Query         T0538 NsR143, , 54 residues
Match_columns 54
No_of_seqs    103 out of 193
Neff          4.4 
Searched_HMMs 15564
Date          Fri May 21 18:06:46 2010
Command       /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/bin/hhsearch -i /home/syshi_3/CASP9/HHsearch4Targetseq/scop70search/hhm/T0538.hhm -d /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/database/scop70_1.75_hhmdb -o /home/syshi_3/CASP9/HHsearch4Targetseq/scop70search/hhm/T0538.hhr 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 d1wmia1 d.298.1.2 (A:1-88) Hyp  62.6     1.7 0.00011   22.6   1.6   33    2-34      4-36  (88)
  2 d1a9xa1 a.92.1.1 (A:403-555) C  35.1      20  0.0013   16.8   5.3   49    3-51     43-93  (153)
  3 d1u2ma_ f.48.1.1 (A:) Periplas  24.3      29  0.0019   15.8   2.8   21   20-40     98-118 (143)
  4 d1a9xa1 a.92.1.1 (A:403-555) C  20.4      37  0.0024   15.3   4.5   49    3-51     43-93  (153)
  5 d1u2ma_ f.48.1.1 (A:) Periplas  20.1      38  0.0024   15.2   2.8   21   20-40     98-118 (143)
  6 d1htaa_ a.22.1.2 (A:) Archaeal  19.5      39  0.0025   15.2   4.6   48    4-52     20-68  (68)
  7 d1snna_ d.115.1.2 (A:) 3,4-dih  18.6      41  0.0026   15.1   2.5   23   25-47    195-217 (219)
  8 d2cpga_ a.43.1.3 (A:) Transcri  18.2      25  0.0016   16.3   1.3   17   23-39     12-28  (43)
  9 d1tksa_ d.115.1.2 (A:) 3,4-dih  17.8      39  0.0025   15.2   2.2   25   25-49    176-200 (202)
 10 d1k4ia_ d.115.1.2 (A:) 3,4-dih  17.7      43  0.0028   14.9   3.2   27   25-51    185-211 (216)

No 1  
>d1wmia1 d.298.1.2 (A:1-88) Hypothetical protein PHS013 {Pyrococcus horikoshii [TaxId: 53953]}
Probab=62.62  E-value=1.7  Score=22.65  Aligned_cols=33  Identities=9%  Similarity=0.075  Sum_probs=29.0

Q ss_pred             CCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHH
Q ss_conf             887688899998608801237899999999987
Q T0538             2 NLRWTSEAKTKLKNIPFFARSQAKARIEQLARQ   34 (54)
Q Consensus         2 ~l~Wt~eA~~~L~kIP~FvR~kvr~~~E~~A~e   34 (54)
                      .+.+++.|+..|+++|-.++.++...++.++.+
T Consensus         4 ~v~~~~~A~k~l~kL~~~~~~~I~~~l~~L~~~   36 (88)
T d1wmia1           4 RVKIHKQVVKALQSLPKAHYRRFLEFRDILEYE   36 (88)
T ss_dssp             EEEEEHHHHHHHTTSCHHHHHHHHHHHHHHTTC
T ss_pred             EEEECHHHHHHHHHCCHHHHHHHHHHHHHHHHC
T ss_conf             999998999999849999999999999999768


No 2  
>d1a9xa1 a.92.1.1 (A:403-555) Carbamoyl phosphate synthetase, large subunit connection domain {Escherichia coli [TaxId: 562]}
Probab=35.12  E-value=20  Score=16.80  Aligned_cols=49  Identities=12%  Similarity=0.121  Sum_probs=38.7

Q ss_pred             CCCCHHHHHHHHCCCCHHHHHHHHH--HHHHHHHCCCCCCCHHHHHHHHHH
Q ss_conf             8768889999860880123789999--999998769981388989999987
Q T0538             3 LRWTSEAKTKLKNIPFFARSQAKAR--IEQLARQAEQDIVTPELVEQARLE   51 (54)
Q Consensus         3 l~Wt~eA~~~L~kIP~FvR~kvr~~--~E~~A~e~g~~~IT~ev~~~Ak~~   51 (54)
                      .-||-|-..++.+|-.|.=.+++.-  +|+.-+..|...++.+.+..||..
T Consensus        43 ~G~sveeI~elTkID~WFL~qi~~Iv~~E~~l~~~~~~~l~~~~l~~aK~~   93 (153)
T d1a9xa1          43 AGLSVDGVFNLTNIDRWFLVQIEELVRLEEKVAEVGITGLNADFLRQLKRK   93 (153)
T ss_dssp             TTBCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHTGGGCCHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHCEEEHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHC
T ss_conf             299999998861820099999999999986653147664899999999983


