Query         gi|254781040|ref|YP_003065453.1| hypothetical protein CLIBASIA_04710 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 143
No_of_seqs    126 out of 1227
Neff          5.6 
Searched_HMMs 23785
Date          Wed Jun  1 00:14:51 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254781040.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 3eop_A Thymocyte nuclear prote 100.0       0       0  433.2   8.6  140    1-140     1-171 (176)
  2 1zce_A Hypothetical protein AT 100.0       0       0  427.8  10.5  142    1-142     2-143 (155)
  3 2gbs_A Hypothetical protein RP 100.0       0       0  425.9  11.0  140    1-141     1-140 (145)
  4 2ar1_A Hypothetical protein; s 100.0       0       0  417.1   9.1  138    1-140    19-170 (172)
  5 2eve_A Hypothetical protein ps 100.0       0       0  407.7   9.9  137    1-139     1-152 (157)
  6 2p5d_A UPF0310 protein mjecl36  99.9 2.6E-28 1.1E-32  188.8   3.0  126    1-134     4-146 (147)
  7 2hd9_A UPF0310 protein PH1033;  97.9 9.9E-07 4.1E-11   60.1  -1.1  119    1-134     1-142 (145)
  8 2kku_A Uncharacterized protein  85.4    0.85 3.6E-05   24.7   4.1   58   41-98     57-147 (161)
  9 2yu6_A YTH domain-containing p  64.6       4 0.00017   20.7   2.9  125    2-135     9-137 (141)
 10 3bij_A Uncharacterized protein  63.5     4.5 0.00019   20.4   2.9   29   28-57     57-85  (285)
 11 2hbw_A NLP/P60 protein; YP_323  55.0     6.6 0.00028   19.4   2.6   24   40-64    158-181 (235)
 12 3h41_A NLP/P60 family protein;  54.1      10 0.00042   18.3   3.4   13   28-40     42-54  (311)
 13 3gt2_A Putative uncharacterize  53.4     7.3 0.00031   19.1   2.6   21   41-63     88-108 (142)
 14 3i86_A Putative uncharacterize  53.2     7.4 0.00031   19.1   2.6   22   41-64     84-105 (141)
 15 2k8s_A Thioredoxin; dimer, str  45.3     6.4 0.00027   19.5   1.3   14   47-60      3-16  (80)
 16 3ne0_A Resuscitation promoting  43.8      13 0.00053   17.7   2.6   22   41-64    157-178 (214)
 17 2yud_A YTH domain-containing p  41.2      20 0.00084   16.5   5.9  128    2-138    27-165 (180)
 18 2jyx_A Lipoprotein SPR; soluti  37.4      20 0.00083   16.6   2.8   23   41-64     66-88  (136)

No 1  
>3eop_A Thymocyte nuclear protein 1; protein of unknown function, alternative splicing, nucleus, phosphoprotein; 2.30A {Homo sapiens}
Probab=100.00  E-value=0  Score=433.18  Aligned_cols=140  Identities=38%  Similarity=0.675  Sum_probs=133.9

Q ss_pred             CCCCEECCCCCC---------CCHHHHHHCCCCCCCCCCCCCHHHHHHHHHCCCCCEEEEEECCC-CCCCEEEEEECCCC
Q ss_conf             974500115886---------67789985868887777765899999998538897899994588-87634888860446
Q gi|254781040|r    1 MAYWLVKSEPSE---------WSWKMQQDKGRVGEAWTGVRNYQARNNMRKMRVGDKGFFYHSNK-GREIVGIFEVITCT   70 (143)
Q Consensus         1 M~yWL~KsEP~~---------~s~~~~~~~~~~~~~WdGVRNyqArn~lr~Mk~GD~~~fYHS~~-~~~ivgi~~v~~~~   70 (143)
                      |+||||||||++         ||||||.++++++++||||||||||||||+||+||+|||||||| .++|||+++|++++
T Consensus         1 M~YWL~KsEP~~~~~~g~~~~fSiddl~~~~~~~~~WdGVRNyqArn~lR~Mk~GD~~ffYHS~~~~~~IvGi~~V~~~a   80 (176)
T 3eop_A            1 MSHWLMKSEPESRLEKGVDVKFSIEDLKAQPKQTTCWDGVRNYQARNFLRAMKLGEEAFFYHSNCKEPGIAGLMKIVKEA   80 (176)
T ss_dssp             -CEEEEEEBSSCCBSSSSBCBCCSHHHHTSGGGEEECCCCCCHHHHHHHHHCCTTCEEEEEECCSSSCEEEEEEEEEEEE
T ss_pred             CCEEEEEECCCCCCCCCCCCCCCHHHHHHCCCCCCCCCCCCCHHHHHHHHHCCCCCEEEEEECCCCCCCEEEEEEEEEEE
T ss_conf             96244632788765567656374999986458888667704499999998655788899985278998289999998841


Q ss_pred             CCCCCC-------------CCCCCEEEEECHHHCCCCCCCCHHHHHCCCC--------CCCCCCCCCCCCCEEECCHHHH
Q ss_conf             667764-------------4567227985032210799758889840820--------1146010057455011689999
Q gi|254781040|r   71 YPDPTA-------------EQSSCWECVDICAVCSMPCPVSLMAIKANPR--------LSSMILIVSSRLSVQPVTTDEY  129 (143)
Q Consensus        71 y~d~t~-------------~~~p~W~~VdVk~~~~l~~pVsL~~lK~~~~--------L~~m~Llk~~RLSV~PVt~~ew  129 (143)
                      |||+|+             +++|+|+||||+|+++|++||||++||+++.        |++|.|+||+||||||||++||
T Consensus        81 yPD~Tafd~~s~Y~Dpkst~~~prW~~VdV~~v~~f~~~VtL~~LK~~~~~~~~~~~~L~~m~Lvr~sRLSV~PVt~~ew  160 (176)
T 3eop_A           81 YPDHTQFEKNNPHYDPSSKEDNPKWSMVDVQFVRMMKRFIPLAELKSYHQAHKATGGPLKNMVLFTRQRLSIQPLTQEEF  160 (176)
T ss_dssp             EECGGGTCTTSTTCCTTCCTTSCSCEEEEEEEEEEEEEEEEHHHHHHHHHHHHHHTCTTSSCHHHHCTTCSEEEECHHHH
T ss_pred             ECCCCCCCCCCCCCCCCCCCCCCCEEEEEEEEEEECCCCCCHHHHHHCHHHCCCCCCCCCCCEEEECCCCCEEECCHHHH
T ss_conf             32785425677654866656799768999998253488538999972810123456640268252158552675699999


