGRDFFKKRGYPVVEEVTGISD--TPSLTEIQDIAQS  155 (286)
T ss_dssp             CCCCCCTTCCCTHHHHHHHTGGGTTTTSSCTTSSCCCCCCCSHHHHHHHHSSSSCCSCCCSCCCS--SCCSTTTHHHHHH
T ss_pred             EEEEECCCCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHH
T ss_conf             99996797655641058999999987766403641256422103788876211147766520121--0328999999999


Q ss_pred             HHHHHHCCCCCCEEEEECCCCCCCCCCEEEEECCCCCHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             55765067875058862011344322204420478873542211003655432247996787899999899999999999
Q gi|254780616|r  161 ITSLFTSNVFDLCFFIYSEFKSIIQQIPIISKIIPVDWSQDLEQKQQDILSVYRYESTLYSVLDDIVLRSISSRVFWIIL  240 (294)
Q Consensus       161 l~~~~~~~~~d~v~iiYn~f~s~~~q~p~~~~llP~~~~~~~~~~~~~~~~~~~~Ep~~~~il~~l~~~yl~~~l~~all  240 (294)
                      +++.|.++++|+|+++||+|+|+++|+|.++++||++....    ..+..+.|.|||++++++++|+|.|+.+.||+|++
T Consensus       156 i~~~~~~~~~~~v~ivyn~~~~~~~~~~~~~~llP~~~~~~----~~~~~~~~~~ep~~~~il~~l~~~yl~~~l~~~l~  231 (286)
T 2qe7_G          156 AIGMFADETFDKLTIFYNEFVSPIVQRPVEKQLLPLTSEEV----LDGPVSAYEYEPDSESVLEVLLPKYAETLIYSALL  231 (286)
T ss_dssp             HHHHHSSSSCSCCCCCCCCCSBTTBCCCCCCCCSSCCC---------------------------CCCTTSSHHHHTTTT
T ss_pred             HHHHHHCCCCCCEEEEEECCCCCCCCHHHEECCCCHHHCCC----CCCCCCCCEECCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99875216787337886303345430110000342111001----24776661117888999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             999999999999999999989999999999999998988988999998525319
Q gi|254780616|r  241 ENKASEVGARITAMDNATRNAGQMVDNLVLSYNRQRQMRITTELIEIIAGAEVV  294 (294)
Q Consensus       241 es~aSE~aaRm~AM~~At~Na~~~i~~L~l~~Nk~RQ~~IT~El~EIisGaeAl  294 (294)
                      ||++|||+|||+||++||+||+|++++|+++|||+||++||+||+|||||||||
T Consensus       232 es~~sE~~aRm~aM~~At~na~~~i~~L~~~yNr~RQ~~IT~El~EIisGaeal  285 (286)
T 2qe7_G          232 DAKASEFGARMTAMGNATDNATEMLETLTLQFNRARQAAITQEIAEIVAGANAL  285 (286)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHHHHTTTTTSCC-------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             999999999999999999989999999999999999999999999999989863


No 4  
>>1fs0_G ATP synthase gamma subunit; coiled coil, epsilon, hydrolase; 2.10A {Escherichia coli} (G:)
Probab=100.00  E-value=0  Score=404.38  Aligned_cols=230  Identities=23%  Similarity=0.426  Sum_probs=207.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCEEEEECCCCHHHHHHHHHHH
Q ss_conf             99999999999999999999983023699999999999730157544210002443334325531146424420011479
Q gi|254780616|r   19 KITEAMQLISVTKLRRAKEAIQNASSYQFHIKDFFMKCVVGEHFQEYPSPFVRGTGKDKVYLLVICTAEKGLCGGFNAQI   98 (294)
Q Consensus        19 KITkaMkmVA~skl~ka~~~~~~~~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~IvitSDrGLCG~~Ns~i   98 (294)
                      |||+||||||+||+||+|+++++++||++.+.+++.+++...  .+..+|++.+++.+ +.++|+|||||||||+||++|
T Consensus         1 KITkAMkmVA~sKlrk~~~~~~~~~~Y~~~i~~~~~~i~~~~--~~~~~~~~~~~~~~-~~~~ivitSDrGLCG~fN~~i   77 (230)
T 1fs0_G            1 KITKAMEMVAASKMRKSQDRMAASRPYAETMRKVIGHLAHGN--LEYKHPYLEDRDVK-RVGYLVVSTDRGLCGGLNINL   77 (230)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC------CCCGGGSCCCCS-EEEEEEECCSSSCSTTHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHC--CCCCCCCCCCCCCC-EEEEEEEECCCCCCCHHHHHH
T ss_conf             967888999999999999999850769999999999997307--65444212578886-289999937986651543999


