Query         gi|254781109|ref|YP_003065522.1| hypothetical protein CLIBASIA_05055 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 86
No_of_seqs    1 out of 3
Neff          1.0 
Searched_HMMs 39220
Date          Mon May 30 04:36:38 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254781109.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 pfam07105 DUF1367 Protein of u  35.9      15 0.00037   17.9   0.8   13   56-68     43-55  (196)
  2 pfam07127 Nodulin_late Late no  35.1      38 0.00097   15.6   2.8   20   66-85      5-24  (54)
  3 pfam00029 Connexin Connexin.    25.2      48  0.0012   15.1   1.9   16   56-71     68-83  (107)
  4 pfam06489 Orthopox_A49R Orthop  22.5      65  0.0017   14.3   2.6   28   18-45     60-87  (112)
  5 pfam05756 S-antigen S-antigen   22.1      53  0.0013   14.8   1.6   12   64-75      9-20  (310)
  6 KOG3645 consensus               21.3      69  0.0018   14.2   3.1   63   18-80    251-316 (449)
  7 TIGR03230 lipo_lipase lipoprot  19.6      32 0.00082   16.0   0.1   20   28-47    232-251 (442)
  8 cd02996 PDI_a_ERp44 PDIa famil  18.7      46  0.0012   15.1   0.8   19   28-46     28-46  (108)
  9 cd02999 PDI_a_ERp44_like PDIa   18.4      40   0.001   15.5   0.4   18   28-45     28-45  (100)
 10 KOG1962 consensus               18.3      62  0.0016   14.4   1.3   15   14-28     51-65  (216)

No 1  
>pfam07105 DUF1367 Protein of unknown function (DUF1367). This family consists of several highly conserved, hypothetical bacterial and phage proteins of around 200 resides in length. The function of this family is unknown.
Probab=35.86  E-value=15  Score=17.87  Aligned_cols=13  Identities=62%  Similarity=1.022  Sum_probs=9.6

Q ss_pred             CCCCHHHHHHHHH
Q ss_conf             6411345899999
Q gi|254781109|r   56 RPVSHRRFFALLF   68 (86)
Q Consensus        56 rpvshrrffallf   68 (86)
                      .|--||+|||||-
T Consensus        43 Np~FHRKfFaLLn   55 (196)
T pfam07105        43 NPAFHRKFFALLN   55 (196)
T ss_pred             CHHHHHHHHHHHH
T ss_conf             8888999999997


No 2  
>pfam07127 Nodulin_late Late nodulin protein. This family consists of several plant specific late nodulin sequences which are homologous to the Pisum sativum (Garden pea) ENOD3 protein. ENOD3 is expressed in the late stages of root nodule formation and contains two pairs of cysteine residues towards the C-terminus which may be involved in metal-binding.
Probab=35.06  E-value=38  Score=15.60  Aligned_cols=20  Identities=35%  Similarity=0.751  Sum_probs=16.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999999774
Q gi|254781109|r   66 LLFIYLIIIFRFMLLIVKAV   85 (86)
Q Consensus        66 llfiyliiifrfmllivkav   85 (86)
                      +-|+|.+|+|-+..|+++.+
T Consensus         5 lkFVY~~IlFlsLFlv~~n~   24 (54)
T pfam07127         5 LKFVYAMILFLSLFLVATNV   24 (54)
T ss_pred             HHHHHHHHHHHHHHHHHHCC
T ss_conf             99999999999999999436


No 3  
>pfam00029 Connexin Connexin.
Probab=25.16  E-value=48  Score=15.05  Aligned_cols=16  Identities=44%  Similarity=0.895  Sum_probs=12.4

Q ss_pred             CCCCHHHHHHHHHHHH
Q ss_conf             6411345899999999
Q gi|254781109|r   56 RPVSHRRFFALLFIYL   71 (86)
Q Consensus        56 rpvshrrffallfiyl   71 (86)
                      .|+||-||.++-.|..
T Consensus        68 ~PiShiRfW~lQii~v   83 (107)
T pfam00029        68 FPISHIRFWVLQIIFV   83 (107)
T ss_pred             CCCHHHHHHHHHHHHH
T ss_conf             7652899999999999


