Query         T0564 SlR115, , 89 residues
Match_columns 89
No_of_seqs    91 out of 93
Neff          4.7 
Searched_HMMs 22458
Date          Tue Jun  1 15:07:11 2010
Command       /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/bin/hhsearch -i /home/syshi_3/CASP9/HHsearch4Targetseq/seq/T0564.hhm -d /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/database/pdb70_15May10_hhmdb -o /home/syshi_3/CASP9/HHsearch4Targetseq/pdb70search/T0564.hhr 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 2jys_A Protease/reverse transc  50.2     7.5 0.00033   18.4   2.4   33   34-68     56-90  (107)
  2 1qqr_A Streptokinase domain B;  16.6      21 0.00092   16.1  -0.2   34   35-68      9-43  (138)
  3 1bml_C Streptokinase; human pl  16.2      56  0.0025   13.9   4.0   39    4-50    125-163 (362)
  4 1zp7_A Recombination protein U  15.9      44   0.002   14.4   1.3   15   73-88     93-107 (206)
  5 3eo6_A Protein of unknown func  13.8      65  0.0029   13.5   2.2   23    1-23      2-24  (106)
  6 3i1i_A Homoserine O-acetyltran  13.0      69  0.0031   13.4   1.9   32   41-73     16-48  (377)
  7 2fco_A Recombination protein U  12.9      53  0.0024   14.0   1.1   27   59-87     78-104 (200)
  8 3fsa_A Azurin; copper, cupredo  12.2      74  0.0033   13.2   3.9   33   36-74     91-125 (125)
  9 2h12_A Citrate synthase; acido  10.6      50  0.0022   14.1   0.3   15   64-78     67-81  (436)
 10 2vat_A Acetyl-COA--deacetylcep  10.4      85  0.0038   12.9   2.1   38   34-72     75-114 (444)

No 1  
>2jys_A Protease/reverse transcriptase; retroviral protease, hydrolase; NMR {Simian foamy virus type 1}
Probab=50.18  E-value=7.5  Score=18.43  Aligned_cols=33  Identities=21%  Similarity=0.278  Sum_probs=24.3

Q ss_pred             CCEEEEEEEEECCCCCEEEEEE--CHHHCCCCCCCCE
Q ss_conf             6548998888748996689991--6578176387877
Q T0564            34 TSMRYEASFKPLNGGLEKTFRL--QAQQYHALTVGDQ   68 (89)
Q Consensus        34 ~~~~Y~vtF~p~~~G~~~ef~v--~~~~Y~~l~~Gd~   68 (89)
                      +..-||++|. +. |-+++-.|  +.-+|-.|+++|-
T Consensus        56 ~q~vYYltfK-i~-gRkv~aEVi~s~~dYill~P~Di   90 (107)
T 2jys_A           56 QQDVYYLTFK-VQ-GRKVEAEVLASPYDYILLNPSDV   90 (107)
T ss_dssp             EEEEEEEEEE-ES-SCEEEEEEEEESSSSEEECTTTC
T ss_pred             CCCEEEEEEE-EC-CEEEEEEEECCCCEEEEECCCCC
T ss_conf             0527999999-86-64988899516320799867576


No 2  
>1qqr_A Streptokinase domain B; non-proteolytic, plasminogen activation, fibrinolysis, hydrolase activator; 2.30A {Streptococcus dysgalactiae subsp} SCOP: d.15.5.1 PDB: 1c4p_A
Probab=16.58  E-value=21  Score=16.13  Aligned_cols=34  Identities=24%  Similarity=0.383  Sum_probs=19.5

Q ss_pred             CEEEEEEEEECCCCCEEEEE-ECHHHCCCCCCCCE
Q ss_conf             54899888874899668999-16578176387877
Q T0564            35 SMRYEASFKPLNGGLEKTFR-LQAQQYHALTVGDQ   68 (89)
Q Consensus        35 ~~~Y~vtF~p~~~G~~~ef~-v~~~~Y~~l~~Gd~   68 (89)
                      +..|.|.|.++++|..-.-. .....++.+..||.
T Consensus         9 ~V~y~V~F~~~~~d~~~~~~l~~~~~l~~~~iGd~   43 (138)
T 1qqr_A            9 DVEYTVQFTPLNPDDDFRPGLKLTKLLKTLAIGDT   43 (138)
T ss_dssp             EEEEEEEEEESSCCTTSCTTBCCCEEEEEECTTCE
T ss_pred             EEEEEEEEEECCCCCCCCCEEECCHHHCCCCCCCC
T ss_conf             77889998853899888740314012221235763


No 3  
>1bml_C Streptokinase; human plasmin, blood clotting; 2.90A {Streptococcus dysgalactiae subsp} SCOP: d.15.5.1 d.15.5.1 d.15.5.1
Probab=16.20  E-value=56  Score=13.86  Aligned_cols=39  Identities=28%  Similarity=0.490  Sum_probs=22.7

