Query gi|254780253|ref|YP_003064666.1| ribosomal protein L29 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 67 No_of_seqs 100 out of 1117 Neff 5.8 Searched_HMMs 13730 Date Tue May 24 06:22:13 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780253.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 d1vqov1 a.2.2.1 (V:1-65) Ribos 99.8 1.4E-19 1E-23 134.8 9.5 62 1-62 2-64 (65) 2 d1r73a_ a.2.2.1 (A:) Ribosomal 99.8 9.6E-20 7E-24 135.8 8.6 65 2-66 1-65 (66) 3 d2zjrv1 a.2.2.1 (V:1-66) Ribos 99.8 4.8E-20 3.5E-24 137.6 6.2 64 2-65 1-64 (66) 4 d2gycw1 a.2.2.1 (W:1-60) Ribos 99.8 9.7E-20 7.1E-24 135.8 5.0 60 2-61 1-60 (60) 5 d2j0121 a.2.2.1 (2:12-62) Ribo 99.3 3.9E-16 2.8E-20 114.3 -10.4 51 6-56 1-51 (51) 6 d1a62a1 a.140.3.1 (A:1-47) Rho 36.1 9.3 0.00067 16.7 2.1 21 2-22 1-21 (47) 7 d1tf5a3 c.37.1.19 (A:1-226,A:3 29.4 17 0.0012 15.1 3.4 23 5-27 31-53 (273) 8 d1nkta3 c.37.1.19 (A:-15-225,A 25.1 20 0.0015 14.7 3.5 23 5-27 45-67 (288) 9 d1xwya1 c.1.9.12 (A:1-260) Deo 23.0 16 0.0012 15.2 1.5 28 4-31 233-260 (260) 10 d2odgc1 a.140.1.1 (C:2-47) Inn 12.9 39 0.0028 13.0 1.7 16 6-21 2-17 (46) No 1 >d1vqov1 a.2.2.1 (V:1-65) Ribosomal protein L29 (L29p) {Archaeon Haloarcula marismortui [TaxId: 2238]} Probab=99.79 E-value=1.4e-19 Score=134.84 Aligned_cols=62 Identities=32% Similarity=0.457 Sum_probs=60.5 Q ss_pred CCCHHHHHHCCHHHHHHHHHHHHHHHHHHH-HHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 988899972999999999999999999999-99953786546999999999999999999999 Q gi|254780253|r 1 MLKFKDISVMSIDQLTEKLIQLKKDQMSLR-FQKASGQIEKPFRMREVSRDIARIKTMMNSRV 62 (67) Q Consensus 1 mmk~~elr~~s~~eL~~~l~~l~~el~~lr-fq~~~gql~np~~ir~~Rk~IARi~Tvl~er~ 62 (67) |||++|||+||.+||.+++.++++|||+|| ||+++||++|||+|+.+||+||||+||++|+. T Consensus 2 ~mK~~elr~ls~~eL~~~l~elk~El~~LR~~q~~~gql~~~~~ik~~Rk~IARi~Tvl~ek~ 64 (65) T d1vqov1 2 VLHVQEIRDMTPAEREAELDDLKTELLNARAVQAAGGAPENPGRIKELRKAIARIKTIQGEEG 64 (65) T ss_dssp CSCHHHHHTSCHHHHHHHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHHHHHHHHHHHHT T ss_pred CCCHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHC T ss_conf 747899986899999999999999999999999980887761899999999999999998726 No 2 >d1r73a_ a.2.2.1 (A:) Ribosomal protein L29 (L29p) {Thermotoga maritima [TaxId: 2336]} Probab=99.79 E-value=9.6e-20 Score=135.82 Aligned_cols=65 Identities=32% Similarity=0.455 Sum_probs=62.6 Q ss_pred CCHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 88899972999999999999999999999999537865469999999999999999999998532 Q gi|254780253|r 2 LKFKDISVMSIDQLTEKLIQLKKDQMSLRFQKASGQIEKPFRMREVSRDIARIKTMMNSRVFKNN 66 (67) Q Consensus 2 mk~~elr~~s~~eL~~~l~~l~~el~~lrfq~~~gql~np~~ir~~Rk~IARi~Tvl~er~~~~~ 66 (67) ||++|||++|++||.+.+.+++++||+||||+++||++|||+|+.+||+||||+||++|++...