Query         gi|254781175|ref|YP_003065588.1| UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 296
No_of_seqs    133 out of 1538
Neff          5.4 
Searched_HMMs 33803
Date          Wed Jun  1 23:27:14 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254781175.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 >2ves_A UDP-3-O-[3-hydroxymyri 100.0       0       0  388.7   9.7  125    9-134     3-127 (153)
  2 >1p42_A UDP-3-O-[3-hydroxymyri 100.0       0       0  335.4   6.8  118    9-131     2-119 (119)
  3 >1p42_A UDP-3-O-[3-hydroxymyri 100.0 5.4E-30 1.6E-34  207.7  11.6  111  134-289     2-112 (112)
  4 >2ves_A UDP-3-O-[3-hydroxymyri  99.9 4.5E-24 1.3E-28  170.7   9.6   94  133-295     1-96  (107)
  5 >2ves_A UDP-3-O-[3-hydroxymyri  99.3   8E-13 2.4E-17  100.4   3.3   39  195-234     1-39  (39)
  6 >1p42_A UDP-3-O-[3-hydroxymyri  99.3 8.6E-13 2.6E-17  100.2   3.3   39  195-234     1-39  (39)
  7 >3bbn_E Ribosomal protein S5;   64.7     5.3 0.00016   20.3   2.7   17   29-45     13-29  (69)
  8 >2zkq_e 40S ribosomal protein   61.2     6.7  0.0002   19.6   2.7   17   29-45     17-33  (98)
  9 >1pkp_A Ribosomal protein S5;   61.2     6.7  0.0002   19.6   2.7   16   29-44     13-28  (72)
 10 >2vqe_E 30S ribosomal protein   56.5      15 0.00043   17.5   4.3   37    2-44     65-101 (143)
 11 >3i1m_E 30S ribosomal protein   54.7      13 0.00038   17.8   3.3   37    2-44     70-106 (167)
 12 >3lp8_A Phosphoribosylamine-gl  53.2      16 0.00049   17.2   4.0  151   79-240    68-222 (351)
 13 >1d2n_A N-ethylmaleimide-sensi  52.2     9.9 0.00029   18.6   2.3   17   80-96      2-18  (76)
 14 >3jyv_E 40S ribosomal protein   49.2     9.1 0.00027   18.8   1.8   17   29-45     16-32  (88)
 15 >1j98_A Autoinducer-2 producti  46.9     3.4  0.0001   21.5  -0.7   81   41-124    17-108 (157)
 16 >1j6x_A Autoinducer-2 producti  45.8     7.2 0.00021   19.4   0.8   46   79-124    53-104 (160)
 17 >1j6w_A Autoinducer-2 producti  45.5     4.3 0.00013   20.8  -0.4   81   41-124    17-107 (175)
 18 >1vje_A Autoinducer-2 producti  42.8     5.7 0.00017   20.1  -0.1   46   79-124    55-106 (166)
 19 >2qbw_A PDZ-fibronectin fusion  42.7     9.4 0.00028   18.7   1.0   52   73-126    21-72  (102)
 20 >1wf7_A Enigma homologue prote  30.0      35   0.001   15.2   2.2   75   26-126     3-78  (103)
 21 >1o98_A 2,3-bisphosphoglycerat  27.8      42  0.0012   14.7   5.2   68   54-124    20-96  (238)
 22 >1u5t_B Defective in vacuolar   27.4      24 0.00071   16.2   1.0   35  240-290     3-39  (74)
 23 >2ip4_A PURD, phosphoribosylam  25.1      47  0.0014   14.4   4.5  161   82-255    49-238 (348)
 24 >3ijw_A Aminoglycoside N3-acet  23.6      50  0.0015   14.2   4.8   44   81-124     1-47  (254)
 25 >2nyg_A YOKD protein; PFAM0252  23.5      50  0.0015   14.2   4.8   44   81-124     1-47  (261)
 26 >3efc_A OMP85, outer membrane   23.1      51  0.0015   14.1   3.3   67   37-109     1-69  (73)
 27 >2csj_A TJP2 protein; PDZ doma  22.3      53  0.0016   14.0   2.9   53   72-126    42-94  (117)
 28 >2dy1_A Elongation factor G; t  22.2      53  0.0016   14.0   5.0  100    9-124     3-106 (133)
 29 >2vvf_A Major capsid protein P  22.2     8.8 0.00026   18.9  -2.0   34   81-114    97-133 (139)
 30 >3cfy_A Putative LUXO represso  21.6      55  0.0016   13.9   2.1   57   67-125    18-74  (137)
 31 >1w7p_D VPS36P, YLR417W; ESCRT  20.8      26 0.00077   15.9   0.2   35  240-290     3-39  (76)

No 1  
>>2ves_A UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; LPXC, hydrolase, BB-78485, antibiotics, lipid synthesis, metalloprotease; HET: GVR; 1.90A {Pseudomonas aeruginosa} (A:1-125,A:182-189,A:229-248)
Probab=100.00  E-value=0  Score=388.71  Aligned_cols=125  Identities=41%  Similarity=0.608  Sum_probs=121.2

Q ss_pred             CCHHHCCEEEEEEEEECCCCEEEEEEEECCCCCCEEEEEEECCCCCCEEECCHHHHHHHHHHCCCCCCEEEEEEHHHHHH
Q ss_conf             17110751999999703797789999837888718999805688886263109986663220134763158864899899
Q gi|254781175|r    9 LQHTIADSITITGIGIHSGKRANLKLCPAPEGVGILFKCTQSGGITDSLSALWSNVLRTTLSTTIGSSSCQVRTIEHLMA   88 (296)
Q Consensus         9 ~Q~Ti~~~v~~~GiGLHsG~~~~i~l~PA~~~~GI~F~R~dl~~~~~~I~A~~~~V~~t~~~T~L~~~~~~V~TVEHLLA   88 (296)
                      +|+||+++++|+|+|||||++|+++|+||++|+||+|+|+|+++ .+.|||+++||.+|.|||+|++++.+|+|||||||
T Consensus         3 ~Q~TI~~~v~~~GiGLHSG~~v~v~l~PA~~~tGI~F~R~Dl~~-~~~I~A~~~~V~~t~l~T~L~~~~~~V~TVEHLLA   81 (153)
T 2ves_A            3 KQRTLKNIIRATGVGLHSGEKVYLTLKPAPVDTGIVFSRTDLDP-VVEIPARAENVGETTMSTTLVKGDVKVDTVEHLLS   81 (153)
T ss_dssp             EEEEESSCEEEEEECTTTCSEEEEEEEECCTTCCEEEEETTSSS-CEEEECCGGGBCCCSSSCCEEETTEEEBCCHHHHH
T ss_pred             CCCCCCCEEEEEEEECCCCCEEEEEEEECCCCCEEEEEEECCCC-CCEECCCHHHCCCCCCEEEEEECEEEEEEHHHHHH
T ss_conf             87346862899999835795789999989999869999905999-82303678881466653686413058860788898


Q ss_pred             HHHHHHHEEEEEEECCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCC
Q ss_conf             9987200059999648878300582899999885445544478751
Q gi|254781175|r   89 ALYAYGIDNVIIEIDSTEVPIMDGSAKAFVEVIERIGIKTLTAKRR  134 (296)
Q Consensus        89 AL~glgIDN~~Ieidg~EiPIlDGSA~~fv~~i~~aGi~eq~~~r~  134 (296)
                      ||+|||||||+||+||+|+|||||||++||++|++||+++|+++.+
T Consensus        82 AL~glGIDN~~Ieidg~EiPIlDGSA~~fv~ai~~aGi~eq~~~~~  127 (153)
T 2ves_A           82 AMAGLGIDNAYVELSASEVPIMDGSAGPFVFLIQSAGLQEQEAAVK  127 (153)
T ss_dssp             HHHHHTCCCEEEEESSSBCCCTTSSSHHHHHHHHHHCEEEEEEEHH
T ss_pred             HHHHCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHCCCCCCCCCHH
T ss_conf             9874270179999168987453643189999998628731013499


No 2  
>>1p42_A UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; alpha+beta fold, hydrophobic tunnel, hydrolase; HET: MYR; 2.00A {Aquifex aeolicus} (A:1-119)
Probab=100.00  E-value=0  Score=335.41  Aligned_cols=118  Identities=32%  Similarity=0.528  Sum_probs=114.9

