Query         T0637 NP_249547.1, PSEUDOMONAS AERUGINOSA, 146 residues
Match_columns 146
No_of_seqs    110 out of 175
Neff          7.2 
Searched_HMMs 11830
Date          Thu Jul 22 15:03:49 2010
Command       /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/bin/hhsearch -i /home/syshi_3/CASP9/HHsearch4Targetseq/seq/T0637.hhm -d /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/database/pfamA_24_hhmdb -o /home/syshi_3/CASP9/HHsearch4Targetseq/pfamAsearch/T0637.hhr 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 PF09832 DUF2059:  Uncharacteri  99.8 5.7E-20 4.8E-24  150.4  10.0   92   33-125     3-94  (94)
  2 PF05596 Taeniidae_ag:  Taeniid  74.1     2.2 0.00018   19.4   5.1   44   82-135    37-80  (84)
  3 PF07553 Lipoprotein_Ltp:  Host  39.2     7.8 0.00066   15.6   2.5   29   61-89     18-46  (48)
  4 PF09892 DUF2119:  Uncharacteri  32.5     6.9 0.00059   16.0   1.3   12   90-101    59-70  (193)
  5 PF11237 DUF3038:  Protein of u  29.7      12   0.001   14.4   8.1   59   35-98     98-163 (171)
  6 PF07852 DUF1642:  Protein of u  25.2     4.8  0.0004   17.1  -0.5   15   77-91    116-130 (138)
  7 PF10548 P22_AR_C:  P22AR C-ter  22.4      11 0.00096   14.5   0.9   44   75-124     4-47  (74)
  8 PF12322 T4_baseplate:  T4 bact  22.3      16  0.0014   13.5   1.8   36   60-95    143-178 (205)
  9 PF05766 NinG:  Bacteriophage L  22.1      17  0.0014   13.5   2.2   28   66-93    152-179 (189)
 10 PF09628 YvfG:  YvfG protein; P  21.7      14  0.0012   13.9   1.3   20   81-100    23-42  (68)
 11 PF11919 DUF3437:  Domain of un  20.6      18  0.0015   13.2   1.7   25   69-94     62-86  (90)

No 1  
>PF09832 DUF2059:  Uncharacterized protein conserved in bacteria (DUF2059)
Probab=99.81  E-value=5.7e-20  Score=150.44  Aligned_cols=92  Identities=39%  Similarity=0.669  Sum_probs=85.3

Q ss_pred             HHHHCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             88633899127899999999999998874068999999999999861788999999985488779999982899999999
Q T0637            33 RFAQAKAPESKKAVLERYQAKANAELDRAIGWDKIKPELIKLYTTNFTESELKDLNAFYQSPLGKKVLEKMPRLTAESAQ  112 (146)
Q Consensus        33 ~~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~iY~~~fT~eEl~~liaFY~Sp~Gkk~~~k~P~i~~e~~~  112 (146)
                      ++.+ +.++..+...+.+.+.+...+.+.++|+++.+.++++|++|||++||+++++||+||+|||+++++|.++++++.
T Consensus         3 ~~~q-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~Y~~~fT~~EL~~l~aFY~Sp~Gkk~~~~~p~l~~e~~~   81 (94)
T PF09832_consen    3 MLAQ-QAPDMQRQISEKYWEEFMALMKKELSWEELKDQMAPIYAKHFTEEELKALIAFYKSPAGKKFLAKMPQLMQESMQ   81 (94)
T ss_pred             HHHH-HCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHH
T ss_conf             7875-387543755899999999999887638999999999999887999999999998698879999877899999999


Q ss_pred             HHHHHHHHHHHHH
Q ss_conf             9999989899999
Q T0637           113 LTQAKLQGAVEPV  125 (146)
Q Consensus       113 ~~~~~~~~~~~~~  125 (146)
                      ++++|+++++|++
T Consensus        82 ~~q~~~~~~~p~v   94 (94)
T PF09832_consen   82 VGQQWMQKVMPQV   94 (94)
T ss_pred             HHHHHHHHHCCCC
T ss_conf             9999999765779


No 2  
>PF05596 Taeniidae_ag:  Taeniidae antigen;  InterPro: IPR008860 This family consists of several antigen proteins from Taenia and Echinococcus (tapeworm) species.
Probab=74.09  E-value=2.2  Score=19.37  Aligned_cols=44  Identities=25%  Similarity=0.532  Sum_probs=23.6

Q ss_pred             HHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             899999998548877999998289999999999999898999999999999985
Q T0637            82 SELKDLNAFYQSPLGKKVLEKMPRLTAESAQLTQAKLQGAVEPVNKLMADMDKE  135 (146)
Q Consensus        82 eEl~~liaFY~Sp~Gkk~~~k~P~i~~e~~~~~~~~~~~~~~~~~~~~~e~~~e  135 (146)
                      +|++.  =||+-|.||++.+    +..+...+.+.+-.    ++...+.+..+.
T Consensus        37 ~~v~~--FF~~DPlGkkIa~----l~kdw~~~~~~~r~----KiRa~L~ey~r~   80 (84)
T PF05596_consen   37 EEVRN--FFYEDPLGKKIAQ----LAKDWNEIAQEARK----KIRASLAEYCRG   80 (84)
T ss_pred             HHHHH--HHCCCCHHHHHHH----HHHHHHHHHHHHHH----HHHHHHHHHHHH
T ss_conf             99999--8336961789999----99999999999999----999999999876