Q ss_pred             CEEEEEEEECCCCEECCCCCCCCCCCCCCCCCEEEEEEEEECCCCCE
Q ss_conf             21356898634212247743222564358765489988887489966
Q T0564             4 LQQKQVVVSNKREKPVNDRRSRQQEVSPAGTSMRYEASFKPLNGGLE   50 (89)
Q Consensus         4 ~~sv~v~Vv~KR~~~~~~~rsrq~~~~~~~~~~~Y~vtF~p~~~G~~   50 (89)
                      +++..|.|---.+.|..|  +.      -.-+.+|+|.|.+.++|+.
T Consensus       125 LL~GhViv~p~~ekpi~~--~a------e~V~V~y~VqFv~~~~d~d  163 (362)
T 1bml_C          125 LLSGHVRVRPYKEKPIQN--QA------KSVDVEYTVQFTPLNPDDD  163 (362)
T ss_dssp             EEEEEEEEEECCCCCCSS--BC------CCEEEEEEEEEEESSSSCC
T ss_pred             EEECCEEEEECCCCCCCC--CC------CEEEEEEEEEEEECCCCCC
T ss_conf             983308988679877258--88------5367899999986489988


No 4  
>1zp7_A Recombination protein U; recombination,DNA-binding protein,resolvase, DNA binding protein; 2.25A {Bacillus subtilis} PDB: 1rzn_A
Probab=15.85  E-value=44  Score=14.40  Aligned_cols=15  Identities=40%  Similarity=0.973  Sum_probs=10.1

Q ss_pred             ECCEEEEEECCCCCCC
Q ss_conf             5313787540378788
Q T0564            73 YKGTRFVGFVSRTPDN   88 (89)
Q Consensus        73 ~QGtrfi~Fe~~~~~~   88 (89)
                      ||| |||.||...-.|
T Consensus        93 ykG-~~I~FEAKeT~n  107 (206)
T 1zp7_A           93 YKG-RYIDFEAKETKN  107 (206)
T ss_dssp             ETT-EEEEEEEEECCC
T ss_pred             ECC-EEEEEECCCCCC
T ss_conf             778-999997433357


No 5  
>3eo6_A Protein of unknown function (DUF1255); AFE_2634, structural genomics, joint center for structural genomics, JCSG; HET: MSE; 0.97A {Acidithiobacillus ferrooxidans ATCC23270}
Probab=13.79  E-value=65  Score=13.50  Aligned_cols=23  Identities=35%  Similarity=0.292  Sum_probs=19.9

Q ss_pred             CCCCEEEEEEEECCCCEECCCCC
Q ss_conf             98721356898634212247743
Q T0564             1 MAPLQQKQVVVSNKREKPVNDRR   23 (89)
Q Consensus         1 ~aP~~sv~v~Vv~KR~~~~~~~r   23 (89)
                      |+|.++.+..-+.|+.+++=+-+
T Consensus         2 m~~~~q~~~vsv~k~ANvYFDGk   24 (106)
T 3eo6_A            2 MAPDQQVPATALGKSSRISLDGR   24 (106)
T ss_dssp             CCGGGEEEEEEEESCCEEETTTT
T ss_pred             CCHHHCCCCEEEEEEEEEEECCE
T ss_conf             88688137507867877999985


No 6  
>3i1i_A Homoserine O-acetyltransferase; structural genomics, IDP01610, center for structural genomics of infectious diseases, csgid; HET: MSE; 2.44A {Bacillus anthracis str}
Probab=13.00  E-value=69  Score=13.37  Aligned_cols=32  Identities=13%  Similarity=0.225  Sum_probs=26.2

Q ss_pred             EEEECCCCCEEEEEECHHHCCCCCC-CCEEEEEE
Q ss_conf             8887489966899916578176387-87789985
Q T0564            41 SFKPLNGGLEKTFRLQAQQYHALTV-GDQGTLSY   73 (89)
Q Consensus        41 tF~p~~~G~~~ef~v~~~~Y~~l~~-Gd~G~L~~   73 (89)
                      .|+ +++|..+.++|..+.||.|+. +|--+|-.
T Consensus        16 ~f~-le~G~~l~~~laY~t~G~ln~~~~N~vlv~   48 (377)
T 3i1i_A           16 EYT-FENGRTIPVQMGYETYGTLNRERSNVILIC   48 (377)
T ss_dssp             EEE-CTTSCEEEEEEEEEEESCCCTTCCCEEEEE
T ss_pred             CEE-ECCCCEEEEEEEEEEECCCCCCCCCEEEEE
T ss_conf             857-068988304799996235488899789981


No 7  
>2fco_A Recombination protein U (penicillin-binding protein related factor A); flexibility, hydrolase; 1.40A {Geobacillus kaustophilus HTA426} PDB: 1y1o_A
Probab=12.90  E-value=53  Score=13.99  Aligned_cols=27  Identities=15%  Similarity=0.517  Sum_probs=13.9

