Query         gi|254780185|ref|YP_003064598.1| glutamine synthetase protein [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 458
No_of_seqs    147 out of 2723
Neff          7.4 
Searched_HMMs 23785
Date          Mon May 23 08:05:24 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780185.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 1f52_A Glutamine synthetase; A 100.0       0       0  934.4  39.6  455    4-458     1-468 (468)
  2 2bvc_A Glutamine synthetase 1; 100.0       0       0  898.9  42.2  456    3-458    12-486 (486)
  3 2j9i_A Glutamate-ammonia ligas 100.0       0       0  847.4  25.1  416    4-457     1-418 (421)
  4 3fky_A Glutamine synthetase; b 100.0       0       0  592.6  21.6  353    4-390     8-369 (370)
  5 2ojw_A Glutamine synthetase; a 100.0       0       0  564.1  17.4  325   19-375    46-381 (384)
  6 2d3a_A Glutamine synthetase; l 100.0       0       0  558.3  21.4  344    3-374     2-353 (356)
  7 1r8g_A Hypothetical protein YB  98.6 1.4E-06 5.9E-11   59.4  13.3   95  202-310    48-169 (372)
  8 2gwd_A Glutamate cysteine liga  97.0  0.0031 1.3E-07   38.5   8.3   88  125-250    34-137 (449)
  9 1u8s_A Glycine cleavage system  63.7     4.2 0.00018   19.0   2.8   80  184-265   104-191 (192)
 10 3mjf_A Phosphoribosylamine--gl  39.5      17  0.0007   15.3   3.8   97  125-226   191-301 (431)
 11 2jug_A TUBC protein; docking d  32.2      22 0.00091   14.5   3.4   30    1-35      3-32  (78)
 12 2iru_A Putative DNA ligase-lik  30.0      23 0.00099   14.3   5.3  130  190-342   102-245 (303)
 13 1zpv_A ACT domain protein; str  28.9      25   0.001   14.2   2.3   63  186-250    18-80  (91)
 14 2qrd_A SNF1-like protein kinas  26.2      28  0.0012   13.9   2.0   31  175-205    15-45  (137)
 15 1ejb_A Lumazine synthase; anal  26.2      28  0.0012   13.9   2.4   38  181-218    29-66  (168)
 16 2qdx_A Ferredoxin reductase; o  24.2      30  0.0013   13.7   2.4   29  184-214   221-249 (257)
 17 2hfv_A Hypothetical protein RP  21.9      33  0.0014   13.4   2.1   53  188-240    36-88  (97)

No 1  
>1f52_A Glutamine synthetase; ADP, MPD, ligase; HET: ADP; 2.49A {Salmonella typhimurium} SCOP: d.15.9.1 d.128.1.1 PDB: 1f1h_A* 1fpy_A* 1lgr_A* 2lgs_A* 2gls_A
Probab=100.00  E-value=0  Score=934.38  Aligned_cols=455  Identities=43%  Similarity=0.745  Sum_probs=408.4

Q ss_pred             CHHHHHHHHHHCCCCEEEEEEECCCCCEEEEEEEHHHHHHHHHHCCCCCCCCCHHCCCC-CCCCEEEEEECCCCEECCCC
Q ss_conf             98999999985798399999978998252378778783055884598456651002468-99888999641105877568
Q gi|254780185|r    4 KATSIIQKIAQEKVKFIDLRFTDLQGKFRHISMNVSLFNENTLLNGITFDSSSIDGWHS-KHPNLLLIPDIETMHMDPFY   82 (458)
Q Consensus         4 ~~~~i~~~l~~~~I~~V~~~~~Dl~G~~R~k~ip~~~f~~~~~~~G~~fd~s~i~g~~~-~~~D~~l~PD~~T~~~~Pw~   82 (458)
                      ++++|+++|++++|+||+++|+|++|++|+|.||++.|.+.++.+|++||+|++.||.. +++|++++||++|++++||.
T Consensus         1 s~e~v~~~l~~~~i~~V~~~~~Dl~G~~R~k~ip~~~~~~~~~~~G~~fdgssi~g~~~~~~sD~~l~PD~sT~~~~Pw~   80 (468)
T 1f52_A            1 SAEHVLTMLNEHEVKFVDLRFTDTKGKEQHVTIPAHQVNAEFFEEGKMFDGSSIGGWKGINESDMVLMPDASTAVIDPFF   80 (468)
T ss_dssp             CHHHHHHHHHHTTCCEEEEEEECTTSCEEEEEEEGGGCCHHHHHHCEEEEGGGSTTSCCSSCCEEEEEECGGGCEECSSC
T ss_pred             CHHHHHHHHHHCCCEEEEEEEECCCCCEEEEEEEHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCEEEEECCCCEEECCCC
T ss_conf             97999999998898399999999999878999829997699985898656225257677998898999827840889868


Q ss_pred             CCCEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCEEEECCCCCCCCCCCCCCCCCCCCC----
Q ss_conf             9722799852014754485302555323556799873034522577313308997067777786547766676545----
Q gi|254780185|r   83 AQSTVAFICNVYDPITLQPYNRDPRYTAQKAIDYLQTTDIGDTLLLGITTEFFVFDNVHCTISPIKSGFALESTEF----  158 (458)
Q Consensus        83 ~~~~~~v~~d~~~~~~g~P~~~~PR~~Lk~~~~~l~~~~~G~~~~~g~E~EF~Lf~~~~~~~~p~~~~~~~~~~~~----  158 (458)
                      ++++++|+||++.+.++.|+..|||++|+++++++++.+++..+.+|+|+|||+|+.............+....+.    
T Consensus        81 ~~~~~~v~cd~~~~~~~~p~~~~PR~~l~~~~~~~~~~G~~~~~~~~~E~ef~l~~~~~~~~~~~~~~~~~~~~e~~~~~  160 (468)
T 1f52_A           81 ADSTLIIRCDILEPGTLQGYDRDPRSIAKRAEDYLRATGIADTVLFGPEPEFFLFDDIRFGASISGSHVAIDDIEGAWNS  160 (468)
T ss_dssp             SSCEEEEEEEEECTTTCCCCTTCHHHHHHHHHHHHHHHTSCSEEEEEEEEEEEEESEEEEEEETTEEEEEEECTTCGGGG
T ss_pred             CCCEEEEEEEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             98628999998636767887788558999999999875996423414556999631433467878874545762224577


Q ss_pred             --CCCCCCCEEC-CCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCC-CHHHCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             --7777775003-65545563552444689999999999860541122213356-2121036555668887769999999
Q gi|254780185|r  159 --LQNGNNKGYD-SHAKSSYTLPPQDKLHDMRSEIVSALNNIGVQITKYHNQIN-DAQHSFGLQSESLLHASDNLQKYKY  234 (458)
Q Consensus       159 --~~~~~~~g~~-~~~~~~y~~~~~~~~~~~~~ei~~~l~~~Gi~ie~~h~E~g-pGQ~Ei~~~~~~~l~aAD~~~~~k~  234 (458)
                        ....++.++. ....++|++.+.+...++++++++.|+++||+|+++|+|+| +||+||++.|+++|+|||+++++|+
T Consensus       161 ~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~gi~ve~~~~E~~~~GQ~Ei~~~~~d~L~aAD~~~~~K~  240 (468)
T 1f52_A          161 STKYEGGNKGHRPGVKGGYFPVPPVDSAQDIRSEMCLVMEQMGLVVEAHHHEVATAGQNEVATRFNTMTKKADEIQIYKY  240 (468)
T ss_dssp             GCCCTTCCCCCCCCTTCCSSBCTTSSCCHHHHHHHHHHHHHTTCCEEEEEECSSTTTEEEEEECCEEHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCCCCCCCCCCCEECCCCCCHHHHHHHHHHHHHHCCCCCEEEECCCCCCCEEEEECCCCCHHHHHHHHHHHHH
T ss_conf             87666788675104788712326642067799999999997398721101265678618870567755554679999999


Q ss_pred             HHHHHHHHCCCEEEEEEEECCCCCCCHHHHHHHHCCCCCCCEECCCCCCCCHHHHHHHHHHHHHHHHCCHHCCCCCHHHH
Q ss_conf             99999874497544412101456860120111111467631221555657899999999999886410000066700144
Q gi|254780185|r  235 SVHQVANSYCKIATFMPKPIASHNGSGMYLNMSIHKGEKAIFTGNQHDRVSLKGLYYLGGIIKHAKSLNALTNASTNSYK  314 (458)
Q Consensus       235 ~ik~iA~~~G~~ATFmpKP~~~~~GsG~Hih~Sl~~~~~n~f~~~~~~~ls~~~~~fiaGil~h~~al~a~~~PtvNSYk  314 (458)
                      +||+||++||++|||||||+.+.+|||||+|+|||++|+|+|+++++.+||.++++||||||+|+|+++||+|||+||||
T Consensus       241 ~vk~iA~~~Gl~ATFmpKP~~~~~GsG~H~H~Sl~~~g~n~f~~~~~~~lS~~~~~~iaGlL~h~~~l~a~~~PtvNSYk  320 (468)
T 1f52_A          241 VVHNVAHRFGKTATFMPKPMFGDNGSGMHCHMSLAKNGTNLFSGDKYAGLSEQALYYIGGVIKHAKAINALANPTTNSYK  320 (468)
T ss_dssp             HHHHHHHHTTCEEECCSCSSTTSCCCCEEEEEEEEETTEETTBCSSGGGBCHHHHHHHHHHHHTHHHHHHHHSCSGGGGG
T ss_pred             HHHHHHHHCCCEEEEECCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHC
T ss_conf             99999996196468840126888887437999835899606689887772899999999999863766605558815641


