Query         gi|254781207|ref|YP_003065620.1| hypothetical protein CLIBASIA_05570 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 80
No_of_seqs    1 out of 3
Neff          1.0 
Searched_HMMs 39220
Date          Mon May 30 06:04:49 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254781207.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 PTZ00236 Tim17; Provisional     86.1     2.1 5.2E-05   22.8   5.3   70    2-72     82-153 (160)
  2 pfam06932 DUF1283 Protein of u  53.7      16 0.00042   18.0   3.3   51   22-72      5-60  (109)
  3 PRK10510 putative outer membra  47.2      26 0.00065   16.9   5.0   17    7-23     34-50  (219)
  4 TIGR02005 PTS-IIBC-alpha PTS s  44.8     3.3 8.3E-05   21.7  -1.4   17   59-75    421-437 (533)
  5 pfam05055 DUF677 Protein of un  43.3      30 0.00075   16.6   4.3   15   21-35    210-224 (336)
  6 COG4735 Uncharacterized protei  33.5      32 0.00081   16.4   2.2   23   13-35    153-175 (211)
  7 PRK02256 putative aminopeptida  27.3      26 0.00066   16.9   0.9   28   36-63    416-443 (459)
  8 pfam11492 Dicistro_VP4 Cricket  26.9      50  0.0013   15.4   2.3   38    5-42     11-51  (56)
  9 KOG2596 consensus               21.2      34 0.00086   16.3   0.5   24   39-62    427-450 (479)
 10 pfam11240 DUF3042 Protein of u  20.4      59  0.0015   15.0   1.6   17   13-29      5-21  (54)

No 1  
>PTZ00236 Tim17; Provisional
Probab=86.10  E-value=2.1  Score=22.84  Aligned_cols=70  Identities=21%  Similarity=0.131  Sum_probs=29.3

Q ss_pred             CHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             335778999999999998--88778876423778888875444777614535789999886579999999999
Q gi|254781207|r    2 GFWNSITSIAATVGAVVG--TVATAAALATPIGWVGAAVAGVGAAVVGAGASDLAMHKMREQEEEEKKLLKKG   72 (80)
Q Consensus         2 gfwnsitsiaatvgavvg--tvataaalatpigwvgaavagvgaavvgagasdlamhkmreqeeeekkllkkg   72 (80)
                      ..||||.|=++|-|..--  ....++--|.--|-+=+-+.|+|-.+---- .+-....|.+|.|-|+.+..|.
T Consensus        82 D~wNsI~aGa~TGg~La~R~G~~aa~~sA~~gg~lLalIEg~gi~~~r~~-a~~~~~~~~~~~e~~~~~~~~~  153 (160)
T PTZ00236         82 DHWNAIVSGFFTGGVLAIRGGWKIAVRNAIFGGILLGIIELVSIGMNKRQ-ARTPRQQFQQQQEMEKQGERKN  153 (160)
T ss_pred             CCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-CCCCCHHHHHHHHHHHHHHCCC
T ss_conf             60476999999789998520699998706999999999999999999973-1453156798899999986403


No 2  
>pfam06932 DUF1283 Protein of unknown function (DUF1283). This family consists of several hypothetical proteins of around 115 residues in length which seem to be specific to Enterobacteria. The function of the family is unknown.
Probab=53.72  E-value=16  Score=17.97  Aligned_cols=51  Identities=24%  Similarity=0.271  Sum_probs=27.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHH-----HHHHHHHHHHHHHHH
Q ss_conf             778876423778888875444777614535789999-----886579999999999
Q gi|254781207|r   22 ATAAALATPIGWVGAAVAGVGAAVVGAGASDLAMHK-----MREQEEEEKKLLKKG   72 (80)
Q Consensus        22 ataaalatpigwvgaavagvgaavvgagasdlamhk-----mreqeeeekkllkkg   72 (80)
                      -..++|..|+.|.-++.|.-...|...|..|-+|.|     +.||=.+.+.|-.|-
T Consensus         5 lpl~~Ll~~~awq~~a~a~~sT~~~v~~~gd~~lske~Arq~kEqW~~tr~LR~KV   60 (109)
T pfam06932         5 LPLALLLLLLAWQTTALAQASTCVLVIESGDSAQSREAARQSKEQWNDTRSLRNKV   60 (109)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             87999999998421354326644785079963303999998798687889999998