Q ss_pred             CCHHHCCEEEEEEEEECCCCEEEEEEEECCCCCCEEEEEEECCCCCCEEECCHHHHHHHHHHCCCCCCEEEEEEHHHHHH
Q ss_conf             17110751999999703797789999837888718999805688886263109986663220134763158864899899
Q gi|254781175|r    9 LQHTIADSITITGIGIHSGKRANLKLCPAPEGVGILFKCTQSGGITDSLSALWSNVLRTTLSTTIGSSSCQVRTIEHLMA   88 (296)
Q Consensus         9 ~Q~Ti~~~v~~~GiGLHsG~~~~i~l~PA~~~~GI~F~R~dl~~~~~~I~A~~~~V~~t~~~T~L~~~~~~V~TVEHLLA   88 (296)
                      ||+||+++++++|+|||||++++|+|+||++|+||+|+|+|+     .|||+++||.+|.|||+|++++.+|+|||||||
T Consensus         2 ~Q~Tl~~~v~~~GiGLHsG~~v~v~l~Pa~~~~Gi~F~r~d~-----~i~a~~~~v~~t~l~T~L~~~~~~V~TVEHllA   76 (119)
T 1p42_A            2 LEKTVKEKLSFEGVGIHTGEYSKLIIHPEKEGTGIRFFKNGV-----YIPARHEFVVHTNHSTDLGFKGQRIKTVEHILS   76 (119)
T ss_dssp             EEEEESSCEEEEEECTTTCCEEEEEEEECCTTCCEEEEETTE-----EEESSGGGEEECSSSCEEEETTEEEBCCHHHHH
T ss_pred             CCCCCCCCEEEEEEEECCCCEEEEEEEECCCCCEEEEEECCC-----CCCCCHHHCCCCCCCCCCCCCCCEEEEHHHHHH
T ss_conf             875668757999898047967899999279996899984891-----067868650065222023128979987999999


Q ss_pred             HHHHHHHEEEEEEECCCCCCCCCCCHHHHHHHHHHCCCCCCCC
Q ss_conf             9987200059999648878300582899999885445544478
Q gi|254781175|r   89 ALYAYGIDNVIIEIDSTEVPIMDGSAKAFVEVIERIGIKTLTA  131 (296)
Q Consensus        89 AL~glgIDN~~Ieidg~EiPIlDGSA~~fv~~i~~aGi~eq~~  131 (296)
                      ||+|||||||+||+||+|+|||||||++|+++|++||++||++
T Consensus        77 AL~~~gIDN~~Iev~g~EvPIlDGSa~~fv~~i~~aGi~eq~~  119 (119)
T 1p42_A           77 VLHLLEITNVTIEVIGNEIPILDGSGWEFYEAIRKNILNQNRE  119 (119)
T ss_dssp             HHHHTTCCSEEEEEESSBCCCTTSSSHHHHHHHHTTEEEEEEE
T ss_pred             HHHHCCCCEEEEEECCCCCCCCCCCHHHHHHHHHCCCHHHCCC
T ss_conf             9997798059999699867778986588998762100121134


No 3  
>>1p42_A UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; alpha+beta fold, hydrophobic tunnel, hydrolase; HET: MYR; 2.00A {Aquifex aeolicus} (A:120-177,A:217-270)
Probab=99.97  E-value=5.4e-30  Score=207.70  Aligned_cols=111  Identities=29%  Similarity=0.424  Sum_probs=98.0

Q ss_pred             CEEEECCCEEEEECCEEEEEECCCCCEEEEEEEECCCCCCCCCCCCCCCHHHHHHHHCCCCEEEEEHHHHHHHHCCCCCC
Q ss_conf             14770463499817714654147663378999708843130002345545778985146503222025788864200032
Q gi|254781175|r  134 RYLRIIKSVRITSGESWAEFSPHCSMRFEISIEFKNSIIGFQKWAGDLTQTVFRNEIYAARTFGFLRDVERYRKAGCALG  213 (296)
Q Consensus       134 ~~~~i~~~v~v~~~~~~i~~~P~~~l~i~~~idf~~~~Ig~Q~~~~~~~~~~f~~eIa~ARTF~~~~eie~L~~~Gl~~G  213 (296)
                      .|+++.+|+.|+|+++.+.+.|||.+.++|.-+|++ ++|+|.+++.-.++   +                         
T Consensus         2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~---~-------------------------   52 (112)
T 1p42_A            2 DYFVVEEPIIVEDEGRLIKAEPSDTLEVTYEGEFKN-FLGRQKFTFVEGNE---E-------------------------   52 (112)
T ss_dssp             CCEECCSCEEEEETTEEEEEECCSSCEEEEEEECSS-TTCEEEEEEETTCG---G-------------------------
T ss_pred             CCEEEECEEEEEECCCEEECCCCCCCEEEEEEECCC-CCCCEEEEECCCCH---H-------------------------
T ss_conf             415762208987157423037997635999996366-66522662025535---6-------------------------


Q ss_pred             CCCCCCEEEECCCCEECCCCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEEEEEECCCCHHHHHHHHHHHCCCCCCE
Q ss_conf             1334645641377331067747899720011489998989975996468999977880899999999980966715
Q gi|254781175|r  214 ASLENSVVISEDDQVMNHGGLRYSGEEFVRHKTLDAIGDIALAGYPVIGCYRSCRGSHEINHMALCTLFADKDSYE  289 (296)
Q Consensus       214 gsl~NaiVi~~~~~i~n~~~LR~~~dE~vRHKiLDlIGDL~L~G~pi~g~i~a~k~GH~ln~~l~~~l~~~~~~~~  289 (296)
                           -+|       +.   -||+ |||||||+||+||||||+|+|++|||+|+||||++|++|+++|++++++|+
T Consensus        53 -----~~~-------~~---~Rf~-DEfVRHKILDlIGDLaLlG~pI~GhiiA~KsGH~LN~~Lvk~L~~~~~ayr  112 (112)
T 1p42_A           53 -----EIV-------LA---RRYE-NEPVRHKVFDLIGDLYLLGSPVKGKFYSFRGGHSLNVKLVKELAKKQKLTR  112 (112)
T ss_dssp             -----GTT-------TC---CSST-THHHHHHHHHHHHHHGGGSSCEECEEEEESCCHHHHHHHHHHHHHTTC---
T ss_pred             -----HHH-------HC---CCCC-CCCCCHHHHHHHHHHHHCCCCEEEEEEEECCCCHHHHHHHHHHHHHHHHCC
T ss_conf             -----654-------33---6678-831055688988789875997069999987882999999999973466409


No 4  
>>2ves_A UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; LPXC, hydrolase, BB-78485, antibiotics, lipid synthesis, metalloprotease; HET: GVR; 1.90A {Pseudomonas aeruginosa} (A:126-181,A:249-299)
Probab=99.91  E-value=4.5e-24  Score=170.71  Aligned_cols=94  Identities=30%  Similarity=0.557  Sum_probs=85.9

Q ss_pred             CCEEEECCCEEEEECCEEEEEECCCCCEEEEEEEECCCCCCC--CCCCCCCCHHHHHHHHCCCCEEEEEHHHHHHHHCCC
Q ss_conf             514770463499817714654147663378999708843130--002345545778985146503222025788864200
Q gi|254781175|r  133 RRYLRIIKSVRITSGESWAEFSPHCSMRFEISIEFKNSIIGF--QKWAGDLTQTVFRNEIYAARTFGFLRDVERYRKAGC  210 (296)
Q Consensus       133 r~~~~i~~~v~v~~~~~~i~~~P~~~l~i~~~idf~~~~Ig~--Q~~~~~~~~~~f~~eIa~ARTF~~~~eie~L~~~Gl  210 (296)
                      |++++|+|||+|++|++|+.+.|+|+|+++|+|||+||+||+  |++++++++++|                        
T Consensus         1 Rr~i~I~kpV~V~~gdk~v~l~P~dgfri~f~IDF~hpaIG~q~Q~~~~d~s~~~F------------------------   56 (107)
T 2ves_A            1 KKFIRIKREVSVEEGDKRAVFVPFDGFKVSFEIDFDHPVFRGRTQQASVDFSSTSF------------------------   56 (107)
T ss_dssp             CCEEEECSCEEEEETTEEEEEECCSSEEEEEECCCCSTTTTTSCCEEEEETTTCCH------------------------
T ss_pred             CEEEEEEEEEEEEECCEEEEEECCCCCEEEEEEECCCCCCCCCCEEEEEECCCCCH------------------------
T ss_conf             35888655799970864799951689789999973764225662299996277306------------------------