Q ss_pred             HHCCCCCCCEEEEECCCCCCCEEECCCCCCCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHH--
Q ss_conf             318885212010113688764010257887654124404675321279999999999998788559998665578877--
Q gi|254780185|r  315 RLLTDSQSPTKLTYSTHNHSASCRIPYENKSDNKSIEIRFPDLSANPYLAPAAILMAGLDGIAKKIHPGKNIDELSLE--  392 (458)
Q Consensus       315 Rl~p~~~ap~~~~WG~~NR~a~iRip~~~~~~~~riE~R~~da~aNPYL~lAailaAgl~Gi~~~l~p~~~~~~~~~~--  392 (458)
                      ||+|++|||+++|||.+||+++||||..++++++|||+|++|++|||||++||+|+|||+||+++++|++|+.+++++  
T Consensus       321 Rl~p~~~AP~~~~WG~~NR~~~iRip~~~~~~~~riE~R~~da~aNPYL~lAa~laagl~Gi~~~l~p~~p~~~~~~~~~  400 (468)
T 1f52_A          321 RLVPGYEAPVMLAYSARNRSASIRIPVVASPKARRIEVRFPDPAANPYLCFAALLMAGLDGIKNKIHPGEPMDKNLYDLP  400 (468)
T ss_dssp             TSSSCSSCCCEEEEESSCTTEEEECCCCSCGGGCCEEECCCCTTSCHHHHHHHHHHHHHHHHHTTCCCCSCCCSCCSSSC
T ss_pred             CCCCCCCCCCCCEECCCCCCEEEEECCCCCCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCC
T ss_conf             67898758863352222584207815578987615784379987698999999999999999837999986778814499


Q ss_pred             --HHHCCCCCCCCHHHHHHHHHHCHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHCCC
Q ss_conf             --771320001798999999873989898413378899999999999999999659997899863579
Q gi|254780185|r  393 --EQNTIPRICISLRESLENLDKDREFLKVGNVFDDDQIDAFINLKMKEVLKLESSPSPVEFEMYCSI  458 (458)
Q Consensus       393 --~~~~~~~LP~~L~eAl~~l~~d~~~~~~~~~lG~~~v~~~~~~K~~E~~~~~~~vt~wE~~~Y~~~  458 (458)
                        +...+++||+||.|||++|++|+++++..++||++||+.|+++||+||++|++.||+||+++||+|
T Consensus       401 ~~~~~~~~~LP~sl~eAl~~l~~d~~~~~a~~~fg~~~v~~~~~~K~~E~~~~~~~vt~wE~~~Y~~~  468 (468)
T 1f52_A          401 PEEAKEIPQVAGSLEEALNALDLDREFLKAGGVFTDEAIDAYIALRREEDDRVRMTPHPVEFELYYSV  468 (468)
T ss_dssp             CSSTTCCCBCCSSHHHHHHHHHHTCHHHHGGGSSCHHHHHHHHHHHHHHHHHHHHSCCHHHHHHHTTC
T ss_pred             HHHHHCHHCCCCCHHHHHHHHHCCHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHCCC
T ss_conf             86761310161379999999973969888655156999999999999999999779999999740689


No 2  
>2bvc_A Glutamine synthetase 1; ligase, transition state mimic; HET: P3S ADP; 2.1A {Mycobacterium tuberculosis} SCOP: d.15.9.1 d.128.1.1 PDB: 2wgs_A* 2whi_A* 1hto_A* 1htq_A*
Probab=100.00  E-value=0  Score=898.94  Aligned_cols=456  Identities=37%  Similarity=0.641  Sum_probs=401.4

Q ss_pred             CCHHHHHHHHHHCCCCEEEEEEECCCCCEEEEEEEHHHHHHHHHHCCCCCCCCCHHCCCC-CCCCEEEEEECCCCEECCC
Q ss_conf             798999999985798399999978998252378778783055884598456651002468-9988899964110587756
Q gi|254780185|r    3 DKATSIIQKIAQEKVKFIDLRFTDLQGKFRHISMNVSLFNENTLLNGITFDSSSIDGWHS-KHPNLLLIPDIETMHMDPF   81 (458)
Q Consensus         3 ~~~~~i~~~l~~~~I~~V~~~~~Dl~G~~R~k~ip~~~f~~~~~~~G~~fd~s~i~g~~~-~~~D~~l~PD~~T~~~~Pw   81 (458)
                      ++.++|+++|++++|+||+++|+|++|++|||.||++.|.+.++.+|++||++++.||.. +++|++++||++|++++||
T Consensus        12 ~t~~ei~~~i~~~~I~~v~~~~~Dl~G~~Rgk~ip~~~~~~~v~~~G~~fdgssi~g~~~~~~sD~~l~PD~~T~~~~PW   91 (486)
T 2bvc_A           12 KTPDDVFKLAKDEKVEYVDVRFCDLPGIMQHFTIPASAFDKSVFDDGLAFDGSSIRGFQSIHESDMLLLPDPETARIDPF   91 (486)
T ss_dssp             CCHHHHHHHHHHTTCSEEEEEEECSSSCEEEEEEEGGGCSHHHHHTCEEEETTSSTTSCCGGGCEEEEEECGGGCEECSS
T ss_pred             CCHHHHHHHHHHCCCEEEEEEEECCCCCEEEEEEEHHHHHHHHHHCCCEEECCCCCCCCCCCCCCEEEEECCCCEEECCC
T ss_conf             89999999998889819999999999867799998999769999789905664803466777777899983352188874


Q ss_pred             CCCCEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCEEEECCCCCCCCCCCCCCCCC-------
Q ss_conf             8972279985201475448530255532355679987303452257731330899706777778654776667-------
Q gi|254780185|r   82 YAQSTVAFICNVYDPITLQPYNRDPRYTAQKAIDYLQTTDIGDTLLLGITTEFFVFDNVHCTISPIKSGFALE-------  154 (458)
Q Consensus        82 ~~~~~~~v~~d~~~~~~g~P~~~~PR~~Lk~~~~~l~~~~~G~~~~~g~E~EF~Lf~~~~~~~~p~~~~~~~~-------  154 (458)
                      .+++++.|+|+++++.+|+|++.|||++||++++++++.++...+.+|+|+|||+++.............+..       
T Consensus        92 ~~~~~~~v~~~~~~~~~g~p~~~~pR~vlk~~~~~~~~~G~~~~~~~g~E~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~  171 (486)
T 2bvc_A           92 RAAKTLNINFFVHDPFTLEPYSRDPRNIARKAENYLISTGIADTAYFGAEAEFYIFDSVSFDSRANGSFYEVDAISGWWN  171 (486)
T ss_dssp             CSSCEEEEEEEEECTTTCCBCTTCHHHHHHHHHHHHHHHSSCSEEEEEEEECEEEESEEEEEECSSCEEEEEECTTBGGG
T ss_pred             CCCCCEEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCEEECCCCCEEEEEECCCCCCCCCCCCCCCCCHHHCCC
T ss_conf             79960899999503898980888940999999999998097633310563079986213444445677677672220346


Q ss_pred             --CCCCCCCCCCCEECCCC-CCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC-HHHCCCCCCCCHHHHHHHHH
Q ss_conf             --65457777775003655-455635524446899999999998605411222133562-12103655566888776999
Q gi|254780185|r  155 --STEFLQNGNNKGYDSHA-KSSYTLPPQDKLHDMRSEIVSALNNIGVQITKYHNQIND-AQHSFGLQSESLLHASDNLQ  230 (458)
Q Consensus       155 --~~~~~~~~~~~g~~~~~-~~~y~~~~~~~~~~~~~ei~~~l~~~Gi~ie~~h~E~gp-GQ~Ei~~~~~~~l~aAD~~~  230 (458)
                        .........+.+|.... .++|++.+.+...++++++++.|+++||++++.|+|.++ ||+||++.|+++|+|||+++
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gi~~~~~~~e~~~~gQ~Ei~~~~~~~l~aAD~~~  251 (486)
T 2bvc_A          172 TGAATEADGSPNRGYKVRHKGGYFPVAPNDQYVDLRDKMLTNLINSGFILEKGHHEVGSGGQAEINYQFNSLLHAADDMQ  251 (486)
T ss_dssp             TTCSBCTTSCBCCCCCBCTTCCSCBCTTTSCCHHHHHHHHHHHHHTTCCEEEEEECSSTTTEEEEEECCEEHHHHHHHHH
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEECCCCCCCEEEECCCCCHHHHHHHHHH
T ss_conf             78755678888878665656775655630358999999999999769973675424446743787644242878876999


Q ss_pred             HHHHHHHHHHHHCCCEEEEEEEECCCCCCCHHHHHHHHCCCCCCC-EECCCCCCCCHHHHHHHHHHHHHHHHCCHHCCCC
Q ss_conf             999999999874497544412101456860120111111467631-2215556578999999999998864100000667
Q gi|254780185|r  231 KYKYSVHQVANSYCKIATFMPKPIASHNGSGMYLNMSIHKGEKAI-FTGNQHDRVSLKGLYYLGGIIKHAKSLNALTNAS  309 (458)
Q Consensus       231 ~~k~~ik~iA~~~G~~ATFmpKP~~~~~GsG~Hih~Sl~~~~~n~-f~~~~~~~ls~~~~~fiaGil~h~~al~a~~~Pt  309 (458)
                      ++|++||+||++||+.|||||||+.+.+|||||+|+|||++++|+ ++++++.+||+.+++||||||+|+|+++||+|||
T Consensus       252 ~~r~iik~vA~~~G~~ATFmpKP~~~~~GsG~H~H~Sl~~~~~n~~~~~~~~~~lS~~~~~fiaGlL~h~~a~~al~~Pt  331 (486)
T 2bvc_A          252 LYKYIIKNTAWQNGKTVTFMPKPLFGDNGSGMHCHQSLWKDGAPLMYDETGYAGLSDTARHYIGGLLHHAPSLLAFTNPT  331 (486)
T ss_dssp             HHHHHHHHHHHHTTCEEECCSCSSTTSCCCCEEEEEEEEETTEECSBCTTSGGGBCHHHHHHHHHHHHHHHHHHHHHSCS
T ss_pred             HHHHHHHHHHHHCCCEEEEEECCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCHHHHEEECCC
T ss_conf             99999998777419579996314778778774189887418975111247866765899999999985365440520677


Q ss_pred             CHHHHHHCCCCCCCEEEEECCCCCCCEEECCCCC-CCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             0014431888521201011368876401025788-765412440467532127999999999999878855999866557
Q gi|254780185|r  310 TNSYKRLLTDSQSPTKLTYSTHNHSASCRIPYEN-KSDNKSIEIRFPDLSANPYLAPAAILMAGLDGIAKKIHPGKNIDE  388 (458)
Q Consensus       310 vNSYkRl~p~~~ap~~~~WG~~NR~a~iRip~~~-~~~~~riE~R~~da~aNPYL~lAailaAgl~Gi~~~l~p~~~~~~  388 (458)
                      |||||||+|++|||++++||++||+++||||..+ +++++|||+|++|++|||||++||||+||++||+++++||+|+.+
T Consensus       332 vNSYkRl~p~~~ap~~~~WG~~nR~~~iRv~~~~~~~~~~riE~R~~da~aNPYL~lAailaAgl~Gi~~~l~p~~p~~~  411 (486)
T 2bvc_A          332 VNSYKRLVPGYEAPINLVYSQRNRSACVRIPITGSNPKAKRLEFRSPDSSGNPYLAFSAMLMAGLDGIKNKIEPQAPVDK  411 (486)
T ss_dssp             TTHHHHSSTTSSSCSBCCEEETCTTSSEEECCCCSCTTSCCEEECSCCSSSCHHHHHHHHHHHHHHHHHTTCCCCCCCCS
T ss_pred             CCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCC
T ss_conf             65235789998896545405677631013677789876605885489877698999999999999999828999996778


