Query gi|254780374|ref|YP_003064787.1| flagellar basal body L-ring protein [Candidatus Liberibacter asiaticus str. psy62] Match_columns 238 No_of_seqs 135 out of 642 Neff 6.7 Searched_HMMs 23785 Date Mon May 30 10:26:30 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780374.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 3bdl_A Staphylococcal nuclease 48.7 7.5 0.00031 17.6 2.0 40 151-194 206-245 (570) 2 1ah9_A IF1, initiation factor 48.7 7.5 0.00032 17.5 2.1 45 153-202 7-53 (71) 3 3i4o_A Translation initiation 46.3 13 0.00055 16.0 3.9 57 153-214 15-77 (79) 4 3h43_A Proteasome-activating n 40.7 16 0.00068 15.5 3.6 46 153-203 19-64 (85) 5 2wg5_A General control protein 40.1 16 0.00069 15.4 3.0 47 153-204 38-84 (109) 6 1y0g_A Protein YCEI; lipid bin 26.1 12 0.00051 16.3 0.1 20 1-20 1-20 (191) 7 1w7f_A Beta-lactamase; hydrola 26.1 11 0.00048 16.4 0.0 22 1-22 10-31 (307) 8 1q02_A Sequestosome 1; helical 25.5 23 0.00095 14.5 1.4 13 223-235 24-36 (52) 9 2a2u_A Protein (alpha-2U-globu 23.1 20 0.00085 14.8 0.8 21 154-174 107-127 (181) 10 2f2f_C CDT C, cytolethal diste 22.7 23 0.00099 14.4 1.1 20 1-22 1-20 (186) 11 2eyx_A V-CRK sarcoma virus CT1 20.1 35 0.0015 13.3 1.5 16 74-89 23-38 (67) 12 2kct_A Cytochrome C-type bioge 20.0 37 0.0015 13.2 3.1 14 183-196 10-23 (94) No 1 >3bdl_A Staphylococcal nuclease domain-containing protein 1; staphylococcal nuclease OB fold, tudor domain, cytoplasm, HOST-virus interaction, nucleus; HET: CIT; 1.90A {Homo sapiens} Probab=48.72 E-value=7.5 Score=17.57 Aligned_cols=40 Identities=15% Similarity=0.154 Sum_probs=27.0 Q ss_pred EEEEEEEEEEECCCCCEEEEEEEEEEEECCEEEEEEEEEECHHH Q ss_conf 99999999998079728997887798418879999997984776 Q gi|254780374|r 151 NLLIAAIVTAILENGNLIISGSQEVRVNDEIRSLNVTGIVRPQD 194 (238) Q Consensus 151 ~~~isa~V~~VlpNGnL~I~G~k~i~vn~e~~~i~isGiVRp~D 194 (238) ...+.++|..|.....+.|.=- =++..-.++|.||--|+. T Consensus 206 ~~~~~~vVe~V~~g~~~~v~~~----~~~~~i~v~L~GI~~P~~ 245 (570) T 3bdl_A 206 AGRSEAVVEYVFSGSRLKLYLP----KETCLITFLLAGIECPRG 245 (570) T ss_dssp TCEEEEEEEEESSSSEEEEEET----TTTEEEEEEESSEECCCC T ss_pred CCCCCEEEEEECCCCEEEEEEC----CCCCEEEEEECCCCCCCC T ss_conf 6865689999847988999988----988199999755238854 No 2 >1ah9_A IF1, initiation factor 1; ribosome binding, protein-RNA interaction, OB fold; NMR {Escherichia coli} SCOP: b.40.4.5 Probab=48.69 E-value=7.5 Score=17.54 Aligned_cols=45 Identities=16% Similarity=0.233 Sum_probs=32.3 Q ss_pred EEEEEEEEECCCCCEEEEEEEEEEEECCEEEEEEEEEECHH--HCCCCCEEE Q ss_conf 99999999807972899788779841887999999798477--678997382 Q gi|254780374|r 153 LIAAIVTAILENGNLIISGSQEVRVNDEIRSLNVTGIVRPQ--DVDAHNSVS 202 (238) Q Consensus 153 ~isa~V~~VlpNGnL~I~G~k~i~vn~e~~~i~isGiVRp~--DI~~~NtV~ 202 (238) .