Query         gi|254780236|ref|YP_003064649.1| 50S ribosomal protein L17 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 136
No_of_seqs    117 out of 1412
Neff          4.8 
Searched_HMMs 13730
Date          Mon May 23 23:51:19 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780236.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 d2qamn1 d.188.1.1 (N:1-120) Pr 100.0       0       0  336.6   5.4  120    1-120     1-120 (120)
  2 d2zjrk1 d.188.1.1 (K:3-115) Pr 100.0       0       0  314.7  12.5  113    3-115     1-113 (113)
  3 d1gd8a_ d.188.1.1 (A:) Prokary 100.0       0       0  295.1  11.6  104   14-117     1-105 (105)
  4 d2cqma1 d.188.1.1 (A:28-136) P 100.0 8.4E-45       0  281.8  11.4  107   20-126     1-109 (109)
  5 d1t6sa1 a.4.5.60 (A:1-85) Segr  29.4      16  0.0012   15.0   4.5   55   40-96      4-61  (85)
  6 d1xd7a_ a.4.5.55 (A:) Hypothet  19.7      25  0.0018   13.8   4.2   44   51-94     10-58  (127)
  7 d1o65a_ b.58.1.2 (A:) Hypothet  18.7      27  0.0019   13.7   1.9   28   88-120   147-175 (233)
  8 d2o8ra4 d.136.1.4 (A:506-691)    8.7      20  0.0015   14.4  -1.2   38   44-81     13-50  (186)
  9 d1otfa_ d.80.1.1 (A:) 4-oxaloc   8.6      54  0.0039   11.9   3.2   21   11-31     10-30  (59)
 10 d2hiqa1 d.58.4.12 (A:9-104) Hy   7.6      59  0.0043   11.7   2.0   26   73-98     15-40  (96)

No 1  
>d2qamn1 d.188.1.1 (N:1-120) Prokaryotic ribosomal protein L17 {Escherichia coli [TaxId: 562]}
Probab=100.00  E-value=0  Score=336.56  Aligned_cols=120  Identities=58%  Similarity=0.876  Sum_probs=118.7

Q ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCEEEECHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCHHHHHHHH
Q ss_conf             99888899999788999999999999998689378759999998864216762311387677889998725668899999
Q gi|254780236|r    1 MRHAISGRKLNRTSSHRKAMFSNMAASIIWHEQIVTTLPKAKELRPIVEKLVTLGKKGGLHSLRLAISKIGDVDVVNKLF   80 (136)
Q Consensus         1 MrH~~~~rklgr~~~hR~allrnl~~~Li~herI~TT~~KAKelr~~aEklIt~AK~~~~~~rr~~~~~l~~~~~v~kLf   80 (136)
                      |||+++++||||+++||++||+||+++||+||+|+||++||||+|+|+|+|||+||+|+++++|++.+|+.|++++.|||
T Consensus         1 MrH~~~~rklgr~~~hR~allrnl~t~Li~herI~TT~aKAKelr~~~EklIt~aK~~~~~~rr~~~~~l~d~~~v~kLf   80 (120)
T d2qamn1           1 MRHRKSGRQLNRNSSHRQAMFRNMAGSLVRHEIIKTTLPKAKELRRVVEPLITLAKTDSVANRRLAFARTRDNEIVAKLF   80 (120)
T ss_dssp             CCTTCCCCCTTSCTTGGGTTTHHHHHHHHHHSEECCBSHHHHHHHHHHHHHHHHHTSCTTHHHHHHHHSSCCTTHHHHTT
T ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCHHHHHHHH
T ss_conf             99988889999983999999999999999749767649999999999999999842577788899871035888999899