Q ss_pred             CCHH----HHHCCCCCCCCHHHHHHHHHHCHHHHHHHCCCCHHHHHHHHHHHH-HHHHHHHCCCCHHHHHHHCCC
Q ss_conf             8877----771320001798999999873989898413378899999999999-999999659997899863579
Q gi|254780185|r  389 LSLE----EQNTIPRICISLRESLENLDKDREFLKVGNVFDDDQIDAFINLKM-KEVLKLESSPSPVEFEMYCSI  458 (458)
Q Consensus       389 ~~~~----~~~~~~~LP~~L~eAl~~l~~d~~~~~~~~~lG~~~v~~~~~~K~-~E~~~~~~~vt~wE~~~Y~~~  458 (458)
                      +.++    +..++++||+||+|||++|++|+++++.+++||++|++.|+++|| .||++|++.||+||+++||||
T Consensus       412 d~y~~~~~~~~~~~~LP~sl~eAl~ale~d~~~~~~~~~lg~~~v~~y~~~Kr~~E~~~~~~~vt~wE~~~Y~~~  486 (486)
T 2bvc_A          412 DLYELPPEEAASIPQTPTQLSDVIDRLEADHEYLTEGGVFTNDLIETWISFKRENEIEPVNIRPHPYEFALYYDV  486 (486)
T ss_dssp             CGGGCCHHHHHTSCBCCSSHHHHHHHHHHCCHHHHGGGSSCHHHHHHHHHHHHHHTHHHHHTSCCHHHHHHHTTC
T ss_pred             CHHHCCHHHHCCHHHCCCCHHHHHHHHHCCHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHCCCCC
T ss_conf             713389757648211411799999999729798886674679999999999999999999679999999614899


No 3  
>2j9i_A Glutamate-ammonia ligase domain-containing protein 1; 17.00A {Mus musculus}
Probab=100.00  E-value=0  Score=847.39  Aligned_cols=416  Identities=19%  Similarity=0.250  Sum_probs=370.5

Q ss_pred             CHHHHHHHHHHCCCCEEEEEEECCCCCEEEEEEEHHHHHHHHHHCCCCCCCCCHHCCCC-CCCCEEEEEECCCCEECCCC
Q ss_conf             98999999985798399999978998252378778783055884598456651002468-99888999641105877568
Q gi|254780185|r    4 KATSIIQKIAQEKVKFIDLRFTDLQGKFRHISMNVSLFNENTLLNGITFDSSSIDGWHS-KHPNLLLIPDIETMHMDPFY   82 (458)
Q Consensus         4 ~~~~i~~~l~~~~I~~V~~~~~Dl~G~~R~k~ip~~~f~~~~~~~G~~fd~s~i~g~~~-~~~D~~l~PD~~T~~~~Pw~   82 (458)
                      ++++|+++|++++|+||+++|+|++|++|||.||++.|.+.+..+|+.||++++.|+.. +++|++++||++|+.++||+
T Consensus         1 s~e~v~~~l~~~~I~~vr~~~~Dl~G~~Rgk~vp~~~~~~~~~~~g~~~dgs~~~g~~~~~~sD~~l~PD~~T~~~~~~~   80 (421)
T 2j9i_A            1 SAEHVLTMLNEHAAAFVRFEATDAAGASRSKSIPAQFFEKVIHARGYLEDGEVNAGAAGAAASDIVLMPELSTAAVAAAA   80 (421)
T ss_dssp             CHHHHHHHHHHTTCSEEEEEEECSSSCEEEEEEEGGGCCTTHHHHCEEECGGGSTTTCCTTCCCEEEEECSSCCEECTTS
T ss_pred             CHHHHHHHHHHCCCCEEEEEEECCCCCEEEEEEEHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCC
T ss_conf             98999999997899399999898999866899809999999756987157764267666888888999888976433334


Q ss_pred             CCCEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCEEEECCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             97227998520147544853025553235567998730345225773133089970677777865477666765457777
Q gi|254780185|r   83 AQSTVAFICNVYDPITLQPYNRDPRYTAQKAIDYLQTTDIGDTLLLGITTEFFVFDNVHCTISPIKSGFALESTEFLQNG  162 (458)
Q Consensus        83 ~~~~~~v~~d~~~~~~g~P~~~~PR~~Lk~~~~~l~~~~~G~~~~~g~E~EF~Lf~~~~~~~~p~~~~~~~~~~~~~~~~  162 (458)
                      ...+++|+|+     +|+|++.|||++||++++++++.+++..+.+|+|+|||+|+.......                 
T Consensus        81 ~~~~~~v~~~-----dG~p~~~~PR~iLkr~~~~l~~~G~~~~~~~~~E~Ef~l~~~~~~~~~-----------------  138 (421)
T 2j9i_A           81 AAATAAVICD-----GGAAAAASPRYIARAALAQLQAAGAAAGLLSAFIADFCIFGVPEVINS-----------------  138 (421)
T ss_dssp             SSSEEEEEEE-----EESSCSCCHHHHHHHHHHHHHHTTSCSEECCEECCCCEEESCCEEEEC-----------------
T ss_pred             CCCCEEEEEC-----CCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEEEEEECCCCCCCCC-----------------
T ss_conf             4432179968-----999768698999999999875329873787504789886488866667-----------------


Q ss_pred             CCCEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHCCCCCC-CCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             775003655455635524446899999999998605411222133562121036555-6688877699999999999987
Q gi|254780185|r  163 NNKGYDSHAKSSYTLPPQDKLHDMRSEIVSALNNIGVQITKYHNQINDAQHSFGLQS-ESLLHASDNLQKYKYSVHQVAN  241 (458)
Q Consensus       163 ~~~g~~~~~~~~y~~~~~~~~~~~~~ei~~~l~~~Gi~ie~~h~E~gpGQ~Ei~~~~-~~~l~aAD~~~~~k~~ik~iA~  241 (458)
                              ..++|...+.+....+ .+++..++.+||+++++|+|+||||||+++.+ .++|+|||+++++|++||+||+
T Consensus       139 --------~~~~~~~~~~~~~~~~-~~~~~~l~~~gi~v~~~~~E~~pGQ~Ei~~~~~~~~l~aAD~~~~~K~~ik~iA~  209 (421)
T 2j9i_A          139 --------KTISFPASTTAAAADQ-PQEAAAGGAAGAAAGAAGGAAAAGAAEICFLPEAAGAAAADNAFTLRTGLQEVAR  209 (421)
T ss_dssp             --------SSCEEEECCCTTCTTG-GGSCCTTCCCSCCCBTTBCCCCCSSCCTTTTTTTCCSCTTTHHHHHHHHHHHHHH
T ss_pred             --------CCCCCCCCCCCCHHHH-HHHHHHHHHCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHH
T ss_conf             --------7877777753100128-9999988635788611356565543022057522133401089999999999999


Q ss_pred             HCCCEEEEEEEECCCCCCCHHHHHHHHCCCCCCCEECCCCCCCCHHHHHHHHHHHHHHHHCCHHCCCCCHHHHHHCCCCC
Q ss_conf             44975444121014568601201111114676312215556578999999999998864100000667001443188852
Q gi|254780185|r  242 SYCKIATFMPKPIASHNGSGMYLNMSIHKGEKAIFTGNQHDRVSLKGLYYLGGIIKHAKSLNALTNASTNSYKRLLTDSQ  321 (458)
Q Consensus       242 ~~G~~ATFmpKP~~~~~GsG~Hih~Sl~~~~~n~f~~~~~~~ls~~~~~fiaGil~h~~al~a~~~PtvNSYkRl~p~~~  321 (458)
                      +||+.|||||||+.+.+|||||+|+|||++|+|+|.++++.+||+.++|||||||+|+++++++++||+|||||+.|++|
T Consensus       210 ~hG~~atFmpkP~~~~~Gsg~H~h~Sl~~~g~n~f~~~~~~~ls~~~~~~iaGll~~~~~~~~~~~p~~nsy~r~~~~~~  289 (421)
T 2j9i_A          210 RYNAIASAAAAAAAAAAGAGSHSIWDVGAAGTNAFAGASGARATLTGAKWLAGLLAAAAAAAAAAAAAAAAAAAAAAGAA  289 (421)
T ss_dssp             TTTCEEECCTTSSTTSCCCBCCEEECEEETTEESSCSSSGGGCCHHHHHHHHHHHHHHHHHHHHHTCSHHHHHHTSSSTT
T ss_pred             HCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             85996433321111124234069984489997265799976533999986388762123221111111111111111111


Q ss_pred             CCEEEEECCCCCCCEEECCCCCCCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHCCCCCC
Q ss_conf             12010113688764010257887654124404675321279999999999998788559998665578877771320001
Q gi|254780185|r  322 SPTKLTYSTHNHSASCRIPYENKSDNKSIEIRFPDLSANPYLAPAAILMAGLDGIAKKIHPGKNIDELSLEEQNTIPRIC  401 (458)
Q Consensus       322 ap~~~~WG~~NR~a~iRip~~~~~~~~riE~R~~da~aNPYL~lAailaAgl~Gi~~~l~p~~~~~~~~~~~~~~~~~LP  401 (458)
                      ||+++|||.+||+++||||..+.++++|||+|++|++|||||++||+|+|||+||+++++|++|..++.+....  ++||
T Consensus       290 ap~~~~WG~~nR~~~iRv~~~~~~~~~riE~R~~d~~aNPYL~lAa~l~Agl~Gi~~~~~~~~~~~~~~~~~~~--~~LP  367 (421)
T 2j9i_A          290 AAAATAWGAAAAACALNIAAAAAAKGAQIENKAGAAAANPYLVLAATVAAGLDGIQSAGAAAGAAAADAAAAAP--SEIP  367 (421)
T ss_dssp             CCCEEEEESSCTTEEEEEECCSSGGGCEEEECSCBTTSCHHHHHHHHHHHHHHHHHHTCCCCSCBCSSSSCSSC--CCCC
T ss_pred             CCCCEEECCCCCEEEEEEEECCCCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCH--HHCC
T ss_conf             10130424766617999840357877568834899887989999999999999987089998976777455673--2318


