Query gi|254781080|ref|YP_003065493.1| hypothetical protein CLIBASIA_04910 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 85 No_of_seqs 100 out of 205 Neff 3.6 Searched_HMMs 23785 Date Wed Jun 1 00:35:08 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254781080.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 1gk7_A Vimentin; intermediate 62.0 5.1 0.00022 20.6 3.0 28 9-36 11-38 (39) 2 2vkl_A RV0948C/MT0975; helical 58.1 11 0.00048 18.4 7.3 79 2-80 6-89 (90) 3 2kna_A Baculoviral IAP repeat- 32.0 29 0.0012 15.8 3.4 24 36-59 29-52 (104) 4 2f46_A Hypothetical protein; 7 23.0 26 0.0011 16.1 1.4 27 33-59 129-155 (156) 5 2hv8_D RAB11 family-interactin 22.2 35 0.0015 15.3 1.9 13 9-21 38-50 (64) 6 2g8y_A Malate/L-lactate dehydr 21.5 45 0.0019 14.6 2.7 51 3-53 24-74 (385) 7 2z0r_A Putative uncharacterize 20.3 28 0.0012 15.9 1.1 17 68-84 58-74 (103) 8 3gpv_A Transcriptional regulat 16.1 60 0.0025 13.8 4.1 24 39-62 67-90 (148) 9 1wle_A Seryl-tRNA synthetase; 15.2 63 0.0026 13.7 9.1 38 10-47 76-113 (501) 10 3i0p_A Malate dehydrogenase; a 15.2 63 0.0026 13.7 2.5 50 4-53 5-54 (365) No 1 >1gk7_A Vimentin; intermediate filament, heptad repeat; 1.4A {Homo sapiens} SCOP: h.1.20.1 PDB: 3g1e_A Probab=62.01 E-value=5.1 Score=20.63 Aligned_cols=28 Identities=21% Similarity=0.564 Sum_probs=24.1 Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 0899999999999999999999999999 Q gi|254781080|r 9 TQDQLRTFIERLERLEEEKKLLTENIKD 36 (85) Q Consensus 9 a~~~Lr~~IERIErLeeEkk~i~~dikd 36 (85) -.++|-+||+++-.||.+-+.+...|+. T Consensus 11 LNdRlA~YidkVr~LE~~N~~Le~~i~~ 38 (39) T 1gk7_A 11 LNDRFANYIDKVRFLEQQNKILLAELEQ 38 (39) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHTT T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 9899999999999899989999999974 No 2 >2vkl_A RV0948C/MT0975; helical, intracellular, chorismate mutase, isomerase; 1.65A {Mycobacterium tuberculosis} PDB: 2qbv_A 2w19_C 2w1a_C* Probab=58.07 E-value=11 Score=18.43 Aligned_cols=79 Identities=16% Similarity=0.082 Sum_probs=56.5 Q ss_pred CCHHHHCCHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH-CCHHHHHHHHHHHHHHH Q ss_conf 4124310089999999999----999999999999999999998758987999999999961-89999999999999999 Q gi|254781080|r 2 IDNIQNVTQDQLRTFIERL----ERLEEEKKLLTENIKDIYGEAKATGFDVKAIKKILSLRK-KDEKQWMEEEQILDVYL 76 (85) Q Consensus 2 ~~~~~~va~~~Lr~~IERI----ErLeeEkk~i~~dikdVyaEAK~~GfD~K~lr~IiklRk-~d~~er~E~e~iLd~Y~ 76 (85) +++.....=++||.-|..| -.|-.+...++..|..+..+....-||+.=-.+|++-.+ ..+.--.=.++++.+|+ T Consensus 6 ~~~~~~~~L~~lR~~ID~iD~~i~~LL~~R~~l~~~Ig~~K~~~g~~i~dp~RE~~vl~r~~~~~~eg~~~a~~ll~i~R 85 (90) T 2vkl_A 6 LESQPVPEIDTLREEIDRLDAEILALVKRRAEVSKAIGKARMASGGTRLVHSREMKVIERYSELGPDGKDLAILLLRLGR 85 (90) T ss_dssp -------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCCCTTTHHHHHHHHHHTTCHHHHHHHHHHHHHTS T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH T ss_conf 47986578999999999999999999999999999999999984999879599999999999876313069999999971 Q ss_pred HHHC Q ss_conf 9859 Q gi|254781080|r 77 RALG 80 (85) Q Consensus 77 ~ALG 80 (85) ..