Query         T0616 Ryanodine receptor, Bacteroides thetaiotaomicron, 103 residues
Match_columns 103
No_of_seqs    103 out of 138
Neff          5.2 
Searched_HMMs 22458
Date          Mon Jul  5 08:57:20 2010
Command       /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/bin/hhsearch -i /home/syshi_3/CASP9/HHsearch4Targetseq/seq/T0616.hhm -d /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/database/pdb70_15May10_hhmdb -o /home/syshi_3/CASP9/HHsearch4Targetseq/pdb70search/T0616.hhr 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 1v65_A Riken cDNA 2610044O15;   84.4    0.18   8E-06   28.7   0.4   40   64-103    16-55  (64)
  2 2cto_A Novel protein; high mob  54.8     4.9 0.00022   20.5   2.0   52   37-88     16-68  (93)
  3 1wz6_A HMG-box transcription f  25.2      38  0.0017   15.4   2.7   21   69-89     45-65  (82)
  4 1y0n_A Hypothetical UPF0270 pr  21.3      25  0.0011   16.5   1.1   12   65-76      2-13  (78)
  5 1wgf_A Upstream binding factor  20.9      47  0.0021   14.9   2.5   20   69-88     58-77  (90)
  6 2e6o_A HMG box-containing prot  20.8      48  0.0021   14.8   2.5   20   69-88     55-74  (87)
  7 2lef_A LEF-1 HMG, protein (lym  19.7      50  0.0022   14.7   2.7   22   68-89     39-60  (86)
  8 3fgh_A Transcription factor A,  17.7      56  0.0025   14.4   2.5   21   69-89     36-56  (67)
  9 2cs1_A PMS1 protein homolog 1;  17.7      51  0.0023   14.7   2.0   23   68-90     44-66  (92)
 10 2eqz_A High mobility group pro  16.2      61  0.0027   14.2   3.7   27   70-96     56-86  (86)

No 1  
>1v65_A Riken cDNA 2610044O15; transcriptional repressor, heterochromatin, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: a.212.1.1
Probab=84.43  E-value=0.18  Score=28.69  Aligned_cols=40  Identities=13%  Similarity=0.233  Sum_probs=34.0

Q ss_pred             CCCCCCHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             9841232118988998778999999999988394114689
Q T0616            64 HPCLVPYDELPEEEKEYDRNTAMNTIKMVKKLGFRIEKED  103 (103)
Q Consensus        64 HP~Lvpy~~L~e~eK~~dr~~~~e~lk~l~~~Gy~I~~~d  103 (103)
                      .=.--.|..|+...|+-||+++.|..+.|..+||.+..++
T Consensus        16 ~Fs~EEW~~Ld~~Qk~LyrdVm~Eny~~l~slg~~~~~~~   55 (64)
T 1v65_A           16 NFTEEEWDLLDSSQKRLYEEVMLETYQNLTDIGYNWQDHH   55 (64)
T ss_dssp             CCCHHHHHTSCHHHHHHHHHHHHHTTTSCCCSCCCCCCCC
T ss_pred             ECCHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCC
T ss_conf             7499999474999999999869998533531126767898


No 2  
>2cto_A Novel protein; high mobility group box domain, helix-turn-helix, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=54.83  E-value=4.9  Score=20.50  Aligned_cols=52  Identities=23%  Similarity=0.166  Sum_probs=33.3

Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCCC-CCCCCCCCCHHCCCHHHHHHHHHHHHHH
Q ss_conf             888999999998200027743766-6889841232118988998778999999
Q T0616            37 NVHEVWAKARIDEGWTYGEKRDDI-HKKHPCLVPYDELPEEEKEYDRNTAMNT   88 (103)
Q Consensus        37 n~H~~Wa~~k~~~GW~yG~~~d~~-~k~HP~Lvpy~~L~e~eK~~dr~~~~e~   88 (103)
                      |.---+..+++-+.-+.|-.-... ...--|--.|..|+++||++|-+++++-
T Consensus        16 nAyyfFv~d~iPeLrrRGLpVarvadaiP~cs~dWalL~eeEke~YAEkAr~W   68 (93)
T 2cto_A           16 NAYYFFVQEKIPELRRRGLPVARVADAIPYCSSDWALLREEEKEKYAEMAREW   68 (93)
T ss_dssp             CHHHHHHHTTHHHHHHHTCCCSSHHHHTGGGHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHCCCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             30004278566798974885355652243046788885089999999999998


