Query gi|254780320|ref|YP_003064733.1| translation initiation factor IF-3 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 136 No_of_seqs 113 out of 1373 Neff 5.6 Searched_HMMs 33803 Date Wed Jun 1 12:03:15 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780320.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >2ife_A Protein (translation i 100.0 4E-31 1.2E-35 206.2 7.3 97 39-135 1-98 (100) 2 >1tig_A IF3-C, translation ini 100.0 1.6E-30 4.8E-35 202.6 8.4 91 45-135 1-91 (94) 3 >2crq_A Mitochondrial translat 100.0 1.8E-30 5.4E-35 202.3 8.0 97 39-135 3-101 (112) 4 >1i96_V Translation initiation 100.0 9.6E-30 2.8E-34 198.0 10.0 86 50-135 1-86 (89) 5 >1tif_A IF3-N, translation ini 99.7 1.8E-17 5.2E-22 124.8 4.6 44 1-44 35-78 (78) 6 >1w96_A ACC, acetyl-coenzyme A 13.5 56 0.0017 14.6 0.4 30 13-42 49-78 (118) 7 >2yw2_A Phosphoribosylamine--g 11.7 74 0.0022 13.9 0.6 13 4-16 58-70 (97) 8 >3cta_A Riboflavin kinase; str 11.5 87 0.0026 13.4 0.9 20 76-95 119-138 (139) 9 >2q7d_A Inositol-tetrakisphosp 11.4 1.1E+02 0.0033 12.8 1.5 25 2-26 40-68 (111) 10 >1ntv_A Disabled homolog 1; be 10.5 1.2E+02 0.0035 12.6 3.8 57 79-135 15-71 (152) No 1 >>2ife_A Protein (translation initiation factor IF3); gene regulation; NMR {Escherichia coli} (A:) Probab=99.97 E-value=4e-31 Score=206.19 Aligned_cols=97 Identities=45% Similarity=0.724 Sum_probs=93.8 Q ss_pred HHHHHHCCCCCCCEEEEEEEECCHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHCCC Q ss_conf 43211002222200268974008679999999999996037919999997097435735689999999998422432036 Q gi|254780320|r 39 AVEARKKQKSTGIKEVKMRPVIDLHDLQVKLKAIDGFLRDGCKVKISVKFRGREIMHQDLGRELLSNIKERFGEISRIDC 118 (136) Q Consensus 39 ~k~~Kkkq~~~~~KEir~~~~I~~hDl~~K~k~~~~FL~~G~kVki~i~frGRe~~~~e~g~~~l~~i~~~l~~~~~~e~ 118 (136) .++++++|+.+++|||+|+|+||+|||++|++++++||++||+|+|+|+|||||++|+|.|.++|++|+++|+++|++|+ T Consensus 1 lke~kkkq~~~~~KEir~~~~I~~hDl~~K~k~~~~FL~~G~kVkv~i~~rGRe~~~~e~g~~ll~~i~~~l~~~~~~e~ 80 (100) T 2ife_A 1 MEFQKKKQKVIQVKEIKFRPGTDEGDYQVKLRSLIRFLEEGDKAKITLRFRGREMAHQQIGMEVLNRVKDDLQELAVVES 80 (100) T ss_dssp ---------CCEEEEEEECTTCCHHHHTHHHHHHHHHHHTTEEEEEEECCSSCTTCCSSHHHHHHHHHHHHHTTTEEESC T ss_pred CCHHHCCCCCCEEEEEEEECCCCHHHHHHHHHHHHHHHHCCCEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHEEEEC T ss_conf 92132057750478899735857537999999999999779969999998153002888999999999998531307824 Q ss_pred CC-CCCCCEEEEEEEECC Q ss_conf 77-324876999992046 Q gi|254780320|r 119 EP-KFEGRQMIMILSSKC 135 (136) Q Consensus 119 ~p-k~~Gr~~~~~l~Pkk 135 (136) .