Query gi|254780589|ref|YP_003065002.1| hypothetical protein CLIBASIA_02380 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 239 No_of_seqs 189 out of 410 Neff 4.2 Searched_HMMs 13730 Date Wed Jun 1 09:05:56 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780589.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 d1zata1 b.160.1.1 (A:339-466) 99.5 4.6E-14 3.3E-18 104.3 6.8 104 51-168 4-120 (128) 2 d1y7ma1 b.160.1.1 (A:49-164) H 99.4 1.1E-12 8E-17 95.8 8.3 95 49-168 5-107 (116) 3 d1d8ja_ a.4.5.18 (A:) The cent 28.2 7.4 0.00054 16.7 0.6 22 216-237 57-78 (81) 4 d2pbla1 c.69.1.2 (A:1-261) Unc 17.2 25 0.0018 13.4 1.5 11 59-69 48-58 (261) 5 d1bhga3 c.1.8.3 (A:329-632) be 15.3 21 0.0015 13.9 0.7 13 203-215 282-294 (304) 6 d2q3la1 c.13.2.2 (A:1-125) Unc 15.1 25 0.0018 13.4 1.0 61 154-227 28-90 (125) 7 d1yb3a1 d.296.1.2 (A:2-167) Hy 14.7 21 0.0015 14.0 0.5 33 70-108 45-78 (166) 8 d3c70a1 c.69.1.20 (A:2-257) Hy 12.5 31 0.0023 12.8 0.9 13 141-153 6-18 (256) 9 d1pdaa2 d.50.2.1 (A:220-307) P 12.5 36 0.0027 12.4 1.4 14 92-105 17-30 (88) 10 d1dqua_ c.1.12.7 (A:) Isocitra 11.5 31 0.0022 12.9 0.6 12 99-110 362-373 (519) No 1 >d1zata1 b.160.1.1 (A:339-466) L,D-transpeptidase, C-terminal, catalytic domain {Enterococcus faecium [TaxId: 1352]} Probab=99.46 E-value=4.6e-14 Score=104.35 Aligned_cols=104 Identities=16% Similarity=0.181 Sum_probs=84.7 Q ss_pred CEEEEEECCCCEEEEEEECCCCCEEEEEEEEECCCCCCCCCHHCCCCCCCCCEEEEEEECCCCCCCCCCEEEECCCCCHH Q ss_conf 47999983786999986078896689998652132389887010178747507999840125875765214207998988 Q gi|254780589|r 51 PTVIRIFKNENILEIWKRNVDAEYVLLKEYKICAWSGTFGPKIETGDEQAPEGFYYIGWNNLNPNSKYFLSINIGFPNEF 130 (239) Q Consensus 51 pi~Irv~K~e~~Lel~~~~~~g~~~l~ktY~Ic~~sg~lGpK~~eGD~kTPEG~Y~i~~~~~np~S~y~ls~~i~YPN~~ 130 (239) ..+|.|++++++|.||..+ +++++|+|+.|+. +..||+|.|.|..+..++....+......|.+.. T Consensus 4 ~~~I~Vdl~~q~l~l~~~g-----~~v~~~~vs~G~~---------~~~Tp~G~~~I~~k~~~~~~~~~~~~~~~~~~~~ 69 (128) T d1zata1 4 DTYIEVDLENQHMWYYKDG-----KVALETDIVSGKP---------TTPTPAGVFYVWNKEEDATLKGTNDDGTPYESPV 69 (128) T ss_dssp SCEEEEETTTTEEEEEETT-----EEEEEEECBCBCT---------TSCCCCEEEECCCCEEEEECCBCC--CCCBCCEE T ss_pred CCEEEEECCCCEEEEEECC-----EEEEEEECCCCCC---------CCCCCCCEEEEEEECCCCEEECCCCCCCCCCCCH T ss_conf 7199999867999999999-----9999855679988---------9847776488864127851234557788867603 Q ss_pred HHHCCCCCCCEEECCCC-------------CCCCCEEECHHHHHHHHHHHH Q ss_conf 99729998826871677-------------866718706466999999999 Q gi|254780589|r 131 DKAHNRTGADLMIHGEC-------------ASAGCYAMNNKQMQEIYAIVR 168 (239) Q Consensus 131 Dr~~grtG~~I~IHG~~-------------~S~GC~amtd~~i~EIy~~v~ 168 (239) .......