Query gi|254780236|ref|YP_003064649.1| 50S ribosomal protein L17 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 136 No_of_seqs 117 out of 1412 Neff 4.8 Searched_HMMs 13730 Date Mon May 23 23:51:19 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780236.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 d2qamn1 d.188.1.1 (N:1-120) Pr 100.0 0 0 336.6 5.4 120 1-120 1-120 (120) 2 d2zjrk1 d.188.1.1 (K:3-115) Pr 100.0 0 0 314.7 12.5 113 3-115 1-113 (113) 3 d1gd8a_ d.188.1.1 (A:) Prokary 100.0 0 0 295.1 11.6 104 14-117 1-105 (105) 4 d2cqma1 d.188.1.1 (A:28-136) P 100.0 8.4E-45 0 281.8 11.4 107 20-126 1-109 (109) 5 d1t6sa1 a.4.5.60 (A:1-85) Segr 29.4 16 0.0012 15.0 4.5 55 40-96 4-61 (85) 6 d1xd7a_ a.4.5.55 (A:) Hypothet 19.7 25 0.0018 13.8 4.2 44 51-94 10-58 (127) 7 d1o65a_ b.58.1.2 (A:) Hypothet 18.7 27 0.0019 13.7 1.9 28 88-120 147-175 (233) 8 d2o8ra4 d.136.1.4 (A:506-691) 8.7 20 0.0015 14.4 -1.2 38 44-81 13-50 (186) 9 d1otfa_ d.80.1.1 (A:) 4-oxaloc 8.6 54 0.0039 11.9 3.2 21 11-31 10-30 (59) 10 d2hiqa1 d.58.4.12 (A:9-104) Hy 7.6 59 0.0043 11.7 2.0 26 73-98 15-40 (96) No 1 >d2qamn1 d.188.1.1 (N:1-120) Prokaryotic ribosomal protein L17 {Escherichia coli [TaxId: 562]} Probab=100.00 E-value=0 Score=336.56 Aligned_cols=120 Identities=58% Similarity=0.876 Sum_probs=118.7 Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCEEEECHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCHHHHHHHH Q ss_conf 99888899999788999999999999998689378759999998864216762311387677889998725668899999 Q gi|254780236|r 1 MRHAISGRKLNRTSSHRKAMFSNMAASIIWHEQIVTTLPKAKELRPIVEKLVTLGKKGGLHSLRLAISKIGDVDVVNKLF 80 (136) Q Consensus 1 MrH~~~~rklgr~~~hR~allrnl~~~Li~herI~TT~~KAKelr~~aEklIt~AK~~~~~~rr~~~~~l~~~~~v~kLf 80 (136) |||+++++||||+++||++||+||+++||+||+|+||++||||+|+|+|+|||+||+|+++++|++.+|+.|++++.||| T Consensus 1 MrH~~~~rklgr~~~hR~allrnl~t~Li~herI~TT~aKAKelr~~~EklIt~aK~~~~~~rr~~~~~l~d~~~v~kLf 80 (120) T d2qamn1 1 MRHRKSGRQLNRNSSHRQAMFRNMAGSLVRHEIIKTTLPKAKELRRVVEPLITLAKTDSVANRRLAFARTRDNEIVAKLF 80 (120) T ss_dssp CCTTCCCCCTTSCTTGGGTTTHHHHHHHHHHSEECCBSHHHHHHHHHHHHHHHHHTSCTTHHHHHHHHSSCCTTHHHHTT T ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCHHHHHHHH T ss_conf 99988889999983999999999999999749767649999999999999999842577788899871035888999899 Q ss_pred HHHHHHHCCCCCCEEEEEECCCCCCCCCCEEEEEEECCCC Q ss_conf 9999885058775599875378999887579999526886 Q gi|254780236|r 81 GIIAKRYSDRSGGYLRIMKRGFRYGDSAPMAVIEFVDRDL 120 (136) Q Consensus 81 ~~l~prf~~R~GGYTRi~kl~~R~gD~A~ma~iElVd~~~ 120 (136) ++|+|||++||||||||+|+|+|.