| +++|++|+|+|+|++ T Consensus 81 ~p~~~~G~~~~~~l~P~k 98 (100) T 2ife_A 81 FPTKIEGRQMIMVLAPKK 98 (100) T ss_dssp CCCCCCSSCCEEEEEECC T ss_pred CCCCCCCCEEEEEEECCC T ss_conf 676556873999993179 No 2 >>1tig_A IF3-C, translation initiation factor 3; IF3 C-terminal domain, ribosome binding factor; 2.00A {Geobacillus stearothermophilus} (A:) Probab=99.97 E-value=1.6e-30 Score=202.58 Aligned_cols=91 Identities=37% Similarity=0.750 Sum_probs=89.1 Q ss_pred CCCCCCCEEEEEEEECCHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCC Q ss_conf 02222200268974008679999999999996037919999997097435735689999999998422432036773248 Q gi|254780320|r 45 KQKSTGIKEVKMRPVIDLHDLQVKLKAIDGFLRDGCKVKISVKFRGREIMHQDLGRELLSNIKERFGEISRIDCEPKFEG 124 (136) Q Consensus 45 kq~~~~~KEir~~~~I~~hDl~~K~k~~~~FL~~G~kVki~i~frGRe~~~~e~g~~~l~~i~~~l~~~~~~e~~pk~~G 124 (136) ||+.+++|||+|||+||+|||++|++|+++||++||+|+|+|+|||||++|+|.|.++|++|+++|+++|++|++|+++| T Consensus 1 Kq~~~~iKEi~~~~~I~~hDl~~K~k~~~~FL~~G~kVkv~i~frGRe~~~~e~g~~ll~ri~~~l~~~~~~e~~pk~~G 80 (94) T 1tig_A 1 KQKVINVKEVRLSPTIEEHDFNTKLRNARKFLEKGDKVKATIRFKGRAITHKEIGQRVLDRLSEACADIAVVETAPKMDG 80 (94) T ss_dssp ----CCEEEEEECTTCCHHHHHHHHHHHHHHHHTTCEEEEEEECCSCCTTHHHHHHHHHHHHHHHTTTTEEEEEEEEEET T ss_pred CCCEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHCCEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHEEECCCCCCCC T ss_conf 98436889999735867307999999999998516819999998676444867899999999997112338614776538 Q ss_pred CEEEEEEEECC Q ss_conf 76999992046 Q gi|254780320|r 125 RQMIMILSSKC 135 (136) Q Consensus 125 r~~~~~l~Pkk 135 (136) ++|+|+|+|++ T Consensus 81 ~~~~~~l~P~k 91 (94) T 1tig_A 81 RNMFLVLAPKN 91 (94) T ss_dssp TEEEEEEEESC T ss_pred CEEEEEEEECC T ss_conf 77999996379 No 3 >>2crq_A Mitochondrial translational initiation factor 3; ribosome, structural genomics, NPPSFA; NMR {Mus musculus} (A:) Probab=99.96 E-value=1.8e-30 Score=202.28 Aligned_cols=97 Identities=21% Similarity=0.311 Sum_probs=94.3 Q ss_pred HHHHHHCCCCCCCEEEEEEEECCHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHCCC Q ss_conf 43211002222200268974008679999999999996037919999997097435735689999999998422432036 Q gi|254780320|r 39 AVEARKKQKSTGIKEVKMRPVIDLHDLQVKLKAIDGFLRDGCKVKISVKFRGREIMHQDLGRELLSNIKERFGEISRIDC 118 (136) Q Consensus 39 ~k~~Kkkq~~~~~KEir~~~~I~~hDl~~K~k~~~~FL~~G~kVki~i~frGRe~~~~e~g~~~l~~i~~~l~~~~~~e~ 118 (136) +++++++|+.+.+|||+|+|+||+|||++|++++++||++||+|+|+|+|||||++|+|.|.++|++|.++|+|+|++|+ T Consensus 3 ~ke~kkkq~~~~~KEi~~~~~I~~hDl~~Klk~~~~FLekG~kVkv~i~frGRe~~~~e~g~~il~~i~~~l~~~~~~e~ 82 (112) T 2crq_A 3 SGSSGPKTGPTMTKELVFSSNIGQHDLDTKSKQIQQWIEKKYHVQVTIKRRKDAEQSEEETEEIFNQILQTMPDIATFSS 82 (112) T ss_dssp CCCCCCCCCCSCEEEEEEETTCCHHHHHHHHHHHHHHHHTTCEEEEEEECCTTCSCCHHHHHHHHHHHHTTSTTTCEEEE T ss_pred CCCCCCCCCCCEEEEEEEECCCCHHHHHHHHHHHHHHHHCCCEEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHEEEC T ss_conf 76788888884778999725867307999999999999789989999998774355789999999999998434625625 Q ss_pred CCCC--CCCEEEEEEEECC Q ss_conf 7732--4876999992046 Q gi|254780320|r 119 EPKF--EGRQMIMILSSKC 135 (136) Q Consensus 119 ~pk~--~Gr~~~~~l~Pkk 135 (136) +|++ +|++|+|+|.