No 3  
>PF07553 Lipoprotein_Ltp:  Host cell surface-exposed lipoprotein;  InterPro: IPR011434   This domain is found as 1-3 copies in a small family of proteins of unknown function.
Probab=39.22  E-value=7.8  Score=15.65  Aligned_cols=29  Identities=21%  Similarity=0.179  Sum_probs=24.7

Q ss_pred             HCCHHHHHHHHHHHHHHHCCHHHHHHHHH
Q ss_conf             40689999999999998617889999999
Q T0637            61 AIGWDKIKPELIKLYTTNFTESELKDLNA   89 (146)
Q Consensus        61 ~~~~~~l~~~~~~iY~~~fT~eEl~~lia   89 (146)
                      .+|.+.|.+++..-|...||.+|.+--|.
T Consensus        18 ~mSk~~i~dQLtse~Ge~Ft~e~AqYAid   46 (48)
T PF07553_consen   18 HMSKQGIYDQLTSEYGEKFTPEEAQYAID   46 (48)
T ss_pred             CCCHHHHHHHHHHCCCCCCCHHHHHHHHH
T ss_conf             66899999997531236899999999987


No 4  
>PF09892 DUF2119:  Uncharacterized protein conserved in archaea (DUF2119)
Probab=32.49  E-value=6.9  Score=15.98  Aligned_cols=12  Identities=50%  Similarity=1.162  Sum_probs=5.0

Q ss_pred             HHCCHHHHHHHH
Q ss_conf             854887799999
Q T0637            90 FYQSPLGKKVLE  101 (146)
Q Consensus        90 FY~Sp~Gkk~~~  101 (146)
                      ||+|+.|+++++
T Consensus        59 yy~s~~Gk~il~   70 (193)
T PF09892_consen   59 YYESEMGKKILD   70 (193)
T ss_pred             HCCCHHHHHHHH
T ss_conf             435445589999


No 5  
>PF11237 DUF3038:  Protein of unknown function (DUF3038)
Probab=29.67  E-value=12  Score=14.36  Aligned_cols=59  Identities=14%  Similarity=0.202  Sum_probs=38.6

Q ss_pred             HHCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCHHHHH-------HHHHHHCCHHHHH
Q ss_conf             633899127899999999999998874068999999999999861788999-------9999854887799
Q T0637            35 AQAKAPESKKAVLERYQAKANAELDRAIGWDKIKPELIKLYTTNFTESELK-------DLNAFYQSPLGKK   98 (146)
Q Consensus        35 ~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~iY~~~fT~eEl~-------~liaFY~Sp~Gkk   98 (146)
                      .+.+++......|..|.+++...+.+.++....   -+..|-.  +.+++.       .-..||.+|.|-.
T Consensus        98 ~s~~~~~~~~~ll~~yl~rF~~~~~eRmn~~r~---~v~~~L~--~~~~l~~la~kLL~~LlF~sg~~G~~  163 (171)
T PF11237_consen   98 SSQEPPPHQSQLLSDYLDRFRSLYQERMNPRRS---AVKRLLN--SPEQLNELALKLLIDLLFCSGPGGMQ  163 (171)
T ss_pred             HHCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCH---HHHHCCC--CHHHHHHHHHHHHHHHHHHCCCCHHH
T ss_conf             735997222799999999999999987577532---1454158--82444899999999998462885489


No 6  
>PF07852 DUF1642:  Protein of unknown function (DUF1642);  InterPro: IPR012865   The sequences making up this family are derived from various hypothetical phage and prophage proteins. The region in question is approximately 140 amino acids long. 
Probab=25.23  E-value=4.8  Score=17.07  Aligned_cols=15  Identities=53%  Similarity=1.032  Sum_probs=12.8

Q ss_pred             HHCCHHHHHHHHHHH
Q ss_conf             861788999999985
Q T0637            77 TNFTESELKDLNAFY   91 (146)
Q Consensus        77 ~~fT~eEl~~liaFY   91 (146)
                      ..||+.||+.|-.||
T Consensus       116 ~~~Te~EIk~i~~~~  130 (138)
T PF07852_consen  116 TKFTEQEIKKIDEFY  130 (138)
T ss_pred             HHHHHHHHHCCCCCC
T ss_conf             664499984257876


No 7  
>PF10548 P22_AR_C:  P22AR C-terminal domain
Probab=22.37  E-value=11  Score=14.55  Aligned_cols=44  Identities=30%  Similarity=0.270  Sum_probs=20.7