Q ss_pred             HHHHHHHHHHHHHCCCCEEEEEEECHHHHHHHCCCCCCEEEEECCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEEC
Q ss_conf             99999987653203885038887040379851023332011111477664036889999976557650678750588620
Q gi|254780616|r   99 IRFARDRIKEFIAEGKEIKLLIIGRKGYEGLRKEFSSMIIDSIELSSKKGVDFVQAHGIARQITSLFTSNVFDLCFFIYS  178 (294)
Q Consensus        99 ~k~~~~~i~~~~~~~~~~~l~~vGkKg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~~~l~~~~~~~~~d~v~iiYn  178 (294)
                      +|.+.++++++..+++++.+++||+||.++|++++.+....+....+.  ++|..+..|++.+++.|.++++|+|+|+||
T Consensus        78 ~k~~~~~i~~~~~~~~~~~l~~vG~k~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~i~~~~~~~~~~~~~d~i~iiy~  155 (230)
T 1fs0_G           78 FKKLLAEMKTWTDKGVQCDLAMIGSKGVSFFNSVGGNVVAQVTGMGDN--PSLSELIGPVKVMLQAYDEGRLDKLYIVSN  155 (230)
T ss_dssp             HHHHHHHHHHHHHTTCEEEEEEESHHHHHHHHHHCCCEEEEECCCTTC--CCSHHHHHHHHHHHHHHHTTSCSCEEEEEE
T ss_pred             HHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHCCCEEEEEECCCCCC--CHHHHHHHHHHHHHHHHHCCCCEEEEEEEE
T ss_conf             999999987650169627999843410766743287146652256656--108999999999988775378208999941


Q ss_pred             CCCCCCCCCEEEEECCCCCHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             11344322204420478873542211003655432247996787899999899999999999999999999999999
Q gi|254780616|r  179 EFKSIIQQIPIISKIIPVDWSQDLEQKQQDILSVYRYESTLYSVLDDIVLRSISSRVFWIILENKASEVGARITAMD  255 (294)
Q Consensus       179 ~f~s~~~q~p~~~~llP~~~~~~~~~~~~~~~~~~~~Ep~~~~il~~l~~~yl~~~l~~alles~aSE~aaRm~AM~  255 (294)
                      +|+|+++|+|.++++||+++..+.  ...+..++|+|||+++++|++|+|+|+++.||+|++||++|||+|||+||+
T Consensus       156 ~f~s~~~q~~~~~~llP~~~~~~~--~~~~~~~~~~~Ep~~~~il~~L~~~yl~~~ly~al~es~aSE~aaRm~AMe  230 (230)
T 1fs0_G          156 KFINTMSQVPTISQLLPLPASDDD--DLKHKSWDYLYEPDPKALLDTLLRRYVESQVYQGVVENLASEQAARMVAMK  230 (230)
T ss_dssp             EEEETTEEEEEEEEEESCC---------CCCSCCCEEESCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             CCCCCCCCCEEEEEECCCCCCCCC--CCCCCCCCCEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             111466664676540177643323--345688884547899999999999999999999999999999999999768


No 5  
>>1oao_C CODH, carbon monoxide dehydrogenase alpha subunit; electron transfer, oxidoreductase, acetyl-COA formation, WOOD/ljungdahl pathway; 1.90A {Moorella thermoacetica} (C:498-587)
Probab=65.09  E-value=3.5  Score=20.76  Aligned_cols=23  Identities=26%  Similarity=0.473  Sum_probs=17.2

Q ss_pred             EEEECCCCH-HHHHHHHHHHHHHHH
Q ss_conf             553114642-442001147999999
Q gi|254780616|r   80 LLVICTAEK-GLCGGFNAQIIRFAR  103 (294)
Q Consensus        80 ~~IvitSDr-GLCG~~Ns~i~k~~~  103 (294)
                      ++| ||.|| ||||++|=-=.|.+.
T Consensus        20 VCv-vtPeR~~lCGaisWlD~kAa~   43 (90)
T 1oao_C           20 VCI-VTPERVGLCGAVSWLDAKASY   43 (90)
T ss_dssp             CEE-EBTTBCCTTSCCCHHHHHHHH
T ss_pred             EEE-ECCCCCCCCCCCCHHHHHHHH
T ss_conf             489-789876556531113105565


