Query gi|254781075|ref|YP_003065488.1| hypothetical protein CLIBASIA_04885 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 266 No_of_seqs 1 out of 3 Neff 1.0 Searched_HMMs 23785 Date Wed Jun 1 00:26:45 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254781075.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 1wyu_B Glycine dehydrogenase s 53.6 6.2 0.00026 18.9 2.3 98 23-140 45-147 (474) 2 3mtv_A NSP1B, papain-like cyst 42.1 10 0.00043 17.6 1.9 37 9-50 84-120 (203) 3 1wyu_A Glycine dehydrogenase ( 38.8 19 0.00081 15.8 3.7 39 100-138 108-146 (438) 4 3del_B Arginine binding protei 21.1 39 0.0016 13.8 3.0 41 176-222 197-237 (242) 5 2g48_C Islet amyloid polypepti 18.6 25 0.0011 15.0 0.5 23 3-28 10-32 (37) 6 1erd_A Pheromone ER-2; NMR {Eu 15.9 34 0.0014 14.2 0.6 14 104-117 22-35 (40) 7 1kvp_A SPV4 capsid protein VP1 15.7 51 0.0022 13.0 2.9 52 132-183 262-315 (497) 8 3iqc_A FLIS, flagellar protein 14.9 54 0.0023 12.9 1.9 18 126-143 108-125 (131) 9 3f4m_A Tumor necrosis factor, 14.6 55 0.0023 12.8 1.7 54 141-194 54-112 (161) 10 2doh_C Fragment, plasminogen-b 14.0 57 0.0024 12.7 1.5 24 191-215 7-30 (30) No 1 >1wyu_B Glycine dehydrogenase subunit 2 (P-protein); alpha(2)beta(2) tetramer, riken structural genomics/proteomics initiative, RSGI; HET: PLP; 2.10A {Thermus thermophilus HB8} SCOP: c.67.1.7 PDB: 1wyt_B* 1wyv_B* Probab=53.65 E-value=6.2 Score=18.93 Aligned_cols=98 Identities=18% Similarity=0.076 Sum_probs=48.1 Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEECCCEEEHHHHH--HH--- Q ss_conf 0878887899999999843334566667999999999999999999999999998531420022222011200--65--- Q gi|254781075|r 23 LSPTEVYNVHRRIWHLLRDDFGYFTKRTFFCFAFFITIIYVFFPIFINFLISYIYKNIGYKISSQYYSLTEYT--WH--- 97 (266) Q Consensus 23 lsptevynvhrriwhllrddfgyftkrtffcfaffitiiyvffpifinflisyiyknigykissqyyslteyt--wh--- 97 (266) +|-.| +-|.+-.|...+.+-.+ . |+|+=--+ +-+-|-.+..+++ -|-++|-|. .- T Consensus 45 ~SE~e---l~r~l~~La~kN~~~~~--~-~~glG~~~--~hyvP~vv~~~~~------------~yTaYTPYQPaEiSQG 104 (474) T 1wyu_B 45 VDELT---LVRHYTGLSRRQVGVDT--T-FYPLGSCT--MKYNPKLHEEAAR------------LFADLHPYQDPRTAQG 104 (474) T ss_dssp CCHHH---HHHHHHHHHTTCCCTTT--S-CCCBTTTC--CCCCCHHHHHHHH------------TTSSCCTTSCGGGCHH T ss_pred CCHHH---HHHHHHHHHHCCCCCCC--C-CCCCCCCC--CCCCHHHHHHHHH------------HHHCCCCCCCHHHHHH T ss_conf 89999---99999999957778444--5-25670316--7728777667999------------9757799998799999 Q ss_pred HHHHHHHHHHHHHHHEECCCCEEEEECCHHHHHHHHHHHHHHH Q ss_conf 4999999999865641117741333102259999999999999 Q gi|254781075|r 98 DIETFLALLYMSCILVATDDRKLRMIEDGDRIIEIIQSIRRAF 140 (266) Q Consensus 98 dietflallymscilvatddrklrmiedgdriieiiqsirraf 140 (266) -.+...-.--|-|-|...|--..-|-..+.-.-|-+...+|.. T Consensus 105 ~LQalfEfQsmi~eLTGMdvaNaS~yDGatA~aeA~~ma~r~~ 147 (474) T 1wyu_B 105 ALRLMWELGEYLKALTGMDAITLEPAAGAHGELTGILIIRAYH 147 (474) T ss_dssp HHHHHHHHHHHHHHHHTCSEEECCCSSHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHH T ss_conf 9999999999999996887446677427899999999999988 No 2 >3mtv_A NSP1B, papain-like cysteine protease; PRRSV, nuclease, hydrol; 2.80A {Porcine reproductive and respiratory svirus} Probab=42.12 E-value=10 Score=17.56 Aligned_cols=37 Identities=32% Similarity=0.400 Sum_probs=27.4 Q ss_pred HHHCCCCHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 652143210032010878887899999999843334566667 Q gi|254781075|r 9 IVATSKKWSFLFAILSPTEVYNVHRRIWHLLRDDFGYFTKRT 50 (266) Q Consensus 9 ivatskkwsflfailsptevynvhrriwhllrddfgyftkrt 50 (266) .