Q ss_pred             HHHHCCHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99861788999999985488779999982899999999999998989999
Q T0637            75 YTTNFTESELKDLNAFYQSPLGKKVLEKMPRLTAESAQLTQAKLQGAVEP  124 (146)
Q Consensus        75 Y~~~fT~eEl~~liaFY~Sp~Gkk~~~k~P~i~~e~~~~~~~~~~~~~~~  124 (146)
                      |...||++||..+.=-+-      ....+-.+.++.-+.+...+.+..|+
T Consensus         4 ~t~~fT~~El~~L~Wlw~------a~~~m~~~~~~l~p~L~~l~S~~a~~   47 (74)
T PF10548_consen    4 YTFQFTEEELQSLAWLWF------AAERMRELLGELYPPLKALGSPFAPR   47 (74)
T ss_pred             CCCCCCHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHCCCCCHH
T ss_conf             343478999999999999------99999999999989999877974501


No 8  
>PF12322 T4_baseplate:  T4 bacteriophage base plate protein
Probab=22.33  E-value=16  Score=13.48  Aligned_cols=36  Identities=14%  Similarity=0.343  Sum_probs=27.4

Q ss_pred             HHCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHCCHH
Q ss_conf             740689999999999998617889999999854887
Q T0637            60 RAIGWDKIKPELIKLYTTNFTESELKDLNAFYQSPL   95 (146)
Q Consensus        60 ~~~~~~~l~~~~~~iY~~~fT~eEl~~liaFY~Sp~   95 (146)
                      +...|+++.+.--...-+..|.+++..+..|..||.
T Consensus       143 ~~y~w~dl~e~E~~~l~d~i~~~~~e~I~~~l~~P~  178 (205)
T PF12322_consen  143 EVYNWEDLSEQEKDDLIDSITIDDFEKIVKFLNSPK  178 (205)
T ss_pred             EEEECCCCCHHHHHHHHHHCCHHHHHHHHHHHCCCC
T ss_conf             899866599889999998628999999999756864


No 9  
>PF05766 NinG:  Bacteriophage Lambda NinG protein;  InterPro: IPR008713 NinG or Rap is involved in recombination. Rap (recombination adept with plasmid) increases lambda-by-plasmid recombination catalysed by the Escherichia coli RecBCD pathway .
Probab=22.11  E-value=17  Score=13.45  Aligned_cols=28  Identities=21%  Similarity=0.214  Sum_probs=18.3

Q ss_pred             HHHHHHHHHHHHHCCHHHHHHHHHHHCC
Q ss_conf             9999999999986178899999998548
Q T0637            66 KIKPELIKLYTTNFTESELKDLNAFYQS   93 (146)
Q Consensus        66 ~l~~~~~~iY~~~fT~eEl~~liaFY~S   93 (146)
                      .+.-.-.+-=...||.+||++|++.|.-
T Consensus       152 ~Ve~Le~~~~~~k~~~~el~~i~~~y~~  179 (189)
T PF05766_consen  152 RVEWLEGPHEPRKWTIEELKAIKAHYRA  179 (189)
T ss_pred             HHHHHHCCCCCCCCCHHHHHHHHHHHHH
T ss_conf             9999967898788999999999999999


No 10 
>PF09628 YvfG:  YvfG protein; PDB: 2js1_B 2gsv_A.
Probab=21.72  E-value=14  Score=13.88  Aligned_cols=20  Identities=30%  Similarity=0.571  Sum_probs=15.3

Q ss_pred             HHHHHHHHHHHCCHHHHHHH
Q ss_conf             88999999985488779999
Q T0637            81 ESELKDLNAFYQSPLGKKVL  100 (146)
Q Consensus        81 ~eEl~~liaFY~Sp~Gkk~~  100 (146)
                      +.-++++.++|+|-+|-=+-
T Consensus        23 ~~KI~AmNaYYr~V~~tl~~   42 (68)
T PF09628_consen   23 EDKIHAMNAYYRSVVSTLVQ   42 (68)
T ss_dssp             S-CCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH
T ss_conf             89999999999999999999


No 11 
>PF11919 DUF3437:  Domain of unknown function (DUF3437)
Probab=20.56  E-value=18  Score=13.24  Aligned_cols=25  Identities=28%  Similarity=0.373  Sum_probs=18.1

Q ss_pred             HHHHHHHHHHCCHHHHHHHHHHHCCH
Q ss_conf             99999999861788999999985488
Q T0637            69 PELIKLYTTNFTESELKDLNAFYQSP   94 (146)
Q Consensus        69 ~~~~~iY~~~fT~eEl~~liaFY~Sp   94 (146)
                      +.+ ..++..||+++|..|-..-.+|
T Consensus        62 D~W-~~~~~~Ft~~ql~~l~~~~~~p   86 (90)
T PF11919_consen   62 DTW-HEDKKKFTEDQLEDLEGVLLWP   86 (90)
T ss_pred             CCH-HHHHHHCCHHHHHHHHCCCCCC
T ss_conf             418-8878864999999875667576


Done!