Query gi|254781013|ref|YP_003065426.1| phage-associated protein [Candidatus Liberibacter asiaticus str. psy62] Match_columns 302 No_of_seqs 124 out of 144 Neff 3.0 Searched_HMMs 33803 Date Wed Jun 1 21:21:54 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254781013.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >3k59_A POL II, DNA polymerase 37.5 8.8 0.00026 18.6 0.2 58 162-222 9-66 (116) 2 >1y1x_A Leishmania major homol 28.0 33 0.00096 15.1 1.8 42 134-175 28-71 (79) 3 >2vak_A Sigma A; double-strand 26.2 33 0.00099 15.0 1.6 34 116-149 24-57 (162) 4 >2qac_A Myosin A tail domain i 24.9 45 0.0013 14.2 3.0 42 134-175 6-49 (67) 5 >1dvp_A HRS, hepatocyte growth 21.6 53 0.0016 13.8 4.3 44 34-87 15-59 (73) 6 >1zza_A Stannin, AG8_1; helix, 21.5 53 0.0016 13.8 2.5 15 275-289 24-38 (90) 7 >3khi_A Putative metal-depende 20.6 29 0.00084 15.5 0.3 32 18-51 44-78 (143) 8 >1bjf_A Neurocalcin delta; cal 18.9 59 0.0018 13.5 1.7 59 137-195 32-95 (96) 9 >2j69_A Bacterial dynamin-like 18.8 61 0.0018 13.4 2.2 37 260-299 192-230 (300) 10 >2b4j_C PC4 and SFRS1 interact 18.7 61 0.0018 13.4 2.8 38 167-204 50-87 (98) No 1 >>3k59_A POL II, DNA polymerase II; protein-DNA complex, DNA damage, DNA repair, DNA-binding; HET: DNA DOC DCP; 1.92A {Escherichia coli k-12} PDB: 3k57_A* 3k58_A* 3k5a_A* 3k5l_A* 3k5m_A* 3k5n_A* 3k5o_A* 1q8i_A* (A:426-541) Probab=37.54 E-value=8.8 Score=18.64 Aligned_cols=58 Identities=17% Similarity=0.147 Sum_probs=40.1 Q ss_pred CCCCHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 8789889999853243337742056778999844540795888887764474231246776 Q gi|254781013|r 162 SNISPENVVEQIKKPVRFDSDSEFATLESQLVKGFKSMPPQLTKEFQEAQVQIKKDSAIAR 222 (302) Q Consensus 162 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 222 (302) -|||||.+|.+...+.-.++..++..... +-.++.-|++.++.-+....+|++---++ T Consensus 9 ~Ni~~~Tiv~~~~~~~~~~~~~~~~~~~~---~~~~gi~p~~l~~l~~~R~~~K~~m~d~~ 66 (116) T 3k59_A 9 FLIDPVGLVEGMAQPDPEHSTEGFLDAWF---SREKHCLPEIVTNIWHGRDEAKRQGNKPL 66 (116) T ss_dssp HCCCHHHHHHHHHSCSTTTEEECSTTCEE---ESSCCSHHHHHHHHHHHHHHHHHTTCHHH T ss_pred HCCCCCCCCCCCCCCCCCCCCCCCCCEEE---CHHHHHHHHHHHHHHHHHHHHHHHCCHHH T ss_conf 48997421047767884213345664222---02221369999998852688876502366 No 2 >>1y1x_A Leishmania major homolog of programmed cell death 6 protein; SGPP, structural genomics, PSI, protein structure initiative; 1.95A {Leishmania major strain friedlin} (A:1-79) Probab=27.96 E-value=33 Score=15.09 Aligned_cols=42 Identities=14% Similarity=0.207 Sum_probs=33.5 Q ss_pred CCHHCCCCCCCCCCCEECHHHHHHHCC--CCCCCHHHHHHHHHC Q ss_conf 621216877878642021998664115--787898899998532 Q gi|254781013|r 134 TWRRLYDPNDPNTNRTITVEEITKMAD--GSNISPENVVEQIKK 175 (302) Q Consensus 134 PWkkaYDP~dp~~N~~ItvE~itk~~~--~~~~~~~~~~~~~~~ 175 (302) -|++++.--|..++..|+.+++.++.. |..+|++.+-+-++. T Consensus 28 ~l~~~F~~~D~d~~G~I~~~el~~~l~~~g~~ls~~ei~~~~~~ 71 (79) T 1y1x_A 28 ELMEWFRAVDTDGSGAISVPELNAALSSAGVPFSLATTEKLLHM 71 (79) T ss_dssp CHHHHHHHHCTTCSSSBCHHHHHHHHCBTTBCCCHHHHHHHHHH T ss_pred HHHHHHHHHCCCCCCCCCHHHHHHHHHHHCCCCCHHHHHHHHHH T ss_conf 99999999779984969799999999985026877776677642 No 3 >>2vak_A Sigma A; double-stranded RNA binding, RNA, viral protein; 2.34A {Avian orthoreovirus} (A:1-162) Probab=26.23 E-value=33 Score=15.03 Aligned_cols=34 Identities=21% Similarity=0.374 Sum_probs=25.7 Q ss_pred HCCCCHHHHHHHHCCCCCCCHHCCCCCCCCCCCE Q ss_conf 4489989999965188876212168778786420 Q gi|254781013|r 116 YQSHSTEQLQEIVQEENKTWRRLYDPNDPNTNRT 149 (302) Q Consensus 116 YG~ySA~qLeeLTHqEnSPWkkaYDP~dp~~N~~ 149 (302) +-.....