Query gi|255764469|ref|YP_003064807.2| putative permease protein [Candidatus Liberibacter asiaticus str. psy62] Match_columns 361 No_of_seqs 133 out of 2399 Neff 9.6 Searched_HMMs 23785 Date Mon May 30 10:31:53 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 255764469.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 3my2_A Lipopolysaccharide expo 33.0 9.4 0.0004 15.2 0.5 37 174-210 60-97 (175) 2 2iub_A CORA, divalent cation t 24.0 25 0.0011 12.9 2.6 71 285-359 283-360 (363) 3 2rdc_A Uncharacterized protein 18.0 35 0.0015 12.2 1.7 16 316-331 102-117 (153) 4 1wpg_A Sarcoplasmic/endoplasmi 9.4 64 0.0027 10.8 3.0 40 49-88 293-332 (994) 5 2knc_B Integrin beta-3; transm 6.6 86 0.0036 10.1 2.0 32 90-121 2-33 (79) 6 3ixz_A Potassium-transporting 4.5 1.4E+02 0.0059 9.0 8.9 43 46-88 325-367 (1034) 7 1ufg_A Lamin A, nuclear lamin; 3.9 1.3E+02 0.0055 9.1 -0.5 34 177-210 38-71 (151) 8 1oed_C Acetylcholine receptor 3.4 1.9E+02 0.0082 8.2 5.5 21 8-28 4-24 (260) 9 3hn9_A Lamin-B1; structural ge 3.4 1.5E+02 0.0065 8.7 -0.5 33 178-210 14-46 (123) 10 2zxe_A Na, K-ATPase alpha subu 3.2 2.1E+02 0.0088 8.0 8.1 68 10-86 293-360 (1028) No 1 >3my2_A Lipopolysaccharide export system protein LPTC; lipopolysaccharide export pathway, structural genomics scottish structural proteomics facility; 2.20A {Escherichia coli} Probab=32.97 E-value=9.4 Score=15.16 Aligned_cols=37 Identities=24% Similarity=0.136 Sum_probs=21.8 Q ss_pred HHHCCCCCCCCCCCCCHHHHHHHCCCCCCCC-CCCCCC Q ss_conf 2200000121111220244442011114578-511116 Q gi|255764469|r 174 HIWEDFTSITIDKKNKIIHRKDADLAIIYND-KVKLKK 210 (361) Q Consensus 174 ~~~~~v~i~~~~~~~~~~~~i~A~~~~~~~~-~~~l~~ 210 (361) ..+.+..+..+++++...+.+.|++|.++++ .+.|.+ T Consensus 60 ~~l~~P~~~~~~~~~~~~w~itA~~g~~~~~~~l~L~g 97 (175) T 3my2_A 60 SWFTQPVLTTFDKDKIPTWSVKADKAKLTNDRMLYLYG 97 (175) T ss_dssp EEEESCEEEEECTTCCEEEEEECSEEEECTTSEEEEEE T ss_pred EEEECCEEEEECCCCCCEEEEEECEEEECCCCEEEEEC T ss_conf 48825599997489982299993858987996899964 No 2 >2iub_A CORA, divalent cation transport-related protein; membrane protein, ION transporter; 2.9A {Thermotoga maritima} SCOP: d.328.1.1 f.17.3.1 PDB: 2hn2_A 2bbj_A Probab=23.97 E-value=25 Score=12.88 Aligned_cols=71 Identities=14% Similarity=0.162 Sum_probs=29.5 Q ss_pred HHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC-CC----H--HHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999999997504122431379999999999999999999999975078-37----9--699999999999999999987 Q gi|255764469|r 285 VAMTLIAASVSLEFSRSNQPRIIVAYGIFSGFMLYTIITIMKSFGKSGI-LL----P--VAAALIPVILTISLSILILLQ 357 (361) Q Consensus 285 ~~l~lla~~l~~~~~R~~~~~~~i~~~i~~~~~~y~l~~~~~~l~~~g~-l~----p--~~a~w~P~~~~~~~~~~ll~~ 357 (361) .