|| T Consensus 86 ~~~~ 89 (90) T 2vkl_A 86 GRLG 89 (90) T ss_dssp CCCC T ss_pred HCCC T ss_conf 2238 No 3 >2kna_A Baculoviral IAP repeat-containing protein 4; XIAP, UBA, apoptosis, ligase, metal-binding, phosphoprotein, inhibitor, thiol protease inhibitor; NMR {Homo sapiens} Probab=32.03 E-value=29 Score=15.83 Aligned_cols=24 Identities=38% Similarity=0.483 Sum_probs=19.8 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHH Q ss_conf 999998758987999999999961 Q gi|254781080|r 36 DIYGEAKATGFDVKAIKKILSLRK 59 (85) Q Consensus 36 dVyaEAK~~GfD~K~lr~IiklRk 59 (85) .|-..|-..||++..+|++|+-|= T Consensus 29 pvV~~AleMGF~~~~Ir~~v~rk~ 52 (104) T 2kna_A 29 PMVQEAIRMGFSFKDIKKIMEEKI 52 (104) T ss_dssp THHHHHHHTTCCHHHHHHHHHHHH T ss_pred HHHHHHHHCCCCHHHHHHHHHHHH T ss_conf 999999991898999999999999 No 4 >2f46_A Hypothetical protein; 7380613, DUF442, structural genomics, joint center for structural genomics, JCSG; HET: MSE; 1.41A {Neisseria meningitidis Z2491} Probab=23.00 E-value=26 Score=16.11 Aligned_cols=27 Identities=19% Similarity=0.405 Sum_probs=21.9 Q ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHHH Q ss_conf 999999998758987999999999961 Q gi|254781080|r 33 NIKDIYGEAKATGFDVKAIKKILSLRK 59 (85) Q Consensus 33 dikdVyaEAK~~GfD~K~lr~IiklRk 59 (85) ..-++.++++..|||.--+++-+.-|| T Consensus 129 ~~e~al~~~~~~G~~~~~~~~~l~~~~ 155 (156) T 2f46_A 129 PVDEIIRRAQAAGVNLENFRERLDNAR 155 (156) T ss_dssp CHHHHHHHHHHTTCCCGGGHHHHHHTC T ss_pred CHHHHHHHHHHHCCCHHHHHHHHHHHC T ss_conf 999999999982999688899998702 No 5 >2hv8_D RAB11 family-interacting protein 3; protein transport, RAB11A, FIP3, cytokinesis, recycling endosomes; HET: GTP MES; 1.86A {Homo sapiens} SCOP: h.1.31.1 Probab=22.24 E-value=35 Score=15.31 Aligned_cols=13 Identities=23% Similarity=0.493 Sum_probs=8.6 Q ss_pred CHHHHHHHHHHHH Q ss_conf 0899999999999 Q gi|254781080|r 9 TQDQLRTFIERLE 21 (85) Q Consensus 9 a~~~Lr~~IERIE 21 (85) ...+||+||++|- T Consensus 38 ~N~rLR~YID~Il 50 (64) T 2hv8_D 38 INFRLQDYIDRII 50 (64) T ss_dssp HHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHH T ss_conf 9999999999999 No 6 >2g8y_A Malate/L-lactate dehydrogenases; NAD, E.coli, structural genomics, PSI, protein structure initiative, midwest center for structural genomics; HET: NAD 1PE; 2.15A {Escherichia coli K12} Probab=21.54 E-value=45 Score=14.62 Aligned_cols=51 Identities=18% Similarity=0.204 Sum_probs=35.5 Q ss_pred CHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHH Q ss_conf 124310089999999999999999999999999999998758987999999 Q gi|254781080|r 3 DNIQNVTQDQLRTFIERLERLEEEKKLLTENIKDIYGEAKATGFDVKAIKK 53 (85) Q Consensus 3 ~~~~~va~~~Lr~~IERIErLeeEkk~i~~dikdVyaEAK~~GfD~K~lr~ 53 (85) +....+..+.|++|+..+=+=--=...-+..+-+++.+|--+|.+..