Q ss_pred             CCCCCCCCCEEEECCCCEECCCCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEEEEEECCCCHHHHHHHHHHHCCCCCCEE
Q ss_conf             03213346456413773310677478997200114899989899759964689999778808999999999809667156
Q gi|254781175|r  211 ALGASLENSVVISEDDQVMNHGGLRYSGEEFVRHKTLDAIGDIALAGYPVIGCYRSCRGSHEINHMALCTLFADKDSYEI  290 (296)
Q Consensus       211 ~~Ggsl~NaiVi~~~~~i~n~~~LR~~~dE~vRHKiLDlIGDL~L~G~pi~g~i~a~k~GH~ln~~l~~~l~~~~~~~~~  290 (296)
                                                                   +|+||.|++.++|+||+||++|+++|++|++|||+
T Consensus        57 ---------------------------------------------~G~pi~G~~~~~k~gH~lN~~ll~~l~~d~~~~e~   91 (107)
T 2ves_A           57 ---------------------------------------------LGNSLIGEFRGFKSGHALNNQLLRTLIADKDAWEV   91 (107)
T ss_dssp             ---------------------------------------------GSSEEEEEEEEESCCHHHHHHHHHHHHHCGGGEEE
T ss_pred             ---------------------------------------------CCCCEEEEEEEECCCCHHHHHHHHHHHCCCCCEEE
T ss_conf             ---------------------------------------------49963799999878848999999999729775389


Q ss_pred             EECCC
Q ss_conf             62078
Q gi|254781175|r  291 VDDHG  295 (296)
Q Consensus       291 v~~~~  295 (296)
                      |+...
T Consensus        92 v~~~~   96 (107)
T 2ves_A           92 VTFED   96 (107)
T ss_dssp             ECCSS
T ss_pred             EECCC
T ss_conf             97466


No 5  
>>2ves_A UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; LPXC, hydrolase, BB-78485, antibiotics, lipid synthesis, metalloprotease; HET: GVR; 1.90A {Pseudomonas aeruginosa} (A:190-228)
Probab=99.31  E-value=8e-13  Score=100.38  Aligned_cols=39  Identities=49%  Similarity=0.917  Sum_probs=36.7

Q ss_pred             EEEEEHHHHHHHHCCCCCCCCCCCCEEEECCCCEECCCCC
Q ss_conf             3222025788864200032133464564137733106774
Q gi|254781175|r  195 TFGFLRDVERYRKAGCALGASLENSVVISEDDQVMNHGGL  234 (296)
Q Consensus       195 TF~~~~eie~L~~~Gl~~Ggsl~NaiVi~~~~~i~n~~~L  234 (296)
                      ||||++|+|+|+++|||||||||||||++ +++|+|++||
T Consensus         1 TFgf~~eve~L~~~GLa~GGSLdNAiVi~-~~~vln~~GL   39 (39)
T 2ves_A            1 TFGFMRDIEYLRSQNLALGGSVENAIVVD-ENRVLNEDGL   39 (39)
T ss_dssp             CEEEHHHHHHHHHTTCSTTCSTTSSEEEC-SSSBCSTTCC
T ss_pred             CCCHHHHHHHHHHCCCCCCCCCCEEEEEC-CCCEECCCCC
T ss_conf             51069999999862841355641359960-8815078777


No 6  
>>1p42_A UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; alpha+beta fold, hydrophobic tunnel, hydrolase; HET: MYR; 2.00A {Aquifex aeolicus} (A:178-216)
Probab=99.31  E-value=8.6e-13  Score=100.18  Aligned_cols=39  Identities=41%  Similarity=0.691  Sum_probs=36.7

Q ss_pred             EEEEEHHHHHHHHCCCCCCCCCCCCEEEECCCCEECCCCC
Q ss_conf             3222025788864200032133464564137733106774
Q gi|254781175|r  195 TFGFLRDVERYRKAGCALGASLENSVVISEDDQVMNHGGL  234 (296)
Q Consensus       195 TF~~~~eie~L~~~Gl~~Ggsl~NaiVi~~~~~i~n~~~L  234 (296)
                      ||||++|+|+|+++|||||||||||||++ +++|+||+||
T Consensus         1 TFgf~~die~L~~~GL~~GGSLeNAiV~~-~~~vln~~GL   39 (39)
T 1p42_A            1 TFAFDWEIEHIKKVGLGKGGSLKNTLVLG-KDKVYNPEGL   39 (39)
T ss_dssp             CEEEHHHHHHHHHTTCCTTCCTTTCEEEC-SSCBCSTTCC
T ss_pred             CCCHHHHHHHHHHCCCCCCCCCCCCEEEC-CCCCCCCCCC
T ss_conf             14429999999976985564523436863-7754268777


No 7  
>>3bbn_E Ribosomal protein S5; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} (E:221-289)
Probab=64.67  E-value=5.3  Score=20.27  Aligned_cols=17  Identities=35%  Similarity=0.606  Sum_probs=14.8

Q ss_pred             EEEEEEEECCCCCCEEE
Q ss_conf             78999983788871899
Q gi|254781175|r   29 RANLKLCPAPEGVGILF   45 (296)
Q Consensus        29 ~~~i~l~PA~~~~GI~F   45 (296)
                      .++|.++|||+++|++=
T Consensus        13 s~~v~l~Pap~G~Glia   29 (69)
T 3bbn_E           13 AARVMLRPAAPGTGVIA   29 (69)
T ss_dssp             TEEEEEEECCTTCCEEC
T ss_pred             CEEEEEECCCCCCCEEC
T ss_conf             22577705899965006


No 8  
>>2zkq_e 40S ribosomal protein S2E; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} (e:82-179)
Probab=61.19  E-value=6.7  Score=19.64  Aligned_cols=17  Identities=41%  Similarity=0.796  Sum_probs=14.6

Q ss_pred             EEEEEEEECCCCCCEEE
Q ss_conf             78999983788871899
Q gi|254781175|r   29 RANLKLCPAPEGVGILF   45 (296)
Q Consensus        29 ~~~i~l~PA~~~~GI~F   45 (296)
                      .++|.++|||+++|++=
T Consensus        17 s~~v~l~PAp~G~Gl~a   33 (98)
T 2zkq_e           17 SVPVRLIPAPRGTGIVS   33 (98)
T ss_dssp             TEEEEEEECCTTCCEEC
T ss_pred             CEEEEEECCCCCCCEEC
T ss_conf             68889864887466472


No 9  
>>1pkp_A Ribosomal protein S5; 2.80A {Geobacillus stearothermophilus} (A:79-150)
Probab=61.17  E-value=6.7  Score=19.64  Aligned_cols=16  Identities=38%  Similarity=0.746  Sum_probs=14.2

Q ss_pred             EEEEEEEECCCCCCEE
Q ss_conf             7899998378887189
Q gi|254781175|r   29 RANLKLCPAPEGVGIL   44 (296)
Q Consensus        29 ~~~i~l~PA~~~~GI~   44 (296)
                      .++|.++|||+++|++
T Consensus        13 s~~v~l~Pap~G~Gl~   28 (72)
T 1pkp_A           13 AGEIILKPASEGTGVI   28 (72)
T ss_dssp             TEEEEEEECCTTCCEE
T ss_pred             CEEEEEEECCCCCCEE
T ss_conf             5879998536883248


No 10 
>>2vqe_E 30S ribosomal protein S5; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} (E:1-143)
Probab=56.53  E-value=15  Score=17.53  Aligned_cols=37  Identities=24%  Similarity=0.417  Sum_probs=25.8

Q ss_pred             CCCCCCCCCHHHCCEEEEEEEEECCCCEEEEEEEECCCCCCEE
Q ss_conf             4111000171107519999997037977899998378887189
Q gi|254781175|r    2 EMLQIGRLQHTIADSITITGIGIHSGKRANLKLCPAPEGVGIL   44 (296)
Q Consensus         2 ~~~~~~~~Q~Ti~~~v~~~GiGLHsG~~~~i~l~PA~~~~GI~   44 (296)
                      +|+.+.+...||-.+++-.-      ..+.+.+.|||.++|++
T Consensus        65 nl~~V~~~~~Ti~~~v~gk~------~s~~v~l~p~p~G~Gl~  101 (143)
T 2vqe_E           65 NMVEVPLQNGTIPHEIEVEF------GASKIVLKPAAPGTGVI  101 (143)
T ss_dssp             SEEECCCSTTSCSSCEEEEE------TTEEEEEEECCTTSCEE
T ss_pred             CEEEEECCCCCCCEEEEEEE------CCEEEEEEECCCCCCCC
T ss_conf             87999555760408866652------42279998545566653


No 11 
>>3i1m_E 30S ribosomal protein S5; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 1vs7_E* 1vs5_E 3i1o_E 3i1q_E 3i1s_E 3i1z_E 3i21_E 2qal_E* 1p6g_E 1p87_E 2aw7_E 2avy_E 2i2u_E 2i2p_E* 2qan_E* 2qb9_E* 2qbb_E* 2qbd_E 2qbf_E 2qbh_E* ... (E:)
Probab=54.68  E-value=13  Score=17.84  Aligned_cols=37  Identities=22%  Similarity=0.389  Sum_probs=23.9