Q ss_pred             HHHHHHCCCCC
Q ss_conf             99999727999
Q gi|254781040|r  130 LEVCRMGKLSN  140 (143)
Q Consensus       130 ~~I~~L~~~~~  140 (143)
                      ++||+||++..
T Consensus       161 ~~I~~La~~~~  171 (176)
T 3eop_A          161 DFVLSLEELEH  171 (176)
T ss_dssp             HHHHHGGGCC-
T ss_pred             HHHHHHHCCCC
T ss_conf             99999877744


No 2  
>1zce_A Hypothetical protein ATU2648; alpha-beta protein., structural genomics, PSI, protein structure initiative; 1.30A {Agrobacterium tumefaciens str} SCOP: b.122.1.8
Probab=100.00  E-value=0  Score=427.84  Aligned_cols=142  Identities=67%  Similarity=1.180  Sum_probs=139.3

Q ss_pred             CCCCEECCCCCCCCHHHHHHCCCCCCCCCCCCCHHHHHHHHHCCCCCEEEEEECCCCCCCEEEEEECCCCCCCCCCCCCC
Q ss_conf             97450011588667789985868887777765899999998538897899994588876348888604466677644567
Q gi|254781040|r    1 MAYWLVKSEPSEWSWKMQQDKGRVGEAWTGVRNYQARNNMRKMRVGDKGFFYHSNKGREIVGIFEVITCTYPDPTAEQSS   80 (143)
Q Consensus         1 M~yWL~KsEP~~~s~~~~~~~~~~~~~WdGVRNyqArn~lr~Mk~GD~~~fYHS~~~~~ivgi~~v~~~~y~d~t~~~~p   80 (143)
                      ++||||||||++|||+|+.++++++++||||||||||||||+||+||+||||||||+++|||+++|++++|||+|++++|
T Consensus         2 ~~YWL~KsEP~~~siddl~~~~~~~~~WdGVRNyqArn~lr~Mk~GD~vlfYHS~~~~~ivg~~~v~~~~ypd~t~~~~p   81 (155)
T 1zce_A            2 ANYWLYKSEPFKWSWEMQKAKGETGEEWTGVRNYQARNNMRAMKIGDKGFFYHSNEGLDVVGIVEVCALSHPDSTAEGDL   81 (155)
T ss_dssp             CCEEEEEECTTTSCHHHHHHHGGGCEECCCCCCHHHHHHHHTCCTTCEEEEEETTTTCEEEEEEEEEEEEEECTTSTTCS
T ss_pred             CCEEEEECCCCCCCHHHHHHCCCCCCCCCCCCCHHHHHHHHHCCCCCEEEEEECCCCCCCEEEEEEEECCCCCCCCCCCC
T ss_conf             86517631898789999986688877546714099999998526788899996389898258998730357987756787


Q ss_pred             CEEEEECHHHCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCEEECCHHHHHHHHHHCCCCCCC
Q ss_conf             22798503221079975888984082011460100574550116899999999972799989
Q gi|254781040|r   81 CWECVDICAVCSMPCPVSLMAIKANPRLSSMILIVSSRLSVQPVTTDEYLEVCRMGKLSNPP  142 (143)
Q Consensus        81 ~W~~VdVk~~~~l~~pVsL~~lK~~~~L~~m~Llk~~RLSV~PVt~~ew~~I~~L~~~~~p~  142 (143)
                      +|+||||+|+++|++||+|++||+++.|++|.|+||+||||+|||++||++||+|||+++|+
T Consensus        82 rW~~VdV~fv~kf~~pVsL~eLK~~~~L~~m~Lvk~~RLSV~PVt~~ew~~I~~L~g~~~~~  143 (155)
T 1zce_A           82 KWDCVDIRAVCDMPQPVSLKDVKANPKLEKMSLVTSMRLSVQPVTEEEYLEVCRMGGLANPP  143 (155)
T ss_dssp             SCEEEEEEEEEEEEEEEEHHHHHHCGGGTTCHHHHCSSCSEEEECHHHHHHHHHHTTCSSCC
T ss_pred             CEEEEEEEECCCCCCCCCHHHHHCCCCCCCCCCHHCCCCCEEECCHHHHHHHHHHCCCCCCC
T ss_conf             54799888723379853699985797721292301484570654999999999962999998


No 3  
>2gbs_A Hypothetical protein RPA0253; alpha-beta, RPR3, NESG, structural genomics, COG294 protein structure initiative; NMR {Rhodopseudomonas palustris CGA009} SCOP: b.122.1.8
Probab=100.00  E-value=0  Score=425.92  Aligned_cols=140  Identities=58%  Similarity=0.968  Sum_probs=136.0

