Query         gi|254781036|ref|YP_003065449.1| hypothetical protein CLIBASIA_04690 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 65
No_of_seqs    1 out of 3
Neff          1.0 
Searched_HMMs 39220
Date          Mon May 30 04:13:30 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254781036.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 PRK12358 putative 6-phosphoglu  38.0       9 0.00023   20.5  -0.0   45   20-64     60-111 (239)
  2 pfam02794 HlyC RTX toxin acylt  25.8      39   0.001   17.2   1.6   21    2-24     86-106 (134)
  3 COG2994 HlyC ACP:hemolysin acy  23.7      23  0.0006   18.4   0.1   12    2-13    104-115 (148)
  4 TIGR00095 TIGR00095 putative m  23.3      28 0.00071   18.0   0.4   20    4-23     64-83  (210)
  5 pfam08068 DKCLD DKCLD (NUC011)  19.6      44  0.0011   17.0   0.8   15   13-27     35-49  (59)
  6 TIGR00977 LeuA_rel 2-isopropyl  15.7      62  0.0016   16.2   0.8   25   10-46    127-151 (543)
  7 COG4171 SapC ABC-type antimicr  14.5   1E+02  0.0026   15.1   1.6   40    9-48     83-143 (296)
  8 TIGR01176 fum_red_Fp fumarate   13.6      74  0.0019   15.8   0.7   31   33-63     58-93  (585)
  9 pfam00859 CTF_NFI CTF/NF-I fam  11.5      58  0.0015   16.4  -0.3   13   17-29      4-16  (295)
 10 pfam08497 Radical_SAM_N Radica  11.2 1.7E+02  0.0043   14.0   2.0   39    7-45     31-100 (298)

No 1  
>PRK12358 putative 6-phosphogluconolactonase; Provisional
Probab=37.97  E-value=9  Score=20.55  Aligned_cols=45  Identities=20%  Similarity=0.261  Sum_probs=33.5

Q ss_pred             HCCCCHHHHHHHH-------HHHHHHHHHHHCCCCHHHHHHHEECCHHHHHC
Q ss_conf             1201544413232-------02476531111045546512330057277630
Q gi|254781036|r   20 SGVFNLDSLLVDF-------SVSLKEHFFDTYSIPWHSIFYFVSENSKEYCK   64 (65)
Q Consensus        20 sgvfnldsllvdf-------svslkehffdtysipwhsifyfvsenskeyck   64 (65)
                      --+||+|-...+-       .-.++++||+.-.||--.|+.+-.|+.++|.+
T Consensus        60 v~~f~lDE~~~~~~~~~~~~~~~l~~~l~~~~~i~~~~i~~~~~e~~~~ye~  111 (239)
T PRK12358         60 CHYYNFDEIPFRGKEGEGVTITNLRNLFFTPAGIKEENIHKLTIDNYREHDQ  111 (239)
T ss_pred             EEEEEEEEECCCCCCCHHHHHHHHHHHCCCCCCCCHHHCCCCCHHHHHHHHH
T ss_conf             7999610555898555356999999965775799978869997677999999


No 2  
>pfam02794 HlyC RTX toxin acyltransferase family. Members of this family are enzymes EC:2.3.1.-. involved in fatty acylation of the protoxins (HlyA) at lysine residues, thereby converting them to the active toxin. Acyl-acyl carrier protein (ACP) is the essential acyl donor. This family show a number of conserved residues that are possible candidates for participation in acyl transfer. Site-directed mutagenesis of the single conserved histidine residue in Hemolysin C from Escherichia coli resulted in complete inactivation of the enzyme.
Probab=25.76  E-value=39  Score=17.24  Aligned_cols=21  Identities=38%  Similarity=0.896  Sum_probs=13.8

Q ss_pred             CCCCHHHHHHHHHHHHHHHCCCC
Q ss_conf             11521255699999998612015
Q gi|254781036|r    2 WIAPFGSLGVAVLSRYVKSGVFN   24 (65)
Q Consensus         2 wiapfgslgvavlsryvksgvfn   24 (65)
                      ||||||.  ...+.|.+...+|-
T Consensus        86 ~iAPfGh--~~~i~r~lr~~~f~  106 (134)
T pfam02794        86 WIAPFGH--ARAIYRDLRRRIFP  106 (134)
T ss_pred             EECCCCC--HHHHHHHHHHCCCC
T ss_conf             9568997--69999999854499


No 3  
>COG2994 HlyC ACP:hemolysin acyltransferase (hemolysin-activating protein) [Posttranslational modification, protein turnover, chaperones]
Probab=23.67  E-value=23  Score=18.40  Aligned_cols=12  Identities=58%  Similarity=1.102  Sum_probs=7.7