||+|+||+|||||+|. T Consensus 81 ~~iapry~~R~GGYTRI~klg~R~GD~A~maiiElVd~~~ 120 (120) T d2qamn1 81 NELGPRFASRAGGYTRILKCGFRAGDNAPMAYIELVDRSE 120 (120) T ss_dssp TTHHHHTTTCCSCCEECCCCCCCSSSCCCBCCEEETTCCC T ss_pred HHHHHHHCCCCCCEEEEEECCCCCCCCCCEEEEEEECCCC T ss_conf 9987685079988655442689999988878899722899 No 2 >d2zjrk1 d.188.1.1 (K:3-115) Prokaryotic ribosomal protein L17 {Deinococcus radiodurans [TaxId: 1299]} Probab=100.00 E-value=0 Score=314.66 Aligned_cols=113 Identities=50% Similarity=0.741 Sum_probs=112.4 Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHCCEEEECHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCHHHHHHHHHH Q ss_conf 88889999978899999999999999868937875999999886421676231138767788999872566889999999 Q gi|254780236|r 3 HAISGRKLNRTSSHRKAMFSNMAASIIWHEQIVTTLPKAKELRPIVEKLVTLGKKGGLHSLRLAISKIGDVDVVNKLFGI 82 (136) Q Consensus 3 H~~~~rklgr~~~hR~allrnl~~~Li~herI~TT~~KAKelr~~aEklIt~AK~~~~~~rr~~~~~l~~~~~v~kLf~~ 82 (136) |+++++||||+++||++|||||+++||+||+|+||++||||+|+|+|+|||+||+|++|++|++.++|.|+++++|||++ T Consensus 1 H~~~~rklgr~~~hR~allrnl~~sLi~herI~TT~~KAKelr~~~EklIT~AK~~~~~~rr~~~~~l~~k~~v~kLf~~ 80 (113) T d2zjrk1 1 HGKAGRKLNRNSSARVALARAQATALLREGRIQTTLTKAKELRPFVEQLITTAKGGDLHSRRLVAQDIHDKDVVRKVMDE 80 (113) T ss_dssp CCCCCCCCSSCTTHHHHHHHHHHHHHHHSSEEEEEHHHHHHHHHHHHHHHHHHTTCSHHHHHHHTTSCCCHHHHHHHHHT T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHCCEEEECHHHHHHHHHHHHHHHEECCCCCHHHHHHHHHHCCCHHHHHHHHHH T ss_conf 98777889978599999999999999977989977899999998888771362368725555554525668999999998 Q ss_pred HHHHHCCCCCCEEEEEECCCCCCCCCCEEEEEE Q ss_conf 998850587755998753789998875799995 Q gi|254780236|r 83 IAKRYSDRSGGYLRIMKRGFRYGDSAPMAVIEF 115 (136) Q Consensus 83 l~prf~~R~GGYTRi~kl~~R~gD~A~ma~iEl 115 (136) |+|||++||||||||+|+|+|.||+|+||+||| T Consensus 81 iapry~~R~GGYTRI~kl~~R~gD~A~ma~iEL 113 (113) T d2zjrk1 81 VAPKYAERPGGYTRILRVGTRRGDGVTMALIEL 113 (113) T ss_dssp HHHHTTTSCSCCCEEEECCCCTTTCCCEEEEEC T ss_pred HHHHHCCCCCCEEEEEECCCCCCCCCCEEEEEC T ss_conf 719863789886898878899999986678759 No 3 >d1gd8a_ d.188.1.1 (A:) Prokaryotic ribosomal protein L17 {Thermus thermophilus [TaxId: 274]} Probab=100.00 E-value=0 Score=295.09 Aligned_cols=104 Identities=51% Similarity=0.831 Sum_probs=102.4 Q ss_pred HHHHHHHHHHHHHHHHHCCEEEECHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCC Q ss_conf 89999999999999986893787599999988642167623113876778899987256688999999999885058775 Q gi|254780236|r 14 SSHRKAMFSNMAASIIWHEQIVTTLPKAKELRPIVEKLVTLGKKGGLHSLRLAISKIGDVDVVNKLFGIIAKRYSDRSGG 93 (136) Q Consensus 14 ~~hR~allrnl~~~Li~herI~TT~~KAKelr~~aEklIt~AK~~~~~~rr~~~~~l~~~~~v~kLf~~l~prf~~R~GG 93 (136) ||||++|||||+++||+||+|+||++||||+|+|+|+|||+||+|++|++|+++++|.