Q ss_pred             CCCCEECCCCCCCCHHHHHHCCCCCCCCCCCCCHHHHHHHHHCCCCCEEEEEECCCCCCCEEEEEECCCCCCCCCCCCCC
Q ss_conf             97450011588667789985868887777765899999998538897899994588876348888604466677644567
Q gi|254781040|r    1 MAYWLVKSEPSEWSWKMQQDKGRVGEAWTGVRNYQARNNMRKMRVGDKGFFYHSNKGREIVGIFEVITCTYPDPTAEQSS   80 (143)
Q Consensus         1 M~yWL~KsEP~~~s~~~~~~~~~~~~~WdGVRNyqArn~lr~Mk~GD~~~fYHS~~~~~ivgi~~v~~~~y~d~t~~~~p   80 (143)
                      |+||||||||++|||||++++++++++||||||||||||||+|++||+||||||||+|+|||+++|++++|||+| +.+|
T Consensus         1 maYWL~KsEP~~~siddl~~~~~~~~~WdGVRNyqARn~mr~M~~GD~~~fYHS~~~p~IvG~~~V~~~~~pd~t-~~~~   79 (145)
T 2gbs_A            1 VAYWLVKSEPSVWSWDQQVAKGAAGEAWTGVRNHSAKLHMVAMRRGDRAFYYHSNEGKEIVGIAEIIREAYPDPT-DASG   79 (145)
T ss_dssp             CCEEEEEECTTTSCHHHHHTTTTTCEECCCCCCHHHHHHHHHCCTTCEEEEEETTTTCEEEEEEEEEEEEEECTT-CTTS
T ss_pred             CCEEEECCCCCCCCHHHHHHCCCCCCCCCCCCCHHHHHHHHHHCCCCEEEEEECCCCCCCEEEEEEECCCCCCCC-CCCC
T ss_conf             951621038987899999876898885667542999999986066888999862899871489876203668998-7766


Q ss_pred             CEEEEECHHHCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCEEECCHHHHHHHHHHCCCCCC
Q ss_conf             2279850322107997588898408201146010057455011689999999997279998
Q gi|254781040|r   81 CWECVDICAVCSMPCPVSLMAIKANPRLSSMILIVSSRLSVQPVTTDEYLEVCRMGKLSNP  141 (143)
Q Consensus        81 ~W~~VdVk~~~~l~~pVsL~~lK~~~~L~~m~Llk~~RLSV~PVt~~ew~~I~~L~~~~~p  141 (143)
                      +|++|||+|.++|++||+|++||.++.|++|.|+||+||||+|||++||++||+|||+..-
T Consensus        80 ~w~~vdvk~~~~~~~pV~L~~lK~~~~L~~m~Llk~~RLSV~PVt~~ew~~I~~L~g~~~~  140 (145)
T 2gbs_A           80 KFVCVDIKADKPLKTPVTLAAVKAEPRLADMALMKYSRLSVQPVTAEEWKLVCKMGGLLEH  140 (145)
T ss_dssp             CSEEEEEEEEEEEEEEEEHHHHHHCTTGGGSHHHHCTTCSSEEECHHHHHHHHHHTTCCCC
T ss_pred             CCEEEEEEECCCCCCCEEHHHHHCCCCCCCCCCCCCCCCCEEECCHHHHHHHHHHCCCCHH
T ss_conf             7667875668702564109997168652469521048866342799999999985497500


No 4  
>2ar1_A Hypothetical protein; structural genomics, PSI, protein structure initiative, structural genomics of pathogenic protozoa consortium; 1.60A {Leishmania major} SCOP: b.122.1.8
Probab=100.00  E-value=0  Score=417.08  Aligned_cols=138  Identities=41%  Similarity=0.674  Sum_probs=130.3

Q ss_pred             CCCCEECCCCCCCCHHHHHHCCCCCCCCCCCCCHHHHHHHHHCCCCCEEEEEECCCC-CCCEEEEEECCCCCCCCCCC--
Q ss_conf             974500115886677899858688877777658999999985388978999945888-76348888604466677644--
Q gi|254781040|r    1 MAYWLVKSEPSEWSWKMQQDKGRVGEAWTGVRNYQARNNMRKMRVGDKGFFYHSNKG-REIVGIFEVITCTYPDPTAE--   77 (143)
Q Consensus         1 M~yWL~KsEP~~~s~~~~~~~~~~~~~WdGVRNyqArn~lr~Mk~GD~~~fYHS~~~-~~ivgi~~v~~~~y~d~t~~--   77 (143)
                      |+||||||||++|||+|+..++  +++||||||||||||||+|++||+||||||||+ ++|||+++|++++|||+|++  
T Consensus        19 m~YWL~KsEP~~~S~ddl~~~~--~~~WdGVRNyqArn~lr~Mk~GD~v~fYHS~~~~~~ivGi~~V~~~aypD~ta~D~   96 (172)
T 2ar1_A           19 IHYWLLKSEPHKFSIDDLAKQK--TSPWDGVRNYAARNNMRAMSVGDKVLFYHSNTKEPGVAGLAEVVRLAYDDFTALDK   96 (172)
T ss_dssp             CCEEEEEECTTTSCHHHHHHHS--EEECCCCCCHHHHHHHHHCCTTCEEEEEECSSSSCEEEEEEEEEEEEEECGGGGCT
T ss_pred             CCEEEECCCCCCCCHHHHHCCC--CCCCCCCCCHHHHHHHHHCCCCCEEEEEECCCCCCEEEEEEEEEECCCCCCCCCCC
T ss_conf             5466860588868899982158--97766714399999998655788899986388887489999985113578976677


Q ss_pred             -----------CCCCEEEEECHHHCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCEEECCHHHHHHHHHHCCCCC
Q ss_conf             -----------567227985032210799758889840820114601005745501168999999999727999
Q gi|254781040|r   78 -----------QSSCWECVDICAVCSMPCPVSLMAIKANPRLSSMILIVSSRLSVQPVTTDEYLEVCRMGKLSN  140 (143)
Q Consensus        78 -----------~~p~W~~VdVk~~~~l~~pVsL~~lK~~~~L~~m~Llk~~RLSV~PVt~~ew~~I~~L~~~~~  140 (143)
                                 ++|+|+||||+|+++|++||+|++||+++.|++|.|||++||||+|||++||++||+||+...
T Consensus        97 ~s~y~Dpks~~~~prW~~VdVk~v~kf~~pVtL~elK~~~~L~~m~Lvr~~RLSV~PVt~~ew~~I~~L~~~~~  170 (172)
T 2ar1_A           97 TSEYFDPKATKEKNPWKMVDVKFVARWDTVLTLHELKSRRELQKMALFTQRRLSVQPVSASEYAYILRMNEEQQ  170 (172)
T ss_dssp             TSTTCCTTCCSSCCCCEEEEEEEEEEEEEEEEHHHHTTCGGGTTCHHHHCSSCSEEEECHHHHHHHHHHHHHHT
T ss_pred             CCCCCCCCCCCCCCCEEEEEEEEEEECCCCCCHHHHHCCCCCCCCCEECCCCCCCEECCHHHHHHHHHHHCCCC
T ss_conf             75534764545588757999998130588527999865956033943103767703259999999999756302


