Query gi|254781190|ref|YP_003065603.1| hypothetical protein CLIBASIA_05485 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 233 No_of_seqs 140 out of 347 Neff 7.7 Searched_HMMs 33803 Date Wed Jun 1 23:33:53 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254781190.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >1ro2_A Hypothetical protein O 99.8 9.5E-20 2.8E-24 132.5 4.8 135 2-141 46-193 (216) 2 >3h20_A Replication protein B; 82.7 2.9 8.5E-05 20.2 5.4 65 3-71 48-114 (212) 3 >3kya_A Putative phosphatase; 34.5 22 0.00065 15.1 1.8 28 84-111 57-84 (128) 4 >2yhx_A Hexokinase B; transfer 29.1 14 0.0004 16.3 0.0 31 1-31 46-76 (284) 5 >1dt9_A ERF1, protein (eukaryo 25.3 40 0.0012 13.7 2.0 26 8-33 58-88 (102) 6 >1wgx_A KIAA1903 protein; MYB 19.6 52 0.0015 13.0 4.3 40 156-199 5-44 (73) 7 >2i9z_A Putative septation pro 15.1 67 0.002 12.4 2.2 32 85-116 36-68 (105) 8 >2iru_A Putative DNA ligase-li 14.8 68 0.002 12.3 6.0 43 25-68 3-53 (132) 9 >2i9x_A Putative septation pro 14.7 68 0.002 12.3 2.2 31 85-115 36-67 (87) 10 >2fao_A Probable ATP-dependent 14.1 71 0.0021 12.2 6.0 44 24-68 6-57 (182) No 1 >>1ro2_A Hypothetical protein ORF904; DNA polymerase, primase, replication, polymerization, evolution of nucleic acid polymerizing enzymes; 1.60A {Sulfolobus islandicus} (A:) Probab=99.78 E-value=9.5e-20 Score=132.51 Aligned_cols=135 Identities=11% Similarity=0.132 Sum_probs=89.9 Q ss_pred CHHHHHCCCCC-CEEEEECCCCCCEEEEEEECCCHHHHHHHHHH---HHHHCCCCEEEECCCCCEEEEEECCCCCCCCCC Q ss_conf 23787518616-88997078848889999548984678999997---764089862986788953999844743124335 Q gi|254781190|r 2 VATDVDHYVYN-GFGILCGIGTHPVYAFDVDVLDEQVVDRFNNE---FQSCCGKPISRVGQAPKTLMLFRMQETNLKKQK 77 (233) Q Consensus 2 va~~~~~~p~~-giGi~~G~~s~~l~~iDiD~~d~~~~~~~~~~---~~~~~~~~~~~~g~~~~~~~lfr~~~~~~~~~~ 77 (233) |..++..+|.+ ||||.||. .++++||+|. ......+..+ ...+..++.++++ ++++|+|||+|+....+.. T Consensus 46 i~~w~~~~p~~~nigi~~G~--~~~vviD~D~--~~g~~~~~~l~~~~~~l~~t~~~~T~-~gG~h~~f~~p~~~~~~~~ 120 (216) T 1ro2_A 46 KQRFLKMIEEGYNYAIPGGQ--KGMVIMDFES--KEKLKAWIGESALEELCRKTLCTNTV-HGGIHIYVLSNDIPPHKIN 120 (216) T ss_dssp HHHHHHHHHHTCEEEEESSG--GGEEEEEESC--HHHHHHHHCHHHHHHHHHHSCEEECT-TSCEEEEEECSCCCSSCCC T ss_pred HHHHHHHCCCCCEEEEECCC--CCEEEEECCC--CCHHHHHHHHHHHHHCCCCCEEEECC-CCCEEEEEECCCCCCCCCC T ss_conf 99999849975659996487--7789998888--52034442224566238886489858-9917999976888865315 Q ss_pred C--CCCCCCCEEEEECCCEEEECCC----CCCCCCCEEEECCCCC---CCHHHCCCCCHHHHHHHHHHHHHHC Q ss_conf 7--7767663589845832895366----8888884574216776---8822367689999999997544201 Q gi|254781190|r 78 S--EEKIQGHLEFLAYGQQFVAYNI----HPKTQRAYTWSIAPHA---LKVEELPLLTPDEVEYFFEFFDTIT 141 (233) Q Consensus 78 ~--~~~~~~~iEi~~~g~q~V~~g~----hp~Tg~~Y~W~~~~~~---~~~~~lP~~~~~~l~~~~~~~~~~~ 141 (233) . ......