Q ss_pred             CCCCHHHHHHHH
Q ss_conf             115212556999
Q gi|254781036|r    2 WIAPFGSLGVAV   13 (65)
Q Consensus         2 wiapfgslgvav   13 (65)
                      ||||||.---.+
T Consensus       104 ~iAPfGh~r~~~  115 (148)
T COG2994         104 WIAPFGHSRQMV  115 (148)
T ss_pred             EECCCCCHHHHH
T ss_conf             972578418899


No 4  
>TIGR00095 TIGR00095 putative methyltransferase; InterPro: IPR004398 This is a family of conserved hypothetical proteins, which includes a putative methylase..
Probab=23.27  E-value=28  Score=18.03  Aligned_cols=20  Identities=60%  Similarity=0.710  Sum_probs=17.3

Q ss_pred             CCHHHHHHHHHHHHHHHCCC
Q ss_conf             52125569999999861201
Q gi|254781036|r    4 APFGSLGVAVLSRYVKSGVF   23 (65)
Q Consensus         4 apfgslgvavlsryvksgvf   23 (65)
                      |-=|+||+--|||+-++-+|
T Consensus        64 AGsG~LG~EALSRgA~~~~f   83 (210)
T TIGR00095        64 AGSGSLGLEALSRGAKSAVF   83 (210)
T ss_pred             CCCHHHHHHHHHHCCCEEEE
T ss_conf             06446537664014162378


No 5  
>pfam08068 DKCLD DKCLD (NUC011) domain. This is a TruB_N/PUA domain associated N-terminal domain of Dyskerin-like proteins.
Probab=19.62  E-value=44  Score=17.01  Aligned_cols=15  Identities=47%  Similarity=0.831  Sum_probs=12.0

Q ss_pred             HHHHHHHHCCCCHHH
Q ss_conf             999998612015444
Q gi|254781036|r   13 VLSRYVKSGVFNLDS   27 (65)
Q Consensus        13 vlsryvksgvfnlds   27 (65)
                      -+..|+++|+.|||.
T Consensus        35 ~i~~~i~~GvInlDK   49 (59)
T pfam08068        35 PIEEYIKYGVINLDK   49 (59)
T ss_pred             CHHHHHHCCEEEECC
T ss_conf             899998579677037


No 6  
>TIGR00977 LeuA_rel 2-isopropylmalate synthase/homocitrate synthase family protein; InterPro: IPR005675    This model represents largely uncharacterised proteins related to 2-isopropylmalate synthases and homocitrate synthases but phylogenetically distinct. ; GO: 0046912 transferase activity transferring acyl groups acyl groups converted into alkyl on transfer, 0019752 carboxylic acid metabolic process.
Probab=15.66  E-value=62  Score=16.23  Aligned_cols=25  Identities=44%  Similarity=0.826  Sum_probs=15.3

Q ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             6999999986120154441323202476531111045
Q gi|254781036|r   10 GVAVLSRYVKSGVFNLDSLLVDFSVSLKEHFFDTYSI   46 (65)
Q Consensus        10 gvavlsryvksgvfnldsllvdfsvslkehffdtysi   46 (65)
                      .|+-|.||+..-+|.            -|||||-|.-
T Consensus       127 Tv~YLk~~~~~VIyD------------AEHfFDGYka  151 (543)
T TIGR00977       127 TVAYLKRYADEVIYD------------AEHFFDGYKA  151 (543)
T ss_pred             HHHHHHHHCCEEEEE------------CCCCCCCCCC
T ss_conf             999998721225630------------2002463457


No 7  
>COG4171 SapC ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]
Probab=14.49  E-value=1e+02  Score=15.12  Aligned_cols=40  Identities=38%  Similarity=0.564  Sum_probs=27.2

Q ss_pred             HHHHHHHHHHHHCCCCHHH-HHHHHHHH-------------------HHHHHHHHC-CCCH
Q ss_conf             5699999998612015444-13232024-------------------765311110-4554
Q gi|254781036|r    9 LGVAVLSRYVKSGVFNLDS-LLVDFSVS-------------------LKEHFFDTY-SIPW   48 (65)
Q Consensus         9 lgvavlsryvksgvfnlds-llvdfsvs-------------------lkehffdty-sipw   48 (65)
                      ||-.||||......+.+.+ ++|.+++.                   .-.|++||. |||-
T Consensus        83 lGRDvlSRli~Gt~~t~G~allvt~~a~l~g~~lGi~AG~t~gl~s~~lnHilDt~lSiPs  143 (296)
T COG4171          83 LGRDVLSRLISGTAPTVGGALLVTLAATICGGVLGIFAGATHGLRSAVLNHILDTLLSIPS  143 (296)
T ss_pred             CHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             0088999997067523413999999999999999999977777899999999999973589