Q ss_pred             HHHHHHHCCCCCCEEEEEECCCCCCCCCCEEEEEEECCCC
Q ss_conf             9999885058775599875378999887579999526886
Q gi|254780236|r   81 GIIAKRYSDRSGGYLRIMKRGFRYGDSAPMAVIEFVDRDL  120 (136)
Q Consensus        81 ~~l~prf~~R~GGYTRi~kl~~R~gD~A~ma~iElVd~~~  120 (136)
                      ++|+|||++||||||||+|+|+|.||+|+||+|||||+|.
T Consensus        81 ~~iapry~~R~GGYTRI~klg~R~GD~A~maiiElVd~~~  120 (120)
T d2qamn1          81 NELGPRFASRAGGYTRILKCGFRAGDNAPMAYIELVDRSE  120 (120)
T ss_dssp             TTHHHHTTTCCSCCEECCCCCCCSSSCCCBCCEEETTCCC
T ss_pred             HHHHHHHCCCCCCEEEEEECCCCCCCCCCEEEEEEECCCC
T ss_conf             9987685079988655442689999988878899722899


No 2  
>d2zjrk1 d.188.1.1 (K:3-115) Prokaryotic ribosomal protein L17 {Deinococcus radiodurans [TaxId: 1299]}
Probab=100.00  E-value=0  Score=314.66  Aligned_cols=113  Identities=50%  Similarity=0.741  Sum_probs=112.4

Q ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHHHCCEEEECHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCHHHHHHHHHH
Q ss_conf             88889999978899999999999999868937875999999886421676231138767788999872566889999999
Q gi|254780236|r    3 HAISGRKLNRTSSHRKAMFSNMAASIIWHEQIVTTLPKAKELRPIVEKLVTLGKKGGLHSLRLAISKIGDVDVVNKLFGI   82 (136)
Q Consensus         3 H~~~~rklgr~~~hR~allrnl~~~Li~herI~TT~~KAKelr~~aEklIt~AK~~~~~~rr~~~~~l~~~~~v~kLf~~   82 (136)
                      |+++++||||+++||++|||||+++||+||+|+||++||||+|+|+|+|||+||+|++|++|++.++|.|+++++|||++
T Consensus         1 H~~~~rklgr~~~hR~allrnl~~sLi~herI~TT~~KAKelr~~~EklIT~AK~~~~~~rr~~~~~l~~k~~v~kLf~~   80 (113)
T d2zjrk1           1 HGKAGRKLNRNSSARVALARAQATALLREGRIQTTLTKAKELRPFVEQLITTAKGGDLHSRRLVAQDIHDKDVVRKVMDE   80 (113)
T ss_dssp             CCCCCCCCSSCTTHHHHHHHHHHHHHHHSSEEEEEHHHHHHHHHHHHHHHHHHTTCSHHHHHHHTTSCCCHHHHHHHHHT
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHHHCCEEEECHHHHHHHHHHHHHHHEECCCCCHHHHHHHHHHCCCHHHHHHHHHH
T ss_conf             98777889978599999999999999977989977899999998888771362368725555554525668999999998


Q ss_pred             HHHHHCCCCCCEEEEEECCCCCCCCCCEEEEEE
Q ss_conf             998850587755998753789998875799995
Q gi|254780236|r   83 IAKRYSDRSGGYLRIMKRGFRYGDSAPMAVIEF  115 (136)
Q Consensus        83 l~prf~~R~GGYTRi~kl~~R~gD~A~ma~iEl  115 (136)
                      |+|||++||||||||+|+|+|.||+|+||+|||
T Consensus        81 iapry~~R~GGYTRI~kl~~R~gD~A~ma~iEL  113 (113)
T d2zjrk1          81 VAPKYAERPGGYTRILRVGTRRGDGVTMALIEL  113 (113)
T ss_dssp             HHHHTTTSCSCCCEEEECCCCTTTCCCEEEEEC
T ss_pred             HHHHHCCCCCCEEEEEECCCCCCCCCCEEEEEC
T ss_conf             719863789886898878899999986678759


No 3  
>d1gd8a_ d.188.1.1 (A:) Prokaryotic ribosomal protein L17 {Thermus thermophilus [TaxId: 274]}
Probab=100.00  E-value=0  Score=295.09  Aligned_cols=104  Identities=51%  Similarity=0.831  Sum_probs=102.4