No 5  
>2eve_A Hypothetical protein pspto5229; alpha-beta protein, structural genomics, PSI, protein struct initiative; HET: MPO; 1.60A {Pseudomonas syringae PV} SCOP: b.122.1.8 PDB: 2g2x_A
Probab=100.00  E-value=0  Score=407.67  Aligned_cols=137  Identities=42%  Similarity=0.667  Sum_probs=129.7

Q ss_pred             CCCCEECCCCCCCCHHHHHHCCCCCCCCCCCCCHHHHHHHHHCCCCCEEEEEECCC-CCCCEEEEEECCCCCCCCCCC--
Q ss_conf             97450011588667789985868887777765899999998538897899994588-876348888604466677644--
Q gi|254781040|r    1 MAYWLVKSEPSEWSWKMQQDKGRVGEAWTGVRNYQARNNMRKMRVGDKGFFYHSNK-GREIVGIFEVITCTYPDPTAE--   77 (143)
Q Consensus         1 M~yWL~KsEP~~~s~~~~~~~~~~~~~WdGVRNyqArn~lr~Mk~GD~~~fYHS~~-~~~ivgi~~v~~~~y~d~t~~--   77 (143)
                      |+||||||||++|||+|+.+++.  +.||||||||||||||+|++||+|||||||| +++|||+++|++++|||+|++  
T Consensus         1 M~YWL~KsEP~~~Siddl~~~~~--~~WdGVRNyqArn~lr~Mk~GD~v~fYHS~~~~~gIvGia~V~~~~~pD~t~~D~   78 (157)
T 2eve_A            1 MAYWLMKSEPDEFSISDLQRLGK--ARWDGVRNYQARNFLRTMAEGDEFFFYHSSCPEPGIAGIGKIVKTAYPDPTALDP   78 (157)
T ss_dssp             -CEEEEEECTTTSCHHHHHHHSE--EEECCCCCHHHHHHHHHCCTTCEEEEEECSSSSCEEEEEEEEEEEEEECGGGGCT
T ss_pred             CCEEEEECCCCCCCHHHHHHCCC--CCCCCCCCHHHHHHHHHCCCCCEEEEEECCCCCCEEEEEEEEEECCCCCCCCCCC
T ss_conf             96120105898589999987599--8777804499999997367788899996178988289999997612515755568


Q ss_pred             -----------CCCCEEEEECHHHCCCCCCCCHHHHHCCCCCCCCCCC-CCCCCCEEECCHHHHHHHHHHCCCC
Q ss_conf             -----------5672279850322107997588898408201146010-0574550116899999999972799
Q gi|254781040|r   78 -----------QSSCWECVDICAVCSMPCPVSLMAIKANPRLSSMILI-VSSRLSVQPVTTDEYLEVCRMGKLS  139 (143)
Q Consensus        78 -----------~~p~W~~VdVk~~~~l~~pVsL~~lK~~~~L~~m~Ll-k~~RLSV~PVt~~ew~~I~~L~~~~  139 (143)
                                 ++|+|+||||+|+++|++||+|++||+++.|++|.|+ ||+||||+|||++||++||+|+.-.
T Consensus        79 ~s~y~D~ks~~e~prw~~Vdv~~~~~l~~pv~L~elK~~~~L~~m~Lv~rg~RLSV~PVt~~ew~~I~~L~~~~  152 (157)
T 2eve_A           79 DSHYHDAKATTEKNPWSALDIGFVDIFKNVLGLGYLKQQSQLEQLPLVQKGSRLSVMPVTAEQWAAILALRLEH  152 (157)
T ss_dssp             TSTTCCTTCCSSCCCCEEEEEEEEEEEEEEEEHHHHHTCGGGTTCGGGSTTCCCSEEEECHHHHHHHHHHHC--
T ss_pred             CCCCCCCCCCCCCCCEEEEEEEEECCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCEEECCHHHHHHHHHHHHHH
T ss_conf             76522675544578647999986011277338999744925043832114787685446999999999876544


No 6  
>2p5d_A UPF0310 protein mjecl36; NPPSFA, national project on protein structural and functional analyses; 1.70A {Methanocaldococcus jannaschii}
Probab=99.94  E-value=2.6e-28  Score=188.78  Aligned_cols=126  Identities=21%  Similarity=0.413  Sum_probs=103.0

Q ss_pred             CCCCEECCCCCCCCHHHHHHCCCCCCCCCCCCCHHHHHHHHHCCCCCEEEEEECCCC------CCCEEEEEECCCCCCCC
Q ss_conf             974500115886677899858688877777658999999985388978999945888------76348888604466677
Q gi|254781040|r    1 MAYWLVKSEPSEWSWKMQQDKGRVGEAWTGVRNYQARNNMRKMRVGDKGFFYHSNKG------REIVGIFEVITCTYPDP   74 (143)
Q Consensus         1 M~yWL~KsEP~~~s~~~~~~~~~~~~~WdGVRNyqArn~lr~Mk~GD~~~fYHS~~~------~~ivgi~~v~~~~y~d~   74 (143)
                      |+|||++++|+.|++... .     ..| |+ ||||||+||.||+||.+|||||++.      +.+||+++|++++|+|+
T Consensus         4 m~YWl~~~~~d~~~~~~~-~-----~i~-g~-~~~~r~~l~rmk~GD~v~fY~s~~~~~~~~~~~~vg~~~V~~~~~~d~   75 (147)
T 2p5d_A            4 MAYWLCITNEDNWKVIKE-K-----KIW-GV-AERYKNTINKVKVGDKLIIYEIQRSGKDYKPPYIRGVYEVVSEVYKDS   75 (147)
T ss_dssp             CCEEEEEECHHHHHHHHH-H-----CEE-EE-CGGGHHHHTTCCTTCEEEEEECCBCSTTCBCCEEEEEEEECSCCEECC
T ss_pred             EEEEEEECCHHHHHHHHC-C-----CEE-EE-CHHHHHHHHHCCCCCEEEEEEECCCCCCCCCCEEEEEEEEECCCCCCC
T ss_conf             324412078999767634-8-----568-40-888878997378888899998156788875616999999935750189