++++.|||.. +|+|||.|.|+++++||.++. T Consensus 70 ~~~~~~~~~~~~~hg~~~~~~~~~~~~g~~~ShGCIRl~~~da~~ly~~v~ 120 (128) T d1zata1 70 NYWMPIDWTGVGIHDSDWQPEYGGDLWKTRGSHGCINTPPSVMKELFGMVE 120 (128) T ss_dssp EEEEECSSSSCEEEECTTCSCCSTTHHHHHCBSSSEEECHHHHHHHHHHCC T ss_pred HHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCC T ss_conf 456541687201357865443235545787887656769899999996299 No 2 >d1y7ma1 b.160.1.1 (A:49-164) Hypothetical protein YkuD, C-terminal domain {Bacillus subtilis [TaxId: 1423]} Probab=99.36 E-value=1.1e-12 Score=95.83 Aligned_cols=95 Identities=28% Similarity=0.331 Sum_probs=75.7 Q ss_pred CCCEEEEEECCCCEEEEEEECCCCCEEEEEEEEECCCCCCCCCHHCCCCCCCCCEEEEEEECCCCCCCCCCEEEECCCCC Q ss_conf 78479999837869999860788966899986521323898870101787475079998401258757652142079989 Q gi|254780589|r 49 FHPTVIRIFKNENILEIWKRNVDAEYVLLKEYKICAWSGTFGPKIETGDEQAPEGFYYIGWNNLNPNSKYFLSINIGFPN 128 (239) Q Consensus 49 ~~pi~Irv~K~e~~Lel~~~~~~g~~~l~ktY~Ic~~sg~lGpK~~eGD~kTPEG~Y~i~~~~~np~S~y~ls~~i~YPN 128 (239) ..|..|.|.+.+++|.||+.+ +++++|||+.|.. +..||+|.|+|..+..++.+.|+- T Consensus 5 ~~p~~I~Vd~~~~~l~~~~~g-----~~v~~~pvs~G~~---------~~~TP~G~~~i~~k~~~~~~~~~~-------- 62 (116) T d1y7ma1 5 TIPYHIAVSIGAKTLTLSLNN-----RVMKTYPIAVGKI---------LTQTPTGEFYIINRQRNPGGPFGA-------- 62 (116) T ss_dssp GCCEEEEEETTTTEEEEEETT-----EEEEEEECBEEBT---------TBCCCCEEEEEEEEEECCCGGGTT-------- T ss_pred CCCEEEEEECCCCEEEEEECC-----EEEEEEEECCCCC---------CCCCCCEEEEECCCCCCCCCCCCC-------- T ss_conf 887799999888999999999-----9999944043789---------987766666601222111377652-------- Q ss_pred HHHHHCCCCCCCEEECCCC--------CCCCCEEECHHHHHHHHHHHH Q ss_conf 8899729998826871677--------866718706466999999999 Q gi|254780589|r 129 EFDKAHNRTGADLMIHGEC--------ASAGCYAMNNKQMQEIYAIVR 168 (239) Q Consensus 129 ~~Dr~~grtG~~I~IHG~~--------~S~GC~amtd~~i~EIy~~v~ 168 (239) .+....++++.|||.. +|+|||.|.++++++||..++ T Consensus 63 ---~~~~~~~~~~~~hg~~~~~~~g~~~ShGCIrl~~~da~~ly~~~~ 107 (116) T d1y7ma1 63 ---YWLSLSAAHYGIHGTNNPASIGKAVSKGCIRMHNKDVIELASIVP 107 (116) T ss_dssp ---EEEEESSTTCEEECCSCGGGTTSEEESSCEECCHHHHHHHHHHCC T ss_pred ---EEEEECCCCCCCCCCCCCCCCCCCCCCCEECCCHHHHHHHHHCCC T ss_conf ---789821677422122145557988799700529999999996699 No 3 >d1d8ja_ a.4.5.18 (A:) The central core domain of TFIIE beta {Human (Homo sapiens) [TaxId: 9606]} Probab=28.22 E-value=7.4 Score=16.71 Aligned_cols=22 Identities=27% Similarity=0.421 Sum_probs=18.0 Q ss_pred HHHCCCCEEEEECCEEEECCCC Q ss_conf 9858973279727668944888 Q gi|254780589|r 216 EKNHQEPFIQIINKQYVFFKGQ 237 (239) Q Consensus 216 e~~~~~p~v~v~~~~Yvf~~~~ 237 (239) |.