+||||+.|+|+|+||| ||.||+.|+|..++.. .+...++.+....+..+........ T Consensus 121 ~~~~~~~~~gvdir~~g~~vV~ppS~~~~~~~~g~~Y~w~~~~~~~~~~p~~~~~~l~~~~~~~~~~~~~~~~ 193 (216) T 1ro2_A 121 PLFEENGKGIIDLQSYNSYVLGLGSCVNHLHCTTDKCPWKEQNYTTCYTLYNELKEISKVDLKSLLRFLAEKG 193 (216) T ss_dssp CSEESSSSEEEEEECTTCEEECTTCEEEGGGCCSTTCTTTTCSCEEECEESSSCCCCEECCHHHHHHHHHHHH T ss_pred CCEECCCCCEEEEEECCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHH T ss_conf 5443278842889836988996361046646787766524566556676743335554255367899999877 No 2 >>3h20_A Replication protein B; primase, nucleotidyltransferase, helix-bundle-domain; 1.99A {Plasmid RSF1010} PDB: 3h25_A (A:1-212) Probab=82.71 E-value=2.9 Score=20.24 Aligned_cols=65 Identities=11% Similarity=-0.007 Sum_probs=34.7 Q ss_pred HHHHHCCCCCCEEE--EECCCCCCEEEEEEECCCHHHHHHHHHHHHHHCCCCEEEECCCCCEEEEEECCCC Q ss_conf 37875186168899--7078848889999548984678999997764089862986788953999844743 Q gi|254781190|r 3 ATDVDHYVYNGFGI--LCGIGTHPVYAFDVDVLDEQVVDRFNNEFQSCCGKPISRVGQAPKTLMLFRMQET 71 (233) Q Consensus 3 a~~~~~~p~~giGi--~~G~~s~~l~~iDiD~~d~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~lfr~~~~ 71 (233) ..++.+++..|.|| .... ....+.||||.........+.++ .+.++..+-||+ |..|.+++...+ T Consensus 48 ~~~l~~~~~~g~~i~~~~~~-~~~~~~vdiD~~~~~~~~~~~~~--~~~Ps~iv~SG~-G~~h~~~~~~~p 114 (212) T 3h20_A 48 TPWLKRMNAQGNDVYIRPAE-QERHGLVLVDDLSEFDLDDMKAE--GREPALVVETSP-KNYQAWVKVADA 114 (212) T ss_dssp HHHHHHHHHTTEEEEEEECT-TCCCCEEEEEEECHHHHHHHHHT--TCCCSEEEEEET-TEEEEEEECCSC T ss_pred CHHHHHHCCCCCCEEECCCC-CCCCCEEEECCCCHHHHHHHHHC--CCCCCEEEEECC-CCEEEEEEECCC T ss_conf 77877623356745876456-78842588447877789999864--567625888379-974789981788 No 3 >>3kya_A Putative phosphatase; structural genomics, joint center for structural genomics, JCSG, protein structure initiative, PSI-2; HET: MSE; 1.77A {Bacteroides thetaiotaomicron} (A:182-309) Probab=34.50 E-value=22 Score=15.13 Aligned_cols=28 Identities=25% Similarity=0.296 Sum_probs=20.8 Q ss_pred CCEEEEECCCEEEECCCCCCCCCCEEEE Q ss_conf 6358984583289536688888845742 Q gi|254781190|r 84 GHLEFLAYGQQFVAYNIHPKTQRAYTWS 111 (233) Q Consensus 84 ~~iEi~~~g~q~V~~g~hp~Tg~~Y~W~ 111 (233) ....+++++.++...-.||.||.-|.=. T Consensus 57 ~~~~~l~~~k~c~g~aVHP~tGeLYfn~ 84 (128) T 3kya_A 57 SDIQLIAAYKQCNGATIHPINGELYFNS 84 (128) T ss_dssp SCEEEEEEESCCCCEEECTTTCCEEEEE T ss_pred CCCCEEECCCCCCEEEEECCCCEEEEEE T ss_conf 8740231268972599978999399998 No 4 >>2yhx_A Hexokinase B; transferase(phosphoryl,alcohol acceptr); HET: OTG; 2.10A {Saccharomyces cerevisiae} (A:1-54,A:201-430) Probab=29.05 E-value=14 Score=16.34 Aligned_cols=31 Identities=29% Similarity=0.329 Sum_probs=23.9 Q ss_pred CCHHHHHCCCCCCEEEEECCCCCCEEEEEEE Q ss_conf 9237875186168899707884888999954 Q gi|254781190|r 1 MVATDVDHYVYNGFGILCGIGTHPVYAFDVD 31 (233) Q Consensus 1 ~va~~~~~~p~~giGi~~G~~s~~l~~iDiD 31 (233) ||-.