Q ss_pred             CCCCCCCCCHHHCCEEEEEEEEECCCCEEEEEEEECCCCCCEE
Q ss_conf             4111000171107519999997037977899998378887189
Q gi|254781175|r    2 EMLQIGRLQHTIADSITITGIGIHSGKRANLKLCPAPEGVGIL   44 (296)
Q Consensus         2 ~~~~~~~~Q~Ti~~~v~~~GiGLHsG~~~~i~l~PA~~~~GI~   44 (296)
                      +|+.+.+-.+||-.+++-.-      ..+.+.++|||.++|++
T Consensus        70 nl~~V~~~~~Ti~~~v~gk~------~~~~v~l~pap~G~Gl~  106 (167)
T 3i1m_E           70 NMINVALNNGTLQHPVKGVH------TGSRVFMQPASEGTGII  106 (167)
T ss_dssp             SEECCCCBTTBCSSCEEEEE------TTEEEEEECCCCSSSCB
T ss_pred             HHEEEECCCCCCCCCCCEEE------CCCEEEEEECCCCCCEE
T ss_conf             41255133562324464355------36237997247986507


No 12 
>>3lp8_A Phosphoribosylamine-glycine ligase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ALS collaborative crystallography; 2.15A {Ehrlichia chaffeensis} (A:1-118,A:210-442)
Probab=53.15  E-value=16  Score=17.19  Aligned_cols=151  Identities=13%  Similarity=0.159  Sum_probs=85.8

Q ss_pred             EEEEHHHHHHHHHHHHHEEEEEEECCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCEE-EECCC-EEEEECCEEEEEECC
Q ss_conf             8864899899998720005999964887830058289999988544554447875147-70463-499817714654147
Q gi|254781175|r   79 QVRTIEHLMAALYAYGIDNVIIEIDSTEVPIMDGSAKAFVEVIERIGIKTLTAKRRYL-RIIKS-VRITSGESWAEFSPH  156 (296)
Q Consensus        79 ~V~TVEHLLAAL~glgIDN~~Ieidg~EiPIlDGSA~~fv~~i~~aGi~eq~~~r~~~-~i~~~-v~v~~~~~~i~~~P~  156 (296)
                      .+.-+|.+.....-..||=+.|   |||-|+.+|=    +++++++|+.-....++.- -..=. -.+.+++.+..+.+.
T Consensus        68 ~~~~~~~~~~~~~~~~~dl~~~---gpe~~l~~g~----~d~~~~~g~~~~gp~~~~aeG~E~Sve~~vdg~~~~~l~~~  140 (351)
T 3lp8_A           68 DINSTIEVIQVCKKEKIELVVI---GPETPLMNGL----SDALTEEGILVFGPSKAAAEGKEISFFTLVDGSNPVILGVA  140 (351)
T ss_dssp             CTTCHHHHHHHHHHTTCCEEEE---CSHHHHHTTH----HHHHHHTTCEEESCCHHHHCSEEEEEEEEEESSCEEEEEEE
T ss_pred             CCCCHHHHHHHHHHCCCCEEEE---CCCHHHHHHH----HHHHHHCCCCEECCCHHHHCCCEEEEEEEEECCEEEECCCH
T ss_conf             7899999999999809999998---9708988767----99997389916468899987835889999739989967235


Q ss_pred             CCCEEEEEEEE-CCC-CCCCCCCCCCCCHHHHHHHHCCCCEEEEEHHHHHHHHCCCCCCCCCCCCEEEECCCCEECCCCC
Q ss_conf             66337899970-884-3130002345545778985146503222025788864200032133464564137733106774
Q gi|254781175|r  157 CSMRFEISIEF-KNS-IIGFQKWAGDLTQTVFRNEIYAARTFGFLRDVERYRKAGCALGASLENSVVISEDDQVMNHGGL  234 (296)
Q Consensus       157 ~~l~i~~~idf-~~~-~Ig~Q~~~~~~~~~~f~~eIa~ARTF~~~~eie~L~~~Gl~~Ggsl~NaiVi~~~~~i~n~~~L  234 (296)
                      +..+--+..|- |++ -.|.++......+. ..+++. .+.  ...-...|++.|+--+|-+.--+.++++++.+..-.-
T Consensus       141 qd~k~~~~~d~gp~tggmG~~~p~~~~p~~-l~~~~~-~~i--~~~~~~~l~alGl~~~G~l~~e~mlt~~GP~VIEiN~  216 (351)
T 3lp8_A          141 QDYKTIGDNNKGPNTGGMGSYSKPNIITQE-MEHIII-QKI--IYPTIKAMFNMNIQFRGLLFAGIIIKKNEPKLLEYNV  216 (351)
T ss_dssp             EECCEEEGGGEEEECSCSEEEECTTSSCHH-HHHHHH-HHT--HHHHHHHHHHTTCCCEEEEEEEEEEETTEEEEEEEES
T ss_pred             HHCCCCCCCCCCCCCCCCCCCCCCCCCCHH-HHHHHH-HHH--HHHHHHHHHHCCCCEEEEEEEEEEEECCCCEEEEEEE
T ss_conf             423223589999889987776787534688-999999-988--8889999986699528996457999679825998740


Q ss_pred             CCCCCC
Q ss_conf             789972
Q gi|254781175|r  235 RYSGEE  240 (296)
Q Consensus       235 R~~~dE  240 (296)
                      ||-..|
T Consensus       217 R~Gdpe  222 (351)
T 3lp8_A          217 RFGDPE  222 (351)
T ss_dssp             SCCTTH
T ss_pred             CCCCCC
T ss_conf             238974


No 13 
>>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} (A:197-272)
Probab=52.22  E-value=9.9  Score=18.56  Aligned_cols=17  Identities=35%  Similarity=0.274  Sum_probs=14.4

Q ss_pred             EEEHHHHHHHHHHHHHE
Q ss_conf             86489989999872000
Q gi|254781175|r   80 VRTIEHLMAALYAYGID   96 (296)
Q Consensus        80 V~TVEHLLAAL~glgID   96 (296)
                      ++|.||||++|.-+++=
T Consensus         2 lSt~ehlm~vLee~~~F   18 (76)
T 1d2n_A            2 IATGEQLLEALELLGNF   18 (76)
T ss_dssp             EEEHHHHHHHHHHHTCS
T ss_pred             CCHHHHHHHHHHHCCCC
T ss_conf             21199999999752699


No 14 
>>3jyv_E 40S ribosomal protein S2; eukaryotic ribosome, RACK1 protein, flexible fitting; HET: 2MG H2U M2G OMC OMG YYG PSU 5MC 7MG 5MU 1MA; 8.90A {Thermomyces lanuginosus} PDB: 1s1h_E (E:75-162)
Probab=49.25  E-value=9.1  Score=18.79  Aligned_cols=17  Identities=41%  Similarity=0.813  Sum_probs=14.8

Q ss_pred             EEEEEEEECCCCCCEEE
Q ss_conf             78999983788871899
Q gi|254781175|r   29 RANLKLCPAPEGVGILF   45 (296)
Q Consensus        29 ~~~i~l~PA~~~~GI~F   45 (296)
                      .+.|.++|||+++|++-
T Consensus        16 s~~v~l~Pap~G~Giva   32 (88)
T 3jyv_E           16 SVTVRLIPAPRGSGIVA   32 (88)
T ss_dssp             SEEEEEEECCTTCCBCC
T ss_pred             CEEEEEECCCCCCCCCC
T ss_conf             36999944999847536


No 15 
>>1j98_A Autoinducer-2 production protein LUXS; autoinducer synthesis, signaling protein; 1.20A {Bacillus subtilis} (A:)
Probab=46.93  E-value=3.4  Score=21.46  Aligned_cols=81  Identities=15%  Similarity=0.151  Sum_probs=39.5

