Query gi|254780688|ref|YP_003065101.1| putative flagellar motor switch protein [Candidatus Liberibacter asiaticus str. psy62] Match_columns 147 No_of_seqs 169 out of 872 Neff 5.6 Searched_HMMs 13730 Date Wed Jun 1 09:05:12 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780688.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 d1o6aa_ b.139.1.1 (A:) Putativ 99.8 3.5E-19 2.5E-23 126.7 9.9 77 67-146 2-78 (87) 2 d1o9ya_ b.139.1.1 (A:) Structu 99.8 1.3E-18 9.8E-23 123.4 11.4 71 71-144 1-71 (71) 3 d2gcxa1 b.34.1.2 (A:1-75) Ferr 58.7 5.1 0.00037 17.4 4.6 31 94-124 29-61 (75) 4 d3bwud1 b.167.1.1 (D:2-122) Ou 47.3 7.8 0.00057 16.4 4.3 36 91-130 16-52 (121) 5 d2h3ja1 b.34.1.2 (A:1-75) Hypo 37.8 6.7 0.00049 16.7 1.6 31 94-124 30-62 (75) 6 d1ywua1 b.45.2.1 (A:1-125) Hyp 27.1 17 0.0012 14.5 6.4 57 84-143 25-90 (125) 7 d1g7sa1 b.43.3.1 (A:228-328) I 22.0 10 0.00076 15.6 0.4 45 98-142 6-52 (101) 8 d1k8wa3 b.122.1.1 (A:251-312) 19.0 25 0.0018 13.5 4.8 42 85-126 3-47 (62) 9 d1u1za_ d.38.1.6 (A:) (3R)-hyd 18.9 25 0.0018 13.5 3.6 50 78-129 85-142 (145) 10 d1d3ba_ b.38.1.1 (A:) D3 core 16.8 28 0.002 13.2 3.9 38 104-144 7-44 (72) No 1 >d1o6aa_ b.139.1.1 (A:) Putative flagelar motor switch protein FliN {Thermotoga maritima [TaxId: 2336]} Probab=99.78 E-value=3.5e-19 Score=126.73 Aligned_cols=77 Identities=39% Similarity=0.797 Sum_probs=73.6 Q ss_pred HHHHHHCCCCEEEEEEEEEEEECHHHHHCCCCCCEEECCCCCCCCEEEEECCEEEEEEEEEEECCCCCEEEEEEEEEECC Q ss_conf 00234305513899999213442999945797889984777888069999998999999999568887055899973167 Q gi|254780688|r 67 DNFDLIMNIPVKMQIILGSCCMQISNLVNLSKGDVITLDKRVGESVDITINNQKIAKGEITIMEEDDTHFGVRVIEILNA 146 (147) Q Consensus 67 ~~~~~l~dipv~i~veLG~~~i~i~dll~L~~G~Vi~Ld~~~~epV~i~vng~~ia~GElv~v~e~~~~~gvrIt~iis~ 146 (147) .+++.++|+|++++|+||++++++++|++|++||||+|++.++++++++|||+++|+|+++.+|+ ++||||+++++. T Consensus 2 ~~l~~i~dipv~l~~~Lg~~~l~l~el~~L~~Gdvi~L~~~~~~~v~l~v~g~~~~~g~lg~~~~---~~av~I~~~i~~ 78 (87) T d1o6aa_ 2 DKLELLLDIPLKVTVELGRTRMTLKRVLEMIHGSIIELDKLTGEPVDILVNGKLIARGEVVVIDE---NFGVRITEIVSP 78 (87) T ss_dssp HHHHHHTTCEEEEEEEEEEEEEEHHHHHHCCTTCEEEEEEETTCCEEEEETTEEEEEEEEEEETT---EEEEEEEEECCH T ss_pred CCHHHHCCCCEEEEEEEEEEEEEHHHHHCCCCCCEEEECCCCCCCEEEEECCEEEEEEEEEEECC---EEEEEEEEECCC T ss_conf 43023326717999999300845999857999999991898999799999999999999999999---999999981595 No 2 >d1o9ya_ b.139.1.1 (A:) Structural protein HrcQ2, C-terminal domain {Pseudomonas syringae [TaxId: 317]} Probab=99.77 E-value=1.3e-18 Score=123.38 Aligned_cols=71 Identities=14% Similarity=0.347 