Query         gi|254780571|ref|YP_003064984.1| hypothetical protein CLIBASIA_02290 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 182
No_of_seqs    111 out of 492
Neff          8.9 
Searched_HMMs 13730
Date          Wed Jun  1 09:29:08 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780571.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 d2croa_ a.35.1.2 (A:) cro 434   16.9      22  0.0016   12.2   1.4   26    1-27      1-26  (65)
  2 d1ppjg_ f.23.13.1 (G:) Ubiquin   9.4      37  0.0027   10.8   4.0   31    2-41     32-62  (75)
  3 d1kf6d_ f.21.2.2 (D:) Fumarate   7.4      46  0.0033   10.3   2.1   26   17-42     19-44  (119)
  4 d1fftb2 f.17.2.1 (B:27-117) Cy   6.4      52  0.0038   10.0   2.1   22   16-37     57-79  (91)
  5 d2r1jl1 a.35.1.2 (L:3-68) P22    6.0      55   0.004    9.8   0.9   25    2-27      2-26  (66)
  6 d1nc8a_ g.40.1.1 (A:) HIV nucl   5.9      58  0.0042    9.7   0.6    7  176-182     6-12  (29)
  7 d1x4la2 g.39.1.3 (A:37-66) Fou   5.7      38  0.0028   10.8  -1.0    8  175-182    19-26  (30)
  8 d2od5a1 a.4.5.70 (A:6-96) Hypo   5.3      65  0.0047    9.4   1.6   20    2-22      8-27  (91)
  9 d2chra2 d.54.1.1 (A:1-126) Chl   5.3      65  0.0048    9.4   1.3   25    2-26     85-109 (126)
 10 d1r0ma2 d.54.1.1 (A:6-132) N-a   5.2      67  0.0049    9.3   0.1   23    4-26     88-110 (127)

No 1  
>d2croa_ a.35.1.2 (A:) cro 434 {Bacteriophage 434 [TaxId: 10712]}
Probab=16.93  E-value=22  Score=12.21  Aligned_cols=26  Identities=12%  Similarity=0.075  Sum_probs=19.7

Q ss_pred             CHHHHHHHHHHHCCCCCHHHHHHHHHH
Q ss_conf             924799999751244554899999999
Q gi|254780571|r    1 MKCIKNYILRFLSRENGVVAVEMAIIL   27 (182)
Q Consensus         1 ~~~~~~~lrrf~rd~~G~aaVEFAli~   27 (182)
                      |+.+...+|..|. +.|...-|||-.+
T Consensus         1 M~~i~~rlr~~R~-~~gltq~~lA~~~   26 (65)
T d2croa_           1 MQTLSERLKKRRI-ALKMTQTELATKA   26 (65)
T ss_dssp             CCSHHHHHHHHHH-HTTCCHHHHHHHH
T ss_pred             CHHHHHHHHHHHH-HCCCCHHHHHHHH
T ss_conf             9489999999999-8499999999997


No 2  
>d1ppjg_ f.23.13.1 (G:) Ubiquinone-binding protein QP-C of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) {Cow (Bos taurus) [TaxId: 9913]}
Probab=9.38  E-value=37  Score=10.83  Aligned_cols=31  Identities=26%  Similarity=0.372  Sum_probs=18.9

Q ss_pred             HHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             2479999975124455489999999999999999999999
Q gi|254780571|r    2 KCIKNYILRFLSRENGVVAVEMAIILPILLLIYMAVYEIT   41 (182)
Q Consensus         2 ~~~~~~lrrf~rd~~G~aaVEFAli~P~ll~ll~~~~e~~   41 (182)
                      +.+-+.+||++.        ++-.++|+|++..+ +.+.+
T Consensus        32 ~gi~N~~RR~~~--------~~l~v~PPfi~~Y~-iy~W~   62 (75)
T d1ppjg_          32 KGIPNVLRRTRA--------CILRVAPPFVAFYL-VYTWG   62 (75)
T ss_dssp             THHHHHHHHHHH--------HHHHHHHHHHHHHH-HHHHH
T ss_pred             HCCCHHHHHHHH--------HCEEECCHHHHHHH-HHHHH
T ss_conf             625189998687--------41377077999999-99988


