Query gi|254781072|ref|YP_003065485.1| hypothetical protein CLIBASIA_04870 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 190 No_of_seqs 1 out of 3 Neff 1.0 Searched_HMMs 33803 Date Wed Jun 1 21:57:34 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254781072.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >2gsv_A Hypothetical protein Y 80.8 3 8.9E-05 22.4 4.7 48 89-140 26-73 (80) 2 >1qop_B Tryptophan synthase be 30.8 37 0.0011 14.9 2.9 32 116-147 17-54 (101) 3 >2gai_A DNA topoisomerase I; z 30.3 37 0.0011 14.9 3.0 49 22-87 26-74 (77) 4 >2ra1_A Surface layer protein; 25.0 34 0.001 15.1 1.5 23 33-55 31-53 (84) 5 >1wlq_A Geminin; coiled-coil; 24.4 47 0.0014 14.2 4.2 49 97-145 21-69 (83) 6 >2gb7_A R.ECL18KI; ECL18KI-DNA 24.0 48 0.0014 14.1 3.1 17 55-71 25-41 (137) 7 >1e8o_B SRP14, signal recognit 18.8 52 0.0015 13.9 1.4 19 33-51 4-22 (106) 8 >1tte_A Ubiquitin-conjugating 17.9 60 0.0018 13.4 1.5 14 138-151 11-24 (56) 9 >3cue_D Transport protein part 17.0 67 0.002 13.1 7.7 68 93-175 30-98 (193) 10 >2aee_A OPRT, oprtase, orotate 15.4 69 0.002 13.0 1.3 43 64-112 28-71 (104) No 1 >>2gsv_A Hypothetical protein YVFG; alpha-helical protein, structural genomics, PSI, protein structure initiative; 1.90A {Bacillus subtilis} (A:) Probab=80.82 E-value=3 Score=22.42 Aligned_cols=48 Identities=33% Similarity=0.512 Sum_probs=38.6 Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCHHEEHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999999999999999951567102019999999999999888999999999 Q gi|254781072|r 89 YFKALTKYYKSVVAELREFGLGKSAIEIEEITKAVDTLTRAYNEYKKEIREL 140 (190) Q Consensus 89 yfkaltkyyksvvaelrefglgksaieieeitkavdtltrayneykkeirel 140 (190) -..|+..||+|||..|-.-.|.|.|.-|.. ...|..|||.-++|-..| T Consensus 26 kIhAmNaYYrsVvstlvqDqltKNavvlkR----iqHLdEAY~KVk~ee~k~ 73 (80) T 2gsv_A 26 KIHAXNSYYRSVVSTLVQDQLTKNAVVLKR----IQHLDEAYNKVKRGESKL 73 (80) T ss_dssp HHHHHHHHHHHHHHHHHHCSSSCHHHHHHH----HHHHHHHHHHHHHC---- T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHH T ss_conf 999999999999999999999730799999----999999999998777654 No 2 >>1qop_B Tryptophan synthase beta chain; lyase, carbon-oxygen lyase, tryptophan biosynthesis, pyridoxal phosphate; HET: IPL PLP; 1.4A {Salmonella typhimurium} (B:1-52,B:271-319) Probab=30.76 E-value=37 Score=14.92 Aligned_cols=32 Identities=13% Similarity=0.318 Sum_probs=23.1 Q ss_pred HHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHH Q ss_conf 999999999999988899------99999999999971 Q gi|254781072|r 116 IEEITKAVDTLTRAYNEY------KKEIRELIEEFIEL 147 (190) Q Consensus 116 ieeitkavdtltrayney------kkeirelieefiel 147 (190) -|.+..+++-|++||+++ .+|.+.|..+|+.. T Consensus 17 PE~L~~aL~ELe~ay~~~~~Dp~F~~El~~ll~~Yv~~ 54 (101) T 1qop_B 17 PQILMPALNQLEEAFVSAQKDPEFQAQFADLLKNYAKH 54 (101) T ss_dssp CGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTHH T ss_pred CHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCCC T ss_conf 78889999999999999972989999999998624814 No 3 >>2gai_A DNA topoisomerase I; zinc ribbon; HET: DNA; 1.70A {Thermotoga maritima MSB8} PDB: 2gaj_A* (A:128-162,A:505-546) Probab=30.30 E-value=37 Score=14.87 Aligned_cols=49 Identities=27% Similarity=0.394 Sum_probs=37.