+...|++.||||++.|+=+ |+.+..-+++|-.|-. -|.++..|. T Consensus 7 e~~G~V~e~lg~~~f~V~l~-----dg~~~la~i~GkmRk~ri~i~~GD~V~ 53 (71) T 1ah9_A 7 EMQGTVLETLPNTMFRVELE-----NGHVVTAHISGKMRKNYIRILTGDKVT 53 (71) T ss_dssp ECCEEEEEECSSSEEEEEET-----TSCEEEEEECSSGGGTTCCCCTTCEEC T ss_pred EEEEEEEEECCCCEEEEEEC-----CCCEEEEEECCHHEEEEEEECCCCEEE T ss_conf 99999999889969999988-----997999993734502149976999999 No 3 >3i4o_A Translation initiation factor IF-1; cytoplasm, protein biosynthesis; 1.47A {Mycobacterium tuberculosis} Probab=46.35 E-value=13 Score=16.01 Aligned_cols=57 Identities=19% Similarity=0.204 Sum_probs=39.8 Q ss_pred EEEEEEEEECCCCCEEEEEEEEEEEECCEEEEEEEEEECHH--HCCCCCEEE----HHEEEEEEEEEE Q ss_conf 99999999807972899788779841887999999798477--678997382----420554399980 Q gi|254780374|r 153 LIAAIVTAILENGNLIISGSQEVRVNDEIRSLNVTGIVRPQ--DVDAHNSVS----YDKIAEARISYG 214 (238) Q Consensus 153 ~isa~V~~VlpNGnL~I~G~k~i~vn~e~~~i~isGiVRp~--DI~~~NtV~----S~~iAda~I~y~ 214 (238) .+...|+++||||.+.|+= -|+....-+++|-.|-. -|.++..|. -.+.--++|.|. T Consensus 15 e~~G~V~e~l~~~~f~V~l-----~ng~~~~a~i~GkmRk~ri~i~~GD~V~Ve~~~yd~~kgrIi~R 77 (79) T 3i4o_A 15 EVEGRVVEPLPNAMFRIEL-----ENGHKVLAHISGKMRQHYIRILPEDRVVVELSPYDLSRGRIVYR 77 (79) T ss_dssp EEEEEEEEEETTTEEEEEE-----TTSCEEEEEECHHHHHTTCCCCTTCEEEEEEETTEEEEEEEEEE T ss_pred EEEEEEEEECCCCEEEEEE-----CCCCEEEEEECCHHHHCEEEECCCCEEEEEECCCCCCCEEEEEE T ss_conf 9999999988997899997-----99999999957636406088669999999977657894889998 No 4 >3h43_A Proteasome-activating nucleotidase; regulatory particle, nucleosidase, ATP-binding, cytoplasm, nucleotide-binding, hydrolase; 2.10A {Methanocaldococcus jannaschii} Probab=40.66 E-value=16 Score=15.46 Aligned_cols=46 Identities=20% Similarity=0.307 Sum_probs=36.7 Q ss_pred EEEEEEEEECCCCCEEEEEEEEEEEECCEEEEEEEEEECHHHCCCCCEEEH Q ss_conf 999999998079728997887798418879999997984776789973824 Q gi|254780374|r 153 LIAAIVTAILENGNLIISGSQEVRVNDEIRSLNVTGIVRPQDVDAHNSVSY 203 (238) Q Consensus 153 ~isa~V~~VlpNGnL~I~G~k~i~vn~e~~~i~isGiVRp~DI~~~NtV~S 203 (238) .+-++|++++.+|..+|. .-++...++.++.-|.++++.|+-.|.