Q ss_pred             CCHHHHHHHHHHCHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHCC
Q ss_conf             79899999987398989841337889999999999999999965999789986357
Q gi|254780185|r  402 ISLRESLENLDKDREFLKVGNVFDDDQIDAFINLKMKEVLKLESSPSPVEFEMYCS  457 (458)
Q Consensus       402 ~~L~eAl~~l~~d~~~~~~~~~lG~~~v~~~~~~K~~E~~~~~~~vt~wE~~~Y~~  457 (458)
                      +||+|||++|++|+++  ++++||++|++.|+++||+||++|   +|+||+++||+
T Consensus       368 ~tL~eAl~~l~~d~~~--l~~~lg~~~~~~~~~~K~~E~~~~---~t~~e~~ey~~  418 (421)
T 2j9i_A          368 GKMEDALAALEQDAEC--LKAGLGEAFIRAAVAAAKYELENE---ETDAEGNKFLE  418 (421)
T ss_dssp             SSHHHHHHHHTTCCSS--SSCSCCCHHHHHHHHHHHHHHHHH---HHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHCHHH--HHHHCCHHHHHHHHHHHHHHHHHH---CCCHHHHHHHH
T ss_conf             8999999999858599--998768999999999999999996---58257999988


No 4  
>3fky_A Glutamine synthetase; beta-grAsp, catalytic domain, acetylation, cytoplasm, ligase, UBL conjugation; HET: FLC; 2.95A {Saccharomyces cerevisiae}
Probab=100.00  E-value=0  Score=592.55  Aligned_cols=353  Identities=19%  Similarity=0.234  Sum_probs=278.7

Q ss_pred             CHHHHHHHHHHC-CCCE-EEEEEECCCCCEEEEEEEHHHHHHHHH-HCCCCCCCCCHHCCCCCCCCEEEEEECCCCEECC
Q ss_conf             989999999857-9839-999997899825237877878305588-4598456651002468998889996411058775
Q gi|254780185|r    4 KATSIIQKIAQE-KVKF-IDLRFTDLQGKFRHISMNVSLFNENTL-LNGITFDSSSIDGWHSKHPNLLLIPDIETMHMDP   80 (458)
Q Consensus         4 ~~~~i~~~l~~~-~I~~-V~~~~~Dl~G~~R~k~ip~~~f~~~~~-~~G~~fd~s~i~g~~~~~~D~~l~PD~~T~~~~P   80 (458)
                      +..-+.++++-+ ..|+ +..+|+|.+|.+|||+........+.- ..-++|||||+.++...++|++|+||  |++++|
T Consensus         8 ~~~~~~~~~~~~~~~k~~~eYiWid~~~~~RsK~k~~~~~~~~~~~~p~w~FDGSSt~qa~~~~SD~~L~P~--~~~~dP   85 (370)
T 3fky_A            8 KTQILQKYLELDQRGRIIAEYVWIDGTGNLRSKGRTLKKRITSIDQLPEWNFDGSSTNQAPGHDSDIYLKPV--AYYPDP   85 (370)
T ss_dssp             -------------CCCEEEEEEEECSSSCEEEEEEEESSCCCSGGGSCCEEECGGGTTSSCCCC--EEEEEE--EEEECT
T ss_pred             HHHHHHHHHCCCCCCCEEEEEEEECCCCCCCCCCEECCCCCCCHHHCCCEECCCCCCCCEECCCCEEEEECC--EEECCC
T ss_conf             578999985788678079999998898888765167357889976698352257766860468853999617--140589


Q ss_pred             CCCCCEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCEEEECCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             68972279985201475448530255532355679987303452257731330899706777778654776667654577
Q gi|254780185|r   81 FYAQSTVAFICNVYDPITLQPYNRDPRYTAQKAIDYLQTTDIGDTLLLGITTEFFVFDNVHCTISPIKSGFALESTEFLQ  160 (458)
Q Consensus        81 w~~~~~~~v~~d~~~~~~g~P~~~~PR~~Lk~~~~~l~~~~~G~~~~~g~E~EF~Lf~~~~~~~~p~~~~~~~~~~~~~~  160 (458)
                      |...+++.|+||++++ +|+|++.|||++|+++++++++.  |  +++|+|+|||+|+..........            
T Consensus        86 f~~~~t~lvlCdv~~~-DG~P~~~~pR~~Lkk~~~~~~~~--g--~~~g~E~Ef~~f~~~~~~~~~~~------------  148 (370)
T 3fky_A           86 FRRGDNIVVLAACYNN-DGTPNKFNHRHEAAKLFAAHKDE--E--IWFGLEQEYTLFDMYDDVYGWPK------------  148 (370)
T ss_dssp             TTCTTCEEEEEEEECT-TSSBCTTCCHHHHHHHHHHTGGG--C--CEEEEEEEEEEECTTSSBTTCCT------------
T ss_pred             CCCCCCEEEEEEEECC-CCCCCCCCCHHHHHHHHHHHHHC--C--CEEEEEEEEEEEEECCCCCCCCC------------
T ss_conf             9899988999999889-99998878699999999888756--8--47812104899970367556877------------


Q ss_pred             CCCCCEECCCCCCCCCCCHHH--HHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHCCCCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             777750036554556355244--468999999999986054112221335621210365556688877699999999999
Q gi|254780185|r  161 NGNNKGYDSHAKSSYTLPPQD--KLHDMRSEIVSALNNIGVQITKYHNQINDAQHSFGLQSESLLHASDNLQKYKYSVHQ  238 (458)
Q Consensus       161 ~~~~~g~~~~~~~~y~~~~~~--~~~~~~~ei~~~l~~~Gi~ie~~h~E~gpGQ~Ei~~~~~~~l~aAD~~~~~k~~ik~  238 (458)
                          .++......+|.....+  ...++++++++.|..+||+++++|+|+|||||||++.|.++|+|||+++++|++||+
T Consensus       149 ----~~~~~~~g~y~~~~~~~~~~~~d~~~~~~~~l~~~gi~ie~~~~E~~pGQ~Ei~~~~~~~l~aAD~~~~~K~ivk~  224 (370)
T 3fky_A          149 ----GGYPAPQGPYYCGVGAGKVYARDMIEAHYRACLYAGLEISGINAEVMPSQWEFQVGPCTGIDMGDQLWMARYFLHR  224 (370)
T ss_dssp             ----TSBCSCSSSCTTCCSTTTCSCHHHHHHHHHHHHHHTCCEEEEEECSSTTEEEEEEEEEETHHHHHHHHHHHHHHHH
T ss_pred             ----CCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCEEEEECCCCHHHCCHHHHHHHHHHHH
T ss_conf             ----8878888875656787502468999999999986697068874366788468720213022112689999999999


Q ss_pred             HHHHCCCEEEEEEEECCC-CCCCHHHHHHHHCCCCCCCEECCCCCCCCHHHHHHHHHHHHHHHHCCHHCCCCCHHHHHHC
Q ss_conf             987449754441210145-6860120111111467631221555657899999999999886410000066700144318
Q gi|254780185|r  239 VANSYCKIATFMPKPIAS-HNGSGMYLNMSIHKGEKAIFTGNQHDRVSLKGLYYLGGIIKHAKSLNALTNASTNSYKRLL  317 (458)
Q Consensus       239 iA~~~G~~ATFmpKP~~~-~~GsG~Hih~Sl~~~~~n~f~~~~~~~ls~~~~~fiaGil~h~~al~a~~~PtvNSYkRl~  317 (458)
                      ||.+||++|||||||+.+ .+|||||+|+|+|+.++       +.+.+.....+.++++.|+.   ++++||+||||||+
T Consensus       225 iA~~~G~~aTFmPKP~~gd~~GsG~H~h~S~~~~~~-------~~g~~~~~~~~~~~~~~~~~---~~~~~~~nsy~Rl~  294 (370)
T 3fky_A          225 VAEEFGIKISFHPKPLKGDWNGAGCHANVSTKEMRQ-------PGGTKYIEQAIEKLSKRHAE---HIKLYGSDNDMRLT  294 (370)
T ss_dssp             HHHTTTCEEECCSCSSSSSSCCCBEEEEEECHHHHS-------SSTHHHHHHHHHHHHHTHHH---HHHSSCTTGGGC--
T ss_pred             HHHHHCCCEEEECCCCCCCCCCCCEEEEECCCCCCC-------CCCHHHHHHHHHHHHHHHHH---HHCCCCCCCHHHCC
T ss_conf             999969818983344678767885046543343668-------88579999999988888887---63336753022214


Q ss_pred             CCCCCCEEE--EECCCCCCCEEECCCCC-CCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCC
Q ss_conf             885212010--11368876401025788-76541244046753212799999999999987885599986655788
Q gi|254780185|r  318 TDSQSPTKL--TYSTHNHSASCRIPYEN-KSDNKSIEIRFPDLSANPYLAPAAILMAGLDGIAKKIHPGKNIDELS  390 (458)
Q Consensus       318 p~~~ap~~~--~WG~~NR~a~iRip~~~-~~~~~riE~R~~da~aNPYL~lAailaAgl~Gi~~~l~p~~~~~~~~  390 (458)
                      |++|||+..  |||.+||+|+||||... +++++|||+|+||++|||||++||+|+|||+||+++ +|++|++.++
T Consensus       295 ~~~eap~~~~~swG~~NR~a~iRIP~~~~~~~~~r~E~R~pd~~aNPYl~~aa~l~agl~Gi~~~-~p~~p~~~~~  369 (370)
T 3fky_A          295 GRHETASMTAFSSGVANRGSSIRIPRSVAKEGYGYFEDRRPASNIDPYLVTGIMCETVCGAIDNA-DMTKEFERES  369 (370)
T ss_dssp             ------CCSCCCEEESCTTSSEEECHHHHHHTCCCEEECCCBTTCCHHHHHHHHHHHHHCCBTTB-CTTTCCC---
T ss_pred             CCCCCCCCCCCEECCCCCCEEEEECCCCCCCCCEEEEECCCCCCCCHHHHHHHHHHHHHHHHHCC-CCCCCCCCCC
T ss_conf             77647664123554678746799687778888618997577778688999999999998787548-9998567778


