Query         gi|254781001|ref|YP_003065414.1| hypothetical protein CLIBASIA_04510 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 93
No_of_seqs    1 out of 3
Neff          1.0 
Searched_HMMs 23785
Date          Tue May 31 23:37:54 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254781001.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 2e62_A Protein AT5G25060; CWF2  24.0      34  0.0014   15.7   2.1   25   44-68     25-49  (61)
  2 2w6a_A ARF GTPase-activating p  22.4      31  0.0013   16.0   1.6   15   60-74     14-28  (63)
  3 2ovm_B NCOR, progesterone rece   7.1 1.4E+02  0.0058   12.5   1.6   18   54-71      7-24  (26)
  4 3dcg_E Virion infectivity fact   5.4 1.7E+02  0.0073   12.0   1.7   23   60-82      8-30  (39)
  5 1un0_C Nucleoporin NUP2; nucle   5.0 1.3E+02  0.0055   12.7   0.2   17   65-82     31-47  (51)
  6 3kuu_A Phosphoribosylaminoimid   4.7 1.9E+02  0.0082   11.7   0.9   11   34-44    109-119 (174)
  7 3oow_A Phosphoribosylaminoimid   4.3 2.1E+02  0.0089   11.6   0.9   12   34-45    102-113 (166)
  8 2gpv_G Nuclear receptor corepr   4.3 2.1E+02  0.0089   11.6   1.5   15   56-70      1-15  (26)
  9 1y88_A Hypothetical protein AF   3.8      79  0.0033   13.8  -1.7   28   48-75    128-155 (199)
 10 3e6q_A Putative 5-carboxymethy   3.2 1.5E+02  0.0065   12.3  -0.7   36   37-72     19-54  (146)

No 1  
>2e62_A Protein AT5G25060; CWF21 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Arabidopsis thaliana}
Probab=24.00  E-value=34  Score=15.69  Aligned_cols=25  Identities=32%  Similarity=0.371  Sum_probs=15.2

Q ss_pred             CEEHHHHHHHHHHCCCHHHHHHHHH
Q ss_conf             6203556777641263788889987
Q gi|254781001|r   44 SIEYRDTLDERVANSGLYMIVKKAL   68 (93)
Q Consensus        44 sieyrdtldervansglymivkkal   68 (93)
                      -||||++|.|+-..+.--.--|-|+
T Consensus        25 ~ieYResLEE~G~kn~eEierkVa~   49 (61)
T 2e62_A           25 LIEYRETLEEQGMKNPEEIERKVEI   49 (61)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             9999988998514469999999999


No 2  
>2w6a_A ARF GTPase-activating protein GIT1; PIX, zinc, signaling protein, CAT-1, cytoplasm, ANK repeat, coiled-coil, zinc-finger, metal-binding; 1.40A {Rattus norvegicus}
Probab=22.36  E-value=31  Score=15.96  Aligned_cols=15  Identities=40%  Similarity=0.563  Sum_probs=12.2

Q ss_pred             HHHHHHHHHHHHHHH
Q ss_conf             788889987641100
Q gi|254781001|r   60 LYMIVKKALVRSKKR   74 (93)
Q Consensus        60 lymivkkalvrskkr   74 (93)
                      -||-||+||+.|.-+
T Consensus        14 EylevK~AL~aSEak   28 (63)
T 2w6a_A           14 EYLELKKALATSEAK   28 (63)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
T ss_conf             999999998743999


No 3  
>2ovm_B NCOR, progesterone receptor; nuclear receptor, steroid receptor, CO-repressor, asoprisnil, transcription; HET: AS0; 2.60A {Homo sapiens}
Probab=7.14  E-value=1.4e+02  Score=12.54  Aligned_cols=18  Identities=44%  Similarity=0.540  Sum_probs=14.1

Q ss_pred             HHHCCCHHHHHHHHHHHH
Q ss_conf             641263788889987641
Q gi|254781001|r   54 RVANSGLYMIVKKALVRS   71 (93)
Q Consensus        54 rvansglymivkkalvrs   71 (93)
                      ...|-||--|..|||..|
T Consensus         7 pasnlglediirkalmgs   24 (26)
T 2ovm_B            7 PASNLGLEDIIRKALMGS   24 (26)
T ss_pred             CCCCCCHHHHHHHHHHHC
T ss_conf             200038999999998203