No 8  
>TIGR01176 fum_red_Fp fumarate reductase, flavoprotein subunit; InterPro: IPR005884   In bacteria two distinct, membrane-bound, enzyme complexes are responsible for the interconversion of fumarate and succinate (1.3.99.1 from EC): fumaratereductase (Frd) is used in anaerobic growth, and succinate dehydrogenase (Sdh) is used in aerobic growth. Both complexes consist of two main components: a membrane-extrinsic component composed of a FAD-binding flavoprotein and an iron-sulphur protein; and an hydrophobic component composed of a membrane anchor protein and/or a cytochrome B.   In eukaryotes mitochondrial succinate dehydrogenase (ubiquinone) (1.3.5.1 from EC) is an enzyme composed of two subunits: a FAD flavoprotein and and iron-sulphur protein.   The flavoprotein subunit is a protein of about 60 to 70 Kd to which FAD is covalently bound to a histidine residue which is located in the N-terminal section of the protein . The sequence around that histidine is well conserved in Frd and Sdh from various bacterial and eukaryotic species .    The terms succinate dehydrogenase and fumarate reductase may be used interchangeably in certain systems. However, a number of species have distinct complexes, with the fumarate reductase active under anaerobic conditions. This model represents the fumarate reductase flavoprotein subunit from several such species in which a distinct succinate dehydrogenase is also found. ; GO: 0016491 oxidoreductase activity, 0006118 electron transport, 0009061 anaerobic respiration.
Probab=13.56  E-value=74  Score=15.82  Aligned_cols=31  Identities=48%  Similarity=0.715  Sum_probs=22.9

Q ss_pred             HHHHHHHHHHHCCC-CH----HHHHHHEECCHHHHH
Q ss_conf             02476531111045-54----651233005727763
Q gi|254781036|r   33 SVSLKEHFFDTYSI-PW----HSIFYFVSENSKEYC   63 (65)
Q Consensus        33 svslkehffdtysi-pw----hsifyfvsenskeyc   63 (65)
                      .-||.+||-||-+= -|    ..+=|||.+..+|..
T Consensus        58 ~DSld~H~~DTV~GGDWLC~QD~Ve~FV~~ap~E~~   93 (585)
T TIGR01176        58 DDSLDEHFHDTVSGGDWLCEQDVVEYFVAEAPKELV   93 (585)
T ss_pred             CCCHHHHCCCCCCCCCCCCCHHHHHHHHHHCCHHHH
T ss_conf             412454144534566432202189998741334566


No 9  
>pfam00859 CTF_NFI CTF/NF-I family transcription modulation region.
Probab=11.45  E-value=58  Score=16.37  Aligned_cols=13  Identities=46%  Similarity=0.935  Sum_probs=10.0

Q ss_pred             HHHHCCCCHHHHH
Q ss_conf             9861201544413
Q gi|254781036|r   17 YVKSGVFNLDSLL   29 (65)
Q Consensus        17 yvksgvfnldsll   29 (65)
                      +|+|||||...|.
T Consensus         4 FVTSGVfsVtELv   16 (295)
T pfam00859         4 FVTSGVFSVTELV   16 (295)
T ss_pred             CEECCCCCHHHEE
T ss_conf             1202423014314


No 10 
>pfam08497 Radical_SAM_N Radical SAM N-terminal. This domain tends to occur to the N-terminus of the pfam04055 domain in hypothetical bacterial proteins.
Probab=11.25  E-value=1.7e+02  Score=13.97  Aligned_cols=39  Identities=28%  Similarity=0.510  Sum_probs=27.6

Q ss_pred             HHHHHHHHHHHHHHCCC-------------------------------CHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             25569999999861201-------------------------------5444132320247653111104
Q gi|254781036|r    7 GSLGVAVLSRYVKSGVF-------------------------------NLDSLLVDFSVSLKEHFFDTYS   45 (65)
Q Consensus         7 gslgvavlsryvksgvf-------------------------------nldsllvdfsvslkehffdtys   45 (65)
                      -|.|+|+++|...+--|                               |+||++-.+..+.|-.--|.||
T Consensus        31 PsFG~AiIgR~Le~~GyrVgIIaQPdw~~~~df~~lG~PrLffgVsaGn~DSMVn~YTa~kK~R~~DaYt  100 (298)
T pfam08497        31 PSFGMAIIGRVLEAQGFRVGIIAQPDWRSDEDFKRLGRPRLFFGVTAGNMDSMVNHYTADKKLRSDDAYT  100 (298)
T ss_pred             CCHHHHHHHHHHHHCCCEEEEEECCCCCCHHHHHHHCCCCEEEEECCCCHHHHHHHHCCCCCCCCCCCCC
T ss_conf             5306899999999869659897189989847899729984798863664888887614444434546869


Done!