Query gi|254780329|ref|YP_003064742.1| 30S ribosomal protein S6 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 135 No_of_seqs 117 out of 1182 Neff 6.9 Searched_HMMs 13730 Date Wed Jun 1 03:40:22 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780329.hhm -d /home/congqian_1/database/scop/scop70_1_75.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 d1loua_ d.58.14.1 (A:) Ribosom 100.0 6.3E-31 4.6E-35 199.2 10.2 96 1-96 1-96 (97) 2 d2j5aa1 d.58.14.1 (A:3-108) Ri 100.0 1.6E-30 1.1E-34 196.9 9.9 100 1-100 5-105 (106) 3 d2qalf1 d.58.14.1 (F:1-100) Ri 100.0 4.9E-31 3.6E-35 199.8 4.8 100 1-101 1-100 (100) 4 d1vmba_ d.58.14.1 (A:) Ribosom 100.0 3.6E-30 2.6E-34 194.8 7.1 96 1-96 2-98 (107) 5 d1sc6a3 d.58.18.1 (A:327-410) 49.1 7.8 0.00057 16.8 7.7 63 19-91 21-83 (84) 6 d2nzca1 d.58.18.14 (A:2-81) Hy 30.2 16 0.0012 15.1 6.1 58 20-85 15-72 (80) 7 d1vq3a_ d.284.1.1 (A:) PurS su 27.2 18 0.0013 14.7 8.2 72 1-90 5-83 (86) 8 d1jjcb4 d.58.13.1 (B:682-785) 23.7 20 0.0015 14.4 2.1 23 5-27 15-37 (104) 9 d2raqa1 d.58.61.1 (A:3-95) Unc 13.5 36 0.0026 12.9 3.1 18 25-42 62-79 (93) 10 d3bpda1 d.58.61.1 (A:1-91) Unc 12.8 38 0.0028 12.8 3.0 18 25-42 62-79 (91) No 1 >d1loua_ d.58.14.1 (A:) Ribosomal protein S6 {Thermus thermophilus [TaxId: 274]} Probab=99.97 E-value=6.3e-31 Score=199.18 Aligned_cols=96 Identities=26% Similarity=0.505 Sum_probs=94.6 Q ss_pred CCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCEECCCCCEEEEEEEEEECCHHHHHHHHHHHC Q ss_conf 98705999987899999999999999999985697899970368653530322241899999998089779999999808 Q gi|254780329|r 1 MKLYEHVFLLRQDISSQQIKDTIGQYQSLIQENGGEVRLVNELGMRTIAYRIRKNRKAYYVFMNIASPPAAIHEMKRKMR 80 (135) Q Consensus 1 M~~YE~~~i~~p~~~~~~~~~~~~~~~~~i~~~gg~i~~~e~wG~r~LAY~I~k~~~G~Y~~~~f~~~~~~i~el~~~lk 80 (135) ||+||+++|++|++++++++++++++.++|+++||+|.++++||+|+|||||+|+++|+|++++|+++|+.+++|++.|+ T Consensus 1 M~~YE~~~i~~p~l~~~~~~~~~~~~~~~i~~~gg~i~~~e~~G~r~LAY~I~k~~~G~Y~~~~f~~~~~~i~el~~~l~ 80 (97) T d1loua_ 1 MRRYEVNIVLNPNLDQSQLALEKEIIQRAAENYGARVEKVEELGLRRLAYPIAKDPQGYFLWYQVEMPEDRVNDLARELR 80 (97) T ss_dssp CEEEEEEEEECTTCCHHHHHHHHHHHHHHHHHTTCEEEEEEEEEEEEEEEEETTEEEEEEEEEEEEECGGGHHHHHHHHH T ss_pred CCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEEEEEEECCCCCCCCCEEEEEEEEEEECHHHHHHHHHHHC T ss_conf 98613999989999989999999999999986898899985007782420246466369999999968999999999866 Q ss_pred CCCHHEEEEEEEECCC Q ss_conf 9802100112441134 Q gi|254780329|r 81 IDENVLRSLTLLVDSH 96 (135) Q Consensus 81 ~~~~VLR~l~vk~~~~ 96 (135) +|++|||||+||++++ T Consensus 