No 4  
>pfam06489 Orthopox_A49R Orthopoxvirus A49R protein. This family consists of several Orthopoxvirus A49R proteins. The function of this family is unknown.
Probab=22.49  E-value=65  Score=14.34  Aligned_cols=28  Identities=36%  Similarity=0.527  Sum_probs=11.9

Q ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHH
Q ss_conf             0488988999998421118999998999
Q gi|254781109|r   18 IFISFIDSIILWCQHSRHVDFVIDSLMN   45 (86)
Q Consensus        18 ifisfidsiilwcqhsrhvdfvidslmn   45 (86)
                      -||||.|.+-+.-...---.-.|.||-.
T Consensus        60 pfisfldt~y~~idq~iyqnelinsldd   87 (112)
T pfam06489        60 PFISFLDTIYLFIDQCIYQNELINSLDD   87 (112)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             2699999999999999999998722364


No 5  
>pfam05756 S-antigen S-antigen protein. S-antigens are heat stable proteins that are found in the blood of individuals infected with malaria.
Probab=22.06  E-value=53  Score=14.84  Aligned_cols=12  Identities=58%  Similarity=0.913  Sum_probs=6.7

Q ss_pred             HHHHHHHHHHHH
Q ss_conf             999999999999
Q gi|254781109|r   64 FALLFIYLIIIF   75 (86)
Q Consensus        64 fallfiyliiif   75 (86)
                      |-|.||||.|.-
T Consensus         9 fyLFFiYLYIYk   20 (310)
T pfam05756         9 FYLFFIYLYIYK   20 (310)
T ss_pred             HHHHHHHHHHHH
T ss_conf             789999999987


No 6  
>KOG3645 consensus
Probab=21.34  E-value=69  Score=14.20  Aligned_cols=63  Identities=19%  Similarity=0.353  Sum_probs=42.4

Q ss_pred             HHHHHHHHHHHHHH-CCC--HHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             04889889999984-211--1899999899999999999706411345899999999999999999
Q gi|254781109|r   18 IFISFIDSIILWCQ-HSR--HVDFVIDSLMNLALIMLIVLCRPVSHRRFFALLFIYLIIIFRFMLL   80 (86)
Q Consensus        18 ifisfidsiilwcq-hsr--hvdfvidslmnlalimlivlcrpvshrrffallfiyliiifrfmll   80 (86)
                      .+|+++..+..|-. .+|  .+.+-+..|+.++.+++.+-..--+.-..-.|+-.|++..+-++.+
T Consensus       251 ~lis~l~il~fflp~~~~~eki~L~it~Ll~~tv~ll~vs~~~P~ts~~iPLig~y~~~~m~~~~~  316 (449)
T KOG3645         251 FLISFLSILGFFLPSDSGTEKVTLGITVLLAMTVFLLLVSDKMPPTSSVIPLIGKYLLFTMVLVTI  316 (449)
T ss_pred             HHHHHHHHHHEECCCCCCCCEEEEEHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHH
T ss_conf             999999987356778899847998099999999999999715689889862699999999999999


No 7  
>TIGR03230 lipo_lipase lipoprotein lipase. Members of this protein family are lipoprotein lipase (EC 3.1.1.34), a eukaryotic triacylglycerol lipase active in plasma and similar to pancreatic and hepatic triacylglycerol lipases (EC 3.1.1.3). It is also called clearing factor. It cleaves chylomicron and VLDL triacylglycerols; it also has phospholipase A-1 activity.
Probab=19.56  E-value=32  Score=16.00  Aligned_cols=20  Identities=40%  Similarity=0.750  Sum_probs=16.8