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHH Q ss_conf 234222044444399999999999999998776666554455533113697863465546568788 Q gi|254781072|r 22 SFLQIRSKESVINKEFVTKVEELYEKAQKAHKKRDKVYGAYDKVSSHKKSPKELSKAFYIDFRTEL 87 (190) Q Consensus 22 sflqirskesvinkefvtkveelyekaqkahkkrdkvygaydkvsshkkspkelskafyidfrtel 87 (190) ..|+-.-+..++|-+|..++|+- .|.+++.+..-+++-+.||-+|...+ T Consensus 26 ~~lw~k~~~~iid~~FTA~ME~~-----------------LD~Ia~G~~~W~~vL~~Fy~~F~~~i 74 (77) T 2gai_A 26 PVLWRNFKSNVVSVSFTAEMEKD-----------------LDEVEQGKKTDKIVLREFYESFSSVF 74 (77) T ss_dssp HHHHHHHSCCTTSHHHHHHHHHH-----------------HHHHHTTSSCHHHHHHHHHHHHHTTC T ss_pred HHHHHHHHCCCCCHHHHHHHHHH-----------------HHHHHCCCCCHHHHHHHHHHHHHHHH T ss_conf 77765200340899999999999-----------------99998599989999999999999999 No 4 >>2ra1_A Surface layer protein; triple coiled-coil, S-layer protein, protein binding, sugar binding protein; 2.41A {Bacillus stearothermophilus} (A:84-167) Probab=24.98 E-value=34 Score=15.14 Aligned_cols=23 Identities=35% Similarity=0.476 Sum_probs=10.4 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 43999999999999999987766 Q gi|254781072|r 33 INKEFVTKVEELYEKAQKAHKKR 55 (190) Q Consensus 33 inkefvtkveelyekaqkahkkr 55 (190) ++-+-+.+++++|.+-+---+|+ T Consensus 31 ~~a~dl~k~~e~YhklsyEIrk~ 53 (84) T 2ra1_A 31 VDAKDLKKAEELYHKISYELKTR 53 (84) T ss_dssp HHTTCHHHHHHHHHHHHHHHHHS T ss_pred HHHCCHHHHHHHHHHHHHHHHHH T ss_conf 55111167888666665743320 No 5 >>1wlq_A Geminin; coiled-coil; 2.80A {Mus musculus} (A:) Probab=24.43 E-value=47 Score=14.17 Aligned_cols=49 Identities=27% Similarity=0.259 Sum_probs=37.7 Q ss_pred HHHHHHHHHHCCCCCHHEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999999995156710201999999999999988899999999999999 Q gi|254781072|r 97 YKSVVAELREFGLGKSAIEIEEITKAVDTLTRAYNEYKKEIRELIEEFI 145 (190) Q Consensus 97 yksvvaelrefglgksaieieeitkavdtltrayneykkeirelieefi 145 (190) |--+|||-|.-.|+.+--|.+...+.+..+.---...+.+.+.|.|-.- T Consensus 21 YWk~lAE~Rr~AL~eaL~EN~~Lh~~ie~l~eEi~~L~~en~~L~Ev~~ 69 (83) T 1wlq_A 21 YWKEVAEQRRKALYEALKENEKLHKEIEQKDSEIARLRKENKDLAEVAE 69 (83) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 9999999999999999999999999999888999999999999999999 No 6 >>2gb7_A R.ECL18KI; ECL18KI-DNA complex, type II restriction endonuclease, nucleotide flipping, base extrusion, hydrolase/DNA complex; HET: DNA; 1.70A {Enterobacter cloacae} PDB: 2fqz_A* (A:1-137) Probab=24.01 E-value=48 Score=14.12 Aligned_cols=17 Identities=18% Similarity=0.272 Sum_probs=9.7 Q ss_pred HHHHHHHHHHHHHCCCC Q ss_conf 66655445553311369 Q gi|254781072|r 55 RDKVYGAYDKVSSHKKS 71 (190) Q Consensus 55 rdkvygaydkvsshkks 71 (190) -|-||-++-+..-|++. T Consensus 25 f~ivy~~f~~lgy~kqn 41 (137) T 2gb7_A 25 FALVYKTFCDLGYDQKN 41 (137) T ss_dssp HHHHHHHHHHTTGGGSC T ss_pred HHHHHHHHHHCCHHHHH T ss_conf 89999999851411213 No 7 >>1e8o_B SRP14, signal recognition particle 14 kDa protein; ALU ribonucleoprotein particle, protein recognition of AN RNA U-turn, translational control; HET: GDP; 3.20A {Homo sapiens} (B:) Probab=18.84 E-value=52 Score=13.87 Aligned_cols=19 Identities=21% Similarity=0.578 Sum_probs=16.0 Q ss_pred HHHHHHHHHHHHHHHHHHH Q ss_conf 4399999999999999998 Q gi|254781072|r 33 INKEFVTKVEELYEKAQKA 51 (190) Q Consensus 33 inkefvtkveelyekaqka 51 (190) -|.