81 l~~~VlR~l~vk~~e~ 96 (97) T d1loua_ 81 IRDNVRRVMVVKSQEP 96 (97) T ss_dssp TSTTEEEEEEEECSSC T ss_pred CCCCEEEEEEEEECCC T ss_conf 7747278999971689 No 2 >d2j5aa1 d.58.14.1 (A:3-108) Ribosomal protein S6 {Aquifex aeolicus [TaxId: 63363]} Probab=99.96 E-value=1.6e-30 Score=196.86 Aligned_cols=100 Identities=29% Similarity=0.582 Sum_probs=95.8 Q ss_pred CCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCEECCCCCEEEEEEEEEECC-HHHHHHHHHHH Q ss_conf 98705999987899999999999999999985697899970368653530322241899999998089-77999999980 Q gi|254780329|r 1 MKLYEHVFLLRQDISSQQIKDTIGQYQSLIQENGGEVRLVNELGMRTIAYRIRKNRKAYYVFMNIASP-PAAIHEMKRKM 79 (135) Q Consensus 1 M~~YE~~~i~~p~~~~~~~~~~~~~~~~~i~~~gg~i~~~e~wG~r~LAY~I~k~~~G~Y~~~~f~~~-~~~i~el~~~l 79 (135) ||+||++||++|++++++++++++++.++|+++||+|.++++||+|+|||||+|+++|+|++++|+++ |+.+++|++.| T Consensus 5 Mr~YE~~~Il~p~l~~~~~~~~~~~~~~~i~~~gg~i~~~~~wG~r~LAY~Ikk~~~G~Y~~~~f~~~~~~~i~el~~~l 84 (106) T d2j5aa1 5 LRYYETVFAVKPTLSEEEMKKKFEQVKEFIKQKGGEILYEEDWGMRQLAYPIQKFNNARYFLVQFKTENPQLPNELDFQL 84 (106) T ss_dssp CEEEEEEEEECTTSCHHHHHHHHHHHHHHHHHTTEEEEEEEEEEEEECSSCSSSCSEEEEEEEEEEESCTTHHHHHHHHH T ss_pred CCCCCEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEECCEEECHHHHHHHCCCEEEEEEEEEECCHHHHHHHHHHH T ss_conf 25021999988999989999999999999997898089984203250154653325308999999978688999999985 Q ss_pred CCCCHHEEEEEEEECCCCCCC Q ss_conf 898021001124411345564 Q gi|254780329|r 80 RIDENVLRSLTLLVDSHEQSP 100 (135) Q Consensus 80 k~~~~VLR~l~vk~~~~~~~~ 100 (135) +++++|||||+||+++..... T Consensus 85 ~l~~~VlR~l~vkl~~~~~~~ 105 (106) T d2j5aa1 85 KIDEDVIRWLNIQIKESEVKK 105 (106) T ss_dssp HHCTTEEEEEEEEECGGGCCC T ss_pred CCCCCEEEEEEEEECCHHCCC T ss_conf 777682579999964221004 No 3 >d2qalf1 d.58.14.1 (F:1-100) Ribosomal protein S6 {Escherichia coli [TaxId: 562]} Probab=99.96 E-value=4.9e-31 Score=199.81 Aligned_cols=100 Identities=31% Similarity=0.571 Sum_probs=96.7 Q ss_pred CCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCEECCCCCEEEEEEEEEECCHHHHHHHHHHHC Q ss_conf 98705999987899999999999999999985697899970368653530322241899999998089779999999808 Q gi|254780329|r 1 MKLYEHVFLLRQDISSQQIKDTIGQYQSLIQENGGEVRLVNELGMRTIAYRIRKNRKAYYVFMNIASPPAAIHEMKRKMR 80 (135) Q Consensus 1 M~~YE~~~i~~p~~~~~~~~~~~~~~~~~i~~~gg~i~~~e~wG~r~LAY~I~k~~~G~Y~~~~f~~~~~~i~el~~~lk 80 (135) ||+||++||++|++++ +++++++++.++|+++||+|.++++||+|+|||||+|+++|+|++++|+++|+.+++|++.