No 6  
>>2d0t_A Indoleamine 2,3-dioxygenase; helix bundle, riken structural genomics/proteomics initiative, RSGI, structural genomics, oxidoreductase; HET: HEM PIM NHE; 2.30A {Homo sapiens} (A:129-241,A:317-406)
Probab=52.43  E-value=8.1  Score=18.40  Aligned_cols=32  Identities=19%  Similarity=0.337  Sum_probs=23.3

Q ss_pred             CCCCCCCCCCCCEEEEECCCCHHHHHHHHHHHH
Q ss_conf             100024433343255311464244200114799
Q gi|254780616|r   67 SPFVRGTGKDKVYLLVICTAEKGLCGGFNAQII   99 (294)
Q Consensus        67 ~~~~~~~~~~~~~~~IvitSDrGLCG~~Ns~i~   99 (294)
                      .|++.+-+.. ..-+|.-.+|..||.+||.-|.
T Consensus       106 Rpfl~G~k~~-iR~~v~~~~~~~L~~AYn~cv~  137 (203)
T 2d0t_A          106 RIYLSGWKPS-VREFVLSKGDAGLREAYDACVK  137 (203)
T ss_dssp             HHHTCCBSCC-HHHHHHTTCCHHHHHHHHHHHH
T ss_pred             CCEEEEECCC-HHHHHHHCCCHHHHHHHHHHHH
T ss_conf             1057776444-7889882588899999999999


No 7  
>>1qw2_A Conserved hypothetical protein TA1206; structural genomics, beta/alpha, antiparallel beta sandwich, PSI, protein structure initiative; 1.50A {Thermoplasma acidophilum} (A:)
Probab=49.91  E-value=5.8  Score=19.33  Aligned_cols=39  Identities=23%  Similarity=0.410  Sum_probs=26.7

Q ss_pred             EEECCCCHHH--HHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEECHHHHHHH
Q ss_conf             5311464244--2001147999999987653203885038887040379851
Q gi|254780616|r   81 LVICTAEKGL--CGGFNAQIIRFARDRIKEFIAEGKEIKLLIIGRKGYEGLR  130 (294)
Q Consensus        81 ~IvitSDrGL--CG~~Ns~i~k~~~~~i~~~~~~~~~~~l~~vGkKg~~~~~  130 (294)
                      ++++++|+|+  ||.+|-..+.++           .++...+.|=+-.+-+-
T Consensus        32 Ll~i~~~~G~imCGaLdV~~~ekl-----------g~~A~rv~GV~TiedlL   72 (102)
T 1qw2_A           32 LLFIKGSKGYAXCGYLNXETSNKV-----------GDIAVRVXGVKTLDDXL   72 (102)
T ss_dssp             EEEEECSSCEEECTTCCHHHHHHT-----------TCCEEECCSCCSHHHHH
T ss_pred             EEEEECCCCEEEECCCCHHHHHHC-----------CCCEEEEECCCCHHHHH
T ss_conf             999982884899742348888625-----------87149997105599984


No 8  
>>1u55_A Heme-based methyl-accepting chemotaxis protein; H-NOX domain, oxygen sensor, signal transduction, signaling protein; HET: HEM; 1.77A {Thermoanaerobacter tengcongensis} (A:)
Probab=39.55  E-value=24  Score=15.40  Aligned_cols=47  Identities=11%  Similarity=0.064  Sum_probs=32.8

Q ss_pred             CCCCCCCCCCCCCCCCCCCEEEEECCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             157544210002443334325531146424420011479999999876
Q gi|254780616|r   60 EHFQEYPSPFVRGTGKDKVYLLVICTAEKGLCGGFNAQIIRFARDRIK  107 (294)
Q Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~IvitSDrGLCG~~Ns~i~k~~~~~i~  107 (294)
                      ..+.+...|-+.-...+...+.+...|.||||.=+ ..+++.+-++..
T Consensus       107 ~~~p~~~~Psf~~~~~~~~~l~l~Y~S~R~l~~~~-~Gli~g~A~~f~  153 (188)
T 1u55_A          107 KMIKGATPPRLIAKPVAKDAIEMEYVSKRKMYDYF-LGLIEGSSKFFK  153 (188)
T ss_dssp             TTSTTCCCCBCCEEEEETTEEEEEEEETTCCHHHH-HHHHHHHHHHHT
T ss_pred             HHCCCCCCCEEEEEECCCCEEEEEEEECCCHHHHH-HHHHHHHHHHHC
T ss_conf             72889889847999778998999999678858899-999999999959