No 3  
>d1kf6d_ f.21.2.2 (D:) Fumarate reductase subunit FrdD {Escherichia coli [TaxId: 562]}
Probab=7.39  E-value=46  Score=10.31  Aligned_cols=26  Identities=23%  Similarity=0.418  Sum_probs=18.5

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             54899999999999999999999999
Q gi|254780571|r   17 GVVAVEMAIILPILLLIYMAVYEITM   42 (182)
Q Consensus        17 G~aaVEFAli~P~ll~ll~~~~e~~~   42 (182)
                      |+--.=+|++.|++++++--.+-+|.
T Consensus        19 gAGGm~~A~~~Pvlill~giLlPlG~   44 (119)
T d1kf6d_          19 GAGGMWSAIIAPVMILLVGILLPLGL   44 (119)
T ss_dssp             HHHHHHHHHTHHHHHHHHHTTGGGTC
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             47720589998899999999996126


No 4  
>d1fftb2 f.17.2.1 (B:27-117) Cytochrome O ubiquinol oxidase, subunit II {Escherichia coli [TaxId: 562]}
Probab=6.35  E-value=52  Score=9.97  Aligned_cols=22  Identities=27%  Similarity=0.383  Sum_probs=13.2

Q ss_pred             CCHHHHHHHHHHHH-HHHHHHHH
Q ss_conf             55489999999999-99999999
Q gi|254780571|r   16 NGVVAVEMAIILPI-LLLIYMAV   37 (182)
Q Consensus        16 ~G~aaVEFAli~P~-ll~ll~~~   37 (182)
                      .|...+|.....-| ++++.+++
T Consensus        57 ~~n~~lEi~WtiIP~iil~~iav   79 (91)
T d1fftb2          57 SHSNKVEAVVWTVPILIIIFLAV   79 (91)
T ss_dssp             CCCSHHHHHTTHHHHHHHHHHHH
T ss_pred             CCCCEEHHHHHHHHHHHHHHHHH
T ss_conf             67964114689989999999999


No 5  
>d2r1jl1 a.35.1.2 (L:3-68) P22 C2 repressor, DNA-binding domain {Salmonella bacteriophage P22 [TaxId: 10754]}
Probab=6.03  E-value=55  Score=9.80  Aligned_cols=25  Identities=4%  Similarity=0.037  Sum_probs=15.6

Q ss_pred             HHHHHHHHHHHCCCCCHHHHHHHHHH
Q ss_conf             24799999751244554899999999
Q gi|254780571|r    2 KCIKNYILRFLSRENGVVAVEMAIIL   27 (182)
Q Consensus         2 ~~~~~~lrrf~rd~~G~aaVEFAli~   27 (182)
                      +.+.+.+|++| .++|...-|||-.+
T Consensus         2 ~~ig~rik~~R-~~~g~tq~~lA~~~   26 (66)
T d2r1jl1           2 QLMGERIRARR-KKLKIRQAALGKMV   26 (66)
T ss_dssp             CCHHHHHHHHH-HHHTCCHHHHHHHH
T ss_pred             HHHHHHHHHHH-HHCCCCHHHHHHHH
T ss_conf             79999999999-98599999999997


No 6  
>d1nc8a_ g.40.1.1 (A:) HIV nucleocapsid {Human immunodeficiency virus type 2 [TaxId: 11709]}
Probab=5.85  E-value=58  Score=9.70  Aligned_cols=7  Identities=43%  Similarity=1.146  Sum_probs=0.0

