Query 537021.9.peg.1142_1 Match_columns 218 No_of_seqs 32 out of 34 Neff 3.8 Searched_HMMs 23785 Date Wed May 25 07:38:05 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i peg_1142.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 3jyv_T S19E protein; eukaryoti 20.4 23 0.00096 15.0 0.6 12 94-105 43-56 (141) 2 2v7f_A RPS19, RPS19E SSU ribos 11.4 70 0.0029 12.3 1.3 10 112-121 77-86 (150) 3 3nzo_A UDP-N-acetylglucosamine 9.1 85 0.0036 11.8 1.6 30 8-37 28-59 (399) 4 2avu_E Flagellar transcription 8.1 93 0.0039 11.6 3.6 56 37-104 69-124 (192) 5 2es9_A Putative cytoplasmic pr 7.8 79 0.0033 12.0 0.3 21 190-210 63-83 (115) 6 2dig_A Lamin-B receptor; tudor 6.4 39 0.0016 13.7 -1.9 11 166-176 20-30 (68) 7 1kea_A Possible G-T mismatches 5.8 1.2E+02 0.0052 10.9 3.9 32 187-218 76-108 (221) 8 2jtw_A Transmembrane helix 7 o 5.3 1.3E+02 0.0056 10.7 0.7 23 37-61 2-24 (26) 9 2ahq_A Sigma-54, RNA polymeras 5.2 1.4E+02 0.0057 10.7 2.6 22 76-97 19-40 (76) 10 3ftp_A 3-oxoacyl-[acyl-carrier 5.0 1.4E+02 0.0058 10.6 2.1 34 2-35 15-50 (270) No 1 >3jyv_T S19E protein; eukaryotic ribosome, RACK1 protein, flexible fitting; HET: 2MG H2U M2G OMC OMG YYG PSU 5MC 7MG 5MU 1MA; 8.90A {Thermomyces lanuginosus} Probab=20.44 E-value=23 Score=14.98 Aligned_cols=12 Identities=25% Similarity=0.177 Sum_probs=5.0 Q ss_pred CCCCHH--HHHHHH Q ss_conf 865235--899998 Q 537021.9.peg.1 94 DFSDPT--EYIKAL 105 (218) Q Consensus 94 d~tdp~--fw~~a~ 105 (218) .+.||. +|+++- T Consensus 43 ~P~~~ddW~Y~RaA 56 (141) T 3jyv_T 43 PPQDAEGWFYKRAA 56 (141) T ss_dssp CTTTCCCSHHHHHH T ss_pred CCCCCCHHHHHHHH T ss_conf 99884206899989 No 2 >2v7f_A RPS19, RPS19E SSU ribosomal protein S19E; diamond blackfan anemia small ribosomal subunit; 1.15A {Pyrococcus abyssi} SCOP: a.4.5.84 Probab=11.36 E-value=70 Score=12.30 Aligned_cols=10 Identities=10% Similarity=0.006 Sum_probs=4.6 Q ss_pred HHCCCCCCCC Q ss_conf 3020000234 Q 537021.9.peg.1 112 YERFSPFNSS 121 (218) Q Consensus 112 fgD~t~ygSs 121 (218) ||+--+.|+. T Consensus 77 YGg~k~rG~~ 86 (150) T 2v7f_A 77 YGGRKNRGHA 86 (150) T ss_dssp HCC----CCC T ss_pred HCCCCCCCCC T ss_conf 7878789999 No 3 >3nzo_A UDP-N-acetylglucosamine 4,6-dehydratase; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG, NAD; HET: MSE NAD; 2.10A {Vibrio fischeri} Probab=9.10 E-value=85 Score=11.83 Aligned_cols=30 Identities=17% Similarity=0.287 Sum_probs=22.9 Q ss_pred HHHHHHHCCC-CCCCCCCCH-HHHHHHHHHHH Q ss_conf 8654220132-113687617-89999999986 Q 537021.9.peg.1 8 SVGSTIQDKR-WITGKDGSV-NNLARLMGQFL 37 (218) Q Consensus 8 ~~~~~~~~~~-~~tg~~Gt~-ge~~R~~~QFK 37 (218) .+...+.+++ ++||..|.| -+++|-+..