+-.+.....+....|... ...+.+.+. .++.-+..++...|-|-. +| | +..+|.. ++.+.++.++++| T Consensus 283 ~l~~l~d~~~s~~s~~~N~-~mk~LTiis--~IFlPlTfIaGiyGMNf~~mPel~~~~gy~~~l~~-m~~~~~~~~~~fk 358 (363) T 2iub_A 283 IVSGLLDVYLSSVSNKTNE-VMKVLTIIA--TIFMPLTFIAGIYGMNFEYMPELRWKWGYPVVLAV-MGVIAVIMVVYFK 358 (363) T ss_dssp HHHHHHHHHHHHHHHHHHH-HHHHHHHHH--HHHHHHHHHTTSCC--------------CHHHHHH-HHHHHHHHHTTTT T ss_pred HHHHHHHHHHHHHHHHHHH-HHHHHHHHH--HHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHH-HHHHHHHHHHHHH T ss_conf 9999999999999999999-999999999--99999999981655646999854576799999999-9999999999999 Q ss_pred HH Q ss_conf 50 Q gi|255764469|r 358 KE 359 (361) Q Consensus 358 ~e 359 (361) |. T Consensus 359 rk 360 (363) T 2iub_A 359 KK 360 (363) T ss_dssp SC T ss_pred HC T ss_conf 82 No 3 >2rdc_A Uncharacterized protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE; 1.80A {Geobacter sulfurreducens pca} Probab=17.96 E-value=35 Score=12.17 Aligned_cols=16 Identities=13% Similarity=0.233 Sum_probs=8.2 Q ss_pred HHHHHHHHHHHHHHHH Q ss_conf 9999999999999750 Q gi|255764469|r 316 FMLYTIITIMKSFGKS 331 (361) Q Consensus 316 ~~~y~l~~~~~~l~~~ 331 (361) |-=|++-..++-+.+. T Consensus 102 iNRy~vkeyge~l~ea 117 (153) T 2rdc_A 102 FNRYIVKEYGEELKEA 117 (153) T ss_dssp HHHHHHHHHHHHHHHT T ss_pred HHHHHHHHHHHHHHHC T ss_conf 9999999985888873 No 4 >1wpg_A Sarcoplasmic/endoplasmic reticulum calcium ATPase 1; membrane protein, P-type ATPase, HAD fold, hydrolase; HET: ADP TG1; 2.30A {Oryctolagus cuniculus} SCOP: b.82.7.1 c.108.1.7 d.220.1.1 f.33.1.1 PDB: 1kju_A 1iwo_A 1t5s_A* 1t5t_A* 1vfp_A* 1su4_A* 1xp5_A* 2agv_A* 2by4_A* 2c88_A* 2c8k_A* 2c8l_A* 2c9m_A 2o9j_A* 2oa0_A* 3b9b_A 3b9r_A* 3fgo_A* 3fpb_A* 3fps_A* ... Probab=9.36 E-value=64 Score=10.76 Aligned_cols=40 Identities=8% Similarity=-0.020 Sum_probs=23.9 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCH Q ss_conf 9999999998689999999999999999999998740102 Q gi|255764469|r 49 SRGAVLAATRVPLIIQQIIPFITLVVNIVVFFNLNRTSEL 88 (361) Q Consensus 49 ~~~~~~~~~~lP~~l~~~lP~a~lla~i~~~~~l~~~~El 88 (361) ...+......+...++..+|+++-++..+...||.