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!