Query         gi|254780380|ref|YP_003064793.1| flagellar basal body rod protein FlgC [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 134
No_of_seqs    128 out of 1991
Neff          6.5 
Searched_HMMs 13730
Date          Wed Jun  1 03:16:21 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780380.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 d2dnaa1 a.5.2.1 (A:12-61) Ubiq   7.6      47  0.0034   12.2   0.3   24  110-133    22-45  (50)
  2 d1rz4a2 a.118.1.18 (A:2-131) E   7.3      62  0.0045   11.6   2.6   35   74-121    17-53  (130)
  3 d2j0na1 a.250.1.1 (A:144-314)    7.1      64  0.0046   11.5   1.5   44   87-130    99-152 (171)
  4 d2daha1 a.5.2.1 (A:8-48) Ubiqu   5.1      84  0.0061   10.9   1.5   22  111-132    17-38  (41)
  5 d2bwba1 a.5.2.1 (A:328-371) DS   4.9      86  0.0063   10.8   1.9   23  110-132    19-41  (44)
  6 d1veja1 a.5.2.1 (A:8-68) 49314   3.1 1.3E+02  0.0091   10.0   1.2   22  111-132    37-58  (61)
  7 d2b4jc1 a.48.4.1 (C:346-426) P   3.0 1.3E+02  0.0096    9.9   1.5   30   99-128    49-78  (81)
  8 d2iaza1 a.281.1.2 (A:1-111) Hy   3.0 1.3E+02  0.0096    9.9   2.8   24   92-115    73-96  (111)
  9 d2fupa1 a.47.5.1 (A:1-130) Hyp   2.8 1.5E+02   0.011    9.6   2.0   30  104-133   101-130 (130)
 10 d1p3da1 c.5.1.1 (A:11-106) UDP   2.6 1.5E+02   0.011    9.6  -0.1   10    8-17     14-23  (96)

No 1  
>d2dnaa1 a.5.2.1 (A:12-61) Ubiquilin-like protein Ubqlnl {Mouse (Mus musculus) [TaxId: 10090]}
Probab=7.64  E-value=47  Score=12.20  Aligned_cols=24  Identities=25%  Similarity=0.297  Sum_probs=16.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             999999999999999999999646
Q gi|254780380|r  110 LYMANLQTIKQSHDMMTTTLDLLR  133 (134)
Q Consensus       110 ~yean~~~~~~~~~m~~~~l~i~r  133 (134)
                      -.++|+.++..+..-.+.+++++.
T Consensus        22 d~~~Ni~AL~~t~GdV~~Aie~Ll   45 (50)
T d2dnaa1          22 NYNANLQALIATDGDTNAAIYKLK   45 (50)
T ss_dssp             CHHHHHHHHHHTTSCHHHHHHHHH
T ss_pred             CHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             799999999993998999999998


No 2  
>d1rz4a2 a.118.1.18 (A:2-131) Eukaryotic translation initiation factor 3 subunit 12, eIF3k, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}
Probab=7.30  E-value=62  Score=11.57  Aligned_cols=35  Identities=20%  Similarity=0.387  Sum_probs=22.9

Q ss_pred             CCCCCCCCCCCCHHHHHHCCCCHHHHHHHHHHHHHHH--HHHHHHHHHHH
Q ss_conf             0001432111250233330561099999999999999--99999999999
Q gi|254780380|r   74 VEEFDPGHPVANASGIVKYPNVNVLVETADMRETNRL--YMANLQTIKQS  121 (134)
Q Consensus        74 ~~~y~P~~p~Ad~~G~v~~snVd~~~Em~~m~~a~r~--yean~~~~~~~  121 (134)
                      .-+|+|.             |+...++-|+.....+.  .+||+.+++..
T Consensus        17 idRYNPe-------------~l~~Le~YV~~Q~~~~~Ydl~aNLalLKLY   53 (130)
T d1rz4a2          17 IDRYNPE-------------NLATLERYVETQAKENAYDLEANLAVLKLY   53 (130)
T ss_dssp             GGGGCGG-------------GHHHHHHHHHHHHHHTCCCHHHHHHHHHHH
T ss_pred             CCCCCHH-------------HHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf             4447878-------------889999999999980544299999999999