|-.+|-|--+| -.+|+||-+-.-+ +.|.|||-||-. T Consensus 84 tv~~g~CW~~~F-~~l~~~v~~~E~~----~A~~fGYQTk~G 120 (203) T 3mtv_A 84 TVPEGNCWWRLL-DSLPPEVQYKEIR----HANQFGYQTKHG 120 (203) T ss_dssp GSCCSCTTGGGG-CSSCHHHHHHHHH----HHHHSSCSSTTC T ss_pred CCCCCCCHHHHH-CCCCHHHHHHHHH----HHHHHCCCCCCC T ss_conf 777774306532-6997677256776----677627535667 No 3 >1wyu_A Glycine dehydrogenase (decarboxylating) subunit 1; alpha(2)beta(2) tetramer, riken structural genomics/proteomics initiative, RSGI; HET: PLP; 2.10A {Thermus thermophilus HB8} SCOP: c.67.1.7 PDB: 1wyt_A* 1wyv_A* Probab=38.78 E-value=19 Score=15.78 Aligned_cols=39 Identities=13% Similarity=0.074 Sum_probs=17.6 Q ss_pred HHHHHHHHHHHHHEECCCCEEEEECCHHHHHHHHHHHHH Q ss_conf 999999998656411177413331022599999999999 Q gi|254781075|r 100 ETFLALLYMSCILVATDDRKLRMIEDGDRIIEIIQSIRR 138 (266) Q Consensus 100 etflallymscilvatddrklrmiedgdriieiiqsirr 138 (266) +....+--|-|-|..-|--.+-|-..+.-..|-+.-++| T Consensus 108 q~l~e~q~~l~eltGmd~~n~s~~dga~a~~ea~~~~~~ 146 (438) T 1wyu_A 108 QATFEYQTMIAELAGLEIANASMYDGATALAEGVLLALR 146 (438) T ss_dssp HHHHHHHHHHHHHHTSSEECSCBSSHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHH T ss_conf 999999999999719775565762688999999999876 No 4 >3del_B Arginine binding protein; alpha and beta protein (A/B), periplasmic protein, protein binding, transport protein; 1.92A {Chlamydia trachomatis} Probab=21.13 E-value=39 Score=13.82 Aligned_cols=41 Identities=12% Similarity=0.361 Sum_probs=27.9 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC Q ss_conf 41248878999975889999986665202456999985403012665 Q gi|254781075|r 176 IGLHQKQIDLIHQNIDRHLARMKNQLVAESDELEDILSRYSIESIPL 222 (266) Q Consensus 176 iglhqkqidlihqnidrhlarmknqlvaesdeledilsrysiesipl 222 (266) +++.+..-+|+. -+++-+++|+ .+.+++.|+.+|.++++-- T Consensus 197 va~~k~~~~l~~-~ln~al~~l~-----~~G~~~~I~~ky~l~~~~~ 237 (242) T 3del_B 197 IGVASDRPALAL-KIEAAVQEIR-----KEGVLAELEQKWGLNNLEH 237 (242) T ss_dssp EEEETTCHHHHH-HHHHHHHHHH-----HTTHHHHHHHHTTGGGCSS T ss_pred EEEECCCHHHHH-HHHHHHHHHH-----HCCHHHHHHHHHCCCHHHH T ss_conf 999489999999-9999999999-----7878999999979954650 No 5 >2g48_C Islet amyloid polypeptide; protein-peptide complex, hydrolase; 2.60A {Homo sapiens} PDB: 2kb8_A 3hgz_D 2kj7_A Probab=18.62 E-value=25 Score=15.03 Aligned_cols=23 Identities=48% Similarity=0.587 Sum_probs=13.9 Q ss_pred HHHHHHHHHCCCCHHHHHHHCCHHHH Q ss_conf 66655665214321003201087888 Q gi|254781075|r 3 ERIANTIVATSKKWSFLFAILSPTEV 28 (266) Q Consensus 3 eriantivatskkwsflfailsptev 28 (266) .|.||-.+..|.. +=||+|||.| T Consensus 10 qrLanFL~rssnn---~Gai~spt~v 32 (37) T 2g48_C 10 QRLANFLVHSSNN---FGAILSSTNV 32 (37) T ss_pred HHHHHHHHHCCCC---CCCEECCCCC T ss_conf 9999998643556---6522077656 No 6 >1erd_A Pheromone ER-2; NMR {Euplotes raikovi} SCOP: a.10.1.1 Probab=15.89 E-value=34 Score=14.22 Aligned_cols=14 Identities=50% Similarity=0.883 Sum_probs=11.3 Q ss_pred HHHHHHHHHEECCC Q ss_conf 99998656411177 Q gi|254781075|r 104 ALLYMSCILVATDD 117 (266) Q Consensus 104 allymscilvatdd 117 (266) .-|||.||-+.