Query         gi|254780318|ref|YP_003064731.1| ribosomal protein L20 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 123
No_of_seqs    121 out of 1268
Neff          4.5 
Searched_HMMs 13730
Date          Wed Jun  1 02:38:29 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780318.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 d2zjrn1 a.144.2.1 (N:2-118) Ri 100.0       0       0  331.8  11.3  117    2-118     1-117 (117)
  2 d2j01u1 a.144.2.1 (U:2-118) Ri 100.0       0       0  327.8  10.2  116    2-117     1-116 (117)
  3 d2gyco1 a.144.2.1 (O:2-116) Ri 100.0       0       0  321.8 -28.3  115    3-117     1-115 (115)
  4 d1gyza_ a.144.2.1 (A:) Ribosom  99.9 1.2E-25 8.6E-30  168.1   2.2   60   61-120     1-60  (60)
  5 d1jdla_ a.3.1.1 (A:) Cytochrom  39.7      11 0.00082   16.1   3.2   37   71-108    42-78  (118)
  6 d1i1ga1 a.4.5.32 (A:2-61) LprA  17.1      23  0.0017   14.3   1.2   25   89-113     3-27  (60)
  7 d2cg4a1 a.4.5.32 (A:4-66) Regu  16.9      20  0.0015   14.6   0.9   25   89-113     5-29  (63)
  8 d2cyya1 a.4.5.32 (A:5-64) Puta  16.6      20  0.0015   14.6   0.8   25   89-113     3-27  (60)
  9 d2cfxa1 a.4.5.32 (A:1-63) Tran  15.8      20  0.0014   14.7   0.6   25   89-113     5-29  (63)
 10 d1g2ha_ a.4.1.12 (A:) Transcri  13.2      38  0.0028   13.0   2.8   24   66-89     37-60  (61)

No 1  
>d2zjrn1 a.144.2.1 (N:2-118) Ribosomal protein L20 {Deinococcus radiodurans [TaxId: 1299]}
Probab=100.00  E-value=0  Score=331.81  Aligned_cols=117  Identities=52%  Similarity=0.832  Sum_probs=115.7

Q ss_pred             CCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             87756655568998999974131564523699999999999999874699889999999998677999971899999999
Q gi|254780318|r    2 TRVKRGVVSSAKHKKVLKSAKGFYGRRKNTIRAAKAAVDRSQQYAYRDRRVKKRDFRSLWIQRINAAVRVYDLNYSQFIN   81 (123)
Q Consensus         2 ~Rvk~g~~~~~rrkkilk~akGfrG~r~~~~r~A~~~v~kAl~yayrdRk~kKr~fR~LWI~RINAa~r~~g~sYS~fi~   81 (123)
                      ||||+|+++++||++||++||||+|++|+||++|+|+|+|||+|||+||+.+||+||+|||+|||||+|++|++||+||+
T Consensus         1 pRvk~g~~~~~rrkkilk~akGfrG~~s~~~r~A~~~v~kAl~yayrdRk~kKr~fR~LWI~RINAa~r~~gl~YS~fi~   80 (117)
T d2zjrn1           1 PRAKTGIVRRRRHKKVLKRAKGFWGSRSKQYRNAFQTLLNAATYEYRDRRNKKRDFRRLWIQRINAGARLHGMNYSTFIN   80 (117)
T ss_dssp             CCCCCTTHHHHHHHHHHTTCSSCCGGGGTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTCCHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHH
T ss_conf             99866289999999999981646777655289999999999999996798889899999999999999990999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHCCHHHHHHHHHHHHHHHH
Q ss_conf             9996298646899999974198999999999999855
Q gi|254780318|r   82 GLHKAGIVLDRKVLSDLAITQLDSFKKIVELSRSRLL  118 (123)
Q Consensus        82 ~L~~~~i~LnRKvLa~LAi~dp~~F~~lv~~ak~~l~  118 (123)
                      ||+++||+|||||||||||+||++|++||+++|++|+
T Consensus        81 ~L~~~~I~LnRK~Ls~lAi~dp~~F~~lv~~aK~a~~  117 (117)
T d2zjrn1          81 GLKRANIDLNRKVLADIAAREPEAFKALVDASRNARQ  117 (117)
T ss_dssp             HHHHCTTCCCCSSHHHHHHHCHHHHHHHHHHHHTTTC
T ss_pred             HHHHHCCCCCHHHHHHHHHCCHHHHHHHHHHHHHHCC
T ss_conf             9999589773999999996099999999999998639