|++ T Consensus 83 ~pk~~~~G~~~~~~l~P~k 101 (112) T 2crq_A 83 RPKAIRGGTASMCVFRHLS 101 (112) T ss_dssp EEEEEGGGTEEEEEEECCS T ss_pred CCCCCCCCCEEEEEECCCC T ss_conf 7754788886999981688 No 4 >>1i96_V Translation initiation factor IF3; 30S ribosome; HET: WO2; 4.20A {Thermus thermophilus} (V:) Probab=99.96 E-value=9.6e-30 Score=197.95 Aligned_cols=86 Identities=38% Similarity=0.713 Sum_probs=84.6 Q ss_pred CCEEEEEEEECCHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEE Q ss_conf 20026897400867999999999999603791999999709743573568999999999842243203677324876999 Q gi|254780320|r 50 GIKEVKMRPVIDLHDLQVKLKAIDGFLRDGCKVKISVKFRGREIMHQDLGRELLSNIKERFGEISRIDCEPKFEGRQMIM 129 (136) Q Consensus 50 ~~KEir~~~~I~~hDl~~K~k~~~~FL~~G~kVki~i~frGRe~~~~e~g~~~l~~i~~~l~~~~~~e~~pk~~Gr~~~~ 129 (136) ++|||+|+|+||+|||++|++||++||++||+|+|+|+|||||++|+|.|.++|++|+++|+++|++|++|+++|++|+| T Consensus 1 ~iKEirl~~~I~~hDl~~K~k~a~~FL~~G~kVkv~i~frGRe~~~~e~g~~~l~~i~~~l~~~~~~e~~p~~~G~~~~~ 80 (89) T 1i96_V 1 EVKSIKFRVKIDEHDYQTKLGHIKRFLQEGHKVKVTIMFRGREVAHPELGERILNRVTEDLKDLAVVEMKPEMLGRDMNM 80 (89) T ss_pred CCCEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHEECCCCCCCCCEEEE T ss_conf 96159960687702599999999999967996999999738767588999999999999721340753587651877999 Q ss_pred EEEECC Q ss_conf 992046 Q gi|254780320|r 130 ILSSKC 135 (136) Q Consensus 130 ~l~Pkk 135 (136) +|+|++ T Consensus 81 ~l~Pkk 86 (89) T 1i96_V 81 LLAPVK 86 (89) T ss_pred EEEECC T ss_conf 992068 No 5 >>1tif_A IF3-N, translation initiation factor 3; IF3 N-terminal domain, ribosome binding factor; 1.80A {Geobacillus stearothermophilus} (A:) Probab=99.69 E-value=1.8e-17 Score=124.84 Aligned_cols=44 Identities=43% Similarity=0.745 Sum_probs=41.9 Q ss_pred CHHHHHCCCCEEEECCCCCCCEEEEEEHHHHHHHHHHHHHHHHH Q ss_conf 93378579949999887558779998457888888765432110 Q gi|254780320|r 1 MQMAQEANLDLVEIDSSVTPSVCKILDLRKLRYTIQKNAVEARK 44 (136) Q Consensus 1 l~~A~~~~lDLV~vs~~~~PPVcKi~dygK~~ye~~Kk~k~~Kk 44 (136) |++|++.|||||+|||+++||||||||||||+||++++.++++| T Consensus 35 l~~A~~~~lDLV~v~~~~~PPVckimdygK~~ye~~kk~ke~kK 78 (78) T 1tif_A 35 LEIAARRNLDLVLVAPNAKPPVCRIMDYGKFRFEQQKKEKEARK 78 (78) T ss_dssp HHHHHHTTCEEEEEETTSSSCEEEEECHHHHHHHHHHHHHHTTC T ss_pred HHHHHHHCCCEEEECCCCCCCEEEEECCHHHHHHHHHHHHHHCC T ss_conf 99999816787984477899889997523489999988987259 No 6 >>1w96_A ACC, acetyl-coenzyme A carboxylase; ligase, obesity, diabetes, fatty acid metabolism, structure-based drug design; HET: S1A; 1.8A {Saccharomyces cerevisiae} (A:437-554) Probab=13.48 E-value=56 Score=14.56 Aligned_cols=30 Identities=23% Similarity=0.211 Sum_probs=22.4 Q ss_pred EECCCCCCCEEEEEEHHHHHHHHHHHHHHH Q ss_conf 998875587799984578888887654321 Q gi|254780320|r 13 EIDSSVTPSVCKILDLRKLRYTIQKNAVEA 42 (136) Q Consensus 13 ~vs~~~~PPVcKi~dygK~~ye~~Kk~k~~ 42 (136) +|+|.-+|.++||+-||.-+-+.-.+.+.