-..-|.+.|++|+|+|.+.= T Consensus 57 EAL~nNPKi~v~dgKf~Fkp~Y 78 (81) T d1d8ja_ 57 EALVNNPKIEVIDGKYAFKPKY 78 (81) T ss_dssp THHHHCTTEEECSSSEEECCTT T ss_pred HHCCCCCCEEECCCEEEECCCC T ss_conf 0303699504427815425776 No 4 >d2pbla1 c.69.1.2 (A:1-261) Uncharacterized protein TM1040_2492 {Silicibacter sp. tm1040 [TaxId: 292414]} Probab=17.25 E-value=25 Score=13.43 Aligned_cols=11 Identities=0% Similarity=0.326 Sum_probs=6.9 Q ss_pred CCCEEEEEEEC Q ss_conf 78699998607 Q gi|254780589|r 59 NENILEIWKRN 69 (239) Q Consensus 59 ~e~~Lel~~~~ 69 (239) +...|.||.-+ T Consensus 48 ~~~~lDiy~P~ 58 (261) T d2pbla1 48 DRHKFDLFLPE 58 (261) T ss_dssp TTCEEEEECCS T ss_pred CCEEEEEECCC T ss_conf 67279986348 No 5 >d1bhga3 c.1.8.3 (A:329-632) beta-Glucuronidase, domain 3 {Human (Homo sapiens) [TaxId: 9606]} Probab=15.35 E-value=21 Score=13.94 Aligned_cols=13 Identities=8% Similarity=-0.230 Sum_probs=6.0 Q ss_pred HHHHHHHHHHHHH Q ss_conf 7898535688899 Q gi|254780589|r 203 SFWNMLKLGHDYF 215 (239) Q Consensus 203 ~FW~~Lk~gyd~F 215 (239) +.++.-|+.|..+ T Consensus 282 d~~~~PK~a~~~~ 294 (304) T d1bhga3 282 TRQRQPKSAAFLL 294 (304) T ss_dssp CTTSCBCHHHHHH T ss_pred CCCCCCCHHHHHH T ss_conf 9998998889999 No 6 >d2q3la1 c.13.2.2 (A:1-125) Uncharacterized protein Shew3102 {Shewanella loihica [TaxId: 359303]} Probab=15.09 E-value=25 Score=13.43 Aligned_cols=61 Identities=16% Similarity=0.226 Sum_probs=37.6 Q ss_pred EECHHHHHHHHHHHHHHHHHCCCCCEEEEE--ECCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHCCCCEEEEE Q ss_conf 706466999999999999750856111699--55568988987542586737898535688899985897327972 Q gi|254780589|r 154 AMNNKQMQEIYAIVRDSLRGNMQSHIQIQA--FPFRMTSKNMQLYQNNPNYSFWNMLKLGHDYFEKNHQEPFIQII 227 (239) Q Consensus 154 amtd~~i~EIy~~v~~a~~~~gQ~~~~v~~--~Pfrmt~~n~~~~~~~~~~~FW~~Lk~gyd~Fe~~~~~p~v~v~ 227 (239) .+|.++++++...+++.++..++.++.+.+ --|. .-..-++|..+|-|..+. +.--.|.