+. T Consensus 28 ~~~~~~~~KkILVTGg~GfIGS~Lv~~Ll~~~ 59 (399) T 3nzo_A 28 ELQSVVSQSRFLVLGGAGSIGQAVTKEIFKRN 59 (399) T ss_dssp HHHHHHHTCEEEEETTTSHHHHHHHHHHHTTC T ss_pred HHHHHHCCCEEEEECCCCHHHHHHHHHHHHCC T ss_conf 99988585999997898889999999999659 No 4 >2avu_E Flagellar transcriptional activator FLHC; C4-type zinc finger, transcription activator; 3.00A {Escherichia coli} SCOP: e.64.1.1 Probab=8.12 E-value=93 Score=11.59 Aligned_cols=56 Identities=9% Similarity=-0.092 Sum_probs=34.3 Q ss_pred HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHH Q ss_conf 63119999999998563032212369999999999999989999999985489877786523589999 Q 537021.9.peg.1 37 LVMPISWSRMHLIEIPSSLVGVSSQVYRAKALVIGILGEELIRKTLVPLISGKEPQLDFSDPTEYIKA 104 (218) Q Consensus 37 K~fPis~~~m~~~~r~~~~~g~~s~~~~aaaL~at~tl~Gal~~qlk~LL~GkdP~~d~tdp~fw~~a 104 (218) ...--|+| |++|....+.++.++--+-++++-.+.-..+ ..+.+|.+++|. .|.=+ T Consensus 69 ~niHsSlf-~~iY~~l~~~~~~~~ieAlikAYrlY~e~~~---------~~~~~~~Ls~tR--Aw~Lv 124 (192) T 2avu_E 69 QNVHASMF-CNAWQFLLKTGLCNGVDAVIKAYRLYLEQCP---------QAEEGPLLALTR--AWTLV 124 (192) T ss_dssp HHHHHHHH-HHHHHHHHHTTTCCSHHHHHHHHHHHHHHCC---------CCSSCCSSCHHH--HHHHH T ss_pred HHHHHHHH-HHHHHHHHHCCCCCCHHHHHHHHHHHHHHCC---------CCCCCCEECHHH--HHHHH T ss_conf 23689999-9999999743488989999999999999735---------678773524769--99999 No 5 >2es9_A Putative cytoplasmic protein; structural genomics, PSI, protein structure initiative, northeast structural genomics consortium, NESG; 2.00A {Salmonella typhimurium LT2} SCOP: a.247.1.1 PDB: 2jn8_A Probab=7.76 E-value=79 Score=11.99 Aligned_cols=21 Identities=10% Similarity=0.129 Sum_probs=10.1 Q ss_pred HHHHCCCHHHHHHHHHHHHHH Q ss_conf 997284146899999999999 Q 537021.9.peg.1 190 DDVLNPGGRARAEVYRQRQKY 210 (218) Q Consensus 190 qe~~~Pg~~~r~e~~~~R~~~ 210 (218) ||--||||.+++-..+++.++ T Consensus 63 ~egWn~gFT~K~~gWA~k~~s 83 (115) T 2es9_A 63 QEGWNPEFTKKVAGWAEKVAS 83 (115) T ss_dssp HTTCCHHHHHHHHHHHHHHHT T ss_pred CCCCCHHHHHHHHHHHHHHCC T ss_conf 315881378999999998615 No 6 >2dig_A Lamin-B receptor; tudor domain, integral nuclear envelope inner membrane protein, nuclear protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: b.34.9.1 Probab=6.42 E-value=39 Score=13.72 Aligned_cols=11 Identities=27% Similarity=0.389 Sum_probs=5.6 Q ss_pred HHCCCCHHHHH Q ss_conf 62186144899 Q 537021.9.peg.1 166 NTFVPFQNLWY 176 (218) Q Consensus 166 ~~~~P~~NLWY 176 (218) -+--|++|||| T Consensus 20 M~RWPGSsLyy 30 (68) T 2dig_A 20 RGRWPGSSLYY 30 (68) T ss_dssp EEECTTTCCEE T ss_pred EEECCCCCEEE T ss_conf 62069983489 No 7 >1kea_A Possible G-T mismatches repair enzyme; DNA repair, DNA glycosylase, DNA mismatch, methylation, base twisting, hydrolase; 2.00A {Methanothermobacterthermautotrophicus} SCOP: a.96.1.2 Probab=5.81 E-value=1.2e+02 Score=10.92 Aligned_cols=32 Identities=9% Similarity=0.014 Sum_probs=0.0 Q ss_pred HHHHHHHCC-CHHHHHHHHHHHHHHHHHHHCCC Q ss_conf 999997284-14689999999999998652059 Q 537021.9.peg.1 187 NSIDDVLNP-GGRARAEVYRQRQKYKKQRKRNG 218 (218) Q Consensus 187 ~qlqe~~~P-g~~~r~e~~~~R~~~k~~r~~n~ 218 (218) +.