Q ss_pred             CCEEEEEEECCCCCCEEECCHHHHHHHHHHCCCCCCEEEEEEHHHHHHHHHHHHHEE----EEEEEC--CC----C-CCC
Q ss_conf             718999805688886263109986663220134763158864899899998720005----999964--88----7-830
Q gi|254781175|r   41 VGILFKCTQSGGITDSLSALWSNVLRTTLSTTIGSSSCQVRTIEHLMAALYAYGIDN----VIIEID--ST----E-VPI  109 (296)
Q Consensus        41 ~GI~F~R~dl~~~~~~I~A~~~~V~~t~~~T~L~~~~~~V~TVEHLLAAL~glgIDN----~~Ieid--g~----E-iPI  109 (296)
                      .|++-.|.|..+....|. .++-.....-.-.+..  ..++|+|||+|.+.=-..|.    -.|.+.  |-    = +=+
T Consensus        17 P~vrvs~~~~~~~gd~it-~fDlR~~qPN~e~l~~--~~lHtlEHL~At~lRn~~~~~~~~~iI~~~PMGCrTGFYli~~   93 (157)
T 1j98_A           17 PYVRHCGVHKVGTDGVVN-KFDIRFCQPNKQAMKP--DTIHTLEHLLAFTIRSHAEKYDHFDIIDISPMGXQTGYYLVVS   93 (157)
T ss_dssp             SEEEEEEEEEETTTEEEE-EEEEECSCTTTCCCCH--HHHHHHHHHHHHHHHHHHTTCSSEEEEEEEECTTSSEEEEEEE
T ss_pred             CEEEEEEEEECCCCCEEE-EEEEEECCCCHHHCCC--CCHHHHHHHHHHHHHHCCCCCCCCCEEEECCCCCCCCCEEEEE
T ss_conf             879985358659999899-9665005888323787--3226999988999873823378864799579766620279887


Q ss_pred             CCCCHHHHHHHHHHC
Q ss_conf             058289999988544
Q gi|254781175|r  110 MDGSAKAFVEVIERI  124 (296)
Q Consensus       110 lDGSA~~fv~~i~~a  124 (296)
                      -|-++...+++++++
T Consensus        94 g~~~~~~i~~l~~~~  108 (157)
T 1j98_A           94 GETTSAEIVDLLEDT  108 (157)
T ss_dssp             ECCCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
T ss_conf             899989999999999


No 16 
>>1j6x_A Autoinducer-2 production protein LUXS; alpha-beta fold, signaling protein; 2.38A {Helicobacter pylori} (A:)
Probab=45.77  E-value=7.2  Score=19.45  Aligned_cols=46  Identities=17%  Similarity=0.257  Sum_probs=26.8

Q ss_pred             EEEEHHHHHHHHHHHHHEEEEEEE-CCC----CC-CCCCCCHHHHHHHHHHC
Q ss_conf             886489989999872000599996-488----78-30058289999988544
Q gi|254781175|r   79 QVRTIEHLMAALYAYGIDNVIIEI-DST----EV-PIMDGSAKAFVEVIERI  124 (296)
Q Consensus        79 ~V~TVEHLLAAL~glgIDN~~Iei-dg~----Ei-PIlDGSA~~fv~~i~~a  124 (296)
                      .++|+|||||.+.=--.|+++=-- =|-    =+ =+-|-++...+++++++
T Consensus        53 ~lHTlEHL~At~lRn~~d~iId~sPMGCrTGFYli~~g~~~~~~i~~l~~~~  104 (160)
T 1j6x_A           53 SLHSLEHLVAEIIRNHANYVVDWSPXGCQTGFYLTVLNHDNYTEILEVLEKT  104 (160)
T ss_dssp             HHHHHHHHHHHHHHHHCSCEEEEEECTTSSEEEEEEESCCCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCCCEEEECCCCCCCCCEEEEECCCCHHHHHHHHHHH
T ss_conf             1469999878888618898489888765601289885799989999999999


No 17 
>>1j6w_A Autoinducer-2 production protein LUXS; alpha-beta fold, signaling protein; 2.10A {Haemophilus influenzae} (A:)
Probab=45.54  E-value=4.3  Score=20.82  Aligned_cols=81  Identities=15%  Similarity=0.145  Sum_probs=37.7

Q ss_pred             CCEEEEEEECCCCCCEEECCHHHHHHHHHHCCCCCCEEEEEEHHHHHHHHHHHHHEE---EEEEEC--CC----C-CCCC
Q ss_conf             718999805688886263109986663220134763158864899899998720005---999964--88----7-8300
Q gi|254781175|r   41 VGILFKCTQSGGITDSLSALWSNVLRTTLSTTIGSSSCQVRTIEHLMAALYAYGIDN---VIIEID--ST----E-VPIM  110 (296)
Q Consensus        41 ~GI~F~R~dl~~~~~~I~A~~~~V~~t~~~T~L~~~~~~V~TVEHLLAAL~glgIDN---~~Ieid--g~----E-iPIl  110 (296)
                      .|++-.|.|..+....|. .++-.....-...+...  .++|+|||+|.+.=-..+-   =.|.+.  |-    = +=+-
T Consensus        17 P~vrvsr~~~~~~Gd~It-~fDlR~~qPN~e~l~~~--~lHTlEHL~At~lRn~~~~~~~~iI~~sPMGCrTGFYli~~G   93 (175)
T 1j6w_A           17 PAVRIAKTXLTPKGDNIT-VFDLRFCIPNKEILSPK--GIHTLEHLFAGFXRDHLNGDSIEIIDISPXGCRTGFYXSLIG   93 (175)
T ss_dssp             SEEEEEEEEECTTCCEEE-EEEEECSCTTTCCCCHH--HHHHHHHHHHHHHHHHHCBTTBEEEEEEECTTSSEEEEEEES
T ss_pred             CEEEEEEEEECCCCCEEE-EEEEEECCCCHHHCCCC--CHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCCCEEEEEC
T ss_conf             869998668559998799-98886328775557874--214999988888761656798759997687656334898717


Q ss_pred             CCCHHHHHHHHHHC
Q ss_conf             58289999988544
Q gi|254781175|r  111 DGSAKAFVEVIERI  124 (296)
Q Consensus       111 DGSA~~fv~~i~~a  124 (296)
                      |-++...+++++++
T Consensus        94 ~~~~~~i~~l~~~~  107 (175)
T 1j6w_A           94 TPNEQKVSEAWLAS  107 (175)
T ss_dssp             CCCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHH
T ss_conf             99989999999999


No 18 
>>1vje_A Autoinducer-2 production protein LUXS; structural genomics, hydrolase; 1.64A {Deinococcus radiodurans} (A:)
Probab=42.81  E-value=5.7  Score=20.09  Aligned_cols=46  Identities=17%  Similarity=0.239  Sum_probs=25.3

Q ss_pred             EEEEHHHHHHHHHHHHHEEEEEEE-CCC----CC-CCCCCCHHHHHHHHHHC
Q ss_conf             886489989999872000599996-488----78-30058289999988544
Q gi|254781175|r   79 QVRTIEHLMAALYAYGIDNVIIEI-DST----EV-PIMDGSAKAFVEVIERI  124 (296)
Q Consensus        79 ~V~TVEHLLAAL~glgIDN~~Iei-dg~----Ei-PIlDGSA~~fv~~i~~a  124 (296)
                      .++|+|||+|.+.---.|.++=-- =|-    =+ =+-|-|+...+++++++
T Consensus        55 ~lHTlEHl~At~lRn~~d~iId~sPMGCrTGFYli~~g~~~~~~i~~l~~~~  106 (166)
T 1vje_A           55 AIHTLEHLLAGYMRDHLEGVVDVSPMGXRTGMYMAVIGEPDEQGVMKAFEAA  106 (166)
T ss_dssp             HHHHHHHHHHHHHHHHCTTEEEEEECTTSSEEEEEEESSCCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCEEEEECCCCHHHHHHHHHHH
T ss_conf             3039999888888737788488878765502279886899999999999999


No 19 
>>2qbw_A PDZ-fibronectin fusion protein; fibronectin PDZ, unknown function; 1.80A {Homo sapiens} PDB: 3ch8_A (A:1-102)
Probab=42.66  E-value=9.4  Score=18.73  Aligned_cols=52  Identities=10%  Similarity=0.029  Sum_probs=46.6

Q ss_pred             CCCCEEEEEEHHHHHHHHHHHHHEEEEEEECCCCCCCCCCCHHHHHHHHHHCCC
Q ss_conf             476315886489989999872000599996488783005828999998854455
Q gi|254781175|r   73 IGSSSCQVRTIEHLMAALYAYGIDNVIIEIDSTEVPIMDGSAKAFVEVIERIGI  126 (296)
Q Consensus        73 L~~~~~~V~TVEHLLAAL~glgIDN~~Ieidg~EiPIlDGSA~~fv~~i~~aGi  126 (296)
                      -...+..|..|++=-.|=.++.+.+.+++|||  .|+-+-+....+++|+++|-
T Consensus        21 ~~~~~~~V~~v~~~spA~~~L~~GD~Il~Ing--~~v~~~~~~~~~~~l~~~g~   72 (102)
T 2qbw_A           21 PDDDGIFVTRVQPEGPASKLLQPGDKIIQANG--YSFINIEHGQAVSLLKTFQN   72 (102)
T ss_dssp             TTCCSEEEEEECTTSTTTTTCCTTCEEEEETT--EECTTCCHHHHHHHHHHCCS
T ss_pred             CCCCCEEEEEECCCCHHHHCCCCCCEEEEEEC--EEHHHHHHHHHHHHHHCCCC
T ss_conf             79988899996889857845577999999935--41111589999999740898