Sum_probs=68.3 Q ss_pred HHCCCCEEEEEEEEEEEECHHHHHCCCCCCEEECCCCCCCCEEEEECCEEEEEEEEEEECCCCCEEEEEEEEEE Q ss_conf 43055138999992134429999457978899847778880699999989999999995688870558999731 Q gi|254780688|r 71 LIMNIPVKMQIILGSCCMQISNLVNLSKGDVITLDKRVGESVDITINNQKIAKGEITIMEEDDTHFGVRVIEIL 144 (147) Q Consensus 71 ~l~dipv~i~veLG~~~i~i~dll~L~~G~Vi~Ld~~~~epV~i~vng~~ia~GElv~v~e~~~~~gvrIt~ii 144 (147) .+.++|++++|+||++++++++|++|++|++|+|++.++++|++++||+++|+|+++.+|+ +||||||+++ T Consensus 1 al~~i~v~l~~~lg~~~~~l~el~~L~~G~vl~l~~~~~~~V~l~v~g~~i~~G~l~~~~~---~~av~It~li 71 (71) T d1o9ya_ 1 ALDSLALDLTLRCGELRLTLAELRRLDAGTILEVTGISPGHATLCHGEQVVAEGELVDVEG---RLGLQITRLV 71 (71) T ss_dssp CCTTCEEEEEEEEEEEEEEHHHHHTCCTTCEEEECSSCTTEEEEEETTEEEEEEEEEEETT---EEEEEEEEEC T ss_pred CCCCEEEEEEEEEECCEEEHHHHHCCCCCCEEEECCCCCCCEEEEECCEEEEEEEEEEECC---EEEEEEEEEC T ss_conf 9542068999999200838999853589999991877899799999988999999999999---9999999919 No 3 >d2gcxa1 b.34.1.2 (A:1-75) Ferrous iron transport protein A, FeoA {Klebsiella pneumoniae [TaxId: 573]} Probab=58.72 E-value=5.1 Score=17.44 Aligned_cols=31 Identities=13% Similarity=0.266 Sum_probs=26.8 Q ss_pred HCCCCCCEEECCCCC--CCCEEEEECCEEEEEE Q ss_conf 457978899847778--8806999999899999 Q gi|254780688|r 94 VNLSKGDVITLDKRV--GESVDITINNQKIAKG 124 (147) Q Consensus 94 l~L~~G~Vi~Ld~~~--~epV~i~vng~~ia~G 124 (147) +.+.+|..+.+-+.+ ++|+.+.|+|..+|-+ T Consensus 29 mGl~pG~~V~v~~~ap~g~P~~i~v~~~~iaLr 61 (75) T d2gcxa1 29 LGMLPGSSFHVVRVAPLGDPVHIETRRVSLVLR 61 (75) T ss_dssp TTCCSSEEEEECCCCSSCCEEEEEETTEEEEEE T ss_pred CCCCCCCEEEEEEECCCCCCEEEEECCEEEEEC T ss_conf 699999899999978999989999999999978 No 4 >d3bwud1 b.167.1.1 (D:2-122) Outer membrane usher protein FimD {Escherichia coli [TaxId: 562]} Probab=47.30 E-value=7.8 Score=16.37 Aligned_cols=36 Identities=28% Similarity=0.465 Sum_probs=25.3 Q ss_pred HHHHCCCCCCEEECCCCCCC-CEEEEECCEEEEEEEEEEEC Q ss_conf 99945797889984777888-06999999899999999956 Q gi|254780688|r 91 SNLVNLSKGDVITLDKRVGE-SVDITINNQKIAKGEITIME 130 (147) Q Consensus 91 ~dll~L~~G~Vi~Ld~~~~e-pV~i~vng~~ia~GElv~v~ 130 (147) .||..+..|.-+ .+|. .|+|+|||+.+++.++..+. T Consensus 16 ~Dls~F~~~n~~----~pG~Y~vdI~vN~~~~~~~~i~F~~ 52 (121) T d3bwud1 16 ADLSRFENGQEL----PPGTYRVDIYLNNGYMATRDVTFNT 52 (121) T ss_dssp HHHHHHHTTCSS----CSEEEEEEEEETTEEEEEEEEEEEE T ss_pred EEHHHHCCCCCC----CCEEEEEEEEECCEEEEEEEEEEEE T ss_conf 217876258987----9838899999999684558999983 No 5 >d2h3ja1 b.34.1.2 (A:1-75) Hypothetical protein PA4359 {Pseudomonas aeruginosa [TaxId: 287]} Probab=37.83 E-value=6.7 Score=16.74 Aligned_cols=31 Identities=13% Similarity=0.352 Sum_probs=25.9 Q ss_pred HCCCCCCEEECCCC--CCCCEEEEECCEEEEEE Q ss_conf 45797889984777--88806999999899999 Q gi|254780688|r 94 VNLSKGDVITLDKR--VGESVDITINNQKIAKG 124 (147) Q Consensus 94 l~L~~G~Vi~Ld~~--~~epV~i~vng~~ia~G 124 (147) +.