Query 537021.9.peg.224_1 Match_columns 38 No_of_seqs 1 out of 3 Neff 1.0 Searched_HMMs 39220 Date Wed May 25 16:16:38 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i peg_224.hhm -d /home/congqian_1/database/cdd/Cdd.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 TIGR01392 homoserO_Ac_trn homo 24.4 43 0.0011 17.3 1.5 27 10-36 144-171 (395) 2 pfam05813 Orthopox_F7 Orthopox 18.2 38 0.00098 17.5 0.2 21 1-21 54-74 (82) 3 KOG1336 consensus 12.3 60 0.0015 16.6 -0.1 15 23-37 21-35 (478) 4 pfam06333 Med13_C Mediator com 9.6 90 0.0023 15.8 0.1 11 27-37 329-339 (408) 5 TIGR02917 PEP_TPR_lipo putativ 9.4 1.4E+02 0.0036 14.9 1.0 35 3-37 429-465 (924) 6 pfam11753 DUF3310 Protein of u 8.9 1.7E+02 0.0043 14.5 1.3 15 7-21 44-58 (60) 7 PRK10874 cysteine sulfinate de 8.0 1.4E+02 0.0037 14.9 0.6 15 21-35 7-24 (401) 8 pfam11277 Med24_N Mediator com 7.8 1.6E+02 0.0042 14.6 0.8 16 18-36 282-297 (991) 9 PRK05477 gatB aspartyl/glutamy 7.6 2.3E+02 0.0059 13.9 1.5 21 10-30 221-241 (479) 10 pfam09989 DUF2229 CoA enzyme a 6.9 1.9E+02 0.0049 14.3 0.8 18 12-29 37-54 (218) No 1 >TIGR01392 homoserO_Ac_trn homoserine O-acetyltransferase; InterPro: IPR006296 This family describes homoserine-O-acetyltransferase, an enzyme of methionine biosynthesis. The family does not contain a number of homologs that appear to represent sequences derived from within the family but to have changed substantially.; GO: 0004414 homoserine O-acetyltransferase activity, 0009086 methionine biosynthetic process. Probab=24.37 E-value=43 Score=17.29 Aligned_cols=27 Identities=48% Similarity=0.592 Sum_probs=22.3 Q ss_pred CHHHHHHHHHH-HHHHHHHHHHCCCCCC Q ss_conf 48999964213-4444322000010003 Q 537021.9.peg.2 10 GIKTLEKAIKY-ETIRACFPLATGYLES 36 (38) Q Consensus 10 giktlekaiky-etiracfplatgyles 36 (38) |..+||=|+.| |..++|.||||.---| T Consensus 144 GM~aLEWA~~YPe~v~~~~~~A~saR~s 171 (395) T TIGR01392 144 GMQALEWAISYPERVRAIVVLATSARHS 171 (395) T ss_pred HHHHHHHHHCCHHHHHHHHHHHCCCCCC T ss_conf 4689998722766888888751420158 No 2 >pfam05813 Orthopox_F7 Orthopoxvirus F7 protein. Probab=18.20 E-value=38 Score=17.49 Aligned_cols=21 Identities=43% Similarity=0.754 Sum_probs=16.9 Q ss_pred CCCCCHHHCCHHHHHHHHHHH Q ss_conf 942241010489999642134 Q 537021.9.peg.2 1 MYMMNKEKIGIKTLEKAIKYE 21 (38) Q Consensus 1 mymmnkekigiktlekaikye 21 (38) .||.|.||-.|.||.-.-.|. T Consensus 54 ly~ineeks~intldikrryr 74 (82) T pfam05813 54 LYMINEEKSDINTLDIKRRYR 74 (82) T ss_pred EEEECCCCCCCCHHHHHHHHH T ss_conf 578631214662233789988 No 3 >KOG1336 consensus Probab=12.31 E-value=60 Score=16.61 Aligned_cols=15 Identities=47% Similarity=0.731 Sum_probs=10.9 Q ss_pred HHHHHHHHCCCCCCC Q ss_conf 443220000100037 Q 537021.9.peg.2 23 IRACFPLATGYLEST 37 (38) Q Consensus 23 iracfplatgylest 37 (38) --|||+++||-+|.