+ T Consensus 49 ~i~~~yD~miAKiiv~g~~R~~Ai~~l~~a 78 (118) T 1w96_A 49 NIHSFSDSQFGHIFAFGENRQASRKHMVVA 78 (118) T ss_dssp SSCSSCSEEEEEEEEEESSHHHHHHHHHHH T ss_pred EECCCCCCHHHEEEEECCCHHHHHHHHHHH T ss_conf 569887662417989779999999999998 No 7 >>2yw2_A Phosphoribosylamine--glycine ligase; glycinamide ribonucleotide synthetase, GAR synthetase, ATP binding, purine nucleotide biosynthetic pathway; HET: ATP; 1.80A {Aquifex aeolicus} PDB: 2yya_A (A:1-97) Probab=11.72 E-value=74 Score=13.86 Aligned_cols=13 Identities=15% Similarity=0.376 Sum_probs=4.7 Q ss_pred HHHCCCCEEEECC Q ss_conf 7857994999988 Q gi|254780320|r 4 AQEANLDLVEIDS 16 (136) Q Consensus 4 A~~~~lDLV~vs~ 16 (136) |++.+.|||.|.| T Consensus 58 a~~~~iDlvviGP 70 (97) T 2yw2_A 58 AKNEGVDFTIVGP 70 (97) T ss_dssp HHHHTCSEEEECS T ss_pred HHHHCCCEEEECC T ss_conf 9985989999898 No 8 >>3cta_A Riboflavin kinase; structural genomics, transferase, PSI-2, protein structure initiative; 2.20A {Thermoplasma acidophilum dsm 1728} (A:92-230) Probab=11.46 E-value=87 Score=13.42 Aligned_cols=20 Identities=35% Similarity=0.531 Sum_probs=13.8 Q ss_pred HCCCCCEEEEEEECCCCCCC Q ss_conf 60379199999970974357 Q gi|254780320|r 76 LRDGCKVKISVKFRGREIMH 95 (136) Q Consensus 76 L~~G~kVki~i~frGRe~~~ 95 (136) |.+|+.|+|.|-.-|-|..| T Consensus 119 LkDGD~V~I~i~~~~~~~~~ 138 (139) T 3cta_A 119 LHDGDRVSVEVYTEGHHHHH 138 (139) T ss_dssp ----CEEEEEECC------- T ss_pred CCCCCEEEEEEECCCCCCCC T ss_conf 88999899999807755557 No 9 >>2q7d_A Inositol-tetrakisphosphate 1-kinase; inositol kinase, ITPK1, inositol 1,3,4- 5/6-kinase, inositol phosphate, inositolphosphate, polyphosphate; HET: ANP; 1.60A {Homo sapiens} PDB: 2qb5_A* 2odt_X (A:1-111) Probab=11.44 E-value=1.1e+02 Score=12.82 Aligned_cols=25 Identities=12% Similarity=0.341 Sum_probs=17.8 Q ss_pred HHHHHCCCCEEEECCCC----CCCEEEEE Q ss_conf 33785799499998875----58779998 Q gi|254780320|r 2 QMAQEANLDLVEIDSSV----TPSVCKIL 26 (136) Q Consensus 2 ~~A~~~~lDLV~vs~~~----~PPVcKi~ 26 (136) .+|++.|++||.|+++. +=|..=|+ T Consensus 40 ~~~~~~Gi~lV~ID~~~pL~~QGPfDvIl 68 (111) T 2q7d_A 40 ELCRKRGMEVVQLNLSRPIEEQGPLDVII 68 (111) T ss_dssp HHHHTTTCEEEECCTTSCSGGGCCCSEEE T ss_pred HHHHHCCCEEEEECCCCCHHHCCCCEEEE T ss_conf 99997899799964999956749845999 No 10 >>1ntv_A Disabled homolog 1; beta-sandwich, signaling protein; 1.50A {Mus musculus} (A:) Probab=10.45 E-value=1.2e+02 Score=12.62 Aligned_cols=57 Identities=12% Similarity=0.119 Sum_probs=38.2 Q ss_pred CCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEEEECC Q ss_conf 791999999709743573568999999999842243203677324876999992046 Q gi|254780320|r 79 GCKVKISVKFRGREIMHQDLGRELLSNIKERFGEISRIDCEPKFEGRQMIMILSSKC 135 (136) Q Consensus 79 G~kVki~i~frGRe~~~~e~g~~~l~~i~~~l~~~~~~e~~pk~~Gr~~~~~l~Pkk 135 (136) +..+.+.+.+-|..-.....|.+.+.+-+..+..............+.+.+.++|.- T Consensus 15 ~~~~~f~v~YLGs~~v~~~~g~~~~~~ai~~i~~~~~~~~~~~~~~~~v~L~Vs~~g 71 (152) T 1ntv_A 15 GEGVRYKAKLIGIDEVSAARGDKLCQDSMMKLKGVVAGARSKGEHKQKIFLTISFGG 71 (152) T ss_dssp TTCEEEEEEEEEEEECSSSCCHHHHHHHHHHHHHHHHHHHTTTCCCEEEEEEEETTE T ss_pred CCCEEEEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEEECCE T ss_conf 998599999988999178899799999999999875211111577856999996366 Done!