+++-+ T Consensus 293 ~~~~~~~~~l~v~~iP~~L~~~~~~~~~~~~~~l~~~~i~ 332 (994) T 1wpg_A 293 IYYFKIAVALAVAAIPEGLPAVITTCLALGTRRMAKKNAI 332 (994) T ss_dssp GGHHHHHHHHHHHHSCTTHHHHHHHHHHHHHHHHHTTTEE T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCE T ss_conf 9999999999998714423457789999999998642254 No 5 >2knc_B Integrin beta-3; transmembrane signaling, coiled coil, protein structure, alternative splicing, calcium, cell adhesion; NMR {Homo sapiens} Probab=6.64 E-value=86 Score=10.07 Aligned_cols=32 Identities=19% Similarity=0.289 Sum_probs=22.7 Q ss_pred HHHHHCCCHHHHHHHCCHHHHHHHHHHHHHCC Q ss_conf 77661635012332101135899999986414 Q gi|255764469|r 90 ISRAIGISIWQLLNPFVVGSILLGIFTVLVIN 121 (361) Q Consensus 90 al~a~GiS~~~i~~p~l~~~~~i~~~~~~~~~ 121 (361) ||-|-|-...-++.+++...+++|++.++..- T Consensus 2 ~~~~~~pni~~Ivlgvi~~IvliGl~~LliwK 33 (79) T 2knc_B 2 AMGSKGPDILVVLLSVMGAILLIGLAALLIWK 33 (79) T ss_dssp CSSCSSSCSHHHHHHHHHHHHHHHHHHHHHHH T ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 88889989433999999999999999999999 No 6 >3ixz_A Potassium-transporting ATPase alpha; ION pump, H+, K+-ATPase, P-type ATPase, membrane protein, hydrolase, aluminium fluoride, ATP-binding; 6.50A {Sus scrofa} PDB: 1iwc_A 1iwf_A Probab=4.47 E-value=1.4e+02 Score=8.96 Aligned_cols=43 Identities=14% Similarity=0.063 Sum_probs=21.5 Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCH Q ss_conf 9989999999998689999999999999999999998740102 Q gi|255764469|r 46 YSISRGAVLAATRVPLIIQQIIPFITLVVNIVVFFNLNRTSEL 88 (361) Q Consensus 46 ~~~~~~~~~~~~~lP~~l~~~lP~a~lla~i~~~~~l~~~~El 88 (361) .+....+...+-.+...++..+|+++-++..+...+|.+++=+ T Consensus 325 ~~~~~~~~~~i~ilv~~iP~~L~~~v~~~l~~~~~~l~~~~il 367 (1034) T 3ixz_A 325 YTFLRAMVFFMAIVVAYVPEGLLATVTVCLSLTAKRLASKNCV 367 (1034) T ss_pred CCHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCEEE T ss_conf 5288999999999999753778889999999987776431046 No 7 >1ufg_A Lamin A, nuclear lamin; immunoglobulin like fold, structural genomics, riken structural genomics/proteomics initiative, RSGI, structural protein; NMR {Mus musculus} SCOP: b.1.16.1 Probab=3.95 E-value=1.3e+02 Score=9.12 Aligned_cols=34 Identities=6% Similarity=0.123 Sum_probs=19.5 Q ss_pred CCCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCC Q ss_conf 0000121111220244442011114578511116 Q gi|255764469|r 177 EDFTSITIDKKNKIIHRKDADLAIIYNDKVKLKK 210 (361) Q Consensus 177 ~~v~i~~~~~~~~~~~~i~A~~~~~~~~~~~l~~ 210 (361) .+|.|.+.|.+++..+......-..+-+.|.+++ T Consensus 38 G~V~I~E~d~~Ge~VeL~N~~~~~vdL~GW~l~~ 71 (151) T 1ufg_A 38 GRVAVEEVDEEGKFVRLRNKSNEDQSMGNWQIRR 71 (151) T ss_dssp SSEEEEEECTTSSEEEEEECSSSCEECSSCEEEE T ss_pred CCEEEEEECCCCCEEEEEECCCCCEECCCCEEEE T ss_conf 9878999769998999993999947137848985 No 8 >1oed_C Acetylcholine receptor protein, delta chain; ION channel/receptor, ION channel, tubular crystal, transmembrane; 4.0A {Torpedo marmorata} SCOP: f.36.1.1 PDB: 1a11_A 1cek_A 1eq8_A Probab=3.43 E-value=1.9e+02 Score=8.21 Aligned_cols=21 Identities=14% Similarity=0.361 Sum_probs=8.6 Q ss_pred HHHHHHHHHHHHHHHHHHHHH Q ss_conf 999999999999999999999 Q gi|255764469|r 8 YFFKYYLKTTLYFLLGAMILV 28 (361) Q Consensus 8 Yi~k~~l~~f~~~~~~~~~l~ 28 (361) |++--++..