No 20 
>>1wf7_A Enigma homologue protein; PDZ domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} (A:)
Probab=29.95  E-value=35  Score=15.17  Aligned_cols=75  Identities=15%  Similarity=0.127  Sum_probs=49.5

Q ss_pred             CCCEEEEEEEECCCCCCEEEEEEECCCCCCEEECCHHHHHHHHHHCCCCCCEEEEEEHHHH-HHHHHHHHHEEEEEEECC
Q ss_conf             7977899998378887189998056888862631099866632201347631588648998-999987200059999648
Q gi|254781175|r   26 SGKRANLKLCPAPEGVGILFKCTQSGGITDSLSALWSNVLRTTLSTTIGSSSCQVRTIEHL-MAALYAYGIDNVIIEIDS  104 (296)
Q Consensus        26 sG~~~~i~l~PA~~~~GI~F~R~dl~~~~~~I~A~~~~V~~t~~~T~L~~~~~~V~TVEHL-LAAL~glgIDN~~Ieidg  104 (296)
                      +++..++++.+ ....|+.+.-. .                      -...+..|..|++- .|+..|+-..+.+++|||
T Consensus         3 ~~~~~~i~~~~-~~~lG~~i~~~-~----------------------~~~~~~~V~~V~~gspA~~aGL~~GD~Il~INg   58 (103)
T 1wf7_A            3 SGSSGSVSLVG-PAPWGFRLQGG-K----------------------DFNMPLTISSLKDGGKASQAHVRIGDVVLSIDG   58 (103)
T ss_dssp             CCCCEEEEEES-SSCCSCCEEEE-T----------------------TTTEEEEECCCCTTCHHHHTTCCTTCBEEEETT
T ss_pred             CCCEEEEEEEC-CCCCCEEEEEE-C----------------------CCCCCEEEEECCCCCHHHHCCCCCCCEEEEECC
T ss_conf             88432899889-98665899800-4----------------------689777998258989689788887899998999


Q ss_pred             CCCCCCCCCHHHHHHHHHHCCC
Q ss_conf             8783005828999998854455
Q gi|254781175|r  105 TEVPIMDGSAKAFVEVIERIGI  126 (296)
Q Consensus       105 ~EiPIlDGSA~~fv~~i~~aGi  126 (296)
                        .|+-+-+...++.++++.|-
T Consensus        59 --~~v~~~~~~~~~~~l~~~~~   78 (103)
T 1wf7_A           59 --ISAQGMTHLEAQNKIKACTG   78 (103)
T ss_dssp             --EECSSCCHHHHHHHHHHCSS
T ss_pred             --EECCCCCHHHHHHHHHCCCC
T ss_conf             --98389989999999886999


No 21 
>>1o98_A 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; isomerase, alpha/beta-type structure; HET: 2PG; 1.4A {Bacillus stearothermophilus} (A:75-312)
Probab=27.76  E-value=42  Score=14.66  Aligned_cols=68  Identities=21%  Similarity=0.332  Sum_probs=44.7

Q ss_pred             CCEEECCHHHHHHHH----HHCCCCCCEEEEEEHHHHHHHHHH---HHHEEEEEE--ECCCCCCCCCCCHHHHHHHHHHC
Q ss_conf             862631099866632----201347631588648998999987---200059999--64887830058289999988544
Q gi|254781175|r   54 TDSLSALWSNVLRTT----LSTTIGSSSCQVRTIEHLMAALYA---YGIDNVIIE--IDSTEVPIMDGSAKAFVEVIERI  124 (296)
Q Consensus        54 ~~~I~A~~~~V~~t~----~~T~L~~~~~~V~TVEHLLAAL~g---lgIDN~~Ie--idg~EiPIlDGSA~~fv~~i~~a  124 (296)
                      ++.+...++++..+.    +.--++.||+. +.++||.|.+..   .||.++.|-  .||-.+|  -.|+..|++.|++.
T Consensus        20 n~~l~~~~~~~k~~~~~lHl~GL~SdGGVH-Sh~~Hl~al~~~a~~~gv~~V~iH~f~DGRDt~--P~Sa~~yi~~le~~   96 (238)
T 1o98_A           20 NETFLAAMNHVKQHGTSLHLFGLLSDGGVH-SHIHHLYALLRLAAKEGVKRVYIHGFLDGRDVG--PQTAPQYIKELQEK   96 (238)
T ss_dssp             CHHHHHHHHHHHHHTCCEEEEEECSSCCSS-CCHHHHHHHHHHHHHTTCCCEEEEEEECSSSSC--TTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHCCCCEEEEEECCCCCCC-CCHHHHHHHHHHHHHCCCCCEEEEEECCCCCCC--CHHHHHHHHHHHHH
T ss_conf             999999999998669824789842688655-543455688999997199405788841466678--32579999999986


No 22 
>>1u5t_B Defective in vacuolar protein sorting; VPS36P; ESCRT, endosomal, trafficking, protein complex, transport protein; 3.60A {Saccharomyces cerevisiae} (B:96-169)
Probab=27.36  E-value=24  Score=16.18  Aligned_cols=35  Identities=23%  Similarity=0.411  Sum_probs=21.7

Q ss_pred             CCCHHHHHHHHHHHHHCCCCEEEEEEEECCCCHHHHHHHHHHHCC--CCCCEE
Q ss_conf             200114899989899759964689999778808999999999809--667156
Q gi|254781175|r  240 EFVRHKTLDAIGDIALAGYPVIGCYRSCRGSHEINHMALCTLFAD--KDSYEI  290 (296)
Q Consensus       240 E~vRHKiLDlIGDL~L~G~pi~g~i~a~k~GH~ln~~l~~~l~~~--~~~~~~  290 (296)
                      |++|-||||+|++               +||-.+ -++.+.|=.+  .+||.+
T Consensus         3 d~ik~kildii~~---------------~pG~Dl-LqlTq~lN~~~~n~nWt~   39 (74)
T 1u5t_B            3 DVVKEKLVDLIGD---------------NPGSDL-LRLTQILSSNNSKSNWTL   39 (74)
T ss_dssp             HHHHHHHHHHHHH---------------SCSBCH-HHHHHHHHTSCTTCCCCH
T ss_pred             CHHHHHHHHHHHH---------------CCCCCH-HHHHHHHHHHHHHHCCCH
T ss_conf             5589999999997---------------278778-875226999999949989


No 23 
>>2ip4_A PURD, phosphoribosylamine--glycine ligase; GAR synthetase, purine nucleotide, structural genomics, NPPSFA; 2.80A {Thermus thermophilus HB8} (A:1-114,A:184-417)
Probab=25.08  E-value=47  Score=14.36  Aligned_cols=161  Identities=15%  Similarity=0.165  Sum_probs=86.8

Q ss_pred             EHHHHHHHHHHHHHEEEEEEECCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCC-------------EE---EE-CCCEEE
Q ss_conf             48998999987200059999648878300582899999885445544478751-------------47---70-463499
Q gi|254781175|r   82 TIEHLMAALYAYGIDNVIIEIDSTEVPIMDGSAKAFVEVIERIGIKTLTAKRR-------------YL---RI-IKSVRI  144 (296)
Q Consensus        82 TVEHLLAAL~glgIDN~~Ieidg~EiPIlDGSA~~fv~~i~~aGi~eq~~~r~-------------~~---~i-~~~v~v  144 (296)
                      -+|.+.....-.+||=+.|   |||-|+.+|=    ++.++++|+.-....++             +.   .| =..+++
T Consensus        49 ~~~~~~~~~~~~~i~~~~~---gpe~pl~~g~----~d~~~~~~~~~~gp~~~~a~le~sk~~~k~~~~~~~ieG~E~Sv  121 (348)
T 2ip4_A           49 DVEALADWALAEGIDLTLV---GPEAPLVEGI----ADAFQARGLLLFGPTQKAAXIEGSKAFAKGLXERYGIEGEEATV  121 (348)
T ss_dssp             CHHHHHHHHHHHTCCEEEE---CSSHHHHTTH----HHHHHHHTCCEESCCHHHHHHHHCHHHHHHHHHHTCCCSCEEEE
T ss_pred             CHHHHHHHHHHHCCCEEEE---CCCHHHHHHH----HHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCE
T ss_conf             9899999999839999998---9837888789----99998679975552466766431678999999981984622112