No 2  
>d2j01u1 a.144.2.1 (U:2-118) Ribosomal protein L20 {Thermus thermophilus [TaxId: 274]}
Probab=100.00  E-value=0  Score=327.81  Aligned_cols=116  Identities=50%  Similarity=0.801  Sum_probs=115.1

Q ss_pred             CCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             87756655568998999974131564523699999999999999874699889999999998677999971899999999
Q gi|254780318|r    2 TRVKRGVVSSAKHKKVLKSAKGFYGRRKNTIRAAKAAVDRSQQYAYRDRRVKKRDFRSLWIQRINAAVRVYDLNYSQFIN   81 (123)
Q Consensus         2 ~Rvk~g~~~~~rrkkilk~akGfrG~r~~~~r~A~~~v~kAl~yayrdRk~kKr~fR~LWI~RINAa~r~~g~sYS~fi~   81 (123)
                      ||||+|+++++||++||++||||+|++|+||++|+|+|+|||+|||+||+.+||+||+|||+|||||+|++|++||+||+
T Consensus         1 pRvk~g~~~~~rrkkilk~akGfrG~~s~~~r~A~~~v~kAl~yayrdRk~kKr~fR~LWI~RINAa~r~~glsYS~fi~   80 (117)
T d2j01u1           1 PRAKTGVVRRRKHKKILKLAKGYWGLRSKSFRKARETLFAAGNYAYAHRKRRKRDFRRLWIVRINAACRQHGLNYSTFIH   80 (117)
T ss_dssp             CCCCCCSHHHHHHHHHHHHTTTCSSGGGTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTCCHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHH
T ss_conf             99766289999999999980646777653359999999999999997299999999999999999999505999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHCCHHHHHHHHHHHHHHH
Q ss_conf             999629864689999997419899999999999985
Q gi|254780318|r   82 GLHKAGIVLDRKVLSDLAITQLDSFKKIVELSRSRL  117 (123)
Q Consensus        82 ~L~~~~i~LnRKvLa~LAi~dp~~F~~lv~~ak~~l  117 (123)
                      +|+++||+|||||||||||+||++|++||+++|++|
T Consensus        81 ~L~k~~I~LnRKvLs~lAi~dp~~F~~lv~~~k~~~  116 (117)
T d2j01u1          81 GLKKAGIEVDRKNLADLAVREPQVFAELVERAKAAQ  116 (117)
T ss_dssp             HHHTTCCSCSCTTTTTTTTSSHHHHHHHHHHHHHHT
T ss_pred             HHHHHCCCCCHHHHHHHHHCCHHHHHHHHHHHHHHC
T ss_conf             999948866399999999609999999999998756


No 3  
>d2gyco1 a.144.2.1 (O:2-116) Ribosomal protein L20 {Escherichia coli [TaxId: 562]}
Probab=100.00  E-value=0  Score=321.77  Aligned_cols=115  Identities=54%  Similarity=0.890  Sum_probs=113.5

Q ss_pred             CCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             77566555689989999741315645236999999999999998746998899999999986779999718999999999
Q gi|254780318|r    3 RVKRGVVSSAKHKKVLKSAKGFYGRRKNTIRAAKAAVDRSQQYAYRDRRVKKRDFRSLWIQRINAAVRVYDLNYSQFING   82 (123)
Q Consensus         3 Rvk~g~~~~~rrkkilk~akGfrG~r~~~~r~A~~~v~kAl~yayrdRk~kKr~fR~LWI~RINAa~r~~g~sYS~fi~~   82 (123)
                      |||+|+++++||++||++|+||+|++++||++|+|+|+||++|||+||+.|||+||+|||+|||||+||+|++||+||+|
T Consensus         1 Rvk~g~~~~~rrkkilk~akGf~G~~~~~~r~A~~~v~kA~~ya~rdRk~kKr~fR~LWI~RINAA~r~~gl~Ys~fi~~   80 (115)
T d2gyco1           1 RVKRGVIARARHKKILKQAKGYYGARSRVYRVAFQAVIKAGQYAYRDRRQRKRQFRQLWIARINAAARQNGISYSKFING   80 (115)
T ss_dssp             CCCCCSSSSSSSSSSSSSCTTCCSSSSSCSTTSSSSSSSTTSSSTTCCTTSTTTGGGSSSSSHHHHSSSSSCCGGGTSTT
T ss_pred             CCCCCHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHH
T ss_conf             98773789999999999805257676535899999999999999985999999999999999999998359989999999