+ T Consensus 1 MK~~elr~ls~~eL~~~l~~l~~el~~LRfq~~~gql~~~~~i~~~Rk~IARi~Tvl~er~~~~~ 65 (66) T d1r73a_ 1 MKASELRNYTDEELKNLLEEKKRQLMELRFQLAMGQLKNTSLIKLTKRDIARIKTILRERELGIR 65 (66) T ss_dssp CCCSHHHHSCHHHHHHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHHHHHHTTT T ss_pred CCHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCC T ss_conf 98798873899999999999999999999999877887718999989999999999999986657 No 3 >d2zjrv1 a.2.2.1 (V:1-66) Ribosomal protein L29 (L29p) {Deinococcus radiodurans [TaxId: 1299]} Probab=99.79 E-value=4.8e-20 Score=137.60 Aligned_cols=64 Identities=28% Similarity=0.509 Sum_probs=62.1 Q ss_pred CCHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 8889997299999999999999999999999953786546999999999999999999999853 Q gi|254780253|r 2 LKFKDISVMSIDQLTEKLIQLKKDQMSLRFQKASGQIEKPFRMREVSRDIARIKTMMNSRVFKN 65 (67) Q Consensus 2 mk~~elr~~s~~eL~~~l~~l~~el~~lrfq~~~gql~np~~ir~~Rk~IARi~Tvl~er~~~~ 65 (67) ||++|||++|++||.++|.+++++||+||||+++||++|||+|+.+||+||||+||++|+.... T Consensus 1 MK~~elr~~s~~eL~~~l~~lk~elf~LRfq~~tgql~n~~~ik~~Rk~IARi~Tvl~er~~~~ 64 (66) T d2zjrv1 1 MKPSEMRNLQATDFAKEIDARKKELMELRFQAAAGQLAQPHRVRQLRREVAQLNTVKAELARKG 64 (66) T ss_dssp CCSTTTTTSCHHHHHHHHHTHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHHHHHTTTT T ss_pred CCHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 9889887489999999999999999999999987787662899999999999999999999760 No 4 >d2gycw1 a.2.2.1 (W:1-60) Ribosomal protein L29 (L29p) {Escherichia coli [TaxId: 562]} Probab=99.77 E-value=9.7e-20 Score=135.78 Aligned_cols=60 Identities=37% Similarity=0.700 Sum_probs=59.1 Q ss_pred CCHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHH Q ss_conf 888999729999999999999999999999995378654699999999999999999999 Q gi|254780253|r 2 LKFKDISVMSIDQLTEKLIQLKKDQMSLRFQKASGQIEKPFRMREVSRDIARIKTMMNSR 61 (67) Q Consensus 2 mk~~elr~~s~~eL~~~l~~l~~el~~lrfq~~~gql~np~~ir~~Rk~IARi~Tvl~er 61 (67) ||++|||++|++||.+++.+++++||+||||+++||++|||+|+.+||+||||+||++|+ T Consensus 1 Mk~~elr~ls~~eL~~~l~~l~~el~~lRfq~~~gql~~~~~i~~~Rk~IARi~Tvl~ek 60 (60) T d2gycw1 1 MKAKELREKSVEELNTELLNLLREQFNLRMQAASGQLQQSHLLKQVRRDVARVKTLLNEK 60 (60) T ss_dssp CCHHHHHHSCHHHHHHHHHHHHHHHHHCCCSTTTCSSCCHHHHHHHHHHHHHHHHHHHHC T ss_pred CCHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCC T ss_conf 987988738999999999999999999999998778776389999999999999999629 No 5 >d2j0121 a.2.2.1 (2:12-62) Ribosomal protein L29 (L29p) {Thermus thermophilus [TaxId: 274]} Probab=99.34 E-value=3.9e-16 Score=114.32 Aligned_cols=51 Identities=31% Similarity=0.518 Sum_probs=49.9 Q ss_pred HHHHCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHH Q ss_conf 997299999999999999999999999953786546999999999999999 Q gi|254780253|r 6 DISVMSIDQLTEKLIQLKKDQMSLRFQKASGQIEKPFRMREVSRDIARIKT 56 (67) Q Consensus 6 elr~~s~~eL~~~l~~l~~el~~lrfq~~~gql~np~~ir~~Rk~IARi~T 56 (67) |||+||++||.+++.+++++||+||||+++||++|||+|+.