|+ T Consensus 1 M~~YE~~~Il~p~~~e-~~~~~~~~~~~~i~~~gg~v~~~~~~G~r~LAY~I~k~~~G~Y~~~~f~~~~~~i~el~~~l~ 79 (100) T d2qalf1 1 MRHYEIVFMVHPDQSE-QVPGMIERYTAAITGAEGKIHRLEDWGRRQLAYPINKLHKAHYVLMNVEAPQEVIDELETTFR 79 (100) T ss_dssp CCEECEEEEECGGGTT-HHHHHHHHHHHHHHHTTCCCCCCCCCBSCBCSSCTTSCSBCBBCCCCEECCHHHHHHHHHHTT T ss_pred CCCCEEEEEECCCCHH-HHHHHHHHHHHHHHHCCCEEEEEEEEEEEECCCCCCCCCEEEEEEEEEECCHHHHHHHHHHHC T ss_conf 9852499997888078-999999999999986898899986200030244246677359999999528888999999863 Q ss_pred CCCHHEEEEEEEECCCCCCCC Q ss_conf 980210011244113455643 Q gi|254780329|r 81 IDENVLRSLTLLVDSHEQSPT 101 (135) Q Consensus 81 ~~~~VLR~l~vk~~~~~~~~~ 101 (135) +|++|||||+||+++..+++| T Consensus 80 ~~~~VlR~l~vk~~~~~~e~S 100 (100) T d2qalf1 80 FNDAVIRSMVMRTKHAVTEAS 100 (100) T ss_dssp SCTTEEEEEECCCSSCCCSCC T ss_pred CCCCEEEEEEEEECCCCCCCC T ss_conf 765725899998356767898 No 4 >d1vmba_ d.58.14.1 (A:) Ribosomal protein S6 {Thermotoga maritima [TaxId: 2336]} Probab=99.96 E-value=3.6e-30 Score=194.75 Aligned_cols=96 Identities=20% Similarity=0.436 Sum_probs=93.1 Q ss_pred CCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHC-CCEEEEEECCCCCCCCEECCCCCEEEEEEEEEECCHHHHHHHHHHH Q ss_conf 987059999878999999999999999999856-9789997036865353032224189999999808977999999980 Q gi|254780329|r 1 MKLYEHVFLLRQDISSQQIKDTIGQYQSLIQEN-GGEVRLVNELGMRTIAYRIRKNRKAYYVFMNIASPPAAIHEMKRKM 79 (135) Q Consensus 1 M~~YE~~~i~~p~~~~~~~~~~~~~~~~~i~~~-gg~i~~~e~wG~r~LAY~I~k~~~G~Y~~~~f~~~~~~i~el~~~l 79 (135) ||+||++||++|+++++++..+++++.++|+++ ||+|.++++||+|+|||||+|+++|+|++|+|+++|+.+++|++.| T Consensus 2 ~R~YE~~~Il~p~l~~~~~~~~~~~~~~~i~~~~gg~i~~~e~wG~r~LAY~I~k~~~G~Y~~~~f~~~~~~i~el~~~l 81 (107) T d1vmba_ 2 ERIYESMFIIAPNVPEEERENLVERVKKIIEERVKGKIDKVERMGMRKFAYEIKKFNEGDYTVIYFRCDGQNLQELENFY 81 (107) T ss_dssp CEEEEEEEEECTTSCHHHHHHHHHHHHHHHHHTTCCEEEEEEEEEEEEEEEEETTEEEEEEEEEEEEECSSSTHHHHHHH T ss_pred CCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEEEEEEECCCEECCCCCEEEEEEEEEEECHHHHHHHHHHH T ss_conf 73657999988999989999999999999985699889998720223050475888379999999998988899999986 Q ss_pred CCCCHHEEEEEEEECCC Q ss_conf 89802100112441134 Q gi|254780329|r 80 RIDENVLRSLTLLVDSH 96 (135) Q Consensus 80 k~~~~VLR~l~vk~~~~ 96 (135) ++|++|||||+||+++. T Consensus 82 ~l~~~VlR~livk~~~~ 98 (107) T d1vmba_ 82 RVTPEIIRWQTFRRFDL 98 (107) T ss_dssp HTCTTEEEEEEEECHHH T ss_pred CCCCCEEEEEEEECCCC T ss_conf 57768378999972100 No 5 >d1sc6a3 d.58.18.1 (A:327-410) Phosphoglycerate dehydrogenase, regulatory (C-terminal) domain {Escherichia coli [TaxId: 562]} Probab=49.14 E-value=7.8 Score=16.85 Aligned_cols=63 Identities=13% Similarity=0.192 Sum_probs=49.8 Q ss_pred HHHHHHHHHHHHHHCCCEEEEEECCCCCCCCEECCCCCEEEEEEEEEECCHHHHHHHHHHHCCCCHHEEEEEE Q ss_conf 9999999999998569789997036865353032224189999999808977999999980898021001124 Q gi|254780329|r 19 IKDTIGQYQSLIQENGGEVRLVNELGMRTIAYRIRKNRKAYYVFMNIASPPAAIHEMKRKMRIDENVLRSLTL 91 (135) Q Consensus 19 ~~~~~~~~~~~i~~~gg~i~~~e~wG~r~LAY~I~k~~~G~Y~~~~f~~~~~~i~el~~~lk~~~~VLR~l~v 91 (135) ...