+|++|-..-|+||.+.+++..+-.++- T Consensus 24 ~lp~n~~qls~LLssSNSpWQ~fls~~~~~~~~~ 57 (162) T 2vak_A 24 GLATNRTQLSSLLSSSNSPWQRFLSSMTPLTAPG 57 (162) T ss_dssp BSSCCHHHHHHHSCTTSCSCC------------- T ss_pred CCCCCHHHHHHHHHCCCCHHHHHHCCCCCCCCCC T ss_conf 8885889999998537867677622010146775 No 4 >>2qac_A Myosin A tail domain interacting protein MTIP; malaria invasion, structural genomics, PSI, protein structure initiative; 1.70A {Plasmodium falciparum 3D7} PDB: 2auc_A (A:80-146) Probab=24.92 E-value=45 Score=14.19 Aligned_cols=42 Identities=10% Similarity=0.290 Sum_probs=32.9 Q ss_pred CCHHCCCCCCCCCCCEECHHHHHHH--CCCCCCCHHHHHHHHHC Q ss_conf 6212168778786420219986641--15787898899998532 Q gi|254781013|r 134 TWRRLYDPNDPNTNRTITVEEITKM--ADGSNISPENVVEQIKK 175 (302) Q Consensus 134 PWkkaYDP~dp~~N~~ItvE~itk~--~~~~~~~~~~~~~~~~~ 175 (302) -|+++|.--|++.+..|+.+++-++ +-|..++++.+-.-++. T Consensus 6 ~l~~~F~~~D~d~~G~I~~~el~~~l~~lg~~~~~~e~~~~~~d 49 (67) T 2qac_A 6 ELIKMFAHFDNNCTGYLTKSQMKNILTTWGDALTDQEAIDALNA 49 (67) T ss_dssp HHHHHHHTTCTTCSSEEEHHHHHHHHHHSSSCCCHHHHHHHHHH T ss_pred HHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHH T ss_conf 99987656643898776899999999980899999999999996 No 5 >>1dvp_A HRS, hepatocyte growth factor-regulated tyrosine kinase substrate; VHS, FYVE, zinc finger, superhelix; HET: CIT; 2.00A {Drosophila melanogaster} (A:84-156) Probab=21.58 E-value=53 Score=13.78 Aligned_cols=44 Identities=11% Similarity=0.017 Sum_probs=33.5 Q ss_pred CHHHH-HHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHCCCCCCC Q ss_conf 89999-9999999699999844848867235745688169999998513544442 Q gi|254781013|r 34 DHLKI-QQFIYLTHCDVVLQKKKSMLDEEPQAWKQGPVFVGVYHRFKYFDSHPIE 87 (302) Q Consensus 34 TnLKL-QKLLYyAQg~~La~~gkpLFdE~fEAW~yGPVvP~VY~~FK~yg~~pI~ 87 (302) +|.++ +|+|.+.|.|..+.-+.+=+ +.+.++|+..|.-|...-+ T Consensus 15 ~~~~Vk~kiL~li~~Wa~~f~~~~~l----------~~i~~~Y~~Lk~~G~~FP~ 59 (73) T 1dvp_A 15 PHENVRQKMLELVQTWAYAFRSSDKY----------QAIKDTMTILKAKGHTFPE 59 (73) T ss_dssp SCHHHHHHHHHHHHHHHHHTTTCSSC----------CHHHHHHHHHHHTTCCCCC T ss_pred CCHHHHHHHHHHHHHHHHHCCCCCCC----------HHHHHHHHHHHHCCCCCCC T ss_conf 98899999999999999980788440----------8999999999977866665 No 6 >>1zza_A Stannin, AG8_1; helix, membrane protein; NMR {Homo sapiens} (A:) Probab=21.50 E-value=53 Score=13.77 Aligned_cols=15 Identities=33% Similarity=0.844 Sum_probs=11.5 Q ss_pred HHHHHHHHHHHHHHH Q ss_conf 998999999999986 Q gi|254781013|r 275 VVSLSAIICGFWAIV 289 (302) Q Consensus 275 ~~~~~~~~~~~~~~~ 289 (302) +..|+|.|||.|... T Consensus 24 vaalg~li~~cwcyl 38 (90) T 1zza_A 24 IAALGALILGCWCYL 38 (90) T ss_dssp HHHHHHHHHHHHTTT T ss_pred HHHHHHHHHHHHHHH T ss_conf 999889999999999 No 7 >>3khi_A Putative metal-dependent hydrolase; structural genomics, joint center for structural genomics, JCSG, protein structure initiative; 1.95A {Klebsiella pneumoniae subsp} PDB: 3dl1_A (A:1-143) Probab=20.57 E-value=29 Score=15.45 Aligned_cols=32 Identities=13% Similarity=0.117 Sum_probs=15.9 Q ss_pred HHHHHHH-HHHH--CCCCCCHHHHHHHHHHHHHHHHH Q ss_conf 9999999-6663--59878899999999999699999 Q gi|254781013|r 18 VANFFID-KGVK--YSIPIDHLKIQQFIYLTHCDVVL 51 (302) Q Consensus 18 VANyFI~-kA~e--~g~~ITnLKLQKLLYyAQg~~La 51 (302) .