||. T Consensus 22 gplymtcigittdp 35 (40) T 1erd_A 22 GPLYMTCIGITTDP 35 (40) T ss_dssp HHHHHHHHHHHTCT T ss_pred CCEEEEEEEECCCC T ss_conf 87057887421487 No 7 >1kvp_A SPV4 capsid protein VP1; bacteriophage SPV4 coat protein, chimera, icosahedral virus; 27.00A {Enterobacteria phage PHIX174} SCOP: b.121.5.1 Probab=15.73 E-value=51 Score=13.03 Aligned_cols=52 Identities=8% Similarity=0.098 Sum_probs=31.7 Q ss_pred HHHHHHHHHHHHHHHHHHH--HHHHHHHHHCCHHHEEEECCCHHHHHHHHHHHH Q ss_conf 9999999998755888887--889999973003100253146477641248878 Q gi|254781075|r 132 IIQSIRRAFDQYKEEERKA--LSDIQEQLLNDASKKIVFSSDREEYIGLHQKQI 183 (266) Q Consensus 132 iiqsirrafdqykeeerka--lsdiqeqllndaskkivfssdreeyiglhqkqi 183 (266) -|.++|+||-.-|-.|+.| -++-.|++..--....--..+|-||+|-..-.+ T Consensus 262 tI~~Lr~a~~~q~~~e~~ar~gtrY~e~i~~hfgv~~~d~~~rpeyLgg~~~~i 315 (497) T 1kvp_A 262 DIMGLQAAYANLHTDQERDYFMQRYRDVISSFGGKTSYDADNRPLLVMRSNLWA 315 (497) T ss_pred CHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHCCCCCCCCCCCCHHHCCCCCCE T ss_conf 299999999999999998761763899999857904763012866342863312 No 8 >3iqc_A FLIS, flagellar protein; chaperone, flagellum; 2.70A {Helicobacter pylori} PDB: 3k1i_A Probab=14.91 E-value=54 Score=12.90 Aligned_cols=18 Identities=11% Similarity=0.311 Sum_probs=8.0 Q ss_pred HHHHHHHHHHHHHHHHHH Q ss_conf 259999999999999875 Q gi|254781075|r 126 GDRIIEIIQSIRRAFDQY 143 (266) Q Consensus 126 gdriieiiqsirrafdqy 143 (266) =|.++.+++.+|-||.|- T Consensus 108 l~ev~~il~~L~eaW~~i 125 (131) T 3iqc_A 108 IDLVLNVARGLLEAWREI 125 (131) T ss_dssp HHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHH T ss_conf 999999999999999988 No 9 >3f4m_A Tumor necrosis factor, alpha-induced protein 8- like protein 2; TIPE2, immune homeostasis, tnfaip8, immune system; 1.70A {Homo sapiens} Probab=14.60 E-value=55 Score=12.85 Aligned_cols=54 Identities=17% Similarity=0.294 Sum_probs=0.0 Q ss_pred HHHHHHHHHHHHHHHHHHHCCHHHEEEE-----CCCHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 8755888887889999973003100253-----14647764124887899997588999 Q gi|254781075|r 141 DQYKEEERKALSDIQEQLLNDASKKIVF-----SSDREEYIGLHQKQIDLIHQNIDRHL 194 (266) Q Consensus 141 dqykeeerkalsdiqeqllndaskkivf-----ssdreeyiglhqkqidlihqnidrhl 194 (266) +|...||-+-..+++..+-.-|-.-|-| +-||.--+++-...-+++||-+.||| T Consensus 54 ~qf~~eEl~~~~~fr~K~~~~amt~iSFyevdfTfD~~~L~~~L~ecr~~L~~lV~~HL 112 (161) T 3f4m_A 54 GSFGPSELALATRFRQKLRQGAMTALSFGEVDFTFEAAVLAGLLTECRDVLLELVEHHL 112 (161) T ss_dssp TCCCHHHHHHHHHHHHHHHHHHHHHHHHTSTTSCCCHHHHHHHHHHHHHHHHHHHTTTS T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHHC T ss_conf 88999999999999999998889985220111342699999999999999999998768 No 10 >2doh_C Fragment, plasminogen-binding group A steptococcal M-like protein PAM; lysine-binding site, kringle domains, hydrolase; HET: DIO; 2.30A {Homo sapiens} PDB: 2kj4_B 1i5k_C 2doi_C Probab=14.04 E-value=57 Score=12.75 Aligned_cols=24 Identities=50% Similarity=0.740 Sum_probs=0.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 8999998666520245699998540 Q gi|254781075|r 191 DRHLARMKNQLVAESDELEDILSRY 215 (266) Q Consensus 191 drhlarmknqlvaesdeledilsry 215 (266) |..|.|.||. -.|..|||..||.| T Consensus 7 daelqrlkne-rheeaelerllsey 30 (30) T 2doh_C 7 DAELQRLKNE-RHEEAELERLLSEY 30 (30) T ss_dssp HHHHHHHHHH-HHHHHHHHHCC--- T ss_pred HHHHHHHHHH-HHHHHHHHHHHHCC T ss_conf 2999998764-55699999987639 Done!