No 3  
>d2j0na1 a.250.1.1 (A:144-314) Invasin IpaD {Shigella flexneri [TaxId: 623]}
Probab=7.05  E-value=64  Score=11.50  Aligned_cols=44  Identities=18%  Similarity=0.176  Sum_probs=28.5

Q ss_pred             HHHHHCCCCHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             233330561099999999999----------99999999999999999999999
Q gi|254780380|r   87 SGIVKYPNVNVLVETADMRET----------NRLYMANLQTIKQSHDMMTTTLD  130 (134)
Q Consensus        87 ~G~v~~snVd~~~Em~~m~~a----------~r~yean~~~~~~~~~m~~~~l~  130 (134)
                      -++|=+||..+..+|...+..          .-.|+|=.+.|+..++-+++.+.
T Consensus        99 g~~~I~~d~~pi~~~~~s~~~~~~~~~~~l~~a~yqaw~a~f~a~~~~i~s~~q  152 (171)
T d2j0na1          99 GGYVVSINMTPIDNMLKSLDNLGGNGEVVLDNAKYQAWNAGFSAEDETMKNNLQ  152 (171)
T ss_dssp             TEEEEEECCHHHHHHHHHHHHSCCSSEEEEEHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEECCHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             964797485189999874127899876331499999999998889988986899


No 4  
>d2daha1 a.5.2.1 (A:8-48) Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}
Probab=5.05  E-value=84  Score=10.87  Aligned_cols=22  Identities=23%  Similarity=0.253  Sum_probs=16.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999999999999999999964
Q gi|254780380|r  111 YMANLQTIKQSHDMMTTTLDLL  132 (134)
Q Consensus       111 yean~~~~~~~~~m~~~~l~i~  132 (134)
                      .+.|+.++..+..-..++++++
T Consensus        17 ~~~Ni~AL~~t~Gdv~~Aie~L   38 (41)
T d2daha1          17 REANLQALIATGGDVDAAVEKL   38 (41)
T ss_dssp             HHHHHHHHHHHTSCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCHHHHHHHH
T ss_conf             8999999998399899999999


No 5  
>d2bwba1 a.5.2.1 (A:328-371) DSK2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Probab=4.91  E-value=86  Score=10.81  Aligned_cols=23  Identities=22%  Similarity=0.316  Sum_probs=16.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999999999964
Q gi|254780380|r  110 LYMANLQTIKQSHDMMTTTLDLL  132 (134)
Q Consensus       110 ~yean~~~~~~~~~m~~~~l~i~  132 (134)
                      -.++|+.++..+..-.+.+++++
T Consensus        19 d~~~Ni~AL~~t~GdV~~Aie~L   41 (44)
T d2bwba1          19 DFDRNVAALRRSGGSVQGALDSL   41 (44)
T ss_dssp             CHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHCCCCHHHHHHHH
T ss_conf             68999999999499899999998


No 6  
>d1veja1 a.5.2.1 (A:8-68) 4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]}
Probab=3.13  E-value=1.3e+02  Score=9.98  Aligned_cols=22  Identities=23%  Similarity=0.369  Sum_probs=15.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999999999999999999964
Q gi|254780380|r  111 YMANLQTIKQSHDMMTTTLDLL  132 (134)
Q Consensus       111 yean~~~~~~~~~m~~~~l~i~  132 (134)
                      .++|+.++.....-...+++++
T Consensus        37 ~~~Nl~AL~~t~Gdv~~Aie~L   58 (61)
T d1veja1          37 RDANLQALVATDGDIHAAIEML   58 (61)
T ss_dssp             HHHHHHHHHHTTSCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCHHHHHHHH
T ss_conf             8999999999189899999998