No 5  
>2ojw_A Glutamine synthetase; amino-acid biosynthesis, ligase, structural genomics, structural genomics consortium, SGC; HET: ADP; 2.05A {Homo sapiens} PDB: 2qc8_A* 2uu7_A
Probab=100.00  E-value=0  Score=564.07  Aligned_cols=325  Identities=20%  Similarity=0.246  Sum_probs=262.7

Q ss_pred             EEEEEEECCCCC-EEEEEEEHHHHHHHHHHC--CCCCCCCCHHCCCCCCCCEEEEEECCCCEECCCCCCCEEEEEEEECC
Q ss_conf             999999789982-523787787830558845--98456651002468998889996411058775689722799852014
Q gi|254780185|r   19 FIDLRFTDLQGK-FRHISMNVSLFNENTLLN--GITFDSSSIDGWHSKHPNLLLIPDIETMHMDPFYAQSTVAFICNVYD   95 (458)
Q Consensus        19 ~V~~~~~Dl~G~-~R~k~ip~~~f~~~~~~~--G~~fd~s~i~g~~~~~~D~~l~PD~~T~~~~Pw~~~~~~~v~~d~~~   95 (458)
                      .+..+|+|..|. +|+|+--...... .+.+  -++|||||+.++...++||+|+||  |++++||...+++.|+||+++
T Consensus        46 ~~eyiwidg~~~~~rsk~~~~~~~~~-~~~~~p~W~fDGSS~~~a~~~~SDmiL~Pd--t~~~dPf~~~~t~~ViCdv~~  122 (384)
T 2ojw_A           46 QAMYIWIDGTGEGLRCKTRTLDSEPK-CVEELPEWNFDGSSTLQSEGSNSDMYLVPA--AMFRDPFRKDPNKLVLCEVFK  122 (384)
T ss_dssp             EEEEEEECTTSSCEEEEEEEESSCCS-SGGGSCCEEEEGGGTTSSBTTBCEEEEEEE--EEEECTTTCTTCEEEEEEEEC
T ss_pred             EEEEEEECCCCCCCCCCCEEECCCCC-CHHHCCCCCCCCCCCCCCCCCCCEEEEECC--EEEECCCCCCCCEEEEEEEEC
T ss_conf             99999854899886667357347889-976788847677756898677741999748--896788889998899999788


Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCEECCCCCCCC
Q ss_conf             75448530255532355679987303452257731330899706777778654776667654577777750036554556
Q gi|254780185|r   96 PITLQPYNRDPRYTAQKAIDYLQTTDIGDTLLLGITTEFFVFDNVHCTISPIKSGFALESTEFLQNGNNKGYDSHAKSSY  175 (458)
Q Consensus        96 ~~~g~P~~~~PR~~Lk~~~~~l~~~~~G~~~~~g~E~EF~Lf~~~~~~~~p~~~~~~~~~~~~~~~~~~~g~~~~~~~~y  175 (458)
                      + +|+|++.|||++||++++++++  .|+.+.+++|+|||+++......       +.           .+++....++|
T Consensus       123 ~-dG~P~~~~pR~~Lk~~~~~~~~--~g~~~~~e~E~ef~~~~~~~~g~-------~~-----------~~~p~~~g~y~  181 (384)
T 2ojw_A          123 Y-NRRPAETNLRHTCKRIMDMVSN--QHPWFGMEQEYTLMGTDGHPFGW-------PS-----------NGFPGPQGPYY  181 (384)
T ss_dssp             T-TSCBCTTCCHHHHHHHHHHTGG--GCCEEEEEEEEEEEC-CCSBTTC-------CT-----------TSCCSCSSSCT
T ss_pred             C-CCCCCCHHHHHHHHHHHHHHHH--CCCEEEEEEEEEEEECCCCCCCC-------CC-----------CCCCCCCCCCC
T ss_conf             9-9898830089999999998873--58777231489997246776777-------66-----------78988888756


Q ss_pred             CCCHHHH--HHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEEEEEE
Q ss_conf             3552444--68999999999986054112221335621210365556688877699999999999987449754441210
Q gi|254780185|r  176 TLPPQDK--LHDMRSEIVSALNNIGVQITKYHNQINDAQHSFGLQSESLLHASDNLQKYKYSVHQVANSYCKIATFMPKP  253 (458)
Q Consensus       176 ~~~~~~~--~~~~~~ei~~~l~~~Gi~ie~~h~E~gpGQ~Ei~~~~~~~l~aAD~~~~~k~~ik~iA~~~G~~ATFmpKP  253 (458)
                      ...+.+.  .+++++++++.|+.+||+|+++|+|+||||+||++.|+++|+|||+++++|++||+||.+||++|||||||
T Consensus       182 ~~~~~d~~~~rdi~~e~~~~l~~~Gi~ie~~~~EvapGQ~Ei~~~~~~~l~aAD~~~~~K~ivk~iA~~~G~~ATFMPKP  261 (384)
T 2ojw_A          182 CGVGADRAYGRDIVEAHYRACLYAGVKIAGTNAEVMPAQWEFQIGPCEGISMGDHLWVARFILHRVCEDFGVIATFDPKP  261 (384)
T ss_dssp             TCCSTTTCCCHHHHHHHHHHHHHHTCCEEEEEECSSTTEEEEEEEEEETTHHHHHHHHHHHHHHHHHHHHTCEEECCSCS
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHCCEEEECCCC
T ss_conf             56776202312999999999975597420210333477457600431454310289999999999999819867642557


Q ss_pred             CCC-CCCCHHHHHHHHCC--CCCCCEECCCCCCCCHHHHHHHHHHHHHHHHCCHHCCCCCHHHHHHCCCCCCCEE--EEE
Q ss_conf             145-68601201111114--6763122155565789999999999988641000006670014431888521201--011
Q gi|254780185|r  254 IAS-HNGSGMYLNMSIHK--GEKAIFTGNQHDRVSLKGLYYLGGIIKHAKSLNALTNASTNSYKRLLTDSQSPTK--LTY  328 (458)
Q Consensus       254 ~~~-~~GsG~Hih~Sl~~--~~~n~f~~~~~~~ls~~~~~fiaGil~h~~al~a~~~PtvNSYkRl~p~~~ap~~--~~W  328 (458)
                      +.+ .+|||||+|+|+++  ++++++..      ++...+++++.+.|+.+++  .+|++||||||+|+++||+.  .+|
T Consensus       262 ~~Gd~~GsG~H~h~sl~~~~~~~~~~~~------~~~~~~~~~~~~~~i~a~~--~~~~vnsykRL~~~~eap~~~~~sw  333 (384)
T 2ojw_A          262 IPGNWNGAGCHTNFSTKAMREENGLKYI------EEAIEKLSKRHQYHIRAYD--PKGGLDNARRLTGFHETSNINDFSA  333 (384)
T ss_dssp             SCSSSCCCBEEEEEECHHHHSTTTHHHH------HHHHHHHHTCHHHHHHHSS--TTTTTTGGGTCC-----CCTTCCCE
T ss_pred             CCCCCCCCCEEEEECCCCCCCCCCCCHH------HHHHHHHHHHHHHHHHHHC--CCCCHHHHHHHCCCCCCCCCCCEEE
T ss_conf             8788788840587524334577762003------5778888999999999761--5775334664089875866232064


Q ss_pred             CCCCCCCEEECCCC-CCCCCCEEEECCCCCCCCHHHHHHHHHHHHHHH
Q ss_conf             36887640102578-876541244046753212799999999999987
Q gi|254780185|r  329 STHNHSASCRIPYE-NKSDNKSIEIRFPDLSANPYLAPAAILMAGLDG  375 (458)
Q Consensus       329 G~~NR~a~iRip~~-~~~~~~riE~R~~da~aNPYL~lAailaAgl~G  375 (458)
                      |.+||+|+||||.. ++++++|||+|+||++|||||++||+|+|++.+
T Consensus       334 G~~NRsa~IRIP~~~~~~~~~riE~R~pda~aNPYLa~Aail~A~ll~  381 (384)
T 2ojw_A          334 GVANRSASIRIPRTVGQEKKGYFEDRRPSANCDPFSVTEALIRTCLLN  381 (384)
T ss_dssp             EETCTTSSEEECHHHHHHTCSCEEECCCBTTCCHHHHHHHHHHHHTSC
T ss_pred             CCCCCCEEEEECCCCCCCCCEEEEECCCCCCCCHHHHHHHHHHHHCCC
T ss_conf             078887768968757898861899688778758999999999997378


No 6  
>2d3a_A Glutamine synthetase; ligase; HET: P3S ADP; 2.63A {Zea mays} PDB: 2d3b_A* 2d3c_A*
Probab=100.00  E-value=0  Score=558.27  Aligned_cols=344  Identities=17%  Similarity=0.224  Sum_probs=268.6

Q ss_pred             CCHHHHHHHHHHCCCCEE--EEEEECCCCC-EEEEEEEHHHHHHHH-HHCCCCCCCCCHHCCCCCCCCEEEEEECCCCEE
Q ss_conf             798999999985798399--9999789982-523787787830558-845984566510024689988899964110587
Q gi|254780185|r    3 DKATSIIQKIAQEKVKFI--DLRFTDLQGK-FRHISMNVSLFNENT-LLNGITFDSSSIDGWHSKHPNLLLIPDIETMHM   78 (458)
Q Consensus         3 ~~~~~i~~~l~~~~I~~V--~~~~~Dl~G~-~R~k~ip~~~f~~~~-~~~G~~fd~s~i~g~~~~~~D~~l~PD~~T~~~   78 (458)
                      .+-++|++.......+.|  ..+|+|..|. +|||+--.......+ -...++|||||+......++|++|+||  +.+.
T Consensus         2 ~~~~~~~~~~~~~~~~~~~~eyiwiDg~~~~lRsK~kv~~~~~~~~~~~p~w~fDGSStg~a~~~~SD~iL~Pd--~~~~   79 (356)
T 2d3a_A            2 ACLTDLVNLNLSDTTEKIIAEYIWIGGSGMDLRSKARTLPGPVTDPSKLPKWNYDGSSTGQAPGEDSEVILYPQ--AIFK   79 (356)
T ss_dssp             -CHHHHHTCCGGGTCSCEEEEEEEECTTSSCEEEEEEEESSCCCCGGGSCCEEEEGGGTTSSCSSSCEEEEEEE--EEEE
T ss_pred             CCHHHHHHHCCCCCCCEEEEEEEEECCCCCCCCCCCEEECCCCCCHHHCCCCCCCCCCCCCCCCCCCEEEEEEE--EEEE
T ss_conf             67789986018886677999999956899986431269466889976798614276512683467671999841--8986


