Query         gi|254780304|ref|YP_003064717.1| DNA protecting protein DprA [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 34
No_of_seqs    116 out of 901
Neff          4.5 
Searched_HMMs 13730
Date          Wed Jun  1 02:17:38 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780304.hhm -d /home/congqian_1/database/scop/scop70_1_75.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 d1in1a_ c.15.1.2 (A:) DNA liga   4.4 1.2E+02  0.0084   13.2   0.8   21   10-31     29-49  (88)
  2 d2gqba1 a.282.1.1 (A:1-130) Hy   3.8 1.5E+02   0.011   12.7   0.9   16   12-27    109-124 (130)
  3 d1b79a_ a.81.1.1 (A:) N-termin   3.4 1.9E+02   0.014   12.2   2.3   17    6-22     32-48  (102)
  4 d1kwga3 c.23.16.5 (A:394-590)    3.1   2E+02   0.015   12.1   2.3   21   14-34     73-93  (197)
  5 d1xeaa1 c.2.1.3 (A:2-122,A:267   3.0 2.1E+02   0.015   12.0   2.8   27    8-34     70-96  (167)
  6 d1tlta1 c.2.1.3 (A:5-127,A:268   2.8 2.2E+02   0.016   11.9   3.6   27    8-34     69-95  (164)
  7 d1ulza2 c.30.1.1 (A:1-114) Bio   2.6 2.3E+02   0.017   11.7   1.3   24    3-27     72-100 (114)
  8 d1n4wa2 d.16.1.1 (A:319-450) C   2.5 2.2E+02   0.016   11.9   0.6   28    6-33     80-115 (132)
  9 d3coxa2 d.16.1.1 (A:319-450) C   2.4 2.3E+02   0.017   11.8   0.6   25    5-29     79-111 (132)
 10 d1r44a_ d.65.1.4 (A:) D-Ala-D-   2.2 2.6E+02   0.019   11.5   2.9   17   11-27    160-176 (202)

No 1  
>d1in1a_ c.15.1.2 (A:) DNA ligase III alpha {Human (Homo sapiens) [TaxId: 9606]}
Probab=4.44  E-value=1.2e+02  Score=13.22  Aligned_cols=21  Identities=19%  Similarity=0.183  Sum_probs=15.5

Q ss_pred             CHHHHHHHHHHHHHCCEEEEEC
Q ss_conf             9899999999998399599706
Q gi|254780304|r   10 PPENRNLLEEIWDNGGIAISEI   31 (34)
Q Consensus        10 P~~n~~L~~~I~~~gG~liSE~   31 (34)
                      | ..+.|.+-|+++||.++.+|
T Consensus        29 p-~~~~L~r~i~a~GG~~~~~~   49 (88)
T d1in1a_          29 P-DFSRLRRYFVAFDGDLVQEF   49 (88)
T ss_dssp             T-THHHHHHHHHHHTCBCCCTT
T ss_pred             C-CHHHHHHHHHHHCCEEEEEC
T ss_conf             9-88999999998298975112


No 2  
>d2gqba1 a.282.1.1 (A:1-130) Hypothetical protein RPA2825 {Rhodopseudomonas palustris [TaxId: 1076]}
Probab=3.79  E-value=1.5e+02  Score=12.71  Aligned_cols=16  Identities=19%  Similarity=0.447  Sum_probs=11.7

Q ss_pred             HHHHHHHHHHHHCCEE
Q ss_conf             9999999999839959
Q gi|254780304|r   12 ENRNLLEEIWDNGGIA   27 (34)
Q Consensus        12 ~n~~L~~~I~~~gG~l   27 (34)
                      -|+++.+++.+|||-+
T Consensus       109 Lhk~vm~kLa~NgG~v  124 (130)
T d2gqba1         109 LHKQVMSKLVANGGKL  124 (130)
T ss_dssp             HHHHHHHHHGGGSEEC
T ss_pred             HHHHHHHHHHHHCCCC
T ss_conf             9999999999928989


No 3  
>d1b79a_ a.81.1.1 (A:) N-terminal domain of DnaB helicase {Escherichia coli [TaxId: 562]}
Probab=3.40  E-value=1.9e+02  Score=12.22  Aligned_cols=17  Identities=24%  Similarity=0.471  Sum_probs=13.8