No 7  
>d2b4jc1 a.48.4.1 (C:346-426) PC4 and SFRS1-interacting protein, PSIP1 {Human (Homo sapiens) [TaxId: 9606]}
Probab=3.01  E-value=1.3e+02  Score=9.88  Aligned_cols=30  Identities=10%  Similarity=0.074  Sum_probs=24.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999999999999999999999999999999
Q gi|254780380|r   99 VETADMRETNRLYMANLQTIKQSHDMMTTT  128 (134)
Q Consensus        99 ~Em~~m~~a~r~yean~~~~~~~~~m~~~~  128 (134)
                      .|+|+.|---|-|.+|.++.+-+...+.+-
T Consensus        49 ~e~V~tikklRry~gn~~Ir~kA~~ly~kf   78 (81)
T d2b4jc1          49 TEMITTLKKIRRFKVSQVIMEKSTMLYNKF   78 (81)
T ss_dssp             HHHHHHHHHHTTCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCHHHHHHHHHHHHHH
T ss_conf             399999999999745299999999999975


No 8  
>d2iaza1 a.281.1.2 (A:1-111) Hypothetical protein SP1372 {Streptococcus pneumoniae [TaxId: 1313]}
Probab=3.00  E-value=1.3e+02  Score=9.86  Aligned_cols=24  Identities=4%  Similarity=-0.103  Sum_probs=14.4

Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             056109999999999999999999
Q gi|254780380|r   92 YPNVNVLVETADMRETNRLYMANL  115 (134)
Q Consensus        92 ~snVd~~~Em~~m~~a~r~yean~  115 (134)
                      +..++....+.+.+.|++.+..=+
T Consensus        73 ~~~i~~n~~i~~~~~Ae~~l~~ll   96 (111)
T d2iaza1          73 GKQIQGNSLLSEFFTKQQQLAIYL   96 (111)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCHHHHHHHHHHHHHHHHH
T ss_conf             999866899999999999999999


No 9  
>d2fupa1 a.47.5.1 (A:1-130) Hypothetical protein PA3352 {Pseudomonas aeruginosa [TaxId: 287]}
Probab=2.77  E-value=1.5e+02  Score=9.64  Aligned_cols=30  Identities=17%  Similarity=0.316  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             999999999999999999999999999646
Q gi|254780380|r  104 MRETNRLYMANLQTIKQSHDMMTTTLDLLR  133 (134)
Q Consensus       104 m~~a~r~yean~~~~~~~~~m~~~~l~i~r  133 (134)
                      +...+..=+.|-+.|...-+..+++|+|+|
T Consensus       101 ~~~~k~~N~~Ng~Li~~~~~~~~~~L~iLr  130 (130)
T d2fupa1         101 LERCQQANLRNGRIIRANQASTGSLLNILR  130 (130)
T ss_dssp             HHHHHHHHHHHHHC--CTTHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             999999999999999999999999998649


No 10 
>d1p3da1 c.5.1.1 (A:11-106) UDP-N-acetylmuramate-alanine ligase MurC {Haemophilus influenzae [TaxId: 727]}
Probab=2.59  E-value=1.5e+02  Score=9.62  Aligned_cols=10  Identities=20%  Similarity=0.368  Sum_probs=0.0

Q ss_pred             HHHHHHHHHH
Q ss_conf             8521568999
Q gi|254780380|r    8 AHIANSGLAV   17 (134)
Q Consensus         8 i~Ia~SgL~A   17 (134)
                      +.|.++||++
T Consensus        14 iGigG~GMs~   23 (96)
T d1p3da1          14 IGIGGAGMSG   23 (96)
T ss_dssp             ETTTSTTHHH
T ss_pred             EEECHHHHHH
T ss_conf             9877999999


Done!