Q ss_pred             CCCCCCCEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCEEEECCCCCCCCCCCCCCCCCCCCC
Q ss_conf             75689722799852014754485302555323556799873034522577313308997067777786547766676545
Q gi|254780185|r   79 DPFYAQSTVAFICNVYDPITLQPYNRDPRYTAQKAIDYLQTTDIGDTLLLGITTEFFVFDNVHCTISPIKSGFALESTEF  158 (458)
Q Consensus        79 ~Pw~~~~~~~v~~d~~~~~~g~P~~~~PR~~Lk~~~~~l~~~~~G~~~~~g~E~EF~Lf~~~~~~~~p~~~~~~~~~~~~  158 (458)
                      +||+.+++..|+||++++ +|+|++.|||++||+++++++.  .|+++++|+|+|||||++......    +.....   
T Consensus        80 dPf~~~~t~~Vlcdv~~~-dG~P~~~~PR~iLk~~~~~~~~--~g~~~~~G~E~EFfl~~~~~~~~~----~~~~~~---  149 (356)
T 2d3a_A           80 DPFRRGNNILVMCDCYTP-AGEPIPTNKRYSAAKIFSSPEV--AAEEPWYGIEQEYTLLQKDTNWPL----GWPIGG---  149 (356)
T ss_dssp             CTTTCTTCEEEEEEEECT-TSCBCTTCCHHHHHHHHHSHHH--HHHCCEEEEEEEEEEEETTTCCBT----TSCTTS---
T ss_pred             CCCCCCCCEEEEEEEECC-CCCCCCCCCCHHHHHHHHHHHH--CCCCEEECCCEEEEEEECCCCCCC----CCCCCC---
T ss_conf             789899988999999859-9989988983489999999876--697178615248999722567788----765788---


Q ss_pred             CCCCCCCEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHCCCCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             77777750036554556355244468999999999986054112221335621210365556688877699999999999
Q gi|254780185|r  159 LQNGNNKGYDSHAKSSYTLPPQDKLHDMRSEIVSALNNIGVQITKYHNQINDAQHSFGLQSESLLHASDNLQKYKYSVHQ  238 (458)
Q Consensus       159 ~~~~~~~g~~~~~~~~y~~~~~~~~~~~~~ei~~~l~~~Gi~ie~~h~E~gpGQ~Ei~~~~~~~l~aAD~~~~~k~~ik~  238 (458)
                            ...+.....++...+.+..+++++++++.|+.+||+|+++|+|+|||||||++.|+++|+|||+++++|++||+
T Consensus       150 ------~~~~~g~~~~~~~~~~~~~~~~~~~~~~~l~~~Gi~i~~~h~Ev~pgQ~Ei~~~~~~~l~aAD~~~~~k~~vk~  223 (356)
T 2d3a_A          150 ------FPGPQGPYYCGIGAEKSFGRDIVDAHYKACLYAGINISGINGEVMPGQWEFQVGPSVGISSGDQVWVARYILER  223 (356)
T ss_dssp             ------BCSCSSSCTTCCSTTTCCCHHHHHHHHHHHHHHTCCEEEEEECSSTTEEEEEEEEEETHHHHHHHHHHHHHHHH
T ss_pred             ------CCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCEEEEEECCCHHHHHHHHHHHHHHHHHH
T ss_conf             ------88888877677664045679999999999875585400533466587189996124266777999999999999


Q ss_pred             HHHHCCCEEEEEEEECCCC-CCCHHHHHHHHCCCCCCCEECCCCCCCCHHHHHHHHHHHHHHHHCCHHCCCCCHHHHHHC
Q ss_conf             9874497544412101456-860120111111467631221555657899999999999886410000066700144318
Q gi|254780185|r  239 VANSYCKIATFMPKPIASH-NGSGMYLNMSIHKGEKAIFTGNQHDRVSLKGLYYLGGIIKHAKSLNALTNASTNSYKRLL  317 (458)
Q Consensus       239 iA~~~G~~ATFmpKP~~~~-~GsG~Hih~Sl~~~~~n~f~~~~~~~ls~~~~~fiaGil~h~~al~a~~~PtvNSYkRl~  317 (458)
                      ||++||+.|||||||+.+. +|||||+|.|+++++++.+.        +...++++|++.+..+  ++++||+||||||+
T Consensus       224 vA~~~G~~atFmpKP~~g~~~~~g~h~~~s~~~~~~~~~~--------~~~~~~~~~l~~~~~~--~i~a~t~nsykRl~  293 (356)
T 2d3a_A          224 ITEIAGVVVTFDPKPIPGDWNGAGAHTNYSTESMRKEGGY--------EVIKAAIEKLKLRHKE--HIAAYGEGNERRLT  293 (356)
T ss_dssp             HHHHHTEEEECCSCSSCSSSCCCBEEEEEECTTTSSTTHH--------HHHHHHHHHHHHTHHH--HHTTSCTTHHHHCS
T ss_pred             HHHHCCCEEEECCCCCCCCCCCCEEEEECCCCCCCCCCCH--------HHHHHHHHHHHHHHHH--HHHCCCCCHHHHCC
T ss_conf             9998499256416667899988737960352237877652--------7799999999998999--98636786066657


Q ss_pred             CCCCCCE--EEEECCCCCCCEEECCCCC-CCCCCEEEECCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             8852120--1011368876401025788-7654124404675321279999999999998
Q gi|254780185|r  318 TDSQSPT--KLTYSTHNHSASCRIPYEN-KSDNKSIEIRFPDLSANPYLAPAAILMAGLD  374 (458)
Q Consensus       318 p~~~ap~--~~~WG~~NR~a~iRip~~~-~~~~~riE~R~~da~aNPYL~lAailaAgl~  374 (458)
                      |++|||+  +++||.+||+|+||||... ...++|||+|+||++|||||++||||.++|.
T Consensus       294 ~~~eap~~~~~~wG~~NRsa~iRIP~~~~~~~~~riE~R~pda~aNPYL~~Aail~t~~l  353 (356)
T 2d3a_A          294 GRHETADINTFSWGVANRGASVRVGRETEQNGKGYFEDRRPASNMDPYVVTSMIAETTIV  353 (356)
T ss_dssp             SSSSCCCTTCCCEESSCTTSSEECCHHHHHTTCCCEEECCCBTTCCHHHHHHHHHHHHTT
T ss_pred             CCCCCCCCCCCEECCCCCCEEEEECCCCCCCCCCEEEECCCCCCCCHHHHHHHHHHHHCC
T ss_conf             986577778437715678777996777888776079978877876899999999998565


No 7  
>1r8g_A Hypothetical protein YBDK; structural genomics, unknown function, carboxylate-amine ligase, structure 2 function project, S2F; 2.15A {Escherichia coli} SCOP: d.128.1.3 PDB: 1tt4_A
Probab=98.61  E-value=1.4e-06  Score=59.41  Aligned_cols=95  Identities=16%  Similarity=0.162  Sum_probs=64.9

Q ss_pred             CCCCCCCCCHHHCCCCCCC-CHHHHHHHHHHHHHHHHHHHHHCCCEEEEEEE-ECCCC----------------------
Q ss_conf             2221335621210365556-68887769999999999998744975444121-01456----------------------
Q gi|254780185|r  202 TKYHNQINDAQHSFGLQSE-SLLHASDNLQKYKYSVHQVANSYCKIATFMPK-PIASH----------------------  257 (458)
Q Consensus       202 e~~h~E~gpGQ~Ei~~~~~-~~l~aAD~~~~~k~~ik~iA~~~G~~ATFmpK-P~~~~----------------------  257 (458)
                      ..+..|..-+|+|++..|. +.-.+.+.+--.+..+++++.++|+..-.|+- |+...                      
T Consensus        48 ~~i~~El~~~qlEl~t~p~~~~~e~~~~l~~~~~~l~~~~~~~g~~l~~~g~~P~~~~~~~~~~~~~ry~~~~~~~~~~~  127 (372)
T 1r8g_A           48 GEVKHDITESMLELATDVCRDINQAAGQFSAMQKVVLQAATDHHLEICGGGTHPFQKWQRQEVCDNERYQRTLENFGYLI  127 (372)
T ss_dssp             SEEEECSSSSEEEEECCSBSSHHHHHHHHHHHHHHHHHHHHHTTCEEECCSBCSSCCC----------------CCGGGG
T ss_pred             CCEEECCCCCEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEECCCCCCCCCCCCCCCCCHHHHHHHHHHCCCHH
T ss_conf             85444278727997378879999999999999999998774369164246788778721023685578999998645155


Q ss_pred             ---CCCHHHHHHHHCCCCCCCEECCCCCCCCHHHHHHHHHHHHHHHHCCHHCCCCC
Q ss_conf             ---86012011111146763122155565789999999999988641000006670
Q gi|254780185|r  258 ---NGSGMYLNMSIHKGEKAIFTGNQHDRVSLKGLYYLGGIIKHAKSLNALTNAST  310 (458)
Q Consensus       258 ---~GsG~Hih~Sl~~~~~n~f~~~~~~~ls~~~~~fiaGil~h~~al~a~~~Ptv  310 (458)
                         .-+|+|+|+|+-+.              +..-..+-.++.++|-+.|+++-+.
T Consensus       128 ~~~~~~g~hvnv~~~~~--------------e~~~~~~~~~~~~~p~llaL~anSP  169 (372)
T 1r8g_A          128 QQATVFGQHVHVGCASG--------------DDAIYLLHGLSRFVPHFIALSAASP  169 (372)
T ss_dssp             CSCCBCEEEEEEECSSH--------------HHHHHHHHHHHTTHHHHHHHHCCBC
T ss_pred             HHCCCCCCEEEECCCCH--------------HHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             42256475476379999--------------9999999999999899999961892


No 8  
>2gwd_A Glutamate cysteine ligase; disulfide bridges, glutathione biosynthesis, beta-hairpin, redox regulation; HET: GLU; 2.09A {Brassica juncea} PDB: 2gwc_A*
Probab=97.04  E-value=0.0031  Score=38.51  Aligned_cols=88  Identities=17%  Similarity=0.178  Sum_probs=57.9