+ T Consensus 21 hgacfn~~~gdiedf 35 (478) T KOG1336 21 HGACFNLSTGDIEDF 35 (478) T ss_pred CCEEECCCCCCHHHC T ss_conf 320345775735228 No 4 >pfam06333 Med13_C Mediator complex subunit 13 C-terminal. Mediator is a large complex of up to 33 proteins that is conserved from plants through fungi to humans - the number and representation of individual subunits varying with species. It is arranged into four different sections, a core, a head, a tail and a kinase-activity part, and the number of subunits within each of these is what varies with species. Overall, Mediator regulates the transcriptional activity of RNA polymerase II but it would appear that each of the four different sections has a slightly different function. Med13 is part of the ancillary kinase module, together with Med12, CDK8 and CycC, which in yeast is implicated in transcriptional repression, though most of this activity is likely attributable to the CDK8 kinase. The large Med12 and Med13 proteins are required for specific developmental processes in Drosophila, zebrafish, and Caenorhabditis elegans but their biochemical functions are not understood. Probab=9.58 E-value=90 Score=15.79 Aligned_cols=11 Identities=45% Similarity=0.806 Sum_probs=8.3 Q ss_pred HHHHCCCCCCC Q ss_conf 20000100037 Q 537021.9.peg.2 27 FPLATGYLEST 37 (38) Q Consensus 27 fplatgylest 37 (38) +|||+|||-++ T Consensus 329 ~~LasGYLv~~ 339 (408) T pfam06333 329 LALASGYLVKR 339 (408) T ss_pred HHHHHCEEEEE T ss_conf 66865627885 No 5 >TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein; InterPro: IPR014266 This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system , analogous to the LPXTG/sortase system common in Gram-positive bacteria. The proteins in this entry occur in a species if, and only if, a transmembrane histidine kinase (IPR014265 from INTERPRO) and a DNA-binding response regulator (IPR014264 from INTERPRO) also occur. The present of tetratricopeptide repeats (TPR) suggests they may be involved in protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.. Probab=9.42 E-value=1.4e+02 Score=14.89 Aligned_cols=35 Identities=31% Similarity=0.262 Sum_probs=28.9 Q ss_pred CCCHHHCCHHHHHHHHHH--HHHHHHHHHHCCCCCCC Q ss_conf 224101048999964213--44443220000100037 Q 537021.9.peg.2 3 MMNKEKIGIKTLEKAIKY--ETIRACFPLATGYLEST 37 (38) Q Consensus 3 mmnkekigiktlekaiky--etiracfplatgylest 37 (38) |+|+..-||..||.|+.- +.++|-+-|+-.||.+. T Consensus 429 ~~Gd~~~Ai~dL~~A~~l~~~~~~a~~~L~~~yL~~~ 465 (924) T TIGR02917 429 SQGDPSEAIADLETAAQLDPELGRADLLLILSYLRSG 465 (924) T ss_pred CCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHH T ss_conf 0688347899999999727775347899999887420 No 6 >pfam11753 DUF3310 Protein of unknwon function (DUF3310). This is a family of conserved bacteriophage proteins of unknown function. Probab=8.95 E-value=1.7e+02 Score=14.53 Aligned_cols=15 Identities=40% Similarity=0.614 Sum_probs=9.6 Q ss_pred HHCCHHHHHHHHHHH Q ss_conf 010489999642134 Q 537021.9.peg.2 7 EKIGIKTLEKAIKYE 21 (38) Q Consensus 7 ekigiktlekaikye 21 (38) .