Q ss_pred             CC--------CCCCCEEEEECHHHCCCCCCCCHHHHHCCCCCCCCCCCCCC---CCCEEECCHHHHHHHHH
Q ss_conf             64--------45672279850322107997588898408201146010057---45501168999999999
Q gi|254781040|r   75 TA--------EQSSCWECVDICAVCSMPCPVSLMAIKANPRLSSMILIVSS---RLSVQPVTTDEYLEVCR  134 (143)
Q Consensus        75 t~--------~~~p~W~~VdVk~~~~l~~pVsL~~lK~~~~L~~m~Llk~~---RLSV~PVt~~ew~~I~~  134 (143)
                      |.        .+.++|++|+++++..|..||+|.+|+..-.+-.....-+.   +.|+.||++++|+.|++
T Consensus        76 ~~~~~~~~~~~~~~~~~~v~v~~~~~~~~~v~l~~l~~~L~fi~~~~~w~~~~r~~~~~~I~~~Df~~I~~  146 (147)
T 2p5d_A           76 SKIFKPTPRNPNEKFPYRVKLKEIKVFEPPINFKELIPKLKFITNKKRWSGHLMGKAMREIPEEDYKLIVG  146 (147)
T ss_dssp             CCCSCCBTTBTTCCCCEEEEEEEEEEEEEEEEHHHHGGGCTTCCCSSSCCC--CCCSEEEECHHHHHHHHT
T ss_pred             CCCCCCCCCCCCCCEEEEEEEEEHHHCCCCCCHHHHHHHHHHHHCHHHHHHHHCCCCCEECCHHHHHHHHC
T ss_conf             86776611167887789999786322378755999887777522777641533258742669999999853


No 7  
>2hd9_A UPF0310 protein PH1033; structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: CIT; 1.35A {Pyrococcus horikoshii OT3} SCOP: b.122.1.8 PDB: 1wmm_A* 2zbn_A
Probab=97.86  E-value=9.9e-07  Score=60.09  Aligned_cols=119  Identities=18%  Similarity=0.308  Sum_probs=72.6

Q ss_pred             CCCCEECCCCCCCCHHHHHHCCCCCCCCCCCCCHHHHHHHHHCCCCCEEEEEECCCC--------CCCEEEEEECCCCCC
Q ss_conf             974500115886677899858688877777658999999985388978999945888--------763488886044666
Q gi|254781040|r    1 MAYWLVKSEPSEWSWKMQQDKGRVGEAWTGVRNYQARNNMRKMRVGDKGFFYHSNKG--------REIVGIFEVITCTYP   72 (143)
Q Consensus         1 M~yWL~KsEP~~~s~~~~~~~~~~~~~WdGVRNyqArn~lr~Mk~GD~~~fYHS~~~--------~~ivgi~~v~~~~y~   72 (143)
                      |+|||.=+..+-+-+-  ...+- -...+|-     ++-++.||+||.++||-++..        ..++|+++|.++.+.
T Consensus         1 m~YWi~v~s~e~~~~~--~~~g~-~~v~~~k-----~~~l~rikpGD~li~Y~~~~~~~~~~~~~q~f~ai~~V~~~~~~   72 (145)
T 2hd9_A            1 MTYWICITNRENWEVI--KRHNV-WGVPKKH-----KNTLSRVKPGDKLVIYVRQEKDKEGNLLEPKIVGIYEVTSEPYV   72 (145)
T ss_dssp             CCEEEEEECHHHHHHH--HHHCE-EEECGGG-----HHHHTTCCTTCEEEEEECCEECTTCCEECCEEEEEEEECSCCEE
T ss_pred             CEEEEEECCHHHHHHH--HHCCE-EEECCCC-----CCHHHHCCCCCEEEEEECCCCCCCCCCCCCEEEEEEEECCCCEE
T ss_conf             9069985689999999--86977-8607775-----02775378998899996651358887456369999998576561


Q ss_pred             CCCCC----CCCC---EEEEECHHHCCCCCCCCHHHHHCCCCCCCCCCCCCC--------CCCEEECCHHHHHHHHH
Q ss_conf             77644----5672---279850322107997588898408201146010057--------45501168999999999
Q gi|254781040|r   73 DPTAE----QSSC---WECVDICAVCSMPCPVSLMAIKANPRLSSMILIVSS--------RLSVQPVTTDEYLEVCR  134 (143)
Q Consensus        73 d~t~~----~~p~---W~~VdVk~~~~l~~pVsL~~lK~~~~L~~m~Llk~~--------RLSV~PVt~~ew~~I~~  134 (143)
                      |.+.-    ..+.   =+-+++++....  +|++..|.     ..+..++..        |-.+.+++++.|+.|.+
T Consensus        73 d~~~i~~~~~~~~~~~p~R~~v~~~~~~--~v~i~~l~-----~~L~Fi~~k~~w~~~~~r~g~~~I~~~Df~~I~~  142 (145)
T 2hd9_A           73 DFSRIFKPHRGGKETYPYRVKIKPIKIG--EINFKPLI-----NDLKFIKNKKRWSMHFFGKAMRELPEEDYKLIEK  142 (145)
T ss_dssp             CCCCCSCCTTSSCCCCCEEEEEEEEEEE--EEESGGGG-----GGCTTCCCSTTGGGGTTTCSEEEECHHHHHHHHH
T ss_pred             CCCCCCCCCCCCCCEEEEEEEEEEEECC--CEEHHHHH-----HHHHEEECCHHCCHHHHCCCCEECCHHHHHHHHH
T ss_conf             2675564323677617899982130037--42578954-----1122062701203466567754659999999999


No 8  
>2kku_A Uncharacterized protein; alpha/beta protein, structural genomics, PSI-2, protein structure initiative; NMR {Archaeoglobus fulgidus}
Probab=85.36  E-value=0.85  Score=24.70  Aligned_cols=58  Identities=17%  Similarity=0.385  Sum_probs=41.1