++.++.+++.+.|..|..... +....+-|.++.++.+.....++-..++--+.|+|.-++ T Consensus 21 ~PGvla~I~~~l~~~~iNI~~~~~----------~~~~~~~~a~~~i~~D~~~~~~v~~~i~~l~~Vi~vR~l 83 (84) T d1sc6a3 21 RPGVLTALNKIFAEQGVNIAAQYL----------QTSAQMGYVVIDIEADEDVAEKALQAMKAIPGTIRARLL 83 (84) T ss_dssp CTTHHHHHHHHHHHTTCEEEEEEE----------EECSSEEEEEEEEECCHHHHHHHHHHHHTSTTEEEEEEC T ss_pred CCCHHHHHHHHHHHCCCCHHHHCC----------CCCCCCCEEEEEEECCCCCHHHHHHHHHCCCCEEEEEEE T ss_conf 699899999999973999899624----------457877489999978887779999999779987999973 No 6 >d2nzca1 d.58.18.14 (A:2-81) Hypothetical protein TM1266 {Thermotoga maritima [TaxId: 2336]} Probab=30.17 E-value=16 Score=15.05 Aligned_cols=58 Identities=14% Similarity=0.196 Sum_probs=42.2 Q ss_pred HHHHHHHHHHHHHCCCEEEEEECCCCCCCCEECCCCCEEEEEEEEEECCHHHHHHHHHHHCCCCHH Q ss_conf 999999999998569789997036865353032224189999999808977999999980898021 Q gi|254780329|r 20 KDTIGQYQSLIQENGGEVRLVNELGMRTIAYRIRKNRKAYYVFMNIASPPAAIHEMKRKMRIDENV 85 (135) Q Consensus 20 ~~~~~~~~~~i~~~gg~i~~~e~wG~r~LAY~I~k~~~G~Y~~~~f~~~~~~i~el~~~lk~~~~V 85 (135) .+...+++++++++|+-|.. +.-++|+ ...- .-..+.+.++.+.+..|..+|..-+.| T Consensus 15 ~~~a~kVn~iL~~yg~~I~g-----RmGip~~--~~~v-~iIsl~v~g~~d~I~~L~gkLg~i~gV 72 (80) T d2nzca1 15 EKAYRQVNELLHNFSEDILL-----RVGYPVR--EENM-AIIFLVLKTDNDTIGALSGKLGQISGV 72 (80) T ss_dssp HHHHHHHHHHHHHTGGGEEE-----EEEEEEG--GGTE-EEEEEEEEECHHHHHHHHHHHHTSTTE T ss_pred HHHHHHHHHHHHHCCCEEEE-----ECCCCCC--CCCC-EEEEEEEECCHHHHHHHHHHHCCCCCE T ss_conf 77689999999877887898-----5468705--4692-599999988887999988763699988 No 7 >d1vq3a_ d.284.1.1 (A:) PurS subunit of FGAM synthetase {Thermotoga maritima [TaxId: 2336]} Probab=27.24 E-value=18 Score=14.75 Aligned_cols=72 Identities=10% Similarity=0.191 Sum_probs=48.9 Q ss_pred CCCC--EEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCEECCCCCEEEEEEEEEECCHH-----HHH Q ss_conf 9870--599998789999999999999999998569789997036865353032224189999999808977-----999 Q gi|254780329|r 1 MKLY--EHVFLLRQDISSQQIKDTIGQYQSLIQENGGEVRLVNELGMRTIAYRIRKNRKAYYVFMNIASPPA-----AIH 73 (135) Q Consensus 1 M~~Y--E~~~i~~p~~~~~~~~~~~~~~~~~i~~~gg~i~~~e~wG~r~LAY~I~k~~~G~Y~~~~f~~~~~-----~i~ 73 (135) |+.| ++.+.++|.+.+.+...+. ..+...|. ..+++-+.|-|+.