Query         gi|254780203|ref|YP_003064616.1| hypothetical protein CLIBASIA_00440 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 82
No_of_seqs    3 out of 5
Neff          1.7 
Searched_HMMs 13730
Date          Mon May 23 11:05:05 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780203.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 d2liga_ a.24.2.1 (A:) Aspartat  40.8     8.7 0.00063   18.2   2.6   27   43-69     99-125 (157)
  2 d2asra_ a.24.2.1 (A:) Aspartat  36.0      10 0.00076   17.7   2.4   27   43-69     86-112 (142)
  3 d1f6ya_ c.1.21.2 (A:) Methylte  27.6      22  0.0016   15.8   3.2   74    2-79    125-205 (262)
  4 d2ea9a1 d.110.8.1 (A:8-110) Hy  23.0      20  0.0015   16.0   2.0   25   12-36     47-71  (103)
  5 d1ug2a_ a.4.1.3 (A:) 2610100b2  22.1      28   0.002   15.2   2.8   22    9-30     69-90  (95)
  6 d2inwa1 d.110.8.1 (A:4-120) Hy  21.2      24  0.0017   15.6   2.0   24   12-35     58-81  (117)
  7 d1r89a1 a.160.1.3 (A:143-257)   17.8      21  0.0015   16.0   1.1   38   19-67      7-44  (115)
  8 d1uj8a1 a.159.5.1 (A:13-76) Ir  15.0      27   0.002   15.2   1.2   37   23-68      7-43  (64)
  9 d1h3oa_ a.22.1.3 (A:) TAF(II)-  13.1      47  0.0034   13.9   2.3   17   47-63     28-46  (50)
 10 d2c4va1 c.23.13.1 (A:1-158) Ty  12.6      32  0.0024   14.8   1.0   27   42-68    126-152 (158)

No 1  
>d2liga_ a.24.2.1 (A:) Aspartate receptor, ligand-binding domain {Salmonella typhimurium [TaxId: 90371]}
Probab=40.77  E-value=8.7  Score=18.16  Aligned_cols=27  Identities=30%  Similarity=0.573  Sum_probs=23.7

Q ss_pred             CCHHHHHHHHHHHHHHHHHHCCCCCHH
Q ss_conf             002289999999999999971885501
Q gi|254780203|r   43 HGKGYESYISHVCELIELLKNKDFDGV   69 (82)
Q Consensus        43 ~~~g~e~Y~~H~CaLi~lLen~~f~~~   69 (82)
                      -.++|..|..-.-+||.+|+++++++.
T Consensus        99 l~~sY~~~~~aL~el~~~L~~gni~af  125 (157)
T d2liga_          99 VDEKYQRYQAALAELIQFLDNGNMDAY  125 (157)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCHHHH
T ss_conf             999999999999999999877999999


No 2  
>d2asra_ a.24.2.1 (A:) Aspartate receptor, ligand-binding domain {Escherichia coli [TaxId: 562]}
Probab=36.05  E-value=10  Score=17.71  Aligned_cols=27  Identities=22%  Similarity=0.406  Sum_probs=23.4

Q ss_pred             CCHHHHHHHHHHHHHHHHHHCCCCCHH
Q ss_conf             002289999999999999971885501
Q gi|254780203|r   43 HGKGYESYISHVCELIELLKNKDFDGV   69 (82)
Q Consensus        43 ~~~g~e~Y~~H~CaLi~lLen~~f~~~   69 (82)
                      -+++|..|..-.-+||.+|+++++++.
T Consensus        86 l~~~Y~~y~~aL~el~~~L~~g~i~aF  112 (142)
T d2asra_          86 IDEKYKNYYTALTELIDYLDYGNTGAY  112 (142)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTTCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCHHHH
T ss_conf             999999999999999999877998999


No 3  
>d1f6ya_ c.1.21.2 (A:) Methyltetrahydrofolate: corrinoid/iron-sulfur protein methyltransferase MetR {Moorella thermoacetica [TaxId: 1525]}
Probab=27.57  E-value=22  Score=15.77  Aligned_cols=74  Identities=16%  Similarity=0.141  Sum_probs=43.8

Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHHH-HHCCHH--CCCCCCCHHHHCCHHHHHHHHHHHHHHHHHHCCCCCH----HHHHHH
Q ss_conf             830014018999999799999998-310300--1253224786200228999999999999997188550----157887
Q gi|254780203|r    2 DDRKYRPSKEEVRDAFPELIKALE-KGLSTF--DVEPLKNPVKSHGKGYESYISHVCELIELLKNKDFDG----VEIERK   74 (82)
Q Consensus         2 ~d~kYRPs~eevR~afPkl~K~~E-k~ls~y--~VdPL~~Pv~i~~~g~e~Y~~H~CaLi~lLen~~f~~----~~i~rk   74 (82)
                      ++..+.-..+++...+-+++...+ -++..=  -+||++-|....++.    -.|.-++++.|+.-..-|    +.+-||
T Consensus       125 ~~~~~~~~~~~~~~~~~~~~~~~~~~Gi~~~~Ii~DPgi~~~~~~~~~----~~~~le~l~~l~~~~~~g~~~l~G~Sn~  200 (262)
T d1f6ya_         125 NKTGIPKDSDTRLAFAMELVAAADEFGLPMEDLYIDPLILPANVAQDH----APEVLKTLQQIKMLADPAPKTVLGLSNV  200 (262)
T ss_dssp             CSSCSCSSHHHHHHHHHHHHHHHHHHTCCGGGEEEECCCCCTTTCTTH----HHHHHHHHHHHHTCCSSCCEEEEEGGGG
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHCCCEEEECCCCCHH----HHHHHHHHHHHHHHHHHCCCEEEEEECC
T ss_conf             776655579999999999999999759998980125202210343167----8999999999999985233336501025


Q ss_pred             HHHHH
Q ss_conf             65322
Q gi|254780203|r   75 SYNLR   79 (82)
Q Consensus        75 ~~n~r   79 (82)
                      ||++.
T Consensus       201 Sfg~~  205 (262)
T d1f6ya_         201 SQNCQ  205 (262)
T ss_dssp             GTTCS
T ss_pred             CCCCC
T ss_conf             56651


No 4  
>d2ea9a1 d.110.8.1 (A:8-110) Hypothetical protein YfjZ {Escherichia coli [TaxId: 562]}
Probab=23.02  E-value=20  Score=16.04  Aligned_cols=25  Identities=28%  Similarity=0.499  Sum_probs=19.6

Q ss_pred             HHHHHHHHHHHHHHHHCCHHCCCCC
Q ss_conf             9999979999999831030012532
Q gi|254780203|r   12 EVRDAFPELIKALEKGLSTFDVEPL   36 (82)
Q Consensus        12 evR~afPkl~K~~Ek~ls~y~VdPL   36 (82)
                      ..-.|||.+||-+|..+.+=..+|-
T Consensus        47 ~Ld~aFP~~i~qle~ml~sGeL~pr   71 (103)
T d2ea9a1          47 KLDVVFPHFISQIESMLTTGELNPR   71 (103)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSSCTT
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCCCC
T ss_conf             9999999999999998645998967


No 5  
>d1ug2a_ a.4.1.3 (A:) 2610100b20rik gene product {Mouse (Mus musculus) [TaxId: 10090]}
Probab=22.10  E-value=28  Score=15.15  Aligned_cols=22  Identities=23%  Similarity=0.384  Sum_probs=18.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHCCH
Q ss_conf             1899999979999999831030
Q gi|254780203|r    9 SKEEVRDAFPELIKALEKGLST   30 (82)
Q Consensus         9 s~eevR~afPkl~K~~Ek~ls~   30 (82)
                      +.++||+-|-.||+-|++.++-
T Consensus        69 s~~qvr~Rf~~Lm~lf~~~~e~   90 (95)
T d1ug2a_          69 TPVEVSHRFRELMQLFHTACES   90 (95)
T ss_dssp             CHHHHHHHHHHHHHHHHHCSSS
T ss_pred             CHHHHHHHHHHHHHHHHHHHCC
T ss_conf             9999999999999999974324


No 6  
>d2inwa1 d.110.8.1 (A:4-120) Hypothetical protein YeeU {Shigella flexneri [TaxId: 623]}
Probab=21.22  E-value=24  Score=15.61  Aligned_cols=24  Identities=38%  Similarity=0.566  Sum_probs=19.0

Q ss_pred             HHHHHHHHHHHHHHHHCCHHCCCC
Q ss_conf             999997999999983103001253
Q gi|254780203|r   12 EVRDAFPELIKALEKGLSTFDVEP   35 (82)
Q Consensus        12 evR~afPkl~K~~Ek~ls~y~VdP   35 (82)
                      ..-.|||.+||-+|..+..=..+|
T Consensus        58 ~Ld~aFP~~ikqlE~ml~sGeL~p   81 (117)
T d2inwa1          58 HLDQAFPLLMKQLELMLTGGELNP   81 (117)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTSSCT
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCCC
T ss_conf             999999999999999864478782


No 7  
>d1r89a1 a.160.1.3 (A:143-257) tRNA nucleotidyltransferase, second domain {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}
Probab=17.84  E-value=21  Score=15.95  Aligned_cols=38  Identities=24%  Similarity=0.490  Sum_probs=24.8