|+++++|||++|+|||++|||| T Consensus 1 sshR~allrnl~t~Li~~erI~TT~~KAKelr~~~EklIt~aK~~~~~~rr~~~~~l~~~~~v~KLf~~lapry~~R~GG 80 (105) T d1gd8a_ 1 SSHRLALYRNQAKSLLTHGRITTTVPKAKELRGFVDHLIHLAKRGDLHARRLVLRDLQDVKLVRKLFDEIAPRYRDRQGG 80 (105) T ss_dssp CHHHHHHHHHHHHHHHHHSEEEEEHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHSCCHHHHHHHHHTHHHHTSSCCSC T ss_pred CHHHHHHHHHHHHHHHHCCEEEECHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCCC T ss_conf 96899999999999997598997389998889999999998226867888899988578999999999999996157888 Q ss_pred EEEEEECC-CCCCCCCCEEEEEEEC Q ss_conf 59987537-8999887579999526 Q gi|254780236|r 94 YLRIMKRG-FRYGDSAPMAVIEFVD 117 (136) Q Consensus 94 YTRi~kl~-~R~gD~A~ma~iElVd 117 (136) ||||+|+| +|.||+|+||+||||| T Consensus 81 YTRI~kl~~~R~GD~A~ma~iElVd 105 (105) T d1gd8a_ 81 YTRVLKLAERRRGDGAPLALVELVE 105 (105) T ss_dssp CEEEEEEEEECTTTCCEEEEEEECC T ss_pred EEEEEECCCCCCCCCCCEEEEEEEC T ss_conf 6898866899999998888998329 No 4 >d2cqma1 d.188.1.1 (A:28-136) Prokaryotic ribosomal protein L17 {Human (Homo sapiens) [TaxId: 9606]} Probab=100.00 E-value=8.4e-45 Score=281.75 Aligned_cols=107 Identities=34% Similarity=0.543 Sum_probs=103.3 Q ss_pred HHHHHHHHHHHCCEEEECHHHHHHHHHHHHHHHHHHCCCCHHHH--HHHHHHHCCHHHHHHHHHHHHHHHCCCCCCEEEE Q ss_conf 99999999986893787599999988642167623113876778--8999872566889999999998850587755998 Q gi|254780236|r 20 MFSNMAASIIWHEQIVTTLPKAKELRPIVEKLVTLGKKGGLHSL--RLAISKIGDVDVVNKLFGIIAKRYSDRSGGYLRI 97 (136) Q Consensus 20 llrnl~~~Li~herI~TT~~KAKelr~~aEklIt~AK~~~~~~r--r~~~~~l~~~~~v~kLf~~l~prf~~R~GGYTRi 97 (136) |||||+++||+||+|+||++||||+|+|+|+|||+||+|++|++ +++.+|+.|+++++|||++|+|||+||||||||| T Consensus 1 llrnl~tsLi~herI~TT~~KAKelr~~~ErLIt~aK~~~~~~r~~~~~~~~l~~k~~v~KLf~~lapry~~R~GGYTRI 80 (109) T d2cqma1 1 LLRNLLTGLVRHERIEAPWARVDEMRGYAEKLIDYGKLGDTNERAMRMADFWLTEKDLIPKLFQVLAPRYKDQTGGYTRM 80 (109) T ss_dssp HHHHHHHHHHHTTEEEEEHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHCCCTTHHHHHHTTHHHHHHHSCSCCEEE T ss_pred CHHHHHHHHHHCCEEEECHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCCCEEEE T ss_conf 96899999997596996689998888768888778604861677888766325657899989998708872589876899 Q ss_pred EECCCCCCCCCCEEEEEEECCCCCCCCCC Q ss_conf 75378999887579999526886622254 Q gi|254780236|r 98 MKRGFRYGDSAPMAVIEFVDRDLSAKGTP 126 (136) Q Consensus 98 ~kl~~R~gD~A~ma~iElVd~~~~~~~~~ 126 (136) +|+|+|.