No 3  
>1wz6_A HMG-box transcription factor BBX; bobby SOX homolog, HMG_BOX domain, structural genomics, NPPSFA, riken structural genomics/proteomics initiative; NMR {Mus musculus}
Probab=25.18  E-value=38  Score=15.38  Aligned_cols=21  Identities=19%  Similarity=0.063  Sum_probs=17.9

Q ss_pred             CHHCCCHHHHHHHHHHHHHHH
Q ss_conf             321189889987789999999
Q T0616            69 PYDELPEEEKEYDRNTAMNTI   89 (103)
Q Consensus        69 py~~L~e~eK~~dr~~~~e~l   89 (103)
                      -|..||+.||..+.+.+.+.-
T Consensus        45 ~Wk~Ls~~eK~~y~~~A~~~k   65 (82)
T 1wz6_A           45 WWAVLDPKEKQKYTDMAKEYK   65 (82)
T ss_dssp             HHHTCCHHHHHHHHHHHHHHH
T ss_pred             HHHHCCHHHHHHHHHHHHHHH
T ss_conf             998489999999999999999


No 4  
>1y0n_A Hypothetical UPF0270 protein PA3463; MCSG, midwest center for structural genomics, protein structure initiative, PSI; 2.00A {Pseudomonas aeruginosa PAO1} SCOP: d.291.1.1
Probab=21.34  E-value=25  Score=16.49  Aligned_cols=12  Identities=33%  Similarity=0.517  Sum_probs=8.1

Q ss_pred             CCCCCHHCCCHH
Q ss_conf             841232118988
Q T0616            65 PCLVPYDELPEE   76 (103)
Q Consensus        65 P~Lvpy~~L~e~   76 (103)
                      -|++||+.|++.
T Consensus         2 ~MiIP~~~L~~e   13 (78)
T 1y0n_A            2 HMLIPHDLLEAD   13 (78)
T ss_dssp             CEECCGGGSCHH
T ss_pred             CCCCCHHHCCHH
T ss_conf             605675769999


No 5  
>1wgf_A Upstream binding factor 1; transcription factor, DNA binding, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: a.21.1.1
Probab=20.95  E-value=47  Score=14.87  Aligned_cols=20  Identities=15%  Similarity=0.255  Sum_probs=17.2

Q ss_pred             CHHCCCHHHHHHHHHHHHHH
Q ss_conf             32118988998778999999
Q T0616            69 PYDELPEEEKEYDRNTAMNT   88 (103)
Q Consensus        69 py~~L~e~eK~~dr~~~~e~   88 (103)
                      -|..|++.+|+.|.+.+.+.
T Consensus        58 ~Wk~Ls~~eK~~y~~~A~~~   77 (90)
T 1wgf_A           58 MWNDLSEKKKAKYKAREAAL   77 (90)
T ss_dssp             HHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHCCHHHHHHHHHHHHHH
T ss_conf             99969999999999999999


No 6  
>2e6o_A HMG box-containing protein 1; HMG-box domain, HMG-box transcription factor 1, high mobility group box transcription factor 1, structural genomics; NMR {Homo sapiens}
Probab=20.77  E-value=48  Score=14.85  Aligned_cols=20  Identities=15%  Similarity=0.192  Sum_probs=17.0

Q ss_pred             CHHCCCHHHHHHHHHHHHHH
Q ss_conf             32118988998778999999
Q T0616            69 PYDELPEEEKEYDRNTAMNT   88 (103)
Q Consensus        69 py~~L~e~eK~~dr~~~~e~   88 (103)
                      -|..|++.||..+.+.+...
T Consensus        55 ~Wk~ls~~eK~~y~~~A~~~   74 (87)
T 2e6o_A           55 RWKKMKNEERRMYTLEAKAL   74 (87)
T ss_dssp             HHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHCCHHHHHHHHHHHHHH
T ss_conf             98739999999999999999