+||+||||+| T Consensus 1 EiR~ls~~eL~~~l~elk~el~~LRfq~atgql~n~~~ik~~rk~IARi~T 51 (51) T d2j0121 1 EARKLSPVELEKLVREKKRELMELRFQASIGQLSQNHKIRDLKRQIARLLT 51 (51) T ss_dssp CCTTTHHHHHHHHHHHHHHHSSSSCCTTSSTTTGGGTTSSSSSCCCCCCC- T ss_pred CHHHCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCC T ss_conf 936579999999999999999999999987887664899999999887357 No 6 >d1a62a1 a.140.3.1 (A:1-47) Rho termination factor, N-terminal domain {Escherichia coli [TaxId: 562]} Probab=36.09 E-value=9.3 Score=16.69 Aligned_cols=21 Identities=5% Similarity=0.189 Sum_probs=17.7 Q ss_pred CCHHHHHHCCHHHHHHHHHHH Q ss_conf 888999729999999999999 Q gi|254780253|r 2 LKFKDISVMSIDQLTEKLIQL 22 (67) Q Consensus 2 mk~~elr~~s~~eL~~~l~~l 22 (67) |..+||+.++..||.+.-.++ T Consensus 1 M~lseLk~k~~~EL~~iA~~l 21 (47) T d1a62a1 1 MNLTELKNTPVSELITLGENM 21 (47) T ss_dssp CBHHHHHTSCHHHHHHHHHTT T ss_pred CCHHHHHCCCHHHHHHHHHHC T ss_conf 988988159999999999994 No 7 >d1tf5a3 c.37.1.19 (A:1-226,A:349-395) Translocation ATPase SecA, nucleotide-binding domains {Bacillus subtilis [TaxId: 1423]} Probab=29.44 E-value=17 Score=15.13 Aligned_cols=23 Identities=30% Similarity=0.309 Sum_probs=19.7 Q ss_pred HHHHHCCHHHHHHHHHHHHHHHH Q ss_conf 99972999999999999999999 Q gi|254780253|r 5 KDISVMSIDQLTEKLIQLKKDQM 27 (67) Q Consensus 5 ~elr~~s~~eL~~~l~~l~~el~ 27 (67) .++.++|++||..+..+++..+. T Consensus 31 ~el~~LSDeEL~~kt~~lK~rl~ 53 (273) T d1tf5a3 31 GDYENLSDDALKHKTIEFKERLE 53 (273) T ss_dssp HHHHTCCHHHHHHHHHHHHHHHH T ss_pred HHHHHCCHHHHHHHHHHHHHHHH T ss_conf 99983899999999999999997 No 8 >d1nkta3 c.37.1.19 (A:-15-225,A:350-396) Translocation ATPase SecA, nucleotide-binding domains {Mycobacterium tuberculosis [TaxId: 1773]} Probab=25.06 E-value=20 Score=14.66 Aligned_cols=23 Identities=17% Similarity=0.257 Sum_probs=20.0 Q ss_pred HHHHHCCHHHHHHHHHHHHHHHH Q ss_conf 99972999999999999999999 Q gi|254780253|r 5 KDISVMSIDQLTEKLIQLKKDQM 27 (67) Q Consensus 5 ~elr~~s~~eL~~~l~~l~~el~ 27 (67) .++..+|++||..+..+++..+. T Consensus 45 ~el~~LSDeEL~~kT~eLK~rla 67 (288) T d1nkta3 45 DDVEKLTDAELRAKTDEFKRRLA 67 (288) T ss_dssp HHHHTSCHHHHHHHHHHHHHHHH T ss_pred HHHHHCCHHHHHHHHHHHHHHHH T ss_conf 99881899999998999999876 No 9 >d1xwya1 c.1.9.12 (A:1-260) Deoxyribonuclease TatD (MttC) {Escherichia coli [TaxId: 562]} Probab=22.96 E-value=16 Score=15.20 Aligned_cols=28 Identities=11% Similarity=-0.022 Sum_probs=18.8 Q ss_pred HHHHHHCCHHHHHHHHHHHHHHHHHHHH Q ss_conf 8999729999999999999999999999 Q gi|254780253|r 4 FKDISVMSIDQLTEKLIQLKKDQMSLRF 31 (67) Q Consensus 4 ~~elr~~s~~eL~~~l~~l~~el~~lrf 31 (67) ..+++.+|.+++.+.+.+.-..+|++.| T Consensus 233 lA~~~g~~~~ev~~~~~~N~~~~f~l~f 260 (260) T d1xwya1 233 IAHWRGEDAAWLAATTDANVKTLFGIAF 260 (260) T ss_dssp HHHHHTCCHHHHHHHHHHHHHHHHCCCC T ss_pred HHHHHCCCHHHHHHHHHHHHHHHHCCCC T ss_conf 9988695999999999999999858889 No 10 >d2odgc1 a.140.1.1 (C:2-47) Inner nuclear membrane protein emerin {Human (Homo sapiens) [TaxId: 9606]} Probab=12.89 E-value=39 Score=12.96 Aligned_cols=16 Identities=25% Similarity=0.210 Sum_probs=12.5 Q ss_pred HHHHCCHHHHHHHHHH Q ss_conf 9972999999999999 Q gi|254780253|r 6 DISVMSIDQLTEKLIQ 21 (67) Q Consensus 6 elr~~s~~eL~~~l~~ 21 (67) +++.||++||.+.|.+ T Consensus 2 ~y~~lSd~El~~lL~~ 17 (46) T d2odgc1 2 NYADLSDTELTTLLRR 17 (46) T ss_dssp GGGGSCHHHHHHHHHH T ss_pred CHHHHCHHHHHHHHHH T ss_conf 2656068999999999 Done!