|+-+.|..-||++.|-.+|.-++-+++ T Consensus 46 ~~~~~~~~~p~t~iGlIlGTGtNaaY~E~~~ 76 (284) T 2yhx_A 46 MVPGWVLKQAXIKMGIIFGSGVNAAYWCDST 76 (284) T ss_dssp CEECCCCCCTTEEEEEEESSSEEEEEEECGG T ss_pred CCCCCCCCCCCCEEEEEECCEEEEEEEEECC T ss_conf 1666568898616899975658889984445 No 5 >>1dt9_A ERF1, protein (eukaryotic peptide chain release factor subunit 1); tRNA mimicry, protein sythesis, STOP codon recognition, peptidyl-tRNA hydrolysis; 2.70A {Homo sapiens} (A:30-131) Probab=25.28 E-value=40 Score=13.67 Aligned_cols=26 Identities=19% Similarity=0.315 Sum_probs=12.5 Q ss_pred CCCCCCEEEEECCCCC-----CEEEEEEECC Q ss_conf 1861688997078848-----8899995489 Q gi|254781190|r 8 HYVYNGFGILCGIGTH-----PVYAFDVDVL 33 (233) Q Consensus 8 ~~p~~giGi~~G~~s~-----~l~~iDiD~~ 33 (233) +-|.+|+.|.||.... ..+.+||+.+ T Consensus 58 k~P~NGLvifcG~v~~~~g~ek~~~~~~ePp 88 (102) T 1dt9_A 58 KVPPNGLVVYCGTIVTEEGKEKKVNIDFEPF 88 (102) T ss_dssp SCCTTCEEEEEEEEECGGGCEEEEEEEECCS T ss_pred CCCCCEEEEEEEEEECCCCCEEEEEEEECCC T ss_conf 8899848999613315898167899960586 No 6 >>1wgx_A KIAA1903 protein; MYB DNA-binding domain, human cDNA, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} (A:) Probab=19.61 E-value=52 Score=13.00 Aligned_cols=40 Identities=8% Similarity=0.055 Sum_probs=29.9 Q ss_pred CCCCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHC Q ss_conf 66765301456999999997358001356745799999876302 Q gi|254781190|r 156 IWKSHNNRRYTNIEIRAFLSCFGEEFYNGSHDEWIPVVMAIHYE 199 (233) Q Consensus 156 ~~~~~~~~~~~~~~a~~~L~~i~~~~~~~dyd~W~~vg~AL~~~ 199 (233) ..++..-.+.++.....++..++++ ++.-|.+|.|+...- T Consensus 5 ~~~d~~W~e~EL~klh~a~~slpkh----~~~fW~~Va~~VgtR 44 (73) T 1wgx_A 5 SSGDKEWNEKELQKLHCAFASLPKH----KPGFWSEVAAAVGSR 44 (73) T ss_dssp CCSSSCCCHHHHHHHHHHHHHSCSS----SSSHHHHHHHHTTTS T ss_pred CCCCCCCCHHHHHHHHHHHHHCCCC----CCCCHHHHHHHHCCC T ss_conf 6766532899999999999835887----775099999998358 No 7 >>2i9z_A Putative septation protein spovg; APC86317, structural genomics, PSI-2, protein structure initiative; 2.30A {Staphylococcus epidermidis atcc 12228} (A:) Probab=15.07 E-value=67 Score=12.36 Aligned_cols=32 Identities=16% Similarity=0.168 Sum_probs=21.3 Q ss_pred CEEEE-ECCCEEEECCCCCCCCCCEEEECCCCC Q ss_conf 35898-458328953668888884574216776 Q gi|254781190|r 85 HLEFL-AYGQQFVAYNIHPKTQRAYTWSIAPHA 116 (233) Q Consensus 85 ~iEi~-~~g~q~V~~g~hp~Tg~~Y~W~~~~~~ 116 (233) +|-|. +..|-+|+|||.....+.|+=..