+|.+++.+||++++.. T Consensus 4 ~nd~FL~~Lt~Lf~~~~~~ 22 (106) T 1e8o_B 4 ESEQFLTELTRLFQKCRTS 22 (106) T ss_dssp CHHHHHHHHHHHHHHHTTT T ss_pred CHHHHHHHHHHHHHHCCCC T ss_conf 6589999999999856778 No 8 >>1tte_A Ubiquitin-conjugating enzyme E2-24 kDa; UBC1, ubiquitin-dependent degradation, ligase; NMR {Saccharomyces cerevisiae} (A:160-215) Probab=17.91 E-value=60 Score=13.41 Aligned_cols=14 Identities=43% Similarity=0.911 Sum_probs=8.8 Q ss_pred HHHHHHHHHHCHHC Q ss_conf 99999999712102 Q gi|254781072|r 138 RELIEEFIELGFDQ 151 (190) Q Consensus 138 relieefielgfdq 151 (190) ++|+++|..+||+. T Consensus 11 k~lVd~F~~mGF~~ 24 (56) T 1tte_A 11 HDLIDEFESQGFEK 24 (56) T ss_dssp HHHHHHHHHHTCCH T ss_pred HHHHHHHHHCCCCH T ss_conf 89999998638334 No 9 >>3cue_D Transport protein particle 22 kDa subunit; membrane traffic, GEF, tethering complex, RAB activation, guanine nucleotide exchange factor; HET: PLM; 3.70A {Saccharomyces cerevisiae} (D:) Probab=16.95 E-value=67 Score=13.12 Aligned_cols=68 Identities=25% Similarity=0.487 Sum_probs=45.3 Q ss_pred HHHHHHHHHHHHHH-CCCCCHHEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHCCCCCCCHHHHHHHHHHHHHH Q ss_conf 99999999999995-15671020199999999999998889999999999999971210233010124678888877789 Q gi|254781072|r 93 LTKYYKSVVAELRE-FGLGKSAIEIEEITKAVDTLTRAYNEYKKEIRELIEEFIELGFDQCDECDLCSEKADVIQKKRIA 171 (190) Q Consensus 93 ltkyyksvvaelre-fglgksaieieeitkavdtltrayneykkeirelieefielgfdqcdecdlcsekadviqkkria 171 (190) +|--|-+.|+.|-. +. -.++++.+..|..- || --+ .|||||.- -..+..|.--.|.||||.| .+ T Consensus 30 ftLTYGalV~QL~kD~E-----~d~~~VN~qLdkMG--yn---IG~-RLiedFLA--ks~~~rC~~f~etaevIak--vg 94 (193) T 3cue_D 30 FTLTYGSIVAQLCQDYE-----RDFNKVNDHLYSMG--YN---IGC-RLIEDFLA--RTALPRCENLVKTSEVLSK--CA 94 (193) T ss_dssp HHHHHHHHHHHHHHHTT-----TCHHHHHHHHHHHH--HH---HHH-HHHHHHHH--HTCCCCCSSHHHHHHHHHH--HH T ss_pred HHHHHHHHHHHHHHHHH-----CCHHHHHHHHHHHC--CC---CCC-HHHHHHHH--HCCCCCCCCHHHHHHHHHH--HH T ss_conf 99999999999998753-----27999999999823--11---583-05667653--0488643569999999999--99 Q ss_pred HHHH Q ss_conf 9999 Q gi|254781072|r 172 FEMV 175 (190) Q Consensus 172 femv 175 (190) |.|- T Consensus 95 fKmf 98 (193) T 3cue_D 95 FKIF 98 (193) T ss_dssp HHHH T ss_pred HHHH T ss_conf 9998 No 10 >>2aee_A OPRT, oprtase, orotate phosphoribosyltransferase; structural genomics, PSI, protein structure initiative; 1.95A {Streptococcus pyogenes} (A:1-67,A:175-211) Probab=15.44 E-value=69 Score=13.03 Aligned_cols=43 Identities=30% Similarity=0.349 Sum_probs=27.6 Q ss_pred HHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHCCCCCH Q ss_conf 53311369786346554656878899999999999999999-95156710 Q gi|254781072|r 64 KVSSHKKSPKELSKAFYIDFRTELKYFKALTKYYKSVVAEL-REFGLGKS 112 (190) Q Consensus 64 kvsshkkspkelskafyidfrtelkyfkaltkyyksvvael-refglgks 112 (190) ..+|-++|| ||+|.|.-+-|-+.+..--.-....+ +++||-.- T Consensus 28 tLaSG~~SP------~YvD~R~~~s~P~~~~~i~~~~~~~I~~~~gl~~y 71 (104) T 2aee_A 28 TWASGIKSP------IYTDNRVTLSYPKTRDLIENGFVETIKAHFPLSNY 71 (104) T ss_dssp ECGGGCEES------EEECGGGGGGCHHHHHHHHHHHHHHHHHHCTSCCH T ss_pred EECCCCCCH------HHEECHHHHCCHHHHHHHHHHHHHHHHHCCCECCH T ss_conf 947347761------66149223229589999999999999855655739 Done!