No 3  
>d1u2ma_ f.48.1.1 (A:) Periplasmic chaperon skp (HlpA) {Escherichia coli [TaxId: 562]}
Probab=24.31  E-value=29  Score=15.84  Aligned_cols=21  Identities=14%  Similarity=0.338  Sum_probs=19.3

Q ss_pred             HHHHHHHHHHHHHHHCCCCCC
Q ss_conf             237899999999987699813
Q T0538            20 ARSQAKARIEQLARQAEQDIV   40 (54)
Q Consensus        20 vR~kvr~~~E~~A~e~g~~~I   40 (54)
                      +..+++.-++++|.++|++.|
T Consensus        98 i~~~i~~~i~~ia~~~g~~lV  118 (143)
T d1u2ma_          98 LVTRIQTAVKSVANSQDIDLV  118 (143)
T ss_dssp             HHHHHHHHHHHHHHHTTCSEE
T ss_pred             HHHHHHHHHHHHHHHCCCEEE
T ss_conf             999999999999998798399


No 4  
>d1a9xa1 a.92.1.1 (A:403-555) Carbamoyl phosphate synthetase, large subunit connection domain {Escherichia coli [TaxId: 562]} SCOP: d1jdbb1
Probab=20.36  E-value=37  Score=15.27  Aligned_cols=49  Identities=12%  Similarity=0.121  Sum_probs=37.5

Q ss_pred             CCCCHHHHHHHHCCCCHHHHHHHHH--HHHHHHHCCCCCCCHHHHHHHHHH
Q ss_conf             8768889999860880123789999--999998769981388989999987
Q T0538             3 LRWTSEAKTKLKNIPFFARSQAKAR--IEQLARQAEQDIVTPELVEQARLE   51 (54)
Q Consensus         3 l~Wt~eA~~~L~kIP~FvR~kvr~~--~E~~A~e~g~~~IT~ev~~~Ak~~   51 (54)
                      .-||.+-..+|.+|-.|.=.+++.-  +|+.-+..|.+.++.++|..||..
T Consensus        43 ~G~sveeI~~lT~IDpwFl~qi~~iv~~e~~l~~~~~~~~~~~~l~~aK~~   93 (153)
T d1a9xa1          43 AGLSVDGVFNLTNIDRWFLVQIEELVRLEEKVAEVGITGLNADFLRQLKRK   93 (153)
T ss_dssp             TTBCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHTGGGCCHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHC
T ss_conf             699999999987673899999999999999998569988898899999876


No 5  
>d1u2ma_ f.48.1.1 (A:) Periplasmic chaperon skp (HlpA) {Escherichia coli [TaxId: 562]} SCOP: d1sg2b_ d1sg2a_ d1sg2c_ d1u2mb_
Probab=20.07  E-value=38  Score=15.23  Aligned_cols=21  Identities=14%  Similarity=0.338  Sum_probs=19.3

Q ss_pred             HHHHHHHHHHHHHHHCCCCCC
Q ss_conf             237899999999987699813
Q T0538            20 ARSQAKARIEQLARQAEQDIV   40 (54)
Q Consensus        20 vR~kvr~~~E~~A~e~g~~~I   40 (54)
                      ++.++..-+.++|.++|++.|
T Consensus        98 i~~~i~~~i~~ia~~~~~d~V  118 (143)
T d1u2ma_          98 LVTRIQTAVKSVANSQDIDLV  118 (143)
T ss_dssp             HHHHHHHHHHHHHHHTTCSEE
T ss_pred             HHHHHHHHHHHHHHHCCCCEE
T ss_conf             999999999999987298378


No 6  
>d1htaa_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanothermus fervidus, histone A [TaxId: 2180]}
Probab=19.54  E-value=39  Score=15.17  Aligned_cols=48  Identities=25%  Similarity=0.329  Sum_probs=35.7

Q ss_pred             CCCHHHHHHHHCCC-CHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH
Q ss_conf             76888999986088-01237899999999987699813889899999875
Q T0538             4 RWTSEAKTKLKNIP-FFARSQAKARIEQLARQAEQDIVTPELVEQARLEF   52 (54)
Q Consensus         4 ~Wt~eA~~~L~kIP-~FvR~kvr~~~E~~A~e~g~~~IT~ev~~~Ak~~f   52 (54)
                      .=+.||...+.+.= .|+..-+ .....+++..|...||.+.+..|=..|
T Consensus        20 ris~ea~~~l~~~~e~fi~~l~-~~a~~~a~~~kRkTi~~~DV~~Alk~~   68 (68)
T d1htaa_          20 RVSDDARIALAKVLEEMGEEIA-SEAVKLAKHAGRKTIKAEDIELARKMF   68 (68)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHH-HHHHHHHHHTTCSSCCHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHCCCCCCHHHHHHHHHHC
T ss_conf             3219999999999999999999-999999999188807899999999739