||+|+||+|||||+|+++..+| T Consensus 81 ~kl~~R~gD~A~ma~iElv~~p~p~~~~p 109 (109) T d2cqma1 81 LQIPNRSLDRAKMAVIEYKGNCLPPLPLP 109 (109) T ss_dssp EEECCCSSSCCCEEEEEESSCCCCCCCCC T ss_pred EECCCCCCCCCCEEEEEECCCCCCCCCCC T ss_conf 86478888888869999789989999987 No 5 >d1t6sa1 a.4.5.60 (A:1-85) Segregation and condensation protein B, ScpB {Chlorobium tepidum [TaxId: 1097]} Probab=29.43 E-value=16 Score=14.96 Aligned_cols=55 Identities=9% Similarity=0.074 Sum_probs=39.1 Q ss_pred HHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH---CCHHHHHHHHHHHHHHHCCCCCCEEE Q ss_conf 9999886421676231138767788999872---56688999999999885058775599 Q gi|254780236|r 40 KAKELRPIVEKLVTLGKKGGLHSLRLAISKI---GDVDVVNKLFGIIAKRYSDRSGGYLR 96 (136) Q Consensus 40 KAKelr~~aEklIt~AK~~~~~~rr~~~~~l---~~~~~v~kLf~~l~prf~~R~GGYTR 96 (136) .-+++...+|=++..|-+ +-+...+...+ .+...+..+.+++...|.+++.|+.= T Consensus 4 ~~~~l~~~IEAlLFas~~--Pls~~~L~~~l~~~~~~~~i~~~l~~L~~~y~~~~~g~el 61 (85) T d1t6sa1 4 QRQQLLRSLEALIFSSEE--PVNLQTLSQITAHKFTPSELQEAVDELNRDYEATGRTFRI 61 (85) T ss_dssp HHHHHHHHHHHHHHHCSS--CBCHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHHTCSEEE T ss_pred HHHHHHHHHHHHHHHCCC--CCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCCCEEE T ss_conf 189999999999995489--9899999998755899999999999999998507986799 No 6 >d1xd7a_ a.4.5.55 (A:) Hypothetical protein ywnA {Bacillus subtilis [TaxId: 1423]} Probab=19.70 E-value=25 Score=13.84 Aligned_cols=44 Identities=18% Similarity=0.141 Sum_probs=33.6 Q ss_pred HHHHHCCCCHHHHHHHHHHHCCHHHHHHHHHHHHH-----HHCCCCCCE Q ss_conf 76231138767788999872566889999999998-----850587755 Q gi|254780236|r 51 LVTLGKKGGLHSLRLAISKIGDVDVVNKLFGIIAK-----RYSDRSGGY 94 (136) Q Consensus 51 lIt~AK~~~~~~rr~~~~~l~~~~~v~kLf~~l~p-----rf~~R~GGY 94 (136) |+.+|..+.+.+..++.+.=.++..+.|++..|.. -....+||| T Consensus 10 L~~la~~~~~ss~~IA~~~~~~~~~v~kIl~~L~~aglV~s~rG~~GGy 58 (127) T d1xd7a_ 10 LSLISMDEKTSSEIIADSVNTNPVVVRRMISLLKKADILTSRAGVPGAS 58 (127) T ss_dssp HHHHHTCSCCCHHHHHHHHTSCHHHHHHHHHHHHHTTSEECCSSSSSCE T ss_pred HHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCCCCCCCC T ss_conf 9998649998999999886959999999999999807651268999851 No 7 >d1o65a_ b.58.1.2 (A:) Hypothetical protein YiiM {Escherichia coli [TaxId: 562]} Probab=18.71 E-value=27 Score=13.71 Aligned_cols=28 Identities=18% Similarity=0.317 Sum_probs=22.2 Q ss_pred CCCCCCEEEEEECC-CCCCCCCCEEEEEEECCCC Q ss_conf 05877559987537-8999887579999526886 Q gi|254780236|r 88 SDRSGGYLRIMKRG-FRYGDSAPMAVIEFVDRDL 120 (136) Q Consensus 88 ~~R~GGYTRi~kl~-~R~gD~A~ma~iElVd~~~ 120 (136) ..