Q ss_pred             CEECCCC
Q ss_conf             3425899
Q gi|254780571|r  176 QIVCRDC  182 (182)
Q Consensus       176 ~i~c~~c  182 (182)
                      .|.|.||
T Consensus         6 ~ikCfNC   12 (29)
T d1nc8a_           6 VIRCWNC   12 (29)
T ss_dssp             CCBCTTT
T ss_pred             EEEEECC
T ss_conf             6676527


No 7  
>d1x4la2 g.39.1.3 (A:37-66) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}
Probab=5.73  E-value=38  Score=10.79  Aligned_cols=8  Identities=63%  Similarity=1.589  Sum_probs=0.0

Q ss_pred             CCEECCCC
Q ss_conf             73425899
Q gi|254780571|r  175 DQIVCRDC  182 (182)
Q Consensus       175 ~~i~c~~c  182 (182)
                      +-|.|.||
T Consensus        19 ddilc~dc   26 (30)
T d1x4la2          19 DDILCPDC   26 (30)
T ss_dssp             SSEECHHH
T ss_pred             CCEECCCC
T ss_conf             64654654


No 8  
>d2od5a1 a.4.5.70 (A:6-96) Hypothetical protein GOS_3836187 {Environmental samples}
Probab=5.33  E-value=65  Score=9.39  Aligned_cols=20  Identities=25%  Similarity=0.272  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHCCCCCHHHHH
Q ss_conf             247999997512445548999
Q gi|254780571|r    2 KCIKNYILRFLSRENGVVAVE   22 (182)
Q Consensus         2 ~~~~~~lrrf~rd~~G~aaVE   22 (182)
                      +.||..++.|..++ |.-++|
T Consensus         8 ~rlR~~I~k~L~~~-p~NT~e   27 (91)
T d2od5a1           8 VRIREKIKKFLGDR-PRNTAE   27 (91)
T ss_dssp             HHHHHHHHHHTSSS-CEEHHH
T ss_pred             HHHHHHHHHHHHCC-CCCHHH
T ss_conf             99999999999739-976899


No 9  
>d2chra2 d.54.1.1 (A:1-126) Chlormuconate cycloisomerase {Alcaligenes eutrophus [TaxId: 106590]}
Probab=5.30  E-value=65  Score=9.37  Aligned_cols=25  Identities=20%  Similarity=0.287  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHCCCCCHHHHHHHHH
Q ss_conf             2479999975124455489999999
Q gi|254780571|r    2 KCIKNYILRFLSRENGVVAVEMAII   26 (182)
Q Consensus         2 ~~~~~~lrrf~rd~~G~aaVEFAli   26 (182)
                      +.+..+.+.+..+.-..++||+||.
T Consensus        85 ~~~~~~~~~~~~~~~A~aaid~Alw  109 (126)
T d2chra2          85 GALQTMARAVTGNASAKAAVEMALL  109 (126)
T ss_dssp             HHHHHHHTTCSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHH
T ss_conf             9999865302443288999999999


No 10 
>d1r0ma2 d.54.1.1 (A:6-132) N-acylamino acid racemase {Deinococcus radiodurans [TaxId: 1299]}
Probab=5.21  E-value=67  Score=9.31  Aligned_cols=23  Identities=17%  Similarity=0.179  Sum_probs=0.0

Q ss_pred             HHHHHHHHHCCCCCHHHHHHHHH
Q ss_conf             79999975124455489999999
Q gi|254780571|r    4 IKNYILRFLSRENGVVAVEMAII   26 (182)
Q Consensus         4 ~~~~lrrf~rd~~G~aaVEFAli   26 (182)
                      +...++++.......++||+|+.
T Consensus        88 ~~~~~~~~~~~~~a~aaid~Alw  110 (127)
T d1r0ma2          88 VSDALGSYRGNRMARAMVEMAAW  110 (127)
T ss_dssp             HHHTTTTSCSCHHHHHHHHHHHH
T ss_pred             HHHHHCCCCCCHHHHHHHHHHHH
T ss_conf             75122104775479999999999


Done!