No 7  
>d1snna_ d.115.1.2 (A:) 3,4-dihydroxy-2-butanone 4-phosphate synthase, DHBP synthase, RibB {Archaeon Methanocaldococcus jannaschii [TaxId: 2190]}
Probab=18.62  E-value=41  Score=15.05  Aligned_cols=23  Identities=13%  Similarity=0.108  Sum_probs=19.5

Q ss_pred             HHHHHHHHHHCCCCCCCHHHHHH
Q ss_conf             99999999876998138898999
Q T0538            25 KARIEQLARQAEQDIVTPELVEQ   47 (54)
Q Consensus        25 r~~~E~~A~e~g~~~IT~ev~~~   47 (54)
                      +.-.++||+++|++.|+.+.+.+
T Consensus       195 ~~~~~~fA~~~~l~~isi~dli~  217 (219)
T d1snna_         195 KNETKRYAEKHNLIYLSGEEIIN  217 (219)
T ss_dssp             HHHHHHHHHHHTCCEEEHHHHHH
T ss_pred             HHHHHHHHHHCCCCEEEHHHHHH
T ss_conf             89999999984997998999883


No 8  
>d2cpga_ a.43.1.3 (A:) Transcriptional repressor CopG {Streptococcus agalactiae [TaxId: 1311]}
Probab=18.20  E-value=25  Score=16.26  Aligned_cols=17  Identities=18%  Similarity=0.262  Sum_probs=13.9

Q ss_pred             HHHHHHHHHHHHCCCCC
Q ss_conf             89999999998769981
Q T0538            23 QAKARIEQLARQAEQDI   39 (54)
Q Consensus        23 kvr~~~E~~A~e~g~~~   39 (54)
                      -+-.+.|++|+|+|.+.
T Consensus        12 ~~~~~lek~a~e~g~sk   28 (43)
T d2cpga_          12 SVLENLEKMAREMGLSK   28 (43)
T ss_dssp             HHHHHHHHHHHHHTCCH
T ss_pred             HHHHHHHHHHHHCCCCH
T ss_conf             89989999999808639


No 9  
>d1tksa_ d.115.1.2 (A:) 3,4-dihydroxy-2-butanone 4-phosphate synthase, DHBP synthase, RibB {Candida albicans [TaxId: 5476]}
Probab=17.76  E-value=39  Score=15.18  Aligned_cols=25  Identities=8%  Similarity=0.019  Sum_probs=20.9

Q ss_pred             HHHHHHHHHHCCCCCCCHHHHHHHH
Q ss_conf             9999999987699813889899999
Q T0538            25 KARIEQLARQAEQDIVTPELVEQAR   49 (54)
Q Consensus        25 r~~~E~~A~e~g~~~IT~ev~~~Ak   49 (54)
                      +.-.++||+++|++.|+.+.+.+-+
T Consensus       176 ~~~~~~fA~~~~l~~isi~dli~yr  200 (202)
T d1tksa_         176 LDDCIQFGKKHGIKIININQLVEYI  200 (202)
T ss_dssp             HHHHHHHHHHHTCCEEEHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCEEEHHHHHHHH
T ss_conf             9999999998599799899999998


No 10 
>d1k4ia_ d.115.1.2 (A:) 3,4-dihydroxy-2-butanone 4-phosphate synthase, DHBP synthase, RibB {Magnaporthe grisea [TaxId: 148305]}
Probab=17.71  E-value=43  Score=14.93  Aligned_cols=27  Identities=15%  Similarity=-0.024  Sum_probs=22.4

Q ss_pred             HHHHHHHHHHCCCCCCCHHHHHHHHHH
Q ss_conf             999999998769981388989999987
Q T0538            25 KARIEQLARQAEQDIVTPELVEQARLE   51 (54)
Q Consensus        25 r~~~E~~A~e~g~~~IT~ev~~~Ak~~   51 (54)
                      +.-.++||+++|++.|+.+.+-+-+.+
T Consensus       185 ~~~l~~fA~~h~l~~i~i~dli~yr~~  211 (216)
T d1k4ia_         185 GDECVAFARRWGLKVCTIEDMIAHVEK  211 (216)
T ss_dssp             HHHHHHHHHHTTCEEEEHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCEEEHHHHHHHHHH
T ss_conf             199999999829969889999999986


Done!