Q ss_pred             CCCCCHHHHHHHHHHHH
Q ss_conf             81089899999999998
Q gi|254780304|r    6 DCLYPPENRNLLEEIWD   22 (34)
Q Consensus         6 D~iYP~~n~~L~~~I~~   22 (34)
                      +.-|-+.|+.+|+.|.+
T Consensus        32 ~dFy~~~h~~If~ai~~   48 (102)
T d1b79a_          32 DDFYTRPHRHIFTEMAR   48 (102)
T ss_dssp             GGSSSHHHHHHHHHHHH
T ss_pred             HHHCHHHHHHHHHHHHH
T ss_conf             98651989999999999


No 4  
>d1kwga3 c.23.16.5 (A:394-590) A4 beta-galactosidase middle domain {Thermus thermophilus [TaxId: 274]}
Probab=3.13  E-value=2e+02  Score=12.07  Aligned_cols=21  Identities=19%  Similarity=0.197  Sum_probs=15.7

Q ss_pred             HHHHHHHHHHCCEEEEECCCC
Q ss_conf             999999998399599706998
Q gi|254780304|r   14 RNLLEEIWDNGGIAISEIPFG   34 (34)
Q Consensus        14 ~~L~~~I~~~gG~liSE~P~G   34 (34)
                      .++.++.+++||.+|.-+-.|
T Consensus        73 ~~~l~~~v~~GG~lv~g~rsG   93 (197)
T d1kwga3          73 EEALEAFREAEGPVLFGPRSG   93 (197)
T ss_dssp             HHHHHHHHTCSSCEEECTTTT
T ss_pred             HHHHHHHHHCCCEEEEECCCC
T ss_conf             999999997898799942676


No 5  
>d1xeaa1 c.2.1.3 (A:2-122,A:267-312) Putative oxidoreductase VCA1048 {Vibrio cholerae [TaxId: 666]}
Probab=2.98  E-value=2.1e+02  Score=11.99  Aligned_cols=27  Identities=11%  Similarity=0.039  Sum_probs=22.4

Q ss_pred             CCCHHHHHHHHHHHHHCCEEEEECCCC
Q ss_conf             089899999999998399599706998
Q gi|254780304|r    8 LYPPENRNLLEEIWDNGGIAISEIPFG   34 (34)
Q Consensus         8 iYP~~n~~L~~~I~~~gG~liSE~P~G   34 (34)
                      .-|..|.++..+.++.|=-++.|=|++
T Consensus        70 tp~~~H~~~~~~al~~gk~V~~EKP~~   96 (167)
T d1xeaa1          70 AATDVHSTLAAFFLHLGIPTFVDKPLA   96 (167)
T ss_dssp             SCGGGHHHHHHHHHHTTCCEEEESCSC
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             321111222211122110022578782


No 6  
>d1tlta1 c.2.1.3 (A:5-127,A:268-308) Virulence factor MviM {Escherichia coli [TaxId: 562]}
Probab=2.81  E-value=2.2e+02  Score=11.89  Aligned_cols=27  Identities=7%  Similarity=0.179  Sum_probs=22.4

Q ss_pred             CCCHHHHHHHHHHHHHCCEEEEECCCC
Q ss_conf             089899999999998399599706998
Q gi|254780304|r    8 LYPPENRNLLEEIWDNGGIAISEIPFG   34 (34)
Q Consensus         8 iYP~~n~~L~~~I~~~gG~liSE~P~G   34 (34)
                      ..|..|.+++.+.+++|=-++.|-|+.
T Consensus        69 tp~~~h~~~~~~al~~gk~V~~EKPla   95 (164)
T d1tlta1          69 SSTASHFDVVSTLLNAGVHVCVDKPLA   95 (164)
T ss_dssp             SCTTHHHHHHHHHHHTTCEEEEESSSC
T ss_pred             CCCHHCCCCCCCCCCCCCEEECCCCCC
T ss_conf             311000123311223220012043556


No 7  
>d1ulza2 c.30.1.1 (A:1-114) Biotin carboxylase (BC), N-terminal domain {Aquifex aeolicus [TaxId: 63363]}
Probab=2.56  E-value=2.3e+02  Score=11.73  Aligned_cols=24  Identities=29%  Similarity=0.442  Sum_probs=16.1