Q ss_pred             HHHHHHHHHHHHHHHHHCCEEEECHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             89999999999999986893787599999988642167623113876778899987256688999999999885058775
Q gi|254780236|r   14 SSHRKAMFSNMAASIIWHEQIVTTLPKAKELRPIVEKLVTLGKKGGLHSLRLAISKIGDVDVVNKLFGIIAKRYSDRSGG   93 (136)
Q Consensus        14 ~~hR~allrnl~~~Li~herI~TT~~KAKelr~~aEklIt~AK~~~~~~rr~~~~~l~~~~~v~kLf~~l~prf~~R~GG   93 (136)
                      ||||++|||||+++||+||+|+||++||||+|+|+|+|||+||+|++|++|+++++|.|+++++|||++|+|||++||||
T Consensus         1 sshR~allrnl~t~Li~~erI~TT~~KAKelr~~~EklIt~aK~~~~~~rr~~~~~l~~~~~v~KLf~~lapry~~R~GG   80 (105)
T d1gd8a_           1 SSHRLALYRNQAKSLLTHGRITTTVPKAKELRGFVDHLIHLAKRGDLHARRLVLRDLQDVKLVRKLFDEIAPRYRDRQGG   80 (105)
T ss_dssp             CHHHHHHHHHHHHHHHHHSEEEEEHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHSCCHHHHHHHHHTHHHHTSSCCSC
T ss_pred             CHHHHHHHHHHHHHHHHCCEEEECHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCCC
T ss_conf             96899999999999997598997389998889999999998226867888899988578999999999999996157888


Q ss_pred             EEEEEECC-CCCCCCCCEEEEEEEC
Q ss_conf             59987537-8999887579999526
Q gi|254780236|r   94 YLRIMKRG-FRYGDSAPMAVIEFVD  117 (136)
Q Consensus        94 YTRi~kl~-~R~gD~A~ma~iElVd  117 (136)
                      ||||+|+| +|.||+|+||+|||||
T Consensus        81 YTRI~kl~~~R~GD~A~ma~iElVd  105 (105)
T d1gd8a_          81 YTRVLKLAERRRGDGAPLALVELVE  105 (105)
T ss_dssp             CEEEEEEEEECTTTCCEEEEEEECC
T ss_pred             EEEEEECCCCCCCCCCCEEEEEEEC
T ss_conf             6898866899999998888998329


No 4  
>d2cqma1 d.188.1.1 (A:28-136) Prokaryotic ribosomal protein L17 {Human (Homo sapiens) [TaxId: 9606]}
Probab=100.00  E-value=8.4e-45  Score=281.75  Aligned_cols=107  Identities=34%  Similarity=0.543  Sum_probs=103.3

Q ss_pred             HHHHHHHHHHHCCEEEECHHHHHHHHHHHHHHHHHHCCCCHHHH--HHHHHHHCCHHHHHHHHHHHHHHHCCCCCCEEEE
Q ss_conf             99999999986893787599999988642167623113876778--8999872566889999999998850587755998
Q gi|254780236|r   20 MFSNMAASIIWHEQIVTTLPKAKELRPIVEKLVTLGKKGGLHSL--RLAISKIGDVDVVNKLFGIIAKRYSDRSGGYLRI   97 (136)
Q Consensus        20 llrnl~~~Li~herI~TT~~KAKelr~~aEklIt~AK~~~~~~r--r~~~~~l~~~~~v~kLf~~l~prf~~R~GGYTRi   97 (136)
                      |||||+++||+||+|+||++||||+|+|+|+|||+||+|++|++  +++.+|+.|+++++|||++|+|||+|||||||||
T Consensus         1 llrnl~tsLi~herI~TT~~KAKelr~~~ErLIt~aK~~~~~~r~~~~~~~~l~~k~~v~KLf~~lapry~~R~GGYTRI   80 (109)
T d2cqma1           1 LLRNLLTGLVRHERIEAPWARVDEMRGYAEKLIDYGKLGDTNERAMRMADFWLTEKDLIPKLFQVLAPRYKDQTGGYTRM   80 (109)
T ss_dssp             HHHHHHHHHHHTTEEEEEHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHCCCTTHHHHHHTTHHHHHHHSCSCCEEE
T ss_pred             CHHHHHHHHHHCCEEEECHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCCCEEEE
T ss_conf             96899999997596996689998888768888778604861677888766325657899989998708872589876899