Q ss_pred             HHCCCCCEEEEEECCCCCCCEEEEEECCCCCCCCC---------------------------------CCCCCCEEEEEC
Q ss_conf             85388978999945888763488886044666776---------------------------------445672279850
Q gi|254781040|r   41 RKMRVGDKGFFYHSNKGREIVGIFEVITCTYPDPT---------------------------------AEQSSCWECVDI   87 (143)
Q Consensus        41 r~Mk~GD~~~fYHS~~~~~ivgi~~v~~~~y~d~t---------------------------------~~~~p~W~~VdV   87 (143)
                      +..+.|-.++||-|....|.||-|+|-+-...+..                                 ....+.|.+..+
T Consensus        57 k~l~pGMKviFYaS~Ed~G~~GEA~Ik~V~~~~~~~ei~ekyGd~vFLTkEE~k~Y~kd~~rw~~r~~~~rkrpWmvi~L  136 (161)
T 2kku_A           57 KELKPGMKFVFYQSHEDTGFVGEARIKRVVLSENPMQFFETFGDRVFLTKDELKEYMKSQERWGRRRESKKKKLWMAIEL  136 (161)
T ss_dssp             TTCCTTEEEEECCCSTTCBCCEEEEEEEEEEESCTHHHHHHTSTTBSSCHHHHHHHHHHHHHTSSCCCCSSCCCEEEEEE
T ss_pred             HHHCCCCEEEEEEECCCCCEEEEEEEEEEEECCCHHHHHHHHCCEEEECHHHHHHHHHHHHCCCCCCCCCCCCCEEEEEE
T ss_conf             76188848999972133550524899998850798999998386055179999999875232476566666785699994


Q ss_pred             HHHCCCCCCCC
Q ss_conf             32210799758
Q gi|254781040|r   88 CAVCSMPCPVS   98 (143)
Q Consensus        88 k~~~~l~~pVs   98 (143)
                      +-+++.+++|-
T Consensus       137 e~IrKY~rvvK  147 (161)
T 2kku_A          137 EDVKKYDKPIK  147 (161)
T ss_dssp             EEEEECCSCBC
T ss_pred             CCCHHCCCCCC
T ss_conf             25000676578


No 9  
>2yu6_A YTH domain-containing protein 2; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=64.62  E-value=4  Score=20.67  Aligned_cols=125  Identities=10%  Similarity=0.052  Sum_probs=72.7

Q ss_pred             CCCEECCCCCCCCHHHHHHCCCCCCCCCCCCCHHHHHHHHHCCCCCEEEEEECC-CCCCCEEEEEECCCCCCCCCCC-CC
Q ss_conf             745001158866778998586888777776589999999853889789999458-8876348888604466677644-56
Q gi|254781040|r    2 AYWLVKSEPSEWSWKMQQDKGRVGEAWTGVRNYQARNNMRKMRVGDKGFFYHSN-KGREIVGIFEVITCTYPDPTAE-QS   79 (143)
Q Consensus         2 ~yWL~KsEP~~~s~~~~~~~~~~~~~WdGVRNyqArn~lr~Mk~GD~~~fYHS~-~~~~ivgi~~v~~~~y~d~t~~-~~   79 (143)
                      +|.++||    ++.++...+.+. ..|-=.+ ...+...++.+.++.|++.-|. .-..-.|.|+.++..-.+.+.. .+
T Consensus         9 RfFiIKS----~~~~nv~~s~~~-gvW~t~~-~~~~~L~~Af~~~~~V~L~FSvn~Sg~F~G~A~M~s~~~~~~~~~w~~   82 (141)
T 2yu6_A            9 RYFIMKS----SNLRNLEISQQK-GIWSTTP-SNERKLNRAFWESSIVYLVFSVQGSGHFQGFSRMSSEIGREKSQDWGS   82 (141)
T ss_dssp             EEEEEEE----SSSHHHHHHHHT-CEEECCT-TSHHHHHHHHHHSSCEEEEEEESSSSEECEEEEECSCSSSCCCCCCSC
T ss_pred             EEEEEEE----CCHHHHHHHHHC-CEEECCC-CCHHHHHHHHHHCCCEEEEEEECCCCCEEEEEEEECCCCCCCCCCCCH
T ss_conf             7999973----988999999975-9973142-317999999975898899999767662478998704789866775002


Q ss_pred             CCEE-EEECHHHCCCCCCCCHHHHHCCC-CCCCCCCCCCCCCCEEECCHHHHHHHHHH
Q ss_conf             7227-98503221079975888984082-01146010057455011689999999997
Q gi|254781040|r   80 SCWE-CVDICAVCSMPCPVSLMAIKANP-RLSSMILIVSSRLSVQPVTTDEYLEVCRM  135 (143)
Q Consensus        80 p~W~-~VdVk~~~~l~~pVsL~~lK~~~-~L~~m~Llk~~RLSV~PVt~~ew~~I~~L  135 (143)
                      .+|. ...|+-+.  ...|+-..++... .+-+..-|+.+| ..|-|+++....+|+|
T Consensus        83 ~~~~g~F~V~Wl~--~~~lpf~~~~hl~n~~N~nk~V~~sR-DgqEi~~~~G~~ll~i  137 (141)
T 2yu6_A           83 AGLGGVFKVEWIR--KESLPFQFAHHLLNPWNDNKKVQISR-DGQELEPQVGEQLLQL  137 (141)
T ss_dssp             SCCCCEEEEEEEE--CSCEEHHHHTSCEETTSTTEETTCCC-TTEEECTTHHHHHHGG
T ss_pred             HCCCCCEEEEEEE--EECCCHHHHCCCCCCCCCCCEEEECC-CCEEECHHHHHHHHHH
T ss_conf             1248960689998--01168388330015678996672155-8774099999999998


No 10 
>3bij_A Uncharacterized protein GSU0716; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.50A {Geobacter sulfurreducens pca}
Probab=63.46  E-value=4.5  Score=20.39  Aligned_cols=29  Identities=17%  Similarity=0.173  Sum_probs=20.6