= T Consensus 19 ~~vgtv~e~~dd~~~iVk-----~s~G~~~~V~v~~~vd~~~L~pG~rVaL 64 (85) T 3h43_A 19 LIVGTVVDKVGERKVVVK-----SSTGPSFLVNVSHFVNPDDLAPGKRVCL 64 (85) T ss_dssp EEEEEEEEEEETTEEEEE-----ETTSSEEEEEBCTTSCGGGCCTTCEEEE T ss_pred CEEEEEEEEECCCEEEEE-----ECCCCEEEEECCCCCCHHHCCCCCEEEE T ss_conf 589999998389869999-----6799889998279879789899999999 No 5 >2wg5_A General control protein GCN4, proteasome-activating nucleotidase; transcription hydrolase complex, nucleotide-binding; 2.10A {Saccharomyces cerevisiae} PDB: 2wg6_A Probab=40.06 E-value=16 Score=15.40 Aligned_cols=47 Identities=17% Similarity=0.403 Sum_probs=36.1 Q ss_pred EEEEEEEEECCCCCEEEEEEEEEEEECCEEEEEEEEEECHHHCCCCCEEEHH Q ss_conf 9999999980797289978877984188799999979847767899738242 Q gi|254780374|r 153 LIAAIVTAILENGNLIISGSQEVRVNDEIRSLNVTGIVRPQDVDAHNSVSYD 204 (238) Q Consensus 153 ~isa~V~~VlpNGnL~I~G~k~i~vn~e~~~i~isGiVRp~DI~~~NtV~S~ 204 (238) ..-++|++++.++..+|. .-++...++.++.-|.++++.|+..|.=. T Consensus 38 ~~ig~v~e~~dd~~~iV~-----~s~g~~~~V~v~~~id~~~L~pG~rVaLn 84 (109) T 2wg5_A 38 LLVGVVSDILEDGRVVVK-----SSTGPKFVVNTSQYINEEELKPGARVALN 84 (109) T ss_dssp EEEEEEEEECTTSCEEEE-----ETTSCEEEECBCTTSCTTTCCTTCEEEEE T ss_pred CEEEEEEEEECCCEEEEE-----ECCCCEEEEEECCCCCHHHCCCCCEEEEC T ss_conf 579999999679818999-----67998899982065188998999999998 No 6 >1y0g_A Protein YCEI; lipid binding protein, lipocalin, cofactor, coenzyme, dehydrogenase, hydrolase, predicted, structural genomics; HET: 8PP; 2.20A {Escherichia coli} SCOP: b.61.6.1 Probab=26.15 E-value=12 Score=16.26 Aligned_cols=20 Identities=10% Similarity=-0.041 Sum_probs=12.9 Q ss_pred CCHHHHHHHHHHHHHHHHCC Q ss_conf 91179999999999854336 Q gi|254780374|r 1 MYRYSFIVLCYSSLLFGCHS 20 (238) Q Consensus 1 M~r~~l~~l~~~~lL~GCas 20 (238) |+|+++.+.+++++++.|.. T Consensus 1 Mkk~~~~l~~~~l~~~~~~a 20 (191) T 1y0g_A 1 MKKSLLGLTFASLMFSAGSA 20 (191) T ss_dssp -------------------- T ss_pred CCHHHHHHHHHHHHHHHCCC T ss_conf 93369999999999760220 No 7 >1w7f_A Beta-lactamase; hydrolase, isocitrate, bacillus licheniformis hydrolase; HET: ICT; 1.80A {Bacillus licheniformis} Probab=26.12 E-value=11 Score=16.39 Aligned_cols=22 Identities=18% Similarity=0.350 Sum_probs=13.8 Q ss_pred CCHHHHHHHHHHHHHHHHCCCC Q ss_conf 9117999999999985433672 Q gi|254780374|r 1 MYRYSFIVLCYSSLLFGCHSSI 22 (238) Q Consensus 1 M~r~~l~~l~~~~lL~GCas~~ 22 (238) |+|.+.++++.+++|+||+... T Consensus 10 ~~~~~~~~~~~~~~l~~~~~~~ 31 (307) T 1w7f_A 10 LKKAAAVLLFSCVALAGCANNQ 31 (307) T ss_dssp ---------------------- T ss_pred HHHHHHHHHHHHHHHHHHCCCC T ss_conf 9999999999999999722344 No 8 >1q02_A Sequestosome 1; helical bundle, protein binding; NMR {Homo sapiens} SCOP: a.5.2.1 PDB: 2jy7_A 2jy8_A 2k0b_X 2knv_A Probab=25.53 E-value=23 Score=14.54 Aligned_cols=13 Identities=8% Similarity=-0.123 Sum_probs=8.9 Q ss_pred CCCCHHHHHHHHH Q ss_conf 4866689999985 Q gi|254780374|r 223 LRPPIGHQLIENL 235 (238) Q Consensus 223 ~~~gwl~r~~~~i 235 (238) ..