No 3  
>PRK10510 putative outer membrane lipoprotein; Provisional
Probab=47.15  E-value=26  Score=16.93  Aligned_cols=17  Identities=29%  Similarity=0.464  Sum_probs=8.0

Q ss_pred             HHHHHHHHHHHHHHHHH
Q ss_conf             89999999999988877
Q gi|254781207|r    7 ITSIAATVGAVVGTVAT   23 (80)
Q Consensus         7 itsiaatvgavvgtvat   23 (80)
                      .+.+.+.+|++.|.+.-
T Consensus        34 ~~~~ga~~Ga~~Ga~~G   50 (219)
T PRK10510         34 KSGIGAGIGSLVGAGIG   50 (219)
T ss_pred             HHHHHHHHHHHHHHHHH
T ss_conf             66675789999989862


No 4  
>TIGR02005 PTS-IIBC-alpha PTS system, alpha-glucoside-specific IIBC component; InterPro: IPR010975   This entry represents the fused PTS enzyme II B and C domains. A gene from Clostridium  has been partially characterised as a maltose transporter, while genes from Fusobacterium and Klebsiella ,  have been proposed to transport the five non-standard isomers of sucrose.; GO: 0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system.
Probab=44.76  E-value=3.3  Score=21.75  Aligned_cols=17  Identities=59%  Similarity=0.589  Sum_probs=13.2

Q ss_pred             HHHHHHHHHHHHHHHHH
Q ss_conf             86579999999999887
Q gi|254781207|r   59 REQEEEEKKLLKKGLKK   75 (80)
Q Consensus        59 reqeeeekkllkkglkk   75 (80)
                      ||.+|||-||.-|---|
T Consensus       421 Re~~eEEvKLYsKadYK  437 (533)
T TIGR02005       421 REDEEEEVKLYSKADYK  437 (533)
T ss_pred             CCCCCCCCCCCCCHHHH
T ss_conf             88754432212103455


No 5  
>pfam05055 DUF677 Protein of unknown function (DUF677). This family consists of AT14A like proteins from Arabidopsis thaliana. At14a has a small domain that has sequence similarities to integrins from fungi, insects and humans. Transcripts of At14a are found in all Arabidopsis tissues and localizes partly to the plasma membrane.
Probab=43.29  E-value=30  Score=16.60  Aligned_cols=15  Identities=53%  Similarity=0.702  Sum_probs=9.2

Q ss_pred             HHHHHHHHHHHHHHH
Q ss_conf             877887642377888
Q gi|254781207|r   21 VATAAALATPIGWVG   35 (80)
Q Consensus        21 vataaalatpigwvg   35 (80)
                      ++.|++++.||+-+|
T Consensus       210 va~a~~~s~Pi~~~g  224 (336)
T pfam05055       210 VGVAGALAVPLEAVG  224 (336)
T ss_pred             HHHHHHHCCCCHHHH
T ss_conf             766887616600178


No 6  
>COG4735 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.53  E-value=32  Score=16.42  Aligned_cols=23  Identities=39%  Similarity=0.631  Sum_probs=18.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999988877887642377888
Q gi|254781207|r   13 TVGAVVGTVATAAALATPIGWVG   35 (80)
Q Consensus        13 tvgavvgtvataaalatpigwvg   35 (80)
                      ++|+-.|+|-|--.|.-|+||.=
T Consensus       153 ~~ga~~~~~rtl~~l~GPvgw~l  175 (211)
T COG4735         153 LRGAAYGLVRTLFSLGGPVGWAL  175 (211)
T ss_pred             HHHHHHHHHHHHHHHCCHHHHHH
T ss_conf             66422667777998526199999