Q ss_pred             CCCCCCHHHHHHHHHCCCCCEEEEEECCCC
Q ss_conf             777658999999985388978999945888
Q gi|254781040|r   28 WTGVRNYQARNNMRKMRVGDKGFFYHSNKG   57 (143)
Q Consensus        28 WdGVRNyqArn~lr~Mk~GD~~~fYHS~~~   57 (143)
                      -+++++--.+ +.+..+.||.++||.||-+
T Consensus        57 r~~i~~al~~-l~~~~~~~D~v~~yfSGHG   85 (285)
T 3bij_A           57 RAKVIDAIGK-AAKALGKGDIFMLSYSGHG   85 (285)
T ss_dssp             HHHHHHHHHH-HHHHCCTTCEEEEEEESCE
T ss_pred             HHHHHHHHHH-HHHHCCCCCEEEEEECCCC
T ss_conf             9999999999-9985889988999984753


No 11 
>2hbw_A NLP/P60 protein; YP_323898.1, structural genomics, PSI-2, protein structure initiative, joint center for structural genomics; HET: UNL; 1.05A {Anabaena variabilis atcc 29413} PDB: 2evr_A 2fg0_A
Probab=54.98  E-value=6.6  Score=19.38  Aligned_cols=24  Identities=25%  Similarity=0.452  Sum_probs=14.6

Q ss_pred             HHHCCCCCEEEEEECCCCCCCEEEE
Q ss_conf             9853889789999458887634888
Q gi|254781040|r   40 MRKMRVGDKGFFYHSNKGREIVGIF   64 (143)
Q Consensus        40 lr~Mk~GD~~~fYHS~~~~~ivgi~   64 (143)
                      ..++++||++||- +...++=|||+
T Consensus       158 ~~~~~pGDLiF~~-~~~~~~HVgIy  181 (235)
T 2hbw_A          158 IDELAPGDLVFFG-TPVKATHVGLY  181 (235)
T ss_dssp             GGGCCTTCEEEEE-CSSCEEEEEEE
T ss_pred             HHHCCCCCEEEEC-CCCCCCEEEEE
T ss_conf             7767877678866-99999889999


No 12 
>3h41_A NLP/P60 family protein; NP_979181.1, NLPC/P60 family protein, structural genomics, joint center for structural genomics, JCSG; HET: DGL PG4; 1.79A {Bacillus cereus atcc 10987}
Probab=54.11  E-value=10  Score=18.32  Aligned_cols=13  Identities=15%  Similarity=0.340  Sum_probs=5.8

Q ss_pred             CCCCCCHHHHHHH
Q ss_conf             7776589999999
Q gi|254781040|r   28 WTGVRNYQARNNM   40 (143)
Q Consensus        28 WdGVRNyqArn~l   40 (143)
                      |-..-+|..|--|
T Consensus        42 w~~~~~~~~~~~~   54 (311)
T 3h41_A           42 WTKSMTLDEKLWL   54 (311)
T ss_dssp             HHHHCCHHHHHHH
T ss_pred             HHHHCCHHHHHCC
T ss_conf             9874999897234


No 13 
>3gt2_A Putative uncharacterized protein; P60 domain, antigen, unknown function; HET: EDO; 1.75A {Mycobacterium avium subsp}
Probab=53.37  E-value=7.3  Score=19.14  Aligned_cols=21  Identities=29%  Similarity=0.487  Sum_probs=13.1

Q ss_pred             HHCCCCCEEEEEECCCCCCCEEE
Q ss_conf             85388978999945888763488
Q gi|254781040|r   41 RKMRVGDKGFFYHSNKGREIVGI   63 (143)
Q Consensus        41 r~Mk~GD~~~fYHS~~~~~ivgi   63 (143)
                      .++++||++||-- + .+.=|||
T Consensus        88 ~~~~pGDLvff~~-~-~~~HVgI  108 (142)
T 3gt2_A           88 QQARKGDLIFYGP-E-GTQSVAM  108 (142)
T ss_dssp             GGCCTTCEEEESG-G-GCSEEEE
T ss_pred             CCCCCCEEEEECC-C-CCCEEEE
T ss_conf             5799981899569-9-9988999


No 14 
>3i86_A Putative uncharacterized protein; alpha and beta protein, hypothetical cysteine protease, HYDR; 2.40A {Mycobacterium avium subsp}
Probab=53.17  E-value=7.4  Score=19.11  Aligned_cols=22  Identities=27%  Similarity=0.495  Sum_probs=13.4

Q ss_pred             HHCCCCCEEEEEECCCCCCCEEEE
Q ss_conf             853889789999458887634888
Q gi|254781040|r   41 RKMRVGDKGFFYHSNKGREIVGIF   64 (143)
Q Consensus        41 r~Mk~GD~~~fYHS~~~~~ivgi~   64 (143)
                      .++++||++||. ++ ...-|||.
T Consensus        84 ~~~~pGDLvff~-~~-~~~HVgiy  105 (141)
T 3i86_A           84 DQARRGDLIFYG-PG-GSQHVTMY  105 (141)
T ss_dssp             GGCCTTCEEEES-GG-GCSEEEEE
T ss_pred             CCCCCCCEEEEC-CC-CCCEEEEE
T ss_conf             558998689975-89-99988999


No 15 
>2k8s_A Thioredoxin; dimer, structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; NMR {Nitrosomonas europaea}
Probab=45.26  E-value=6.4  Score=19.47  Aligned_cols=14  Identities=29%  Similarity=0.506  Sum_probs=10.9

Q ss_pred             CEEEEEECCCCCCC
Q ss_conf             78999945888763
Q gi|254781040|r   47 DKGFFYHSNKGREI   60 (143)
Q Consensus        47 D~~~fYHS~~~~~i   60 (143)
                      -.+.|||.+|+--+
T Consensus         3 ~KaiFYHAGCpVCV   16 (80)
T 2k8s_A            3 SKAIFYHAGCPVCV   16 (80)
T ss_dssp             EEEEEEECSCHHHH
T ss_pred             CEEEEEECCCCEEH
T ss_conf             51378736997443