Q ss_pred             HHHHHHHHHCCHHCCCCCCCHHHHCCHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             9999998310300125322478620022899999999999999718855
Q gi|254780203|r   19 ELIKALEKGLSTFDVEPLKNPVKSHGKGYESYISHVCELIELLKNKDFD   67 (82)
Q Consensus        19 kl~K~~Ek~ls~y~VdPL~~Pv~i~~~g~e~Y~~H~CaLi~lLen~~f~   67 (82)
                      .|+|.|-|++..|.-       ++-.+||-||   +|+|.- +.-|.|.
T Consensus         7 rLlK~FlK~igvYGa-------E~~~~GFSGY---l~ElLi-~~YGsF~   44 (115)
T d1r89a1           7 RLLKGFLKANGIYGA-------EYKVRGFSGY---LCELLI-VFYGSFL   44 (115)
T ss_dssp             HHHHHHHHHTTCBCC-------STTTCCBCHH---HHHHHH-HHHSSHH
T ss_pred             HHHHHHHHHCCCCCH-------HHHCCCCHHH---HHHHHH-HHHCCHH
T ss_conf             999999986685436-------7651762169---999999-9977799


No 8  
>d1uj8a1 a.159.5.1 (A:13-76) Iron-sulfur cluster assembly protein IscX {Escherichia coli [TaxId: 562]}
Probab=15.01  E-value=27  Score=15.22  Aligned_cols=37  Identities=27%  Similarity=0.545  Sum_probs=28.0

Q ss_pred             HHHHHCCHHCCCCCCCHHHHCCHHHHHHHHHHHHHHHHHHCCCCCH
Q ss_conf             9983103001253224786200228999999999999997188550
Q gi|254780203|r   23 ALEKGLSTFDVEPLKNPVKSHGKGYESYISHVCELIELLKNKDFDG   68 (82)
Q Consensus        23 ~~Ek~ls~y~VdPL~~Pv~i~~~g~e~Y~~H~CaLi~lLen~~f~~   68 (82)
                      +.+=++++++--|=+.|..+   .|+.-+..||+|      .+|+.
T Consensus         7 ~~dIA~~L~e~~pdvDP~~i---rFtDL~~wV~~L------~~F~D   43 (64)
T d1uj8a1           7 SREIGEALYDAYPDLDPKTV---RFTDMHQWICDL------EDFDD   43 (64)
T ss_dssp             HHHHHHHHHHHSTTSCGGGC---CHHHHHHHHHTS------TTBCS
T ss_pred             HHHHHHHHHHHCCCCCCCEE---EHHHHHHHHHCC------CCCCC
T ss_conf             99999999987889897873---159999999628------78789


No 9  
>d1h3oa_ a.22.1.3 (A:) TAF(II)-135, (TAF(II)-130, hTAF4), histone fold domain {Human (Homo sapiens) [TaxId: 9606]}
Probab=13.13  E-value=47  Score=13.86  Aligned_cols=17  Identities=35%  Similarity=0.597  Sum_probs=12.1

Q ss_pred             HHHHHHHHHH--HHHHHHC
Q ss_conf             8999999999--9999971
Q gi|254780203|r   47 YESYISHVCE--LIELLKN   63 (82)
Q Consensus        47 ~e~Y~~H~Ca--Li~lLen   63 (82)
                      .-.|+||+|.  |-+++|+
T Consensus        28 V~~lISHA~QeRLk~lvEK   46 (50)
T d1h3oa_          28 VVSYVSHATQQRLQNLVEK   46 (50)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
T ss_conf             9999889999999999998


No 10 
>d2c4va1 c.23.13.1 (A:1-158) Type II 3-dehydroquinate dehydratase {Helicobacter pylori [TaxId: 210]}
Probab=12.59  E-value=32  Score=14.79  Aligned_cols=27  Identities=15%  Similarity=0.130  Sum_probs=19.5

Q ss_pred             HCCHHHHHHHHHHHHHHHHHHCCCCCH
Q ss_conf             200228999999999999997188550
Q gi|254780203|r   42 SHGKGYESYISHVCELIELLKNKDFDG   68 (82)
Q Consensus        42 i~~~g~e~Y~~H~CaLi~lLen~~f~~   68 (82)
                      |-|.|..||+.-+-+|+++|.+.+.-+
T Consensus       126 I~G~G~~gY~~Al~~l~~~l~~~~~~~  152 (158)
T d2c4va1         126 IMGFGPLGYNMALMAMVNILAEMKAFQ  152 (158)
T ss_dssp             EESSTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred             EECCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             963885789999999999998558788


Done!