-|.. T Consensus 36 dikVieg~~GLFVaMPs~k~~~g~ykDi~~Pit 68 (105) T 2i9z_A 36 DLRVIEGNSGLFVAXPSKRTPDGEFRDIAHPIN 68 (105) T ss_dssp EEEEEEETTEEEEECCEEECTTSCEEECEEESS T ss_pred EEEEEECCCCCEEECCCCCCCCCCEEEEEEECC T ss_conf 679998899749989875889997878999899 No 8 >>2iru_A Putative DNA ligase-like protein RV0938/MT0965; polymerase, primase, NHEJ, transferase; 1.65A {Mycobacterium tuberculosis H37RV} PDB: 2irx_A* 2iry_A* 2r9l_A* (A:134-265) Probab=14.82 E-value=68 Score=12.32 Aligned_cols=43 Identities=12% Similarity=0.065 Sum_probs=25.4 Q ss_pred EEEEEEECCCH-------HHHHHHHHHHHHHC-CCCEEEECCCCCEEEEEEC Q ss_conf 89999548984-------67899999776408-9862986788953999844 Q gi|254781190|r 25 VYAFDVDVLDE-------QVVDRFNNEFQSCC-GKPISRVGQAPKTLMLFRM 68 (233) Q Consensus 25 l~~iDiD~~d~-------~~~~~~~~~~~~~~-~~~~~~~g~~~~~~~lfr~ 68 (233) .+++|+|..+. .++..+.+++.++. ...+.|||.. |.|.+--+ T Consensus 3 ~lV~DLDP~~~~~f~~v~~~A~~~r~~L~~~gL~~~~KTSG~k-GlHv~vPl 53 (132) T 2iru_A 3 RLVFDLDPGEGVMMAQLAEVARAVRDLLADIGLVTFPVTSGSK-GLHLYTPL 53 (132) T ss_dssp EEEEEEEECTTCCHHHHHHHHHHHHHHHHTTTCCCEEEECSSS-CEEEEEEE T ss_pred EEEEECCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCEECCCCC-EEEEEEEC T ss_conf 5998489886899999999999999999976996330536998-36999968 No 9 >>2i9x_A Putative septation protein spovg; APC86317.1, structural genomics, PSI-2, protein structure initiative; 1.80A {Staphylococcus epidermidis atcc 12228} (A:) Probab=14.74 E-value=68 Score=12.30 Aligned_cols=31 Identities=16% Similarity=0.176 Sum_probs=21.1 Q ss_pred CEEEE-ECCCEEEECCCCCCCCCCEEEECCCC Q ss_conf 35898-45832895366888888457421677 Q gi|254781190|r 85 HLEFL-AYGQQFVAYNIHPKTQRAYTWSIAPH 115 (233) Q Consensus 85 ~iEi~-~~g~q~V~~g~hp~Tg~~Y~W~~~~~ 115 (233) +|-|. +..|-+|+|||.....+.|+=..-|. T Consensus 36 ~ikVieg~~GLFVaMPsrk~~~g~ykDi~~Pi 67 (87) T 2i9x_A 36 DLRVIEGNSGLFVAXPSKRTPDGEFRDIAHPI 67 (87) T ss_dssp EEEEEEETTEEEEECCEEECTTSCEEECEEEC T ss_pred EEEEEECCCCCEEECCCCCCCCCCEEEEEEEC T ss_conf 57999889974998877599999899999989 No 10 >>2fao_A Probable ATP-dependent DNA ligase; polymerase, primase, NHEJ, hydrolase/transferase complex; 1.50A {Pseudomonas aeruginosa} PDB: 2faq_A* 2far_A* (A:128-309) Probab=14.15 E-value=71 Score=12.21 Aligned_cols=44 Identities=9% Similarity=0.064 Sum_probs=27.4 Q ss_pred CEEEEEEECCCH-------HHHHHHHHHHHHHC-CCCEEEECCCCCEEEEEEC Q ss_conf 889999548984-------67899999776408-9862986788953999844 Q gi|254781190|r 24 PVYAFDVDVLDE-------QVVDRFNNEFQSCC-GKPISRVGQAPKTLMLFRM 68 (233) Q Consensus 24 ~l~~iDiD~~d~-------~~~~~~~~~~~~~~-~~~~~~~g~~~~~~~lfr~ 68 (233) ..++||.|..+. +++..+.+++.++. ...+.|||.. |.|.+--+ T Consensus 6 D~lVfDLDP~~~~~f~~v~~~A~~vr~~L~~lgL~sf~KTSG~k-GlHv~vPl 57 (182) T 2fao_A 6 DRFVLDLDPDPALPWKRMLEATQLSLTLLDELGLRAFLKTSGGK-GMHLLVPL 57 (182) T ss_dssp SEEEEEEEECTTSCHHHHHHHHHHHHHHHHHHTCCCEEEECSSS-SEEEEEEC T ss_pred CEEEEECCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC-EEEEEEEC T ss_conf 86999579998988899999999999999976997430415898-57999957 Done!