Q ss_pred             EEEEEECCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCEECCCCCCCCCCCHHHHHHHHHHHHHHHHH-HHCCCC--
Q ss_conf             25773133089970677777865477666765457777775003655455635524446899999999998-605411--
Q gi|254780185|r  125 TLLLGITTEFFVFDNVHCTISPIKSGFALESTEFLQNGNNKGYDSHAKSSYTLPPQDKLHDMRSEIVSALN-NIGVQI--  201 (458)
Q Consensus       125 ~~~~g~E~EF~Lf~~~~~~~~p~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~~~~~~~~~~~~ei~~~l~-~~Gi~i--  201 (458)
                      ..++|+|.|+|+++.....  |.                  .        |         +-+.++.+.|. ..|++.  
T Consensus        34 ~~~IG~E~E~~~v~~~~~~--~v------------------~--------~---------~~i~~~l~~l~~~~~~~~~~   76 (449)
T 2gwd_A           34 KWRIGTEHEKFGFEVNTLR--PM------------------K--------Y---------DQIAELLNSIAERFEWEKVM   76 (449)
T ss_dssp             GCCEEEEEEEEEEETTTCC--BC------------------C--------H---------HHHHHHHHHHHHHHTCEEEE
T ss_pred             CCEEEEEEEEEEEECCCCC--CC------------------C--------H---------HHHHHHHHHHHHHCCCCEEC
T ss_conf             8758986663465479898--79------------------8--------3---------88999999988761884315


Q ss_pred             ------------CCCCCCCCCHHHCCCCCCC-CHHHHHHHHHHHHHHHHHHHHHCCCEEEEE
Q ss_conf             ------------2221335621210365556-688877699999999999987449754441
Q gi|254780185|r  202 ------------TKYHNQINDAQHSFGLQSE-SLLHASDNLQKYKYSVHQVANSYCKIATFM  250 (458)
Q Consensus       202 ------------e~~h~E~gpGQ~Ei~~~~~-~~l~aAD~~~~~k~~ik~iA~~~G~~ATFm  250 (458)
                                  ..+.-|-| ||+|++..+. +.-.+++.+..++..+++++.++|+....+
T Consensus        77 e~~~~i~l~~~~~~it~EPg-~QiEls~~p~~~i~e~~~~~~~~~~~l~~~~~~~g~~l~~~  137 (449)
T 2gwd_A           77 EGDKIIGLKQGKQSISLEPG-GQFELSGAPLETLHQTCAEVNSHLYQVKAVAEEMGIGFLGM  137 (449)
T ss_dssp             ETTEEEEEEETTEEEEECTT-CCEEEECCCBSSHHHHHHHHHHHHHHHHHHHHHHTEEEECC
T ss_pred             CCCCCCCCCCCCCEEEECCC-CEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCC
T ss_conf             78863020468962642699-66786056667889999999999999999999769863025


No 9  
>1u8s_A Glycine cleavage system transcriptional repressor, putative; structural genomics, protein structure initiative (PSI), domain swapping; 2.45A {Vibrio cholerae} SCOP: d.58.18.5 d.58.18.5
Probab=63.74  E-value=4.2  Score=19.00  Aligned_cols=80  Identities=6%  Similarity=0.040  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHHHHHCCCCCCCCCCCCCH--------HHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEEEEEECC
Q ss_conf             8999999999986054112221335621--------21036555668887769999999999998744975444121014
Q gi|254780185|r  184 HDMRSEIVSALNNIGVQITKYHNQINDA--------QHSFGLQSESLLHASDNLQKYKYSVHQVANSYCKIATFMPKPIA  255 (458)
Q Consensus       184 ~~~~~ei~~~l~~~Gi~ie~~h~E~gpG--------Q~Ei~~~~~~~l~aAD~~~~~k~~ik~iA~~~G~~ATFmpKP~~  255 (458)
                      -.++.+|.+.+.+.|++|+..+......        .|.+.+...-+ ..+| .--+|.-..++|.+.|+..++=|.=.+
T Consensus       104 pGlL~~It~~la~~~inI~~l~~~t~~~~~~~~~~~~f~~~~~i~vp-~~~d-~~~l~~~L~~L~~el~vDi~i~~~~~~  181 (192)
T 1u8s_A          104 LGLTEKFTQFFAQRQIGMASLSAQTISKDKLHSEQNQFHIAISARVD-SGCN-LMQLQEEFDALCTALDVQGSLNFIKNS  181 (192)
T ss_dssp             TTHHHHHHHHHHHTTCCEEEEEEEEEC--------CEEEEEEEEEEC-TTSC-HHHHHHHHHHHHHHHTCEEEEEEEEC-
T ss_pred             CCHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCCEEEEEEEEECC-CCCC-HHHHHHHHHHHHHHHCCEEEEEECCCC
T ss_conf             26899999999867997005899842677667778579999999579-9999-999999999999985967999976475


Q ss_pred             CCCCCHHHHH
Q ss_conf             5686012011
Q gi|254780185|r  256 SHNGSGMYLN  265 (458)
Q Consensus       256 ~~~GsG~Hih  265 (458)
                      ...||--|.|
T Consensus       182 ~~~~~~~~~~  191 (192)
T 1u8s_A          182 QEGGSHHHHH  191 (192)
T ss_dssp             ----------
T ss_pred             CCCCCCCCCC
T ss_conf             1245555457


No 10 
>3mjf_A Phosphoribosylamine--glycine ligase; structural genomics, CEN structural genomics of infectious diseases, csgid; HET: MSE PGE; 1.47A {Yersinia pestis} PDB: 1gso_A
Probab=39.49  E-value=17  Score=15.27  Aligned_cols=97  Identities=12%  Similarity=0.183  Sum_probs=56.1

Q ss_pred             EEEEEECCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCEECCCCCCCCCCCHH-------HHHHHHHHHHHHHHHHH
Q ss_conf             25773133089970677777865477666765457777775003655455635524-------44689999999999860
Q gi|254780185|r  125 TLLLGITTEFFVFDNVHCTISPIKSGFALESTEFLQNGNNKGYDSHAKSSYTLPPQ-------DKLHDMRSEIVSALNNI  197 (458)
Q Consensus       125 ~~~~g~E~EF~Lf~~~~~~~~p~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~~~~-------~~~~~~~~ei~~~l~~~  197 (458)
                      +.+.|.|+.++.|-+.. ...+....   ........ +..|..+.++++|+-.+.       .....++..+...|.+.
T Consensus       191 E~L~G~E~S~~a~~dG~-~~~~lp~~---qDhKR~~d-gD~GPNTGGMGa~sp~p~~~~~l~~~i~~~ii~p~~~~l~~~  265 (431)
T 3mjf_A          191 EFLDGEEASFIVMVDGE-NVLPMATS---QDHKRVGD-GDTGPNTGGMGAYSPAPVVTDDVHQRVMDQVIWPTVRGMAAE  265 (431)
T ss_dssp             ECCCSEEEEEEEEEESS-CEEECCCB---EECCEEET-TTEEEECSCSEEEESCTTSCHHHHHHHHHHTHHHHHHHHHHT
T ss_pred             CCCCCEEEEEEEEECCC-EEEEEECC---CCCCCCCC-CCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCHHHHHHHHC
T ss_conf             20675389999997799-59953230---01522247-999998898864688987898999999875001177788635


Q ss_pred             CCCCCCCC------CCCC-CHHHCCCCCCCCHHHHH
Q ss_conf             54112221------3356-21210365556688877
Q gi|254780185|r  198 GVQITKYH------NQIN-DAQHSFGLQSESLLHAS  226 (458)
Q Consensus       198 Gi~ie~~h------~E~g-pGQ~Ei~~~~~~~l~aA  226 (458)
                      |++..++-      .+.| |--.|+|..+.||-..+
T Consensus       266 g~~y~GvLy~glMlt~~G~pkViEyN~RfGDPE~q~  301 (431)
T 3mjf_A          266 GNIYTGFLYAGLMISADGQPKVIEFNCRFGDPETQP  301 (431)
T ss_dssp             TCCCEEEEEEEEEECTTSCEEEEEECGGGSTTTHHH
T ss_pred             CCCCCCEEEEEEEECCCCCEEEEEEEEECCCCCHHH
T ss_conf             995212353115883689878999873037840445


No 11 
>2jug_A TUBC protein; docking domain, dimer, nonribosomal peptide synthetase, tubulysin, ligase, phosphopantetheine, biosynthetic protein; NMR {Angiococcus disciformis}
Probab=32.18  E-value=22  Score=14.54  Aligned_cols=30  Identities=13%  Similarity=0.307  Sum_probs=18.2

Q ss_pred             CCCCHHHHHHHHHHCCCCEEEEEEECCCCCEEEEE
Q ss_conf             98798999999985798399999978998252378
Q gi|254780185|r    1 MVDKATSIIQKIAQEKVKFIDLRFTDLQGKFRHIS   35 (458)
Q Consensus         1 m~~~~~~i~~~l~~~~I~~V~~~~~Dl~G~~R~k~   35 (458)
                      |.+++.+++..+.+.||+.    |+| .|.+|.+.
T Consensus         3 ~~~s~~~lL~~l~~~GI~L----~~e-~~kLr~~a   32 (78)
T 2jug_A            3 LGSSAGALLAHAASLGVRL----WVE-GERLRFQA   32 (78)
T ss_dssp             CCSSHHHHHHHHHHHTCEE----EEE-TTEEEEEC
T ss_pred             HHHHHHHHHHHHHHCCCEE----EEE-CCEEEEEC
T ss_conf             0330999999999889889----998-99999967


No 12 
>2iru_A Putative DNA ligase-like protein RV0938/MT0965; polymerase, primase, NHEJ, transferase; 1.65A {Mycobacterium tuberculosis H37RV} PDB: 2irx_A* 2iry_A* 2r9l_A*
Probab=30.04  E-value=23  Score=14.32  Aligned_cols=130  Identities=11%  Similarity=0.130  Sum_probs=68.6