No 9  
>>2p1l_B Beclin 1; apoptosis, autophagy, BH3 domain, BCL; 2.50A {Homo sapiens} PDB: 3dvu_C 2pon_A (B:)
Probab=31.28  E-value=32  Score=14.59  Aligned_cols=20  Identities=30%  Similarity=0.705  Sum_probs=15.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q ss_conf             99989889889999985253
Q gi|254780616|r  273 NRQRQMRITTELIEIIAGAE  292 (294)
Q Consensus       273 Nk~RQ~~IT~El~EIisGae  292 (294)
                      |-.|.-++|..|.||.||-.
T Consensus         7 nls~rlkvts~lfdimsgqt   26 (31)
T 2p1l_B            7 NLSRRLKVTGDLFDIMSGQT   26 (31)
T ss_dssp             HHHHHHHHHHHHHHHTTC--
T ss_pred             CHHHHHHHHHHHHHHHCCCC
T ss_conf             34555545888888863886


No 10 
>>2pk8_A Uncharacterized protein PF0899; structural genomics, PSI, protein structure initiative; 1.85A {Pyrococcus furiosus dsm 3638} (A:)
Probab=29.62  E-value=35  Score=14.39  Aligned_cols=37  Identities=19%  Similarity=0.417  Sum_probs=30.4

Q ss_pred             HHHHHHHHHHHHHHHHCCCCEEEEEEECHHHHHHHCC
Q ss_conf             4799999998765320388503888704037985102
Q gi|254780616|r   96 AQIIRFARDRIKEFIAEGKEIKLLIIGRKGYEGLRKE  132 (294)
Q Consensus        96 s~i~k~~~~~i~~~~~~~~~~~l~~vGkKg~~~~~~~  132 (294)
                      -.+.....+.+.+++.+|-+..++.+|.-++.|++..
T Consensus        16 irIl~~iEekinELk~dG~ePDiiL~G~eayef~~~~   52 (103)
T 2pk8_A           16 IRILGEIEEKMNELKMDGFNPDIILFGREAYNFLSNL   52 (103)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCCCEEEECHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCEEEECHHHHHHHHHH
T ss_conf             9999999999999986589987799858999999999


No 11 
>>2k47_A Phosphoprotein, P protein, M1; flexible tail, chaperone, cytoplasm, RNA replication, virion; NMR {Vesicular stomatitis indiana virus} (A:)
Probab=24.09  E-value=25  Score=15.36  Aligned_cols=12  Identities=25%  Similarity=0.254  Sum_probs=7.5

Q ss_pred             HHHHHHHHHHHH
Q ss_conf             999999999898
Q gi|254780616|r  267 NLVLSYNRQRQM  278 (294)
Q Consensus       267 ~L~l~~Nk~RQ~  278 (294)
                      +++.+||++||-
T Consensus        57 k~kkLyNqar~K   68 (79)
T 2k47_A           57 RYKKLYNQARVK   68 (79)
T ss_dssp             HHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHH
T ss_conf             799999999988


No 12 
>>1sfe_A ADA O6-methylguanine-DNA methyltransferase; enzyme, nucleic acid binding protein, DNA repair protein, DNA-binding protein; 2.10A {Escherichia coli B} (A:1-88)
Probab=21.13  E-value=24  Score=15.37  Aligned_cols=13  Identities=23%  Similarity=0.779  Sum_probs=9.4

Q ss_pred             EEEECCCCHHHHH
Q ss_conf             5531146424420
Q gi|254780616|r   80 LLVICTAEKGLCG   92 (294)
Q Consensus        80 ~~IvitSDrGLCG   92 (294)
                      -++|..|+||+|.
T Consensus        26 ~~lvA~T~~GIC~   38 (88)
T 1sfe_A           26 RCLVAESERGICA   38 (88)
T ss_dssp             EEEEEECSSSEEE
T ss_pred             EEEEEEECCEEEE
T ss_conf             8999997890699


Done!