-|||+|+|+.. T Consensus 24 neGGWLt~LL~sk 36 (52) T 1q02_A 24 DEGGWLTRLLQTK 36 (52) T ss_dssp CTTSHHHHHHHHT T ss_pred CCCHHHHHHHHHC T ss_conf 7653999999980 No 9 >2a2u_A Protein (alpha-2U-globulin); lipid binding protein; 2.50A {Rattus norvegicus} SCOP: b.60.1.1 PDB: 2a2g_A Probab=23.11 E-value=20 Score=14.84 Aligned_cols=21 Identities=0% Similarity=-0.243 Sum_probs=14.5 Q ss_pred EEEEEEEECCCCCEEEEEEEE Q ss_conf 999999980797289978877 Q gi|254780374|r 154 IAAIVTAILENGNLIISGSQE 174 (238) Q Consensus 154 isa~V~~VlpNGnL~I~G~k~ 174 (238) ....|+++..+...++-.... T Consensus 107 ~~~~V~~tdy~~yaivy~~~~ 127 (181) T 2a2u_A 107 NTFTILKTDYDRYVMFHLINF 127 (181) T ss_dssp EEEEEEEECSSSEEEEEEEEE T ss_pred EEEEEEEECCCCEEEEEEEEC T ss_conf 589999944555499999811 No 10 >2f2f_C CDT C, cytolethal distending toxin C; actinobacillus actinomycetemcomitans, oligomerization, stability and toxic activity; 2.40A {Aggregatibacter actinomycetemcomitans} SCOP: b.42.2.1 Probab=22.70 E-value=23 Score=14.43 Aligned_cols=20 Identities=20% Similarity=0.291 Sum_probs=12.5 Q ss_pred CCHHHHHHHHHHHHHHHHCCCC Q ss_conf 9117999999999985433672 Q gi|254780374|r 1 MYRYSFIVLCYSSLLFGCHSSI 22 (238) Q Consensus 1 M~r~~l~~l~~~~lL~GCas~~ 22 (238) |+|+++..++. ++.+|.+.. T Consensus 1 mkK~~i~f~~~--l~~~~~s~~ 20 (186) T 2f2f_C 1 MKKYLLSFLLS--MILTLTSHA 20 (186) T ss_dssp ---------------------- T ss_pred CCHHHHHHHHH--HHHHCCCCC T ss_conf 93248999999--997511455 No 11 >2eyx_A V-CRK sarcoma virus CT10 oncogene homolog isoform A; SH3, signaling protein; NMR {Homo sapiens} Probab=20.13 E-value=35 Score=13.33 Aligned_cols=16 Identities=31% Similarity=0.470 Sum_probs=11.6 Q ss_pred CCCCCCCCCEEEEEEE Q ss_conf 3223676876999997 Q gi|254780374|r 74 DSRALNVGDILTVDIR 89 (238) Q Consensus 74 D~RA~~VGDIiTV~i~ 89 (238) |-=+++.||||+|+-. T Consensus 23 ~eL~f~~GDvi~V~~~ 38 (67) T 2eyx_A 23 TALALEVGELVKVTKI 38 (67) T ss_dssp SBCCBCSSEEEEEEEE T ss_pred CCCCCCCCCEEEEEEE T ss_conf 8867889999999897 No 12 >2kct_A Cytochrome C-type biogenesis protein CCME; solution structure, heme chaperone, cytochrome C biogenesis, OB-fold domain, NESG, PSI-2; NMR {Desulfovibrio vulgaris str} Probab=20.05 E-value=37 Score=13.20 Aligned_cols=14 Identities=14% Similarity=0.361 Sum_probs=6.7 Q ss_pred EEEEEEEECHHHCC Q ss_conf 99999798477678 Q gi|254780374|r 183 SLNVTGIVRPQDVD 196 (238) Q Consensus 183 ~i~isGiVRp~DI~ 196 (238) .||+.|+|-+.-|. T Consensus 10 ~vRvgG~V~~gSi~ 23 (94) T 2kct_A 10 TVRLFGTVAADGLT 23 (94) T ss_dssp CEEEEEEECSTTCE T ss_pred EEEEEEEEECCCEE T ss_conf 79980599689399 Done!