+.+|..+.+-+. .+.|+.+.++|..+|-+ T Consensus 30 mG~~~G~~v~v~~~~p~g~p~~v~v~~~~iaLr 62 (75) T d2h3ja1 30 MGLLPGAALRVVRIAPLGDPIQVETRQTSLALR 62 (75) T ss_dssp HTCCTTCEEEEEECCTTSCCCEEESSSSEECCC T ss_pred CCCCCCCEEEEEEECCCCCCEEEEECCEEEEEC T ss_conf 699999899999978999989999999999948 No 6 >d1ywua1 b.45.2.1 (A:1-125) Hypothetical protein PA4608 {Pseudomonas aeruginosa [TaxId: 287]} Probab=27.08 E-value=17 Score=14.45 Aligned_cols=57 Identities=9% Similarity=0.091 Sum_probs=32.9 Q ss_pred EEEEECHHHHHCCCCCCEE-----ECCCCCCCCEEEEE----CCEEEEEEEEEEECCCCCEEEEEEEEE Q ss_conf 2134429999457978899-----84777888069999----998999999999568887055899973 Q gi|254780688|r 84 GSCCMQISNLVNLSKGDVI-----TLDKRVGESVDITI----NNQKIAKGEITIMEEDDTHFGVRVIEI 143 (147) Q Consensus 84 G~~~i~i~dll~L~~G~Vi-----~Ld~~~~epV~i~v----ng~~ia~GElv~v~e~~~~~gvrIt~i 143 (147) |...+. ..+..+..|-+. .+....+.++.|.+ ....-+.|++|...+ +.+|++++.+ T Consensus 25 ~~~~~~-~~~~DiS~~G~~i~~~~~~~~~~~~~v~l~l~l~~~~~i~~~~~Vv~~~~--~~~Gl~f~~i 90 (125) T d1ywua1 25 GERRWE-VLLHDVSLHGILVGQPQDWNGDPQRPFEARLYLGLDVLIRMEISLAWARD--GLLGFECQHI 90 (125) T ss_dssp TTEEEE-EEEEEECSSEEEEECSSCCCCCTTSEEEEEEESSSSCEEEEEEEEEEEET--TEEEEEEEEE T ss_pred CCEEEE-EEEEEECCCCEEEECCCCCCCCCCCEEEEEEECCCCCEEEEEEEEEEECC--CEEEEEEEEC T ss_conf 999999-99998217848997488778899987999998699959999999999749--9999999866 No 7 >d1g7sa1 b.43.3.1 (A:228-328) Initiation factor IF2/eIF5b, domains 2 and 4 {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]} Probab=21.95 E-value=10 Score=15.64 Aligned_cols=45 Identities=16% Similarity=0.370 Sum_probs=20.1 Q ss_pred CCCEEEC--CCCCCCCEEEEECCEEEEEEEEEEECCCCCEEEEEEEE Q ss_conf 7889984--77788806999999899999999956888705589997 Q gi|254780688|r 98 KGDVITL--DKRVGESVDITINNQKIAKGEITIMEEDDTHFGVRVIE 142 (147) Q Consensus 98 ~G~Vi~L--d~~~~epV~i~vng~~ia~GElv~v~e~~~~~gvrIt~ 142 (147) .|.||+- ++-.|--.++.+..=.+-.|..+++|...|+.-.