Q ss_pred             HHHHCCCHHHHHHHHHHHHH
Q ss_conf             99842111899999899999
Q gi|254781109|r   28 LWCQHSRHVDFVIDSLMNLA   47 (86)
Q Consensus        28 lwcqhsrhvdfvidslmnla   47 (86)
                      .-|.|.|-+.+-+||+.|-.
T Consensus       232 ~~C~H~Rs~~~f~eSi~n~~  251 (442)
T TIGR03230       232 VKCSHERSIHLFIDSLLNEE  251 (442)
T ss_pred             CCCCCHHHHHHHHHHCCCCC
T ss_conf             22260889999997534889


No 8  
>cd02996 PDI_a_ERp44 PDIa family, endoplasmic reticulum protein 44 (ERp44) subfamily; ERp44 is an ER-resident protein, induced during stress, involved in thiol-mediated ER retention. It contains an N-terminal TRX domain, similar to that of PDIa, with a CXFS motif followed by two redox inactive TRX-like domains, homologous to the b and b' domains of PDI. The CXFS motif in the N-terminal domain allows ERp44 to form stable reversible mixed disulfides with its substrates. Through this activity, ERp44 mediates the ER localization of Ero1alpha, a protein that oxidizes protein disulfide isomerases into their active form. ERp44 also prevents the secretion of unassembled cargo protein with unpaired cysteines. It also modulates the activity of inositol 1,4,5-triphosphate type I receptor (IP3R1), an intracellular channel protein that mediates calcium release from the ER to the cytosol.
Probab=18.74  E-value=46  Score=15.14  Aligned_cols=19  Identities=16%  Similarity=0.468  Sum_probs=14.5

Q ss_pred             HHHHCCCHHHHHHHHHHHH
Q ss_conf             9984211189999989999
Q gi|254781109|r   28 LWCQHSRHVDFVIDSLMNL   46 (86)
Q Consensus        28 lwcqhsrhvdfvidslmnl   46 (86)
                      -||.|++...-+.+.+...
T Consensus        28 ~WC~~Ck~~~P~~~~~a~~   46 (108)
T cd02996          28 DWCRFSQMLHPIFEEAAAK   46 (108)
T ss_pred             CCCHHHHHHHHHHHHHHHH
T ss_conf             9998899864599999999


No 9  
>cd02999 PDI_a_ERp44_like PDIa family, endoplasmic reticulum protein 44 (ERp44)-like subfamily; composed of uncharacterized PDI-like eukaryotic proteins containing only one redox active TRX (a) domain with a CXXS motif, similar to ERp44. CXXS is still a redox active motif; however, the mixed disulfide formed with the substrate is more stable than those formed by CXXC motif proteins. PDI-related proteins are usually involved in the oxidative protein folding in the ER by acting as catalysts and folding assistants. ERp44 is involved in thiol-mediated retention in the ER.
Probab=18.45  E-value=40  Score=15.50  Aligned_cols=18  Identities=22%  Similarity=0.492  Sum_probs=14.1

Q ss_pred             HHHHCCCHHHHHHHHHHH
Q ss_conf             998421118999998999
Q gi|254781109|r   28 LWCQHSRHVDFVIDSLMN   45 (86)
Q Consensus        28 lwcqhsrhvdfvidslmn   45 (86)
                      -||.|++...=+.+.+..
T Consensus        28 pWC~hCk~l~P~~~~la~   45 (100)
T cd02999          28 SWCPFSASFRPHFNALSS   45 (100)
T ss_pred             CCCHHHHHHHHHHHHHHH
T ss_conf             888888987189999998


No 10 
>KOG1962 consensus
Probab=18.27  E-value=62  Score=14.44  Aligned_cols=15  Identities=47%  Similarity=0.625  Sum_probs=11.5

Q ss_pred             CCCHHHHHHHHHHHH
Q ss_conf             711204889889999
Q gi|254781109|r   14 RNIVIFISFIDSIIL   28 (86)
Q Consensus        14 rnivifisfidsiil   28 (86)
                      --++|+++|+||+.-
T Consensus        51 ~~~villlfiDsvr~   65 (216)
T KOG1962          51 TMIVILLLFIDSVRR   65 (216)
T ss_pred             HHHHHHHHHHHHHHH
T ss_conf             999999999999999


Done!