Q ss_pred             ---EECCEEEEEECCCCCEEEEEEEECCCCCCCCCCC--CCCCHHHHHHHHCCCCEEEEEHHHHHHHHCCCCCCCCCCCC
Q ss_conf             ---8177146541476633789997088431300023--45545778985146503222025788864200032133464
Q gi|254781175|r  145 ---TSGESWAEFSPHCSMRFEISIEFKNSIIGFQKWA--GDLTQTVFRNEIYAARTFGFLRDVERYRKAGCALGASLENS  219 (296)
Q Consensus       145 ---~~~~~~i~~~P~~~l~i~~~idf~~~~Ig~Q~~~--~~~~~~~f~~eIa~ARTF~~~~eie~L~~~Gl~~Ggsl~Na  219 (296)
                         .+++.+..+-+.+..+-.+..|..-...+.-.++  ..++++ ..+.+-.    ....-++.|...|+.-+|-+.--
T Consensus       122 e~~vdg~~~~~l~~tqd~k~~~~~d~gp~tgemGa~~p~~~l~~~-~~e~i~e----i~~~~l~al~~~G~~~~gvl~~e  196 (348)
T 2ip4_A          122 LALTDGETILPLLPSQDHKRLLDGDQGPXTGGXGAVAPYPXDEAT-LRRVEEE----ILGPLVRGLRAEGVVYRGVVYAG  196 (348)
T ss_dssp             EEEESSSCEEECCCBEECCEEETTTEEEECSCSEEEESCCCCHHH-HHHHHHH----THHHHHHHHHHTTCCCCEEEEEE
T ss_pred             EEEECCCCEEEEHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCHHH-HHHHHHH----HHHHHHHHHHHCCCCCEECCCCE
T ss_conf             688615755873232100010369987310255442454445677-6899999----99999999987499321002240


Q ss_pred             EEEECCCCEECCCCCCCCCCCCCH-------HHHHHHHHHHHH
Q ss_conf             564137733106774789972001-------148999898997
Q gi|254781175|r  220 VVISEDDQVMNHGGLRYSGEEFVR-------HKTLDAIGDIAL  255 (296)
Q Consensus       220 iVi~~~~~i~n~~~LR~~~dE~vR-------HKiLDlIGDL~L  255 (296)
                      +.++++++.+..-.-|+- |-...       --+++++=++++
T Consensus       197 ~mlt~~Gp~VIEiN~R~G-d~~~~~i~~~lg~Dl~e~~~~~a~  238 (348)
T 2ip4_A          197 LXLTREGPKVLEFNARFG-DPEAQALLPLLENDLVELALRVAE  238 (348)
T ss_dssp             EEECSSCEEEEEEESSCC-TTHHHHHTTTBCSCHHHHHHHHHH
T ss_pred             EEEEECCCEEEEEEEEEE-CCCCEEEEEECCCCCCCCCCHHCC
T ss_conf             389725866876666760-464126643125532100100026


No 24 
>>3ijw_A Aminoglycoside N3-acetyltransferase; anthrax, COA, acyltransferase, structural genomics; HET: MSE ACO; 1.90A {Bacillus anthracis} PDB: 3e4f_A* (A:15-268)
Probab=23.55  E-value=50  Score=14.18  Aligned_cols=44  Identities=25%  Similarity=0.429  Sum_probs=38.7

Q ss_pred             EEHHHHHHHHHHHHH---EEEEEEECCCCCCCCCCCHHHHHHHHHHC
Q ss_conf             648998999987200---05999964887830058289999988544
Q gi|254781175|r   81 RTIEHLMAALYAYGI---DNVIIEIDSTEVPIMDGSAKAFVEVIERI  124 (296)
Q Consensus        81 ~TVEHLLAAL~glgI---DN~~Ieidg~EiPIlDGSA~~fv~~i~~a  124 (296)
                      +|.|-|..+|..+||   |-++|.-+=.-+=-..|++..+++++.++
T Consensus         1 ~Tk~~l~~~L~~LGi~~gd~l~VHsSl~~lG~v~gg~~~vi~AL~~~   47 (254)
T 3ijw_A            1 NTIKTITNDLRKLGLKKGXTVIVHSSLSSIGWISGGAVAVVEALXEV   47 (254)
T ss_dssp             BCHHHHHHHHHHHTCCTTCEEEEEECTGGGCCBTTHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHCCCCCCCEEEEECCHHHHCCCCCCHHHHHHHHHHH
T ss_conf             54999999999819999499999757688388789889999999998


No 25 
>>2nyg_A YOKD protein; PFAM02522, NYSGXRC, aminoglycoside 3-N- acetyltransferase, PSI-2, structural genomics, protein structure initiative; HET: COA; 2.60A {Bacillus subtilis} (A:13-273)
Probab=23.48  E-value=50  Score=14.17  Aligned_cols=44  Identities=20%  Similarity=0.374  Sum_probs=38.5

Q ss_pred             EEHHHHHHHHHHHHH---EEEEEEECCCCCCCCCCCHHHHHHHHHHC
Q ss_conf             648998999987200---05999964887830058289999988544
Q gi|254781175|r   81 RTIEHLMAALYAYGI---DNVIIEIDSTEVPIMDGSAKAFVEVIERI  124 (296)
Q Consensus        81 ~TVEHLLAAL~glgI---DN~~Ieidg~EiPIlDGSA~~fv~~i~~a  124 (296)
                      +|.|-|.++|.-+||   |-++|.-+=.-+=...|++..+++++.++
T Consensus         1 ~Tk~~l~~~L~~LGI~~gd~llVHsSl~~lG~v~gga~~vi~aL~~~   47 (261)
T 2nyg_A            1 RTKQSITEDLKALGLKKGMTVLVHSSLSSIGWVNGGAVAVIQALIDV   47 (261)
T ss_dssp             BCHHHHHHHHHHHTCCTTCEEEEEECSGGGCCBTTHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHCCCCCCCEEEEECCHHHHCCCCCCHHHHHHHHHHH
T ss_conf             68999999999829899599999767788388788799999999998


No 26 
>>3efc_A OMP85, outer membrane protein assembly factor YAET; potra fold, cell membrane, cell outer membrane; 3.30A {Escherichia coli} (A:1-73)
Probab=23.05  E-value=51  Score=14.12  Aligned_cols=67  Identities=15%  Similarity=0.239  Sum_probs=43.7

Q ss_pred             CCCCCCEEEEEEECCCCCCEEECCHHHHHHHHHHCCCCCCE-EEEEEHHHHHHHHHHHHH-EEEEEEECCCCCCC
Q ss_conf             78887189998056888862631099866632201347631-588648998999987200-05999964887830
Q gi|254781175|r   37 APEGVGILFKCTQSGGITDSLSALWSNVLRTTLSTTIGSSS-CQVRTIEHLMAALYAYGI-DNVIIEIDSTEVPI  109 (296)
Q Consensus        37 A~~~~GI~F~R~dl~~~~~~I~A~~~~V~~t~~~T~L~~~~-~~V~TVEHLLAAL~glgI-DN~~Ieidg~EiPI  109 (296)
                      |.++....|.++...|+.. ++..   +....+.  +..|. .+-..++....+|+.+|. +++.+..++..+.|
T Consensus         1 A~~g~~~~i~~I~i~G~~~-~~~~---~i~~~l~--~k~G~~~s~~~i~~~~~~L~~~g~F~~V~v~~~~~~l~i   69 (73)
T 3efc_A            1 GAMAEGFVVKDIHFEGLQR-VAVG---AALLSMP--VRTGDTVNDEDISNTIRALFATGNFEDVRVLRDGDTLLV   69 (73)
T ss_dssp             -----CCCEEEEECSCCSS-SCHH---HHHHTCS--CCTTSCCCTHHHHHHHHHHHHHCCEEEEEEECCSSEEEE
T ss_pred             CCCCCCCEEEEEEEECCCC-CCHH---HHHHHCC--CCCCCCCCHHHHHHHHHHHHHCCCEEEEEEEECCCEEEE
T ss_conf             9877771897999999835-6999---9997469--999992798999999999996799568999963999999


No 27 
>>2csj_A TJP2 protein; PDZ domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} (A:)
Probab=22.29  E-value=53  Score=14.02  Aligned_cols=53  Identities=13%  Similarity=0.100  Sum_probs=44.7

Q ss_pred             CCCCCEEEEEEHHHHHHHHHHHHHEEEEEEECCCCCCCCCCCHHHHHHHHHHCCC
Q ss_conf             3476315886489989999872000599996488783005828999998854455
Q gi|254781175|r   72 TIGSSSCQVRTIEHLMAALYAYGIDNVIIEIDSTEVPIMDGSAKAFVEVIERIGI  126 (296)
Q Consensus        72 ~L~~~~~~V~TVEHLLAAL~glgIDN~~Ieidg~EiPIlDGSA~~fv~~i~~aGi  126 (296)
                      .....+..|.-|+.=-+|=.++...+.+++|||  .|+-+=+-...+.+|+++|-
T Consensus        42 ~~~~~~~~V~~V~~gspA~~gl~~GD~Il~InG--~~v~~~~~~~~~~~l~~~g~   94 (117)
T 2csj_A           42 ENGETSIVISDVLPGGPADGLLQENDRVVMVNG--TPMEDVLHSFAVQQLRKSGK   94 (117)
T ss_dssp             SSCCCBCEEEEECTTSSHHHHBCTTCEEEEESS--CBCBTCCHHHHHHHHHHSCS
T ss_pred             CCCCCCEEEEEECCCCCHHCCCCCCCEEEEECC--EECCCCCHHHHHHHHHCCCC
T ss_conf             568888899897899800038999989989899--74589989999999982899