Q ss_pred             EECCCCCCCCCCEEEEEEECCCCCCCCCC
Q ss_conf             75378999887579999526886622254
Q gi|254780236|r   98 MKRGFRYGDSAPMAVIEFVDRDLSAKGTP  126 (136)
Q Consensus        98 ~kl~~R~gD~A~ma~iElVd~~~~~~~~~  126 (136)
                      +|+|+|.||+|+||+|||||+|+++..+|
T Consensus        81 ~kl~~R~gD~A~ma~iElv~~p~p~~~~p  109 (109)
T d2cqma1          81 LQIPNRSLDRAKMAVIEYKGNCLPPLPLP  109 (109)
T ss_dssp             EEECCCSSSCCCEEEEEESSCCCCCCCCC
T ss_pred             EECCCCCCCCCCEEEEEECCCCCCCCCCC
T ss_conf             86478888888869999789989999987


No 5  
>d1t6sa1 a.4.5.60 (A:1-85) Segregation and condensation protein B, ScpB {Chlorobium tepidum [TaxId: 1097]}
Probab=29.43  E-value=16  Score=14.96  Aligned_cols=55  Identities=9%  Similarity=0.074  Sum_probs=39.1

Q ss_pred             HHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH---CCHHHHHHHHHHHHHHHCCCCCCEEE
Q ss_conf             9999886421676231138767788999872---56688999999999885058775599
Q gi|254780236|r   40 KAKELRPIVEKLVTLGKKGGLHSLRLAISKI---GDVDVVNKLFGIIAKRYSDRSGGYLR   96 (136)
Q Consensus        40 KAKelr~~aEklIt~AK~~~~~~rr~~~~~l---~~~~~v~kLf~~l~prf~~R~GGYTR   96 (136)
                      .-+++...+|=++..|-+  +-+...+...+   .+...+..+.+++...|.+++.|+.=
T Consensus         4 ~~~~l~~~IEAlLFas~~--Pls~~~L~~~l~~~~~~~~i~~~l~~L~~~y~~~~~g~el   61 (85)
T d1t6sa1           4 QRQQLLRSLEALIFSSEE--PVNLQTLSQITAHKFTPSELQEAVDELNRDYEATGRTFRI   61 (85)
T ss_dssp             HHHHHHHHHHHHHHHCSS--CBCHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHHTCSEEE
T ss_pred             HHHHHHHHHHHHHHHCCC--CCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCCCEEE
T ss_conf             189999999999995489--9899999998755899999999999999998507986799


No 6  
>d1xd7a_ a.4.5.55 (A:) Hypothetical protein ywnA {Bacillus subtilis [TaxId: 1423]}
Probab=19.70  E-value=25  Score=13.84  Aligned_cols=44  Identities=18%  Similarity=0.141  Sum_probs=33.6

Q ss_pred             HHHHHCCCCHHHHHHHHHHHCCHHHHHHHHHHHHH-----HHCCCCCCE
Q ss_conf             76231138767788999872566889999999998-----850587755
Q gi|254780236|r   51 LVTLGKKGGLHSLRLAISKIGDVDVVNKLFGIIAK-----RYSDRSGGY   94 (136)
Q Consensus        51 lIt~AK~~~~~~rr~~~~~l~~~~~v~kLf~~l~p-----rf~~R~GGY   94 (136)
                      |+.+|..+.+.+..++.+.=.++..+.|++..|..     -....+|||
T Consensus        10 L~~la~~~~~ss~~IA~~~~~~~~~v~kIl~~L~~aglV~s~rG~~GGy   58 (127)
T d1xd7a_          10 LSLISMDEKTSSEIIADSVNTNPVVVRRMISLLKKADILTSRAGVPGAS   58 (127)
T ss_dssp             HHHHHTCSCCCHHHHHHHHTSCHHHHHHHHHHHHHTTSEECCSSSSSCE
T ss_pred             HHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCCCCCCCC
T ss_conf             9998649998999999886959999999999999807651268999851


No 7  
>d1o65a_ b.58.1.2 (A:) Hypothetical protein YiiM {Escherichia coli [TaxId: 562]}
Probab=18.71  E-value=27  Score=13.71  Aligned_cols=28  Identities=18%  Similarity=0.317  Sum_probs=22.2