No 16 
>3ne0_A Resuscitation promoting factor interacting protei; cell WALL, peptidoglycan, hydrolase; 1.00A {Mycobacterium tuberculosis} PDB: 2xiv_A*
Probab=43.79  E-value=13  Score=17.71  Aligned_cols=22  Identities=36%  Similarity=0.585  Sum_probs=13.4

Q ss_pred             HHCCCCCEEEEEECCCCCCCEEEE
Q ss_conf             853889789999458887634888
Q gi|254781040|r   41 RKMRVGDKGFFYHSNKGREIVGIF   64 (143)
Q Consensus        41 r~Mk~GD~~~fYHS~~~~~ivgi~   64 (143)
                      .+++.||++||.-+  ...=|||.
T Consensus       157 ~~~~pGDLvff~~~--~~~HVgIy  178 (214)
T 3ne0_A          157 SQMRRGDVIFYGPN--GSQHVTIY  178 (214)
T ss_dssp             GGCCTTCEEEESGG--GCSEEEEE
T ss_pred             CCCCCCEEEEECCC--CCCEEEEE
T ss_conf             78999718995699--99879999


No 17 
>2yud_A YTH domain-containing protein 1; structure genomics, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=41.18  E-value=20  Score=16.53  Aligned_cols=128  Identities=9%  Similarity=0.076  Sum_probs=77.2

Q ss_pred             CCCEECCCCCCCCHHHHHHCCCCCCCCCCCCCHHHHHHHHHCCCCCEEEEEECC-CCCCCEEEEEECCCCCCCCCCC---
Q ss_conf             745001158866778998586888777776589999999853889789999458-8876348888604466677644---
Q gi|254781040|r    2 AYWLVKSEPSEWSWKMQQDKGRVGEAWTGVRNYQARNNMRKMRVGDKGFFYHSN-KGREIVGIFEVITCTYPDPTAE---   77 (143)
Q Consensus         2 ~yWL~KsEP~~~s~~~~~~~~~~~~~WdGVRNyqArn~lr~Mk~GD~~~fYHS~-~~~~ivgi~~v~~~~y~d~t~~---   77 (143)
                      +|.++||    ++.++...+.+. ..|- .....-+...++.+.++.|++.-|. .-..-.|.|+.++..-++.+..   
T Consensus        27 RfFIIKS----~n~~nv~~S~~~-gvWa-t~~~n~~~L~~Af~~~~~V~L~FSVn~Sg~F~G~A~M~S~~~~~~~~~~W~  100 (180)
T 2yud_A           27 RFFLIKS----NNHENVSLAKAK-GVWS-TLPVNEKKLNLAFRSARSVILIFSVRESGKFQGFARLSSESHHGGSPIHWV  100 (180)
T ss_dssp             EEEEEEE----SCHHHHHHHHHH-TEEC-CCHHHHHHHHHHHHHSSCEEEEEEETTTSEEEEEEEEEEEEECSSCCCCCC
T ss_pred             EEEEEEC----CCHHHHHHHHHC-CEEE-CCCCCHHHHHHHHHHCCCEEEEEEECCCCCEEEEEEEECCCCCCCCCCCCC
T ss_conf             7999973----988999999876-9862-245426999999962698899999867773478999704577787764221


Q ss_pred             -----CCCCEE-EEECHHHCCCCCCCCHHHHHCCCC-CCCCCCCCCCCCCEEECCHHHHHHHHHHCCC
Q ss_conf             -----567227-985032210799758889840820-1146010057455011689999999997279
Q gi|254781040|r   78 -----QSSCWE-CVDICAVCSMPCPVSLMAIKANPR-LSSMILIVSSRLSVQPVTTDEYLEVCRMGKL  138 (143)
Q Consensus        78 -----~~p~W~-~VdVk~~~~l~~pVsL~~lK~~~~-L~~m~Llk~~RLSV~PVt~~ew~~I~~L~~~  138 (143)
                           +..+|. .-.|+-+..  ..|+-..++...- +-+..-|+.+| -.|-|+++....+|+|=.-
T Consensus       101 ~~~~~~~~~~~g~F~VeWl~~--~~lpf~~~~hl~N~~N~nkpV~~sR-DgqEI~~~~G~~L~~lF~~  165 (180)
T 2yud_A          101 LPAGMSAKMLGGVFKIDWICR--RELPFTKSAHLTNPWNEHKPVKIGR-DGQEIELECGTQLCLLFPP  165 (180)
T ss_dssp             CCSSCCGGGGCSEEEEEEEEC--SCEEHHHHTTCCBTTTTSBCTTSCC-TTEEECHHHHHHHHHHSCC
T ss_pred             CCCCCCCCCCCCCEEEEEEEE--EECCCHHHCCCCCCCCCCCEEEECC-CCEEECHHHHHHHHHHCCC
T ss_conf             347643000489657899997--6268078501326436895688478-9777089999999996036


No 18 
>2jyx_A Lipoprotein SPR; solution structure, construct optimized, membrane, palmitate, structural genomics, PSI-2, protein structure initiative; NMR {Escherichia coli K12} PDB: 2k1g_A
Probab=37.44  E-value=20  Score=16.56  Aligned_cols=23  Identities=30%  Similarity=0.524  Sum_probs=14.3

Q ss_pred             HHCCCCCEEEEEECCCCCCCEEEE
Q ss_conf             853889789999458887634888
Q gi|254781040|r   41 RKMRVGDKGFFYHSNKGREIVGIF   64 (143)
Q Consensus        41 r~Mk~GD~~~fYHS~~~~~ivgi~   64 (143)
                      .++++||++||.- +....=|||+
T Consensus        66 ~~~~pGDlvff~~-~~~~~HVgIy   88 (136)
T 2jyx_A           66 SNLRTGDLVLFRA-GSTGRHVGIY   88 (136)
T ss_dssp             TTCCTTEEEEEEC-SSSSEEEEEE
T ss_pred             CCCCCCCEEEECC-CCCCEEEEEE
T ss_conf             5689998999798-9997189999


Done!