|. T Consensus 28 ~lt~~D~~~~~~~l~~~l~~~~~~~v~~li~~~~F~----------G~~~~A~~ed~k~~~~h~---~~f~RiAiV 90 (125) T d2q3la1 28 KLTHEDYEQMTPLLESALAGIKTPEIVALIDITELD----------GLSLHAAWDDLKLGLKHG---KEFKRVAII 90 (125) T ss_dssp EECHHHHHHHHHHHHHHTTTCCSSCEEEEEEEEEEE----------EECHHHHHHHHHHHHHHG---GGEEEEEEE T ss_pred EECHHHHHHHHHHHHHHHHHCCCCEEEEEEECCCCC----------CCCHHHHHHHHHHHHHHH---CCCCEEEEE T ss_conf 688999999999999999736796499999707778----------997777888777677514---043289999 No 7 >d1yb3a1 d.296.1.2 (A:2-167) Hypothetical protein PF0168 {Pyrococcus furiosus [TaxId: 2261]} Probab=14.66 E-value=21 Score=13.98 Aligned_cols=33 Identities=27% Similarity=0.648 Sum_probs=23.5 Q ss_pred CCCCEEEEEEEEECCCCCCCCCHHCCCC-CCCCCEEEEEE Q ss_conf 8896689998652132389887010178-74750799984 Q gi|254780589|r 70 VDAEYVLLKEYKICAWSGTFGPKIETGD-EQAPEGFYYIG 108 (239) Q Consensus 70 ~~g~~~l~ktY~Ic~~sg~lGpK~~eGD-~kTPEG~Y~i~ 108 (239) -||+|+.. .||+-+.+-+.| || +-||+|+|++- T Consensus 45 ~DgeW~~m-~YPhPaf~ikp~-----gevGatp~~~yFv~ 78 (166) T d1yb3a1 45 IDGKWEEM-KYPHPAFAVKPG-----GEVGATPQGFYFVF 78 (166) T ss_dssp ETTEEEEC-CSCEEEEEEETT-----EEEEEETTEEEEEE T ss_pred ECCEEEEE-ECCCCCEEECCC-----CCCCCCCCEEEEEE T ss_conf 76877760-079873564447-----51166764169999 No 8 >d3c70a1 c.69.1.20 (A:2-257) Hydroxynitrile lyase {Rubber tree (Hevea brasiliensis) [TaxId: 3981]} Probab=12.48 E-value=31 Score=12.84 Aligned_cols=13 Identities=31% Similarity=0.598 Sum_probs=0.0 Q ss_pred EEECCCCCCCCCE Q ss_conf 6871677866718 Q gi|254780589|r 141 LMIHGECASAGCY 153 (239) Q Consensus 141 I~IHG~~~S~GC~ 153 (239) |+|||.+.|..|+ T Consensus 6 vliHG~~~~~~~w 18 (256) T d3c70a1 6 VLIHTICHGAWIW 18 (256) T ss_dssp EEECCTTCCGGGG T ss_pred EEECCCCCCHHHH T ss_conf 9839999998999 No 9 >d1pdaa2 d.50.2.1 (A:220-307) Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain {Escherichia coli [TaxId: 562]} Probab=12.46 E-value=36 Score=12.45 Aligned_cols=14 Identities=36% Similarity=0.415 Sum_probs=0.0 Q ss_pred HHCCCCCCCCCEEE Q ss_conf 01017874750799 Q gi|254780589|r 92 KIETGDEQAPEGFY 105 (239) Q Consensus 92 K~~eGD~kTPEG~Y 105 (239) |.-+|++++|.|.| T Consensus 17 ~~L~ggC~~PIga~ 30 (88) T d1pdaa2 17 TRLEGACQVPIGSY 30 (88) T ss_dssp HHTTCCTTSCEEEE T ss_pred HHHCCCCCCCCCEE T ss_conf 98389998861113 No 10 >d1dqua_ c.1.12.7 (A:) Isocitrate lyase {Aspergillus nidulans [TaxId: 162425]} Probab=11.47 E-value=31 Score=12.89 Aligned_cols=12 Identities=25% Similarity=0.479 Sum_probs=0.0 Q ss_pred CCCCEEEEEEEC Q ss_conf 475079998401 Q gi|254780589|r 99 QAPEGFYYIGWN 110 (239) Q Consensus 99 kTPEG~Y~i~~~ 110 (239) |||||+|.+... T Consensus 362 Rt~eG~y~~k~g 373 (519) T d1dqua_ 362 RTREGYYRYQGG 373 (519) T ss_dssp CCTTCCEEECCS T ss_pred CCCCCCEEECCC T ss_conf 687860353587 Done!