=+.. T Consensus 24 ~~~~r~~~~~L~~~~~~~l~~~G~~~~~A~~vA~~Lv~Adl~G~~SHG~~r 74 (385) T 2g8y_A 24 ESGHRFDAQTLHSFIQAVFRQMGSEEQEAKLVADHLIAANLAGHDSHGIGM 74 (385) T ss_dssp -CCEEECHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHTCGGGTGGG T ss_pred CCCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCCCCHHH T ss_conf 635303899999999999998699999999999999999808986778989 No 7 >2z0r_A Putative uncharacterized protein TTHA0547; alpha/beta protein, structural genomics, unknown function, NPPSFA; 2.30A {Thermus thermophilus HB8} Probab=20.32 E-value=28 Score=15.91 Aligned_cols=17 Identities=47% Similarity=0.790 Sum_probs=13.2 Q ss_pred HHHHHHHHHHHHCCCCC Q ss_conf 99999999998598867 Q gi|254781080|r 68 EEQILDVYLRALGMLKD 84 (85) Q Consensus 68 ~e~iLd~Y~~ALGm~~~ 84 (85) --++-+.|+.||||+.- T Consensus 58 ~~ALKEayL~ALG~L~V 74 (103) T 2z0r_A 58 SRALKEAYLRALGMLQV 74 (103) T ss_dssp SHHHHHHHHHHHHHTTC T ss_pred HHHHHHHHHHHHHHCCE T ss_conf 68889999999754043 No 8 >3gpv_A Transcriptional regulator, MERR family; protein structure initiative II(PSI II), NYSGXRC, structural genomics; 1.90A {Bacillus thuringiensis serovarkonkukian} Probab=16.05 E-value=60 Score=13.84 Aligned_cols=24 Identities=21% Similarity=0.324 Sum_probs=18.4 Q ss_pred HHHHHCCCCHHHHHHHHHHHHCCH Q ss_conf 998758987999999999961899 Q gi|254781080|r 39 GEAKATGFDVKAIKKILSLRKKDE 62 (85) Q Consensus 39 aEAK~~GfD~K~lr~IiklRk~d~ 62 (85) ...+..||..+-+++++.+..... T Consensus 67 ~~lr~~G~sL~eIk~ll~~~~~~~ 90 (148) T 3gpv_A 67 LCLKNTGMPIQKIKQFIDWSMEGD 90 (148) T ss_dssp HHHHTTTCCHHHHHHHHHHHHHCG T ss_pred HHHHHCCCCHHHHHHHHHHHHCCC T ss_conf 999996999999999998886689 No 9 >1wle_A Seryl-tRNA synthetase; ligase; HET: SRP; 1.65A {Bos taurus} Probab=15.20 E-value=63 Score=13.70 Aligned_cols=38 Identities=26% Similarity=0.424 Sum_probs=31.4 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC Q ss_conf 89999999999999999999999999999998758987 Q gi|254781080|r 10 QDQLRTFIERLERLEEEKKLLTENIKDIYGEAKATGFD 47 (85) Q Consensus 10 ~~~Lr~~IERIErLeeEkk~i~~dikdVyaEAK~~GfD 47 (85) -+++|+....++.|..+++.++..|+......+..+-. T Consensus 76 d~e~r~l~~e~e~Lr~erN~~sk~I~~l~~~~~~~~~~ 113 (501) T 1wle_A 76 WQELRQLREQIRSLEEEKEAVTEAVRALVVNQDNSQVQ 113 (501) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCTTGG T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHC T ss_conf 99999999999999999999999999998567751000 No 10 >3i0p_A Malate dehydrogenase; araerobic parasitic protozoan, amoebic dysentery, ssgcid, niaid, infectious disease, structural genomics; HET: NAD; 2.60A {Entamoeba histolytica} Probab=15.18 E-value=63 Score=13.70 Aligned_cols=50 Identities=18% Similarity=0.287 Sum_probs=35.2 Q ss_pred HHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHH Q ss_conf 24310089999999999999999999999999999998758987999999 Q gi|254781080|r 4 NIQNVTQDQLRTFIERLERLEEEKKLLTENIKDIYGEAKATGFDVKAIKK 53 (85) Q Consensus 4 ~~~~va~~~Lr~~IERIErLeeEkk~i~~dikdVyaEAK~~GfD~K~lr~ 53 (85) .+-.++.++|++|+.++=.=--=...-++.+.+.+-+|--+|.|..=+.. T Consensus 5 ~~~~i~~~~l~~~~~~~l~~~G~~~~~A~~va~~Lv~adl~G~~SHG~~r 54 (365) T 3i0p_A 5 QTKNVSIDTIKEFMYQVLLKVGSDEENARMVRDTLIAADLRGMDTHGIQR 54 (365) T ss_dssp CEEEECHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTCTTSSGGG T ss_pred CCEEECHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCCCCHHH T ss_conf 65254599999999999998699999999999999999808974659757 Done!