+.++++.. .+. T Consensus 5 m~~~k~~V~V~~K~gVlDPqG~av~----~aL~~lG~--------------~~v~~vr~gK~~~~~i~~~d~e~a~~~v~ 66 (86) T d1vq3a_ 5 LPLFKFAIDVQYRSNVRDPRGETIE----RVLREEKG--------------LPVKKLRLGKSIHLEVEAENKEKAYEIVK 66 (86) T ss_dssp CCEEEEEEEEEECTTSCCHHHHHHH----HHHHHTTC--------------CCEEEEEEEEEEEEEEECSSHHHHHHHHH T ss_pred CCEEEEEEEEEECCCCCCCHHHHHH----HHHHHCCC--------------CCCCEEEEEEEEEEEECCCCHHHHHHHHH T ss_conf 7338999999989987271799999----99987278--------------77660688889999980699899999999 Q ss_pred HHHHHHCCCCHHEEEEE Q ss_conf 99998089802100112 Q gi|254780329|r 74 EMKRKMRIDENVLRSLT 90 (135) Q Consensus 74 el~~~lk~~~~VLR~l~ 90 (135) ++-+.|-.|+-|=+|-+ T Consensus 67 ~~c~~lLaNpvIE~y~i 83 (86) T d1vq3a_ 67 KACEELLVNPVVEEYEV 83 (86) T ss_dssp HHHHHTTSCTTTEEEEE T ss_pred HHHHHHCCCCCEEEEEE T ss_conf 99998717765038999 No 8 >d1jjcb4 d.58.13.1 (B:682-785) Phenylalanyl-tRNA synthetase {Thermus thermophilus [TaxId: 274]} Probab=23.68 E-value=20 Score=14.44 Aligned_cols=23 Identities=0% Similarity=0.082 Sum_probs=15.1 Q ss_pred EEEEEECCCCCHHHHHHHHHHHH Q ss_conf 59999878999999999999999 Q gi|254780329|r 5 EHVFLLRQDISSQQIKDTIGQYQ 27 (135) Q Consensus 5 E~~~i~~p~~~~~~~~~~~~~~~ 27 (135) .+-|+++.+++-.++.+.+.... T Consensus 15 DiS~~v~~~~~~~~i~~~i~~~~ 37 (104) T d1jjcb4 15 DLAVVVPAPTPYGEVEALVREAA 37 (104) T ss_dssp EECCEEESSSCHHHHHHHHHHHH T ss_pred EEEEEECCCCCHHHHHHHHHHHC T ss_conf 08999789888899999999845 No 9 >d2raqa1 d.58.61.1 (A:3-95) Uncharacterized protein MTH889 {Methanobacterium thermoautotrophicum [TaxId: 145262]} Probab=13.52 E-value=36 Score=12.94 Aligned_cols=18 Identities=28% Similarity=0.525 Sum_probs=11.2 Q ss_pred HHHHHHHHCCCEEEEEEC Q ss_conf 999999856978999703 Q gi|254780329|r 25 QYQSLIQENGGEVRLVNE 42 (135) Q Consensus 25 ~~~~~i~~~gg~i~~~e~ 42 (135) .+.+.|++.||.|++.+. T Consensus 62 ~i~~~IE~~Gg~IHSIDe 79 (93) T d2raqa1 62 EITRAIESYGGSIHSVDE 79 (93) T ss_dssp HHHHHHHHTTCEEEEEEE T ss_pred HHHHHHHHCCCEEEEEEE T ss_conf 999999975985787700 No 10 >d3bpda1 d.58.61.1 (A:1-91) Uncharacterized protein AF1549 {Archaeoglobus fulgidus [TaxId: 2234]} Probab=12.78 E-value=38 Score=12.81 Aligned_cols=18 Identities=33% Similarity=0.630 Sum_probs=10.1 Q ss_pred HHHHHHHHCCCEEEEEEC Q ss_conf 999999856978999703 Q gi|254780329|r 25 QYQSLIQENGGEVRLVNE 42 (135) Q Consensus 25 ~~~~~i~~~gg~i~~~e~ 42 (135) .+.+.|++.||.|++.+. T Consensus 62 ~i~~~IE~~Gg~IHSIDe 79 (91) T d3bpda1 62 QIKGVIEDMGGVIHSVDE 79 (91) T ss_dssp HHHHHHHTTTCEEEEEEE T ss_pred HHHHHHHHCCCEEEEEHH T ss_conf 999999975985787701 Done!