No 7  
>PRK02256 putative aminopeptidase 1; Provisional
Probab=27.33  E-value=26  Score=16.91  Aligned_cols=28  Identities=29%  Similarity=0.335  Sum_probs=21.8

Q ss_pred             HHHHHHHHHHHHCCHHHHHHHHHHHHHH
Q ss_conf             8875444777614535789999886579
Q gi|254781207|r   36 AAVAGVGAAVVGAGASDLAMHKMREQEE   63 (80)
Q Consensus        36 aavagvgaavvgagasdlamhkmreqee   63 (80)
                      .-.+..|...|--|..-|+||-.||---
T Consensus       416 pi~A~~Gi~tVDvG~P~LsMHSiRE~~g  443 (459)
T PRK02256        416 KFLAQYGMEVIDCGVALLSMHSPFEIAS  443 (459)
T ss_pred             HHHHHCCCCEEECCHHHHHHHHHHHHHC
T ss_conf             9987279988970676654208988854


No 8  
>pfam11492 Dicistro_VP4 Cricket paralysis virus, VP4. This is a family of minor capsid proteins, known as VP4, from the dicistroviridae. The dicistroviridae is a group of small, RNA-containing viruses that are closely structurally related to the picornaviridae. VP4 is a short, extended polypeptide chain found within the viral capsid, at the interface between the external protein shell and packaged RNA genome.
Probab=26.90  E-value=50  Score=15.36  Aligned_cols=38  Identities=26%  Similarity=0.471  Sum_probs=26.5

Q ss_pred             HHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHH
Q ss_conf             7789999999999988877---8876423778888875444
Q gi|254781207|r    5 NSITSIAATVGAVVGTVAT---AAALATPIGWVGAAVAGVG   42 (80)
Q Consensus         5 nsitsiaatvgavvgtvat---aaalatpigwvgaavagvg   42 (80)
                      ++|.+.+.+|..+.+++-.   -...++|..|+-.+|+.+-
T Consensus        11 G~IS~~as~Vs~va~~ls~IPvig~~aka~~wvs~~v~~iA   51 (56)
T pfam11492        11 GVISKPASTVSEVASALSSIPVIGNIAKATSWVSDAVGDIA   51 (56)
T ss_pred             CCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHH
T ss_conf             65352889999998660168601210104899999999999


No 9  
>KOG2596 consensus
Probab=21.18  E-value=34  Score=16.30  Aligned_cols=24  Identities=29%  Similarity=0.491  Sum_probs=20.4

Q ss_pred             HHHHHHHHHCCHHHHHHHHHHHHH
Q ss_conf             544477761453578999988657
Q gi|254781207|r   39 AGVGAAVVGAGASDLAMHKMREQE   62 (80)
Q Consensus        39 agvgaavvgagasdlamhkmreqe   62 (80)
                      ..+|.-.+.-|...|+||-.||--
T Consensus       427 S~~G~RTlDlG~pqLsMHSiRe~~  450 (479)
T KOG2596         427 SKTGIRTLDLGIPQLSMHSIREMC  450 (479)
T ss_pred             HHCCCEEEECCCHHHHHHHHHHHH
T ss_conf             204854661585266667899874


No 10 
>pfam11240 DUF3042 Protein of unknown function (DUF3042). This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=20.43  E-value=59  Score=14.99  Aligned_cols=17  Identities=47%  Similarity=0.581  Sum_probs=12.2

Q ss_pred             HHHHHHHHHHHHHHHHH
Q ss_conf             99999988877887642
Q gi|254781207|r   13 TVGAVVGTVATAAALAT   29 (80)
Q Consensus        13 tvgavvgtvataaalat   29 (80)
                      +-|-++|+++|.+++|.
T Consensus         5 ~kG~l~G~~~T~aaiag   21 (54)
T pfam11240         5 AKGFLTGVLATAAAIAG   21 (54)
T ss_pred             HHHHHHHHHHHHHHHHH
T ss_conf             10134537999999988


Done!