|-|+..|+||+.|- T Consensus 44 ~Kng~eDL~KA~~Yl 58 (60) T pfam11753 44 KKNGVEDLKKALWYL 58 (60) T ss_pred CCCCHHHHHHHHHHH T ss_conf 428698999999985 No 7 >PRK10874 cysteine sulfinate desulfinase; Provisional Probab=7.97 E-value=1.4e+02 Score=14.85 Aligned_cols=15 Identities=47% Similarity=0.868 Sum_probs=7.4 Q ss_pred HHHHHHHH-HHCC--CCC Q ss_conf 44443220-0001--000 Q 537021.9.peg.2 21 ETIRACFP-LATG--YLE 35 (38) Q Consensus 21 etiracfp-latg--yle 35 (38) +.||+.|| |..+ ||. T Consensus 7 ~~~R~~FP~l~~~~iYlD 24 (401) T PRK10874 7 AQFRAQFPALQDAGVYLD 24 (401) T ss_pred HHHHHHCCCCCCCCEEEE T ss_conf 999965837799948974 No 8 >pfam11277 Med24_N Mediator complex subunit 24 N-terminal. This subunit of the Mediator complex appears to be conserved only from insects to humans. It is essential for correct retinal development in fish. Subunit composition of the mediator contributes to the control of differentiation in the vertebrate CNS as there are divergent functions of the mediator subunits Crsp34/Med27, Trap100/Med24, and Crsp150/Med14. Probab=7.78 E-value=1.6e+02 Score=14.60 Aligned_cols=16 Identities=44% Similarity=0.818 Sum_probs=10.2 Q ss_pred HHHHHHHHHHHHHCCCCCC Q ss_conf 2134444322000010003 Q 537021.9.peg.2 18 IKYETIRACFPLATGYLES 36 (38) Q Consensus 18 ikyetiracfplatgyles 36 (38) .-||-||||| +|+.+| T Consensus 282 ly~EiirAC~---~~L~~s 297 (991) T pfam11277 282 LYLEIWRACF---TGLINV 297 (991) T ss_pred HHHHHHHHHH---HHHHCC T ss_conf 7999999998---773147 No 9 >PRK05477 gatB aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated Probab=7.62 E-value=2.3e+02 Score=13.92 Aligned_cols=21 Identities=38% Similarity=0.444 Sum_probs=15.2 Q ss_pred CHHHHHHHHHHHHHHHHHHHH Q ss_conf 489999642134444322000 Q 537021.9.peg.2 10 GIKTLEKAIKYETIRACFPLA 30 (38) Q Consensus 10 giktlekaikyetiracfpla 30 (38) .++.+++||.||-.|----|. T Consensus 221 S~~~i~~AI~yEi~RQ~~ll~ 241 (479) T PRK05477 221 SFRFVEKAIEYEIQRQIEILE 241 (479) T ss_pred CHHHHHHHHHHHHHHHHHHHH T ss_conf 788999999999999999997 No 10 >pfam09989 DUF2229 CoA enzyme activase uncharacterized domain (DUF2229). Members of this family include various bacterial hypothetical proteins, as well as CoA enzyme activases. The exact function of this domain has not, as yet, been defined. Probab=6.86 E-value=1.9e+02 Score=14.26 Aligned_cols=18 Identities=17% Similarity=0.456 Sum_probs=0.0 Q ss_pred HHHHHHHHHHHHHHHHHH Q ss_conf 999964213444432200 Q 537021.9.peg.2 12 KTLEKAIKYETIRACFPL 29 (38) Q Consensus 12 ktlekaikyetiracfpl 29 (38) +++++.+++-.--+|||. T Consensus 37 ~~l~~G~~~~~~e~C~P~ 54 (218) T pfam09989 37 EIYELGVETIPSETCYPA 54 (218) T ss_pred HHHHHHHHHCCCCCCHHH T ss_conf 999988660788744326 Done!