Q ss_pred             HHHHHHHHCCCCCCCCCCC------------CCHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEEEEEECCCC
Q ss_conf             9999986054112221335------------6212103655566888776999999999999874497544412101456
Q gi|254780185|r  190 IVSALNNIGVQITKYHNQI------------NDAQHSFGLQSESLLHASDNLQKYKYSVHQVANSYCKIATFMPKPIASH  257 (458)
Q Consensus       190 i~~~l~~~Gi~ie~~h~E~------------gpGQ~Ei~~~~~~~l~aAD~~~~~k~~ik~iA~~~G~~ATFmpKP~~~~  257 (458)
                      ++-..+..-|++..+..-.            -|.+.-|.+.|.+++.-+| ++-.=..+|++-.+.|+.+      |...
T Consensus       102 Lv~lan~g~iE~H~w~~r~~~~~g~~~~~~~~PD~lvfDLDP~~~~~f~~-v~~~A~~vr~~L~~lgL~s------f~KT  174 (303)
T 2iru_A          102 LAWIAQQAALEVHVPQWRFVAEPGSGELNPGPATRLVFDLDPGEGVMMAQ-LAEVARAVRDLLADIGLVT------FPVT  174 (303)
T ss_dssp             HHHHHHTTCCEEEECSEEEEECTTTCCEEEEEEEEEEEEEEECTTCCHHH-HHHHHHHHHHHHHTTTCCC------EEEE
T ss_pred             HHHHHHHCCEEECCCHHCCCCCCCCCCCCCCCCCEEEEECCCCCCCCHHH-HHHHHHHHHHHHHHCCCCC------CCCC
T ss_conf             99999748787026500035556765468899986998489886899999-9999999999999769962------3054


Q ss_pred             CC-CHHHHHHHHCCCCCCCEECCCCCCCCHHHHHHHHHHHHH-HHHCCHHCCCCCHHHHHHCCCCCCCEEEEECCCCCCC
Q ss_conf             86-012011111146763122155565789999999999988-6410000066700144318885212010113688764
Q gi|254780185|r  258 NG-SGMYLNMSIHKGEKAIFTGNQHDRVSLKGLYYLGGIIKH-AKSLNALTNASTNSYKRLLTDSQSPTKLTYSTHNHSA  335 (458)
Q Consensus       258 ~G-sG~Hih~Sl~~~~~n~f~~~~~~~ls~~~~~fiaGil~h-~~al~a~~~PtvNSYkRl~p~~~ap~~~~WG~~NR~a  335 (458)
                      +| .|+||.+-|...    +.   -+.. ...-++||-.++. .|++.-.     +-.|....   --.++-|..|+|..
T Consensus       175 SG~kGlHV~vPl~~~----~~---~~~~-r~fa~~lA~~l~~~~P~~~T~-----~~~k~~R~---grVfiDylqN~~g~  238 (303)
T 2iru_A          175 SGSKGLHLYTPLDEP----VS---SRGA-TVLAKRVAQRLEQAMPALVTS-----TMTKSLRA---GKVFVDWSQNSGSK  238 (303)
T ss_dssp             CSSSCEEEEEEEEEE----EC---HHHH-HHHHHHHHHHHHHHCTTTEES-----SCCGGGCT---TSEEEECGGGSTTC
T ss_pred             CCCCEEEEEEECCCC----CC---HHHH-HHHHHHHHHHHHHHCCHHHHH-----HHHHHHCC---CCEEEECCCCCCCC
T ss_conf             799857999968999----89---8999-999999999998868414136-----64186489---96899763478998


Q ss_pred             EEECCCC
Q ss_conf             0102578
Q gi|254780185|r  336 SCRIPYE  342 (458)
Q Consensus       336 ~iRip~~  342 (458)
                      .+=-|.+
T Consensus       239 T~vapYS  245 (303)
T 2iru_A          239 TTIAPYS  245 (303)
T ss_dssp             CEECTTC
T ss_pred             EEEECCC
T ss_conf             5772466


No 13 
>1zpv_A ACT domain protein; structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; 1.90A {Streptococcus pneumoniae TIGR4} SCOP: d.58.18.7
Probab=28.94  E-value=25  Score=14.20  Aligned_cols=63  Identities=6%  Similarity=0.116  Sum_probs=35.3

Q ss_pred             HHHHHHHHHHHHCCCCCCCCCCCCCHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEEE
Q ss_conf             99999999986054112221335621210365556688877699999999999987449754441
Q gi|254780185|r  186 MRSEIVSALNNIGVQITKYHNQINDAQHSFGLQSESLLHASDNLQKYKYSVHQVANSYCKIATFM  250 (458)
Q Consensus       186 ~~~ei~~~l~~~Gi~ie~~h~E~gpGQ~Ei~~~~~~~l~aAD~~~~~k~~ik~iA~~~G~~ATFm  250 (458)
                      ++.++...|.+.|+.|.........+.|-..+....+  .....--++.-+..+|.++|+..+..
T Consensus        18 Iva~vt~~L~~~g~NI~d~~q~~~~~~F~~~~~v~~~--~~~~~~~l~~~l~~la~~l~l~i~i~   80 (91)
T 1zpv_A           18 IVAGVSGKIAELGLNIDDISQTVLDEYFTMMAVVSSD--EKQDFTYLRNEFEAFGQTLNVKINIQ   80 (91)
T ss_dssp             HHHHHHHHHHHTTCEEEEEEEEEETTEEEEEEEEEES--SCCCHHHHHHHHHHHHHHHTEEEEEE
T ss_pred             HHHHHHHHHHHCCCCEEEEEEEEECCCEEEEEEEECC--CCCCHHHHHHHHHHHHHHCCCEEEEE
T ss_conf             8999999999879949984508953712899999649--99999999999999999839689998


No 14 
>2qrd_A SNF1-like protein kinase SSP2; AMPK, ADP, ATP, ATP-binding, kinase, nucleotide-binding, serine/threonine-protein kinase, transferase, CBS domain; HET: ADP ATP; 2.41A {Schizosaccharomyces pombe} SCOP: d.129.6.2 PDB: 2ooy_A* 2qr1_A* 2qrc_A* 2oox_A* 2qre_A*
Probab=26.15  E-value=28  Score=13.89  Aligned_cols=31  Identities=16%  Similarity=0.213  Sum_probs=23.2

Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             6355244468999999999986054112221
Q gi|254780185|r  175 YTLPPQDKLHDMRSEIVSALNNIGVQITKYH  205 (458)
Q Consensus       175 y~~~~~~~~~~~~~ei~~~l~~~Gi~ie~~h  205 (458)
                      ++|.....-.+++.+|+++|.++|+.++...
T Consensus        15 lGIRSrs~P~eiM~eVykALk~Lg~eWk~~~   45 (137)
T 2qrd_A           15 FGVRCRGDAPEILLAVYRALQRAGAQFTVPK   45 (137)
T ss_dssp             ESEEEESCHHHHHHHHHHHHHHHTCEECCCC
T ss_pred             ECCCCCCCHHHHHHHHHHHHHHCCCEEEECC
T ss_conf             3155689989999999999998599796557


No 15 
>1ejb_A Lumazine synthase; analysis, inhibitor complex, vitamin biosynthesis transferase; HET: INJ; 1.85A {Saccharomyces cerevisiae} SCOP: c.16.1.1 PDB: 2jfb_A
Probab=26.15  E-value=28  Score=13.89  Aligned_cols=38  Identities=5%  Similarity=0.058  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHCCCCC
Q ss_conf             44689999999999860541122213356212103655
Q gi|254780185|r  181 DKLHDMRSEIVSALNNIGVQITKYHNQINDAQHSFGLQ  218 (458)
Q Consensus       181 ~~~~~~~~ei~~~l~~~Gi~ie~~h~E~gpGQ~Ei~~~  218 (458)
                      +-...+++...+.|...|+..+.++-..-||-||+.+.
T Consensus        29 ~I~~~Ll~ga~~~L~~~g~~~~~i~~~~VPGa~EiP~~   66 (168)
T 1ejb_A           29 VIIDALVKGAIERMASLGVEENNIIIETVPGSYELPWG   66 (168)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCGGGEEEEECSSGGGHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCCEEEEECCCHHHHHHH
T ss_conf             99999999999999985998224699977828888999


No 16 
>2qdx_A Ferredoxin reductase; oxidoreductase; HET: FAD; 1.55A {Pseudomonas aeruginosa} PDB: 3crz_A* 1a8p_A*
Probab=24.24  E-value=30  Score=13.67  Aligned_cols=29  Identities=17%  Similarity=0.268  Sum_probs=18.0

Q ss_pred             HHHHHHHHHHHHHHCCCCCCCCCCCCCHHHC
Q ss_conf             8999999999986054112221335621210
Q gi|254780185|r  184 HDMRSEIVSALNNIGVQITKYHNQINDAQHS  214 (458)
Q Consensus       184 ~~~~~ei~~~l~~~Gi~ie~~h~E~gpGQ~E  214 (458)
                      ..+++++.+.|.++|++.+..+.|  |||+-
T Consensus       221 ~~m~~~v~~~L~~~Gv~~~~~~~~--~~~~~  249 (257)
T 2qdx_A          221 PSMLEETSAVLDSFGLKISPRMGE--PGDYL  249 (257)
T ss_dssp             HHHHHHHHHHHHHTTCCBCSSTTS--CBSEE
T ss_pred             HHHHHHHHHHHHHCCCCCCCCCCC--CCCEE
T ss_conf             999999999999869985578799--98699


No 17 
>2hfv_A Hypothetical protein RPA1041; NESG, GFT-alpha+beta, structural genomics, PSI-2, protein structure initiative; NMR {Pseudomonas aeruginosa} SCOP: d.58.5.5
Probab=21.86  E-value=33  Score=13.38  Aligned_cols=53  Identities=13%  Similarity=0.184  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHCCCCCCCCCCCCCHHHCCCCCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999998605411222133562121036555668887769999999999998
Q gi|254780185|r  188 SEIVSALNNIGVQITKYHNQINDAQHSFGLQSESLLHASDNLQKYKYSVHQVA  240 (458)
Q Consensus       188 ~ei~~~l~~~Gi~ie~~h~E~gpGQ~Ei~~~~~~~l~aAD~~~~~k~~ik~iA  240 (458)
                      .=+...|+..||+..-.+......+-+|.+.|...+-..++...+|.++++.-
T Consensus        36 s~~~aLL~~aGI~~~V~De~mS~leG~ig~~PrRimV~deD~~~Ar~IL~dag   88 (97)
T 2hfv_A           36 SAVGALLDGADIGHLVLDQNMSILEGSLGVIPRRVLVHEDDLAGARRLLTDAG   88 (97)
T ss_dssp             HHHHHHHHHTTCCEECCSCCCCSSSCCSSSSCEEEEEEGGGHHHHHHHHHHTT
T ss_pred             HHHHHHHHHCCCCEEEECCCHHHHCCCCCCCCEEEEECHHHHHHHHHHHHHCC
T ss_conf             99999997689987980540033234577664799983678999999999769


Done!