Q ss_pred             HCCCCCCCCEEEEEECCEEEEEECCCCCC
Q ss_conf             81763878778998531378754037878
Q T0564            59 QYHALTVGDQGTLSYKGTRFVGFVSRTPD   87 (89)
Q Consensus        59 ~Y~~l~~Gd~G~L~~QGtrfi~Fe~~~~~   87 (89)
                      .|..=..=|--- .||| |||.||...-.
T Consensus        78 yf~~kSt~DY~G-vykG-~~I~FEAKeT~  104 (200)
T 2fco_A           78 YFRQASTTDYNG-VYRG-KYIDFEAKETK  104 (200)
T ss_dssp             CCCCCSSCSEEE-EETT-EEEEEEEEEES
T ss_pred             EECCCCCCCCEE-EECC-EEEEEECCCCC
T ss_conf             965678787103-7778-99999854335


No 8  
>3fsa_A Azurin; copper, cupredoxin fold, metal-binding, protein-protein interaction, metal binding protein; 0.98A {Pseudomonas aeruginosa} PDB: 3fs9_A 2fta_A* 2hx7_A 2hx8_A 2hx9_A 2hxa_A 1cc3_A 2ft6_A 2ft7_A 2ft8_A 1azn_A 2iwe_A* 2ghz_A 2gi0_A 1jzg_A* 1azu_A* 1bex_A 1e5z_A 1e5y_A 1e67_A ...
Probab=12.18  E-value=74  Score=13.23  Aligned_cols=33  Identities=27%  Similarity=0.375  Sum_probs=22.2

Q ss_pred             EEEEEEEE-E-CCCCCEEEEEECHHHCCCCCCCCEEEEEEC
Q ss_conf             48998888-7-489966899916578176387877899853
Q T0564            36 MRYEASFK-P-LNGGLEKTFRLQAQQYHALTVGDQGTLSYK   74 (89)
Q Consensus        36 ~~Y~vtF~-p-~~~G~~~ef~v~~~~Y~~l~~Gd~G~L~~Q   74 (89)
                      ..+.++|. | ++......|.-+++      .|++|+|+.+
T Consensus        91 es~sitFt~p~~~~~G~Y~f~C~gH------agM~G~l~Vk  125 (125)
T 3fsa_A           91 EKDSVTFDVSKLKEGEQYMFFCAAH------AAMKGTLTLK  125 (125)
T ss_dssp             CEEEEEEEGGGC---CCEEEECSSS------TTCEEEEEEC
T ss_pred             CEEEEEEECCCCCCCCCEEEECCCC------CCCEEEEEEC
T ss_conf             5589999541457896199969897------6846999989


No 9  
>2h12_A Citrate synthase; acidophIle, acetic acid resistance, allostery, transferase; HET: CMX; 1.85A {Acetobacter aceti}
Probab=10.60  E-value=50  Score=14.14  Aligned_cols=15  Identities=33%  Similarity=0.514  Sum_probs=11.4

Q ss_pred             CCCCEEEEEECCEEE
Q ss_conf             878778998531378
Q T0564            64 TVGDQGTLSYKGTRF   78 (89)
Q Consensus        64 ~~Gd~G~L~~QGtrf   78 (89)
                      .-|++|.|.|.|--.
T Consensus        67 IDG~~G~L~YRGy~I   81 (436)
T 2h12_A           67 IDGDKGVLLHRGYPI   81 (436)
T ss_dssp             EETTTTEEEETTEEH
T ss_pred             EECCCCEEEECCEEH
T ss_conf             737863799998559


No 10 
>2vat_A Acetyl-COA--deacetylcephalosporin C acetyltransferase; A/B- hydrolase fold, acyltransferase, acetyl coenzyme A, antibiotic biosynthesis; HET: COA; 2.2A {Acremonium chrysogenum} SCOP: c.69.1.40 PDB: 2vav_A* 2vax_A*
Probab=10.36  E-value=85  Score=12.89  Aligned_cols=38  Identities=13%  Similarity=0.244  Sum_probs=26.9

Q ss_pred             CCEEEEEEEEECCCCCEE-EEEECHHHCCCCCCC-CEEEEE
Q ss_conf             654899888874899668-999165781763878-778998
Q T0564            34 TSMRYEASFKPLNGGLEK-TFRLQAQQYHALTVG-DQGTLS   72 (89)
Q Consensus        34 ~~~~Y~vtF~p~~~G~~~-ef~v~~~~Y~~l~~G-d~G~L~   72 (89)
                      .++.==-.|+ +++|..+ +++|....||.|++. |-=+|-
T Consensus        75 ~~~~~i~~F~-lesG~~L~~~~laY~T~G~LN~~k~NaILv  114 (444)
T 2vat_A           75 QDIARISLFT-LESGVILRDVPVAYKSWGRMNVSRDNCVIV  114 (444)
T ss_dssp             CEEEEEEEEE-CTTSCEEEEEEEEEEEESCCCTTSCCEEEE
T ss_pred             CCEEECCCEE-CCCCCCCCCCEEEEEEECCCCCCCCCEEEE
T ss_conf             4446328678-489988489569999614548889988998


Done!