+|-. T Consensus 6 ~G~VlEs~~dkg~G~~atviv~~GtLk~GD~iv~g~~~G~i~~~ira 52 (101) T d1g7sa1 6 RGTILEVKEETGLGMTIDAVIYDGILRKDDTIAMMTSKDVISTRIRS 52 (101) T ss_dssp EEEEEEEEEETTEEEEEEEEEEESEEETTCEEEEEBSSSEEEEECCE T ss_pred EEEEEEEEECCCCCEEEEEEEECCEECCCCEEEEECCCCCEEEEEEC T ss_conf 79999999737998069999976878359999990674779987440 No 8 >d1k8wa3 b.122.1.1 (A:251-312) Pseudouridine synthase II TruB, C-terminal domain {Escherichia coli [TaxId: 562]} Probab=19.03 E-value=25 Score=13.51 Aligned_cols=42 Identities=21% Similarity=0.311 Sum_probs=32.3 Q ss_pred EEEECHHHHHCCCCCCEEECCCC-CCCCEEEEE--CCEEEEEEEE Q ss_conf 13442999945797889984777-888069999--9989999999 Q gi|254780688|r 85 SCCMQISNLVNLSKGDVITLDKR-VGESVDITI--NNQKIAKGEI 126 (147) Q Consensus 85 ~~~i~i~dll~L~~G~Vi~Ld~~-~~epV~i~v--ng~~ia~GEl 126 (147) +..++-.+...+..|.-+.+... ....|.||. +++-++-||+ T Consensus 3 ~v~L~~~~~~~~~~GQ~V~~~~~~~~g~vRvy~~~~~~FlGiGei 47 (62) T d1k8wa3 3 VVNLPLTSSVYFKNGNPVRTSGAPLEGLVRVTEGENGKFIGMGEI 47 (62) T ss_dssp EEEECHHHHHHHTTTCCBCCSSCCSSSEEEEEETTTTEEEEEEEE T ss_pred EEEECHHHHHHHHCCCEEECCCCCCCCEEEEEECCCCEEEEEEEE T ss_conf 599899999786687996358999776899998899869999998 No 9 >d1u1za_ d.38.1.6 (A:) (3R)-hydroxymyristoyl ACP dehydrase FabZ {Pseudomonas aeruginosa [TaxId: 287]} Probab=18.85 E-value=25 Score=13.49 Aligned_cols=50 Identities=16% Similarity=0.273 Sum_probs=29.5 Q ss_pred EEEEEEEEEEECHHHHHCCCCCCEEECCCCC--------CCCEEEEECCEEEEEEEEEEE Q ss_conf 8999992134429999457978899847778--------880699999989999999995 Q gi|254780688|r 78 KMQIILGSCCMQISNLVNLSKGDVITLDKRV--------GESVDITINNQKIAKGEITIM 129 (147) Q Consensus 78 ~i~veLG~~~i~i~dll~L~~G~Vi~Ld~~~--------~epV~i~vng~~ia~GElv~v 129 (147) .+-+-++-.+... .....+|+.+.+.-.. --...+++||++++.||++-. T Consensus 85 ~~~~l~~i~~~kf--~~~v~PGd~L~i~v~~~~~~~~~~~~~~~~~v~~~~v~~a~l~~a 142 (145) T d1u1za_ 85 TLYYFVGSDKLRF--RQPVLPGDQLQLHAKFISVKRSIWKFDCHATVDDKPVCSAEIICA 142 (145) T ss_dssp CEEEEEEEEEEEE--CSCCCTTCEEEEEEEEEEEETTEEEEEEEEEETTEEEEEEEEEEE T ss_pred CEEEEEECEEEEE--CCCCCCCCEEEEEEEEEEEECCEEEEEEEEEECCEEEEEEEEEEE T ss_conf 5999970408999--455579989999999999658999999999999999999999999 No 10 >d1d3ba_ b.38.1.1 (A:) D3 core SNRNP protein {Human (Homo sapiens) [TaxId: 9606]} Probab=16.76 E-value=28 Score=13.20 Aligned_cols=38 Identities=18% Similarity=0.344 Sum_probs=29.1 Q ss_pred CCCCCCCCEEEEECCEEEEEEEEEEECCCCCEEEEEEEEEE Q ss_conf 47778880699999989999999995688870558999731 Q gi|254780688|r 104 LDKRVGESVDITINNQKIAKGEITIMEEDDTHFGVRVIEIL 144 (147) Q Consensus 104 Ld~~~~epV~i~vng~~ia~GElv~v~e~~~~~gvrIt~ii 144 (147) |.+..+.+|.+...+-...+|.+.-+|. ++-+.+.+.. T Consensus 7 L~~~~g~~V~VeLkng~~~~G~L~~~D~---~mNi~L~~~~ 44 (72) T d1d3ba_ 7 LHEAEGHIVTCETNTGEVYRGKLIEAED---NMNCQMSNIT 44 (72) T ss_dssp HHHTTTSEEEEEETTSCEEEEEEEEECT---TCCEEEEEEE T ss_pred HHHCCCCEEEEEECCCEEEEEEEEEECC---CEEEEEEEEE T ss_conf 9860899999998998399998999948---7258997999 Done!