No 28 
>>2dy1_A Elongation factor G; translocation, GTP complex, structural genomics, NPPSFA; HET: GTP; 1.60A {Thermus thermophilus} (A:454-571,A:651-665)
Probab=22.19  E-value=53  Score=14.01  Aligned_cols=100  Identities=12%  Similarity=0.072  Sum_probs=57.9

Q ss_pred             CCHHHCCEEEEEEE----EECCCCEEEEEEEECCCCCCEEEEEEECCCCCCEEECCHHHHHHHHHHCCCCCCEEEEEEHH
Q ss_conf             17110751999999----70379778999983788871899980568888626310998666322013476315886489
Q gi|254781175|r    9 LQHTIADSITITGI----GIHSGKRANLKLCPAPEGVGILFKCTQSGGITDSLSALWSNVLRTTLSTTIGSSSCQVRTIE   84 (296)
Q Consensus         9 ~Q~Ti~~~v~~~Gi----GLHsG~~~~i~l~PA~~~~GI~F~R~dl~~~~~~I~A~~~~V~~t~~~T~L~~~~~~V~TVE   84 (296)
                      |+-||.++++..+.    +=-++....|.+.+. ++++..|+-. ..+ .+ ++..+...+.......+..|-       
T Consensus         3 YRETi~~~~~~~~~~~k~~g~~~~~a~V~l~ie-p~~~~~~~~~-~~~-~~-~p~e~~~ai~~G~~~a~~~Gp-------   71 (133)
T 2dy1_A            3 YRETIKKVAEGQGKYKKQTGGHGQYGDVWLRLE-PASEYGFEWR-ITG-GV-IPSKYQEAIEEGIKEAAKKGV-------   71 (133)
T ss_dssp             CEEEESSCEEEEEEEEEEETTEEEEEEEEEEEE-ECSSCEEEEC-CCT-TS-SCGGGHHHHHHHHHHHHTSCT-------
T ss_pred             EEECCCCCCCCEEEEEECCCCCCEEEEEEEEEC-CCCCCCCCCC-CCC-CE-EHHHHHHHHHHHHHHHHHCCC-------
T ss_conf             155145553311578741788871536888977-7745675400-358-75-134435777677899985674-------


Q ss_pred             HHHHHHHHHHHEEEEEEECCCCCCCCCCCHHHHHHHHHHC
Q ss_conf             9899998720005999964887830058289999988544
Q gi|254781175|r   85 HLMAALYAYGIDNVIIEIDSTEVPIMDGSAKAFVEVIERI  124 (296)
Q Consensus        85 HLLAAL~glgIDN~~Ieidg~EiPIlDGSA~~fv~~i~~a  124 (296)
                           |+|.-|-|+.|.+-+.++=-.|-|...|.-+-.+|
T Consensus        72 -----L~g~pv~dvkv~L~d~~~h~~~s~~~~f~~Aa~~a  106 (133)
T 2dy1_A           72 -----LAGFPVMGFKAIVYNGSYHEVDSSDLAFQIAASLA  106 (133)
T ss_dssp             -----TTSCCBCSEEEEEEEEECCTTTBCHHHHHHHHHHH
T ss_pred             -----CCCCCCCCEEEEEEECCEECCCCCCHHHHHHHHHH
T ss_conf             -----12555244599998577506888706899999999


No 29 
>>2vvf_A Major capsid protein P2; double jelly-roll viral capsid, viral protein; 2.5A {Pseudoalteromonas phage PM2} PDB: 2w0c_A (A:1-139)
Probab=22.17  E-value=8.8  Score=18.90  Aligned_cols=34  Identities=24%  Similarity=0.320  Sum_probs=18.9

Q ss_pred             EEHHHHHHHHHHHHHEEEEEEEC---CCCCCCCCCCH
Q ss_conf             64899899998720005999964---88783005828
Q gi|254781175|r   81 RTIEHLMAALYAYGIDNVIIEID---STEVPIMDGSA  114 (296)
Q Consensus        81 ~TVEHLLAAL~glgIDN~~Ieid---g~EiPIlDGSA  114 (296)
                      ..+|.-+.+|-..++||+.||++   |..-|.|++.|
T Consensus        97 ~~~e~r~~~L~T~~~~~~~iEv~i~aga~AP~l~a~A  133 (139)
T 2vvf_A           97 DLVQQRMFALGTVGLTTCEIKFDIDEAAAGPKLSAIA  133 (139)
T ss_dssp             HHHHHHTTSEECTTCSCEEEEEEECTTCSSCEEEEEE
T ss_pred             CEEEEEEECCCCCCEEEEEEEEECCCCCCCCCCEEEE
T ss_conf             0268620004786258999999615576778617999


No 30 
>>3cfy_A Putative LUXO repressor protein; structural genomics, unknown function, uncharacterized protein, signal receiver domain; 2.50A {Vibrio parahaemolyticus rimd 2210633} (A:)
Probab=21.61  E-value=55  Score=13.94  Aligned_cols=57  Identities=12%  Similarity=0.110  Sum_probs=35.3

Q ss_pred             HHHHCCCCCCEEEEEEHHHHHHHHHHHHHEEEEEEECCCCCCCCCCCHHHHHHHHHHCC
Q ss_conf             32201347631588648998999987200059999648878300582899999885445
Q gi|254781175|r   67 TTLSTTIGSSSCQVRTIEHLMAALYAYGIDNVIIEIDSTEVPIMDGSAKAFVEVIERIG  125 (296)
Q Consensus        67 t~~~T~L~~~~~~V~TVEHLLAAL~glgIDN~~Ieidg~EiPIlDGSA~~fv~~i~~aG  125 (296)
                      ..+...|...|..|.+++..-.|+..+.-.+.-+-+-...+|-+||  ..+++.|++..
T Consensus        18 ~~l~~~l~~~G~~v~~~~~~~~al~~l~~~~~dlillD~~lp~~~g--~~l~~~ir~~~   74 (137)
T 3cfy_A           18 ILYKQYVKDEPYDIFHVETGRDAIQFIERSKPQLIILDLKLPDMSG--EDVLDWINQND   74 (137)
T ss_dssp             HHHHHHTTTSSSEEEEESSHHHHHHHHHHHCCSEEEECSBCSSSBH--HHHHHHHHHTT
T ss_pred             HHHHHHHHHCCCEEEEECCHHHHHHHHHCCCCCEEEECCCCCCCCC--HHHHHHHHHHC
T ss_conf             9999999977998999700899998875467628985034789972--89999999758


No 31 
>>1w7p_D VPS36P, YLR417W; ESCRT-II complex, endosomal protein sorting, protein transport; 3.6A {Saccharomyces cerevisiae} (D:491-566)
Probab=20.78  E-value=26  Score=15.94  Aligned_cols=35  Identities=23%  Similarity=0.411  Sum_probs=19.6

Q ss_pred             CCCHHHHHHHHHHHHHCCCCEEEEEEEECCCCHHHHHHHHHHHCC--CCCCEE
Q ss_conf             200114899989899759964689999778808999999999809--667156
Q gi|254781175|r  240 EFVRHKTLDAIGDIALAGYPVIGCYRSCRGSHEINHMALCTLFAD--KDSYEI  290 (296)
Q Consensus       240 E~vRHKiLDlIGDL~L~G~pi~g~i~a~k~GH~ln~~l~~~l~~~--~~~~~~  290 (296)
                      |++|-||||+|++               +||-.+ -++.+.|=.+  .+||.+
T Consensus         3 d~ik~kildii~~---------------~pG~Dl-LqlTq~LN~~~~n~nWt~   39 (76)
T 1w7p_D            3 DVVKEKLVDLIGD---------------NPGSDL-LRLTQILSSNNSKSNWTL   39 (76)
T ss_dssp             HHHHHHHHHHHTT---------------STTCCH-HHHHHHHSCSSSCCCBCH
T ss_pred             HHHHHHHHHHHHC---------------CCCCCH-HHHHHHHHHHHHHCCCCH
T ss_conf             8999999999843---------------788899-998778887887639769


Done!