Q ss_pred             HHHCCCCCCHHHHHHHHHCCHHHHHHHHHHHHHHH
Q ss_conf             99629864689999997419899999999999985
Q gi|254780318|r   83 LHKAGIVLDRKVLSDLAITQLDSFKKIVELSRSRL  117 (123)
Q Consensus        83 L~~~~i~LnRKvLa~LAi~dp~~F~~lv~~ak~~l  117 (123)
                      |+++||+|||||||||||+||.+|++||+++|++|
T Consensus        81 L~k~~I~LnRKvLs~lAi~dp~~F~~lv~~aK~~l  115 (115)
T d2gyco1          81 LKKASVEIDRKILADIAVFDKVAFTALVEKAKAAL  115 (115)
T ss_dssp             TTTSSSCCCSSSTTSSSSSCSSSSSTTTTTTTSCC
T ss_pred             HHHHCCCCCHHHHHHHHHHCHHHHHHHHHHHHHHC
T ss_conf             99958967399999999609999999999998519


No 4  
>d1gyza_ a.144.2.1 (A:) Ribosomal protein L20 {Aquifex aeolicus [TaxId: 63363]}
Probab=99.90  E-value=1.2e-25  Score=168.11  Aligned_cols=60  Identities=57%  Similarity=0.948  Sum_probs=58.6

Q ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHH
Q ss_conf             998677999971899999999999629864689999997419899999999999985565
Q gi|254780318|r   61 WIQRINAAVRVYDLNYSQFINGLHKAGIVLDRKVLSDLAITQLDSFKKIVELSRSRLLVD  120 (123)
Q Consensus        61 WI~RINAa~r~~g~sYS~fi~~L~~~~i~LnRKvLa~LAi~dp~~F~~lv~~ak~~l~~~  120 (123)
                      ||+|||||+|++|++||+||++|++++|.||||||||||++||++|++||+.+|++|+++
T Consensus         1 WI~RINAa~r~~g~~YS~fi~~L~k~~I~LnRK~La~LAi~dp~~F~~lv~~~k~~l~~~   60 (60)
T d1gyza_           1 WIARINAAVRAYGLNYSTFINGLKKAGIELDRKILADMAVRDPQAFEQVVNKVKEALQVQ   60 (60)
T ss_dssp             CCHHHHHHHTTTTCCSHHHHHHHHHHTCCCCSSSSHHHHHHCHHHHHHHHHHHHHHTTCC
T ss_pred             CHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCHHHHHHHHHHHHHHHCCC
T ss_conf             969999999995998999999999948977399999999608999999999999975579


No 5  
>d1jdla_ a.3.1.1 (A:) Cytochrome c2 {Rhodospirillum centenum [TaxId: 34018]}
Probab=39.74  E-value=11  Score=16.09  Aligned_cols=37  Identities=16%  Similarity=0.285  Sum_probs=31.8

Q ss_pred             HHCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCHHHHHH
Q ss_conf             71899999999999629864689999997419899999
Q gi|254780318|r   71 VYDLNYSQFINGLHKAGIVLDRKVLSDLAITQLDSFKK  108 (123)
Q Consensus        71 ~~g~sYS~fi~~L~~~~i~LnRKvLa~LAi~dp~~F~~  108 (123)
                      ..|++||.....|...++.-|...|.+- +.||..|-.
T Consensus        42 ~~g~~Ys~~~~~~~~~g~~W~~e~L~~~-l~~P~~~i~   78 (118)
T d1jdla_          42 APGFNYSAINHAAGEAGLHWTPENIIAY-LPDPNAFLR   78 (118)
T ss_dssp             CTTCCCCHHHHHHHHTTCBCCHHHHHHH-TTCHHHHHH
T ss_pred             CCCCCCCHHHHHHHHCCCCCCHHHHHHH-HHCHHHHHC
T ss_conf             5551353899998744765779999999-979797612


No 6  
>d1i1ga1 a.4.5.32 (A:2-61) LprA {Archaeon Pyrococcus furiosus [TaxId: 2261]}
Probab=17.06  E-value=23  Score=14.27  Aligned_cols=25  Identities=20%  Similarity=0.189  Sum_probs=16.2

Q ss_pred             CCCHHHHHHHHHCCHHHHHHHHHHH
Q ss_conf             6468999999741989999999999
Q gi|254780318|r   89 VLDRKVLSDLAITQLDSFKKIVELS  113 (123)
Q Consensus        89 ~LnRKvLa~LAi~dp~~F~~lv~~a  113 (123)
                      .+|+|+|..|.-+-..+|..|.+.+
T Consensus         3 ~~D~kIl~~L~~n~r~s~~~lA~~~   27 (60)
T d1i1ga1           3 ERDKIILEILEKDARTPFTEIAKKL   27 (60)
T ss_dssp             SHHHHHHHHHHHCTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCCHHHHHHHH
T ss_conf             8999999999884999999999998