Q ss_pred             CCCCCCCC-----HHHHHHHHHHHHHCCEE
Q ss_conf             73881089-----89999999999839959
Q gi|254780304|r    3 GGLDCLYP-----PENRNLLEEIWDNGGIA   27 (34)
Q Consensus         3 ~GiD~iYP-----~~n~~L~~~I~~~gG~l   27 (34)
                      +|.|-++|     +||.++++.+.+. |.+
T Consensus        72 ~~~daihPGyGFLSEna~Fa~~~~~~-gi~  100 (114)
T d1ulza2          72 VGADAIHPGYGFLAENAEFAKMCEEA-GIT  100 (114)
T ss_dssp             TTCCEEECCSSTTTTCHHHHHHHHHT-TCE
T ss_pred             HCCCEEECCHHHHHHHHHHHHHHHHC-CCE
T ss_conf             69976763346550589999999987-998


No 8  
>d1n4wa2 d.16.1.1 (A:319-450) Cholesterol oxidase {Streptomyces sp. [TaxId: 1931]}
Probab=2.51  E-value=2.2e+02  Score=11.88  Aligned_cols=28  Identities=14%  Similarity=0.213  Sum_probs=17.7

Q ss_pred             CCCCCHHH--------HHHHHHHHHHCCEEEEECCC
Q ss_conf             81089899--------99999999839959970699
Q gi|254780304|r    6 DCLYPPEN--------RNLLEEIWDNGGIAISEIPF   33 (34)
Q Consensus         6 D~iYP~~n--------~~L~~~I~~~gG~liSE~P~   33 (34)
                      +.-||+.+        +.++++|.+..|.+.+--++
T Consensus        80 ~L~Wp~~~~~~ai~~a~~~~~rin~~~g~~~~~~lf  115 (132)
T d1n4wa2          80 KLNWTRDQNAPAVNAAKALFDRINKANGTIYRYDLF  115 (132)
T ss_dssp             EECCCGGGGHHHHHHHHHHHHHHHHHHTCCBCCSSS
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHHHHCCEEECCCCC
T ss_conf             973532157589999999999987626856614556


No 9  
>d3coxa2 d.16.1.1 (A:319-450) Cholesterol oxidase {Brevibacterium sterolicum [TaxId: 1702]}
Probab=2.35  E-value=2.3e+02  Score=11.80  Aligned_cols=25  Identities=12%  Similarity=0.343  Sum_probs=16.5

Q ss_pred             CCCCCCHHH--------HHHHHHHHHHCCEEEE
Q ss_conf             881089899--------9999999983995997
Q gi|254780304|r    5 LDCLYPPEN--------RNLLEEIWDNGGIAIS   29 (34)
Q Consensus         5 iD~iYP~~n--------~~L~~~I~~~gG~liS   29 (34)
                      .+.-||+.+        +.++++|.+..|.+.+
T Consensus        79 a~L~Wp~~~~~~~~~aa~~~~~ri~~a~gt~~~  111 (132)
T d3coxa2          79 VDLTWAQSQNQKGIDMAKKVFDKINQKEGTIYR  111 (132)
T ss_dssp             EEECCCGGGGHHHHHHHHHHHHHHHHHHTCCBC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHHHHCCEEEC
T ss_conf             798466546758999999999999975692562


No 10 
>d1r44a_ d.65.1.4 (A:) D-Ala-D-Ala dipeptidase VanX {Enterococcus faecium [TaxId: 1352]}
Probab=2.24  E-value=2.6e+02  Score=11.50  Aligned_cols=17  Identities=35%  Similarity=0.603  Sum_probs=13.4

Q ss_pred             HHHHHHHHHHHHHCCEE
Q ss_conf             89999999999839959
Q gi|254780304|r   11 PENRNLLEEIWDNGGIA   27 (34)
Q Consensus        11 ~~n~~L~~~I~~~gG~l   27 (34)
                      ++||.|..++.++.|-.
T Consensus       160 ~~NR~lL~~~M~~aGF~  176 (202)
T d1r44a_         160 AQNRRRLRSIMENSGFE  176 (202)
T ss_dssp             HHHHHHHHHHHHTTTEE
T ss_pred             HHHHHHHHHHHHHCCCC
T ss_conf             99999999999983882


Done!