++.+++.+++.+ T Consensus 4 Y~~nli~Pc~li~~ls~l~F~ 24 (260) T 1oed_C 4 YVINFITPCVLISFLASLAFY 24 (260) T ss_dssp HHHHHHHHHHHHHHHHHHHHH T ss_pred EEEHHHHHHHHHHHHHHHHHC T ss_conf 987199999999999999705 No 9 >3hn9_A Lamin-B1; structural genomics, structural genomics consortium, SGC, acetylation, chromosomal rearrangement, coiled coil, intermediate filament; 2.00A {Homo sapiens} PDB: 2kpw_A Probab=3.41 E-value=1.5e+02 Score=8.74 Aligned_cols=33 Identities=15% Similarity=0.055 Sum_probs=0.0 Q ss_pred CCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCC Q ss_conf 000121111220244442011114578511116 Q gi|255764469|r 178 DFTSITIDKKNKIIHRKDADLAIIYNDKVKLKK 210 (361) Q Consensus 178 ~v~i~~~~~~~~~~~~i~A~~~~~~~~~~~l~~ 210 (361) +|.|.+.+.+++..+.........+-+.|.+++ T Consensus 14 ~V~I~e~~~~ge~VeL~N~~~~~vdL~GW~l~d 46 (123) T 3hn9_A 14 NVCIEEIDVDGKFIRLKNTSEQDQPMGGWEMIR 46 (123) T ss_dssp SEEEEEECTTSSEEEEEECSSSCEECTTCEEEE T ss_pred CEEEEEECCCCCEEEEECCCCCCEECCCEEEEE T ss_conf 989999769998999991999868628839996 No 10 >2zxe_A Na, K-ATPase alpha subunit; membrane protein, ION pump, ATPase, K+ binding, haloacid dehydrogenease superfamily, phosphate analogue; HET: CLR NAG NDG; 2.40A {Squalus acanthias} PDB: 3a3y_A* 3b8e_A* 3kdp_A* 1mo7_A 1mo8_A* 1q3i_A Probab=3.21 E-value=2.1e+02 Score=8.03 Aligned_cols=68 Identities=9% Similarity=0.056 Sum_probs=0.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 99999999999999999999999999999873037999899999999986899999999999999999999987401 Q gi|255764469|r 10 FKYYLKTTLYFLLGAMILVFVIDLNEIQNQMGELPNYSISRGAVLAATRVPLIIQQIIPFITLVVNIVVFFNLNRTS 86 (361) Q Consensus 10 ~k~~l~~f~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~lP~~l~~~lP~a~lla~i~~~~~l~~~~ 86 (361) ...+...+..+.+.....+++..... +.+....+....-.+...++..+|+++-++......+|.+++ T Consensus 293 ~~~~~~~~~~i~~~~~~~~~i~~~~~---------~~~~~~~i~~~i~ilv~~iP~~L~~~~~~~~~~~~~~l~~~~ 360 (1028) T 2zxe_A 293 IEHFIHIITGVAVFLGVSFFILSLIL---------GYSWLEAVIFLIGIIVANVPEGLLATVTVCLTLTAKRMARKN 360 (1028) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHT---------TCCHHHHHHHHHHHHHHHSCTTHHHHHHHHHHHHHHHHHTTT T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCC T ss_conf 99999999999999999999988875---------118999999998887247754899999999999999997569 Done!