Q ss_pred             CCCCCCEEEEEECC-CCCCCCCCEEEEEEECCCC
Q ss_conf             05877559987537-8999887579999526886
Q gi|254780236|r   88 SDRSGGYLRIMKRG-FRYGDSAPMAVIEFVDRDL  120 (136)
Q Consensus        88 ~~R~GGYTRi~kl~-~R~gD~A~ma~iElVd~~~  120 (136)
                      ..+.|-|.||++-| .+.||.     |+++++|.
T Consensus       147 ~g~~G~y~rVl~~G~I~~GD~-----v~li~rp~  175 (233)
T d1o65a_         147 TGKVGWLYSVIAPGKVSADAP-----LELVSRVS  175 (233)
T ss_dssp             HTCCCEEEEEEECEEEETTSC-----EEEEECCC
T ss_pred             CCCCEEEEEEECCCEECCCCE-----EEEECCCC
T ss_conf             387169999951867749997-----89953899


No 8  
>d2o8ra4 d.136.1.4 (A:506-691) Polyphosphate kinase, PPK {Porphyromonas gingivalis [TaxId: 837]}
Probab=8.70  E-value=20  Score=14.39  Aligned_cols=38  Identities=18%  Similarity=0.385  Sum_probs=20.7

Q ss_pred             HHHHHHHHHHHHCCCCHHHHHHHHHHHCCHHHHHHHHH
Q ss_conf             88642167623113876778899987256688999999
Q gi|254780236|r   44 LRPIVEKLVTLGKKGGLHSLRLAISKIGDVDVVNKLFG   81 (136)
Q Consensus        44 lr~~aEklIt~AK~~~~~~rr~~~~~l~~~~~v~kLf~   81 (136)
                      +-..+|+=|..||.|......+-...|.|++++.+|++
T Consensus        13 l~~~I~~Ei~~a~~G~~~~I~~KmNsL~D~~iI~~Ly~   50 (186)
T d2o8ra4          13 ITNLIEREIENVKRGKRGYMLLKMNGLQDKNVITQLYR   50 (186)
T ss_dssp             HHHHHHHHHHHHHTTCCCEEEEEESCBCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCCCEEEEEECCCCCHHHHHHHHH
T ss_conf             99999999999877998689986034659899999999


No 9  
>d1otfa_ d.80.1.1 (A:) 4-oxalocrotonate tautomerase {Pseudomonas sp., DmpI [TaxId: 306]}
Probab=8.55  E-value=54  Score=11.90  Aligned_cols=21  Identities=10%  Similarity=0.319  Sum_probs=15.9

Q ss_pred             CCCHHHHHHHHHHHHHHHHHC
Q ss_conf             978899999999999999868
Q gi|254780236|r   11 NRTSSHRKAMFSNMAASIIWH   31 (136)
Q Consensus        11 gr~~~hR~allrnl~~~Li~h   31 (136)
                      ||+..+++.|.+.+...+.+.
T Consensus        10 Grs~eqK~~l~~~it~~~~~~   30 (59)
T d1otfa_          10 GRTDEQKETLIRQVSEAMANS   30 (59)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHH
T ss_conf             999999999999999999998


No 10 
>d2hiqa1 d.58.4.12 (A:9-104) Hypothetical protein YdhR {Escherichia coli [TaxId: 562]}
Probab=7.64  E-value=59  Score=11.65  Aligned_cols=26  Identities=12%  Similarity=0.185  Sum_probs=20.1

Q ss_pred             HHHHHHHHHHHHHHHCCCCCCEEEEE
Q ss_conf             68899999999988505877559987
Q gi|254780236|r   73 VDVVNKLFGIIAKRYSDRSGGYLRIM   98 (136)
Q Consensus        73 ~~~v~kLf~~l~prf~~R~GGYTRi~   98 (136)
                      .+-....|.++||.|.+-||=--.+.
T Consensus        15 ~ee~~~~~~~lAp~~~~epGLi~K~~   40 (96)
T d2hiqa1          15 GDAMAEQLKPLAESINQEPGFLWKVW   40 (96)
T ss_dssp             HHHHHHHSHHHHHHHTTSTTEEEEEE
T ss_pred             HHHHHHHHHHHHHHHCCCCCCEEEEE
T ss_conf             89999999987777515998258898


Done!