No 7  
>d2cg4a1 a.4.5.32 (A:4-66) Regulatory protein AsnC {Escherichia coli [TaxId: 562]}
Probab=16.86  E-value=20  Score=14.58  Aligned_cols=25  Identities=20%  Similarity=0.278  Sum_probs=18.7

Q ss_pred             CCCHHHHHHHHHCCHHHHHHHHHHH
Q ss_conf             6468999999741989999999999
Q gi|254780318|r   89 VLDRKVLSDLAITQLDSFKKIVELS  113 (123)
Q Consensus        89 ~LnRKvLa~LAi~dp~~F~~lv~~a  113 (123)
                      .+|+++|..|.-+-..++..|.+..
T Consensus         5 ~~D~~IL~~L~~~~r~s~~eiA~~l   29 (63)
T d2cg4a1           5 NLDRGILEALMGNARTAYAELAKQF   29 (63)
T ss_dssp             HHHHHHHHHHHHCTTSCHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCCHHHHHHHH
T ss_conf             8999999999983899999999998


No 8  
>d2cyya1 a.4.5.32 (A:5-64) Putative transcriptional regulator PH1519 {Archaeon Pyrococcus horikoshii [TaxId: 53953]}
Probab=16.56  E-value=20  Score=14.60  Aligned_cols=25  Identities=16%  Similarity=0.349  Sum_probs=17.8

Q ss_pred             CCCHHHHHHHHHCCHHHHHHHHHHH
Q ss_conf             6468999999741989999999999
Q gi|254780318|r   89 VLDRKVLSDLAITQLDSFKKIVELS  113 (123)
Q Consensus        89 ~LnRKvLa~LAi~dp~~F~~lv~~a  113 (123)
                      .+|+++|..|.-+-+.+|..|.+..
T Consensus         3 ~~D~~Il~~L~~n~r~s~~eiA~~l   27 (60)
T d2cyya1           3 EIDKKIIKILQNDGKAPLREISKIT   27 (60)
T ss_dssp             HHHHHHHHHHHHCTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCCHHHHHHHH
T ss_conf             8999999999982899999999998


No 9  
>d2cfxa1 a.4.5.32 (A:1-63) Transcriptional regulator LrpC {Bacillus subtilis [TaxId: 1423]}
Probab=15.78  E-value=20  Score=14.68  Aligned_cols=25  Identities=12%  Similarity=0.170  Sum_probs=18.5

Q ss_pred             CCCHHHHHHHHHCCHHHHHHHHHHH
Q ss_conf             6468999999741989999999999
Q gi|254780318|r   89 VLDRKVLSDLAITQLDSFKKIVELS  113 (123)
Q Consensus        89 ~LnRKvLa~LAi~dp~~F~~lv~~a  113 (123)
                      .+|+++|..|.-+-+.++..|.+..
T Consensus         5 ~~D~~IL~~L~~n~r~s~~~iA~~l   29 (63)
T d2cfxa1           5 QIDLNIIEELKKDSRLSMRELGRKI   29 (63)
T ss_dssp             HHHHHHHHHHHHCSCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCCHHHHHHHH
T ss_conf             9999999999983999999999998


No 10 
>d1g2ha_ a.4.1.12 (A:) Transcriptional regulator TyrR, C-terminal domain {Haemophilus influenzae [TaxId: 727]}
Probab=13.15  E-value=38  Score=12.99  Aligned_cols=24  Identities=17%  Similarity=0.200  Sum_probs=20.7

Q ss_pred             HHHHHHHCCCHHHHHHHHHHCCCC
Q ss_conf             799997189999999999962986
Q gi|254780318|r   66 NAAVRVYDLNYSQFINGLHKAGIV   89 (123)
Q Consensus        66 NAa~r~~g~sYS~fi~~L~~~~i~   89 (123)
                      ..+++..|++.+.|..-|++-+|.
T Consensus        37 ~~aA~~Lgisr~tL~rKlkk~gi~   60 (61)
T d1g2ha_          37 RKLAQRLGVSHTAIANKLKQYGIG   60 (61)
T ss_dssp             HHHHHHTTSCTHHHHHHHHTTTCC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHCCC
T ss_conf             999999798899999999996789


Done!