No 7  
>2lef_A LEF-1 HMG, protein (lymphoid enhancer-binding factor); LEF1, HMG, TCR-A, transcription factor; HET: DNA; NMR {Mus musculus} SCOP: a.21.1.1
Probab=19.71  E-value=50  Score=14.71  Aligned_cols=22  Identities=18%  Similarity=0.108  Sum_probs=18.1

Q ss_pred             CCHHCCCHHHHHHHHHHHHHHH
Q ss_conf             2321189889987789999999
Q T0616            68 VPYDELPEEEKEYDRNTAMNTI   89 (103)
Q Consensus        68 vpy~~L~e~eK~~dr~~~~e~l   89 (103)
                      .-|..||+.||..+.+.+.+.-
T Consensus        39 ~~Wk~ls~~eK~~y~~~A~~~k   60 (86)
T 2lef_A           39 RRWHALSREEQAKYYELARKER   60 (86)
T ss_dssp             HHHTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHH
T ss_conf             9997199999999999999999


No 8  
>3fgh_A Transcription factor A, mitochondrial; HMG domain, mitochondrial transcription, activator, DNA- binding, mitochondrion, phosphoprotein; 1.35A {Homo sapiens}
Probab=17.70  E-value=56  Score=14.45  Aligned_cols=21  Identities=24%  Similarity=0.267  Sum_probs=17.1

Q ss_pred             CHHCCCHHHHHHHHHHHHHHH
Q ss_conf             321189889987789999999
Q T0616            69 PYDELPEEEKEYDRNTAMNTI   89 (103)
Q Consensus        69 py~~L~e~eK~~dr~~~~e~l   89 (103)
                      -|..||+.||..+.+.+.+..
T Consensus        36 ~W~~ls~~eK~~y~~~a~~~k   56 (67)
T 3fgh_A           36 NWKNLSDSEKELYIQHAKEDE   56 (67)
T ss_dssp             HHHTCCHHHHHHHHHHHHHHH
T ss_pred             HHHHCCHHHHHHHHHHHHHHH
T ss_conf             880199999999999999999


No 9  
>2cs1_A PMS1 protein homolog 1; DNA mismatch repair protein PMS1, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=17.65  E-value=51  Score=14.69  Aligned_cols=23  Identities=26%  Similarity=0.277  Sum_probs=18.3

Q ss_pred             CCHHCCCHHHHHHHHHHHHHHHH
Q ss_conf             23211898899877899999999
Q T0616            68 VPYDELPEEEKEYDRNTAMNTIK   90 (103)
Q Consensus        68 vpy~~L~e~eK~~dr~~~~e~lk   90 (103)
                      .-|..||+.||+.+.+.+.....
T Consensus        44 ~~Wk~Ls~~eK~~y~~~a~~~k~   66 (92)
T 2cs1_A           44 ELWKTLSEEEKLKYEEKATKDLE   66 (92)
T ss_dssp             HHHHSSCHHHHHHHHHHHHTTTH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHH
T ss_conf             99870899999999999999999


No 10 
>2eqz_A High mobility group protein B3; HMG-box domain, mobility group protein 2A, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=16.25  E-value=61  Score=14.24  Aligned_cols=27  Identities=19%  Similarity=0.224  Sum_probs=0.0

Q ss_pred             HHCCCHHHHHHHHHHHHHH----HHHHHHCC
Q ss_conf             2118988998778999999----99998839
Q T0616            70 YDELPEEEKEYDRNTAMNT----IKMVKKLG   96 (103)
Q Consensus        70 y~~L~e~eK~~dr~~~~e~----lk~l~~~G   96 (103)
                      |..|++.+|..+.+.+.+.    -+-|..+|
T Consensus        56 Wk~ls~~eK~~y~~~a~~~k~~Y~~e~~~Yg   86 (86)
T 2eqz_A           56 WKTMSGKEKSKFDEMAKADKVRYDREMKDYG   86 (86)
T ss_dssp             HHSSCHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             8369999999999999999999999988729


Done!