+.+++.| ||+++.-+++....+.-..+++| T Consensus 76 ~el~~~i~~~G~~~~KA~~l~~~a~~i~~~~~g 108 (221) T 1kea_A 76 SEIAKDIKEIGLSNQRAEQLKELARVVINDYGG 108 (221) T ss_dssp HHHHHHTGGGSCHHHHHHHHHHHHHHHHHHHTT T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCC T ss_conf 999999998789999999999999999886058 No 8 >2jtw_A Transmembrane helix 7 of yeast vATPase; peptide, micelle-bound, membrane protein; NMR {Synthetic} PDB: 2rpw_X Probab=5.32 E-value=1.3e+02 Score=10.74 Aligned_cols=23 Identities=17% Similarity=0.132 Sum_probs=0.0 Q ss_pred HHHHHHHHHHHHHHHHHCCCCHHHH Q ss_conf 6311999999999856303221236 Q 537021.9.peg.1 37 LVMPISWSRMHLIEIPSSLVGVSSQ 61 (218) Q Consensus 37 K~fPis~~~m~~~~r~~~~~g~~s~ 61 (218) |++..|+. |+|....+-..+||+ T Consensus 2 kshtasyl--rlwalslahaqlssk 24 (26) T 2jtw_A 2 KSHTASYL--RLWALSLAHAQLSSK 24 (26) T ss_dssp CCHHHHHH--HHHHHHHHHHHHHSC T ss_pred CCHHHHHH--HHHHHHHHHHHHHCC T ss_conf 51279999--999999999986104 No 9 >2ahq_A Sigma-54, RNA polymerase sigma factor RPON; sigma-54,sigma factors, solution structure, transcription; NMR {Aquifex aeolicus} PDB: 2o8k_A 2o9l_A Probab=5.17 E-value=1.4e+02 Score=10.69 Aligned_cols=22 Identities=14% Similarity=0.312 Sum_probs=0.0 Q ss_pred HHHHHHHHHHHCCCCCCCCCCC Q ss_conf 8999999998548987778652 Q 537021.9.peg.1 76 ELIRKTLVPLISGKEPQLDFSD 97 (218) Q Consensus 76 Gal~~qlk~LL~GkdP~~d~td 97 (218) ..+...+++|++..||..+.+| T Consensus 19 ~~ik~~ik~lI~~Ed~~~PlSD 40 (76) T 2ahq_A 19 GELMKLIKEIVENEDKRKPYSD 40 (76) T ss_dssp HHHHHHHHHHGGGCCSSSCCCH T ss_pred HHHHHHHHHHHHHCCCCCCCCH T ss_conf 9999999999996488899769 No 10 >3ftp_A 3-oxoacyl-[acyl-carrier protein] reductase; ssgcid, 3-ketoacyl-(acyl-carrier- protein) reductase, oxidoreductase, structural genomics; 2.05A {Burkholderia pseudomallei} Probab=5.05 E-value=1.4e+02 Score=10.64 Aligned_cols=34 Identities=21% Similarity=0.376 Sum_probs=0.0 Q ss_pred CHHHHHHHHHHHHCCC-CCCCCCCCH-HHHHHHHHH Q ss_conf 3347678654220132-113687617-899999999 Q 537021.9.peg.1 2 QEHARGSVGSTIQDKR-WITGKDGSV-NNLARLMGQ 35 (218) Q Consensus 2 ~~~~~~~~~~~~~~~~-~~tg~~Gt~-ge~~R~~~Q 35 (218) |.|+-++|.-+|.+|+ +|||..+-| -++++.+.+ T Consensus 15 ~~~~~~~M~~~L~gKvalITGas~GIG~aiA~~la~ 50 (270) T 3ftp_A 15 QTQGPGSMDKTLDKQVAIVTGASRGIGRAIALELAR 50 (270) T ss_dssp --------CCTTTTCEEEETTCSSHHHHHHHHHHHH T ss_pred CCCCCCCCCCCCCCCEEEEECCCCHHHHHHHHHHHH T ss_conf 787989899987999899938685899999999998 Done!