+.|-|.||++-| .+.||. |+++++|. T Consensus 147 ~g~~G~y~rVl~~G~I~~GD~-----v~li~rp~ 175 (233) T d1o65a_ 147 TGKVGWLYSVIAPGKVSADAP-----LELVSRVS 175 (233) T ss_dssp HTCCCEEEEEEECEEEETTSC-----EEEEECCC T ss_pred CCCCEEEEEEECCCEECCCCE-----EEEECCCC T ss_conf 387169999951867749997-----89953899 No 8 >d2o8ra4 d.136.1.4 (A:506-691) Polyphosphate kinase, PPK {Porphyromonas gingivalis [TaxId: 837]} Probab=8.70 E-value=20 Score=14.39 Aligned_cols=38 Identities=18% Similarity=0.385 Sum_probs=20.7 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHCCHHHHHHHHH Q ss_conf 88642167623113876778899987256688999999 Q gi|254780236|r 44 LRPIVEKLVTLGKKGGLHSLRLAISKIGDVDVVNKLFG 81 (136) Q Consensus 44 lr~~aEklIt~AK~~~~~~rr~~~~~l~~~~~v~kLf~ 81 (136) +-..+|+=|..||.|......+-...|.|++++.+|++ T Consensus 13 l~~~I~~Ei~~a~~G~~~~I~~KmNsL~D~~iI~~Ly~ 50 (186) T d2o8ra4 13 ITNLIEREIENVKRGKRGYMLLKMNGLQDKNVITQLYR 50 (186) T ss_dssp HHHHHHHHHHHHHTTCCCEEEEEESCBCCHHHHHHHHH T ss_pred HHHHHHHHHHHHHCCCCCEEEEEECCCCCHHHHHHHHH T ss_conf 99999999999877998689986034659899999999 No 9 >d1otfa_ d.80.1.1 (A:) 4-oxalocrotonate tautomerase {Pseudomonas sp., DmpI [TaxId: 306]} Probab=8.55 E-value=54 Score=11.90 Aligned_cols=21 Identities=10% Similarity=0.319 Sum_probs=15.9 Q ss_pred CCCHHHHHHHHHHHHHHHHHC Q ss_conf 978899999999999999868 Q gi|254780236|r 11 NRTSSHRKAMFSNMAASIIWH 31 (136) Q Consensus 11 gr~~~hR~allrnl~~~Li~h 31 (136) ||+..+++.|.+.+...+.+. T Consensus 10 Grs~eqK~~l~~~it~~~~~~ 30 (59) T d1otfa_ 10 GRTDEQKETLIRQVSEAMANS 30 (59) T ss_dssp CCCHHHHHHHHHHHHHHHHHH T ss_pred CCCHHHHHHHHHHHHHHHHHH T ss_conf 999999999999999999998 No 10 >d2hiqa1 d.58.4.12 (A:9-104) Hypothetical protein YdhR {Escherichia coli [TaxId: 562]} Probab=7.64 E-value=59 Score=11.65 Aligned_cols=26 Identities=12% Similarity=0.185 Sum_probs=20.1 Q ss_pred HHHHHHHHHHHHHHHCCCCCCEEEEE Q ss_conf 68899999999988505877559987 Q gi|254780236|r 73 VDVVNKLFGIIAKRYSDRSGGYLRIM 98 (136) Q Consensus 73 ~~~v~kLf~~l~prf~~R~GGYTRi~ 98 (136) .+-....|.++||.|.+-||=--.+. T Consensus 15 ~ee~~~~~~~lAp~~~~epGLi~K~~ 40 (96) T d2hiqa1 15 GDAMAEQLKPLAESINQEPGFLWKVW 40 (96) T ss_dssp HHHHHHHSHHHHHHHTTSTTEEEEEE T ss_pred HHHHHHHHHHHHHHHCCCCCCEEEEE T ss_conf 89999999987777515998258898 Done!