+..||. |... .|..+| --+|++-=||+.-+. T Consensus 44 ~~~~FL~eK~f~G~~Glevt--demk~~IAAqAclli 78 (143) T 3khi_A 44 XAARFLQQKRLVALQGLELT--PLHQARIAXLFCLPV 78 (143) T ss_dssp HHHHHHHHCEEEECTTCCCC--HHHHHHHHHHHHGGG T ss_pred HHHHHHCCCEEECCCCCCCC--HHHHHHHHHHHHHHH T ss_conf 99998542568356887667--689999999999998 No 8 >>1bjf_A Neurocalcin delta; calcium-binding, myristoylation, neuronal specific guanylate cyclase activator; 2.40A {Escherichia coli} (A:1-96) Probab=18.93 E-value=59 Score=13.46 Aligned_cols=59 Identities=12% Similarity=0.038 Sum_probs=29.6 Q ss_pred HCCCCCCCCCCCEECHHHHHHHCCCCCCCHHHHHHHHHCCCCCCCC-----CHHHHHHHHHHHH Q ss_conf 2168778786420219986641157878988999985324333774-----2056778999844 Q gi|254781013|r 137 RLYDPNDPNTNRTITVEEITKMADGSNISPENVVEQIKKPVRFDSD-----SEFATLESQLVKG 195 (302) Q Consensus 137 kaYDP~dp~~N~~ItvE~itk~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~ 195 (302) +.|+..|++..-.+...+.....-+.+.+++-.++++=.-+--|.| .||...-|.+.+| T Consensus 32 ~~F~~ld~~~~~~~~~~~~~~~~~~~~~~~~~~~~~if~~~D~d~dG~I~f~EFv~~ls~~~~G 95 (96) T 1bjf_A 32 KGFLRDCPSGHLSMEEFKKIYGNFFPYGDASKFAEHVFRTFDANGDGTIDFREFIIALSVTSRG 95 (96) T ss_dssp HHHHHHSTTSEEEHHHHHHHHTTTSSSSCCHHHHHHHHHHHCSSCSSEEEHHHHHHHHHHHTSS T ss_pred HHHHHHCCCCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHH T ss_conf 9999778999805999999999846899889999999973046899989599999999997100 No 9 >>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A (A:358-657) Probab=18.79 E-value=61 Score=13.41 Aligned_cols=37 Identities=27% Similarity=0.371 Sum_probs=27.5 Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHCHHHCCCCC Q ss_conf 04899975223678899899999999--99861102102477 Q gi|254781013|r 260 SNVFAQLCESKYIATVVSLSAIICGF--WAIVGKGLFGVHND 299 (302) Q Consensus 260 ~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~ 299 (302) .++|.++|..--|+.|+. ++-|. ||.+|-|++..+.+ T Consensus 192 ~~~~~v~gIg~~i~~v~g---i~lgp~G~aLig~gvg~~qa~ 230 (300) T 2j69_A 192 LNYFTVIGIGGIITAVTG---ILLGPIGFALLGLGVGFLQAD 230 (300) T ss_dssp HHHHHTTCSSTTTHHHHH---HHHHHHHHHHHHTTTTSSCHH T ss_pred HHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH T ss_conf 889999998788999888---887789999999889999778 No 10 >>2b4j_C PC4 and SFRS1 interacting protein; HIV, integration, transcription, viral protein, recombination; 2.02A {Homo sapiens} (C:) Probab=18.66 E-value=61 Score=13.39 Aligned_cols=38 Identities=21% Similarity=0.218 Sum_probs=30.7 Q ss_pred HHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCCHHHH Q ss_conf 89999853243337742056778999844540795888 Q gi|254781013|r 167 ENVVEQIKKPVRFDSDSEFATLESQLVKGFKSMPPQLT 204 (302) Q Consensus 167 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 204 (302) -.+|+-|||--||-.+.+.-.....+-.+||+|-..-+ T Consensus 50 ~e~V~tikklrry~gn~~Ir~kA~~lY~kfK~lF~~~e 87 (98) T 2b4j_C 50 TEMITTLKKIRRFKVSQVIMEKSTMLYNKFKNMFLVGE 87 (98) T ss_dssp HHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHHC----- T ss_pred HHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCCC T ss_conf 49999999999865509999999999999999971742 Done!