No 4  
>3dcg_E Virion infectivity factor; HIV, VIF, AIDS, cytoplasm, HOST-virus interaction, membrane, phosphoprotein, RNA-binding; 2.40A {Human immunodeficiency virus type 1}
Probab=5.38  E-value=1.7e+02  Score=12.00  Aligned_cols=23  Identities=30%  Similarity=0.427  Sum_probs=17.9

Q ss_pred             HHHHHHHHHHHHHHHHCCCCHHH
Q ss_conf             78888998764110000253257
Q gi|254781001|r   60 LYMIVKKALVRSKKRKIAVPSRQ   82 (93)
Q Consensus        60 lymivkkalvrskkrkiavpsrq   82 (93)
                      |-...-+||+..||+|-..||-+
T Consensus         8 LQyLAL~alv~pkk~kpPlPSV~   30 (39)
T 3dcg_E            8 LQYLALAALIKPKQIKPPLPSVR   30 (39)
T ss_pred             HHHHHHHHHHCCCCCCCCCCCHH
T ss_conf             99999999874478899997202


No 5  
>1un0_C Nucleoporin NUP2; nuclear import, armadillo repeat, NLS release, karyopherin recycling; 2.6A {Saccharomyces cerevisiae} PDB: 2c1t_C
Probab=5.02  E-value=1.3e+02  Score=12.66  Aligned_cols=17  Identities=41%  Similarity=0.681  Sum_probs=11.1

Q ss_pred             HHHHHHHHHHHCCCCHHH
Q ss_conf             998764110000253257
Q gi|254781001|r   65 KKALVRSKKRKIAVPSRQ   82 (93)
Q Consensus        65 kkalvrskkrkiavpsrq   82 (93)
                      --+-|-| +||||-|-|.
T Consensus        31 AS~~Vms-~RKIa~Pk~k   47 (51)
T 1un0_C           31 ASSAVMN-RRKIAMPKRR   47 (51)
T ss_pred             HHHHHHH-HHHHCCCCCC
T ss_conf             1099986-5231165543


No 6  
>3kuu_A Phosphoribosylaminoimidazole carboxylase catalytic subunit PURE; 3-layer (ABA) sandwich, rossmann fold, csgid, lyase, structural genomics; 1.41A {Yersinia pestis} PDB: 1d7a_A* 1qcz_A 2ate_A* 2nsl_A* 2nsh_A* 2nsj_A*
Probab=4.71  E-value=1.9e+02  Score=11.75  Aligned_cols=11  Identities=45%  Similarity=0.676  Sum_probs=9.0

Q ss_pred             HHHHHHCCCCC
Q ss_conf             53665077886
Q gi|254781001|r   34 WLSIFSMPSGS   44 (93)
Q Consensus        34 wlsifsmpsgs   44 (93)
                      -||+..||+|-
T Consensus       109 llS~vqMP~Gv  119 (174)
T 3kuu_A          109 LYSIVQMPRGI  119 (174)
T ss_dssp             HHHHHTCCTTS
T ss_pred             HHHHHHCCCCC
T ss_conf             88997187889


No 7  
>3oow_A Phosphoribosylaminoimidazole carboxylase,catalyic; structural genomics, center for structural genomics of infec diseases, csgid; HET: MSE; 1.75A {Francisella tularensis subsp}
Probab=4.27  E-value=2.1e+02  Score=11.56  Aligned_cols=12  Identities=50%  Similarity=0.695  Sum_probs=9.1

Q ss_pred             HHHHHHCCCCCE
Q ss_conf             536650778862
Q gi|254781001|r   34 WLSIFSMPSGSI   45 (93)
Q Consensus        34 wlsifsmpsgsi   45 (93)
                      -||+..||+|--
T Consensus       102 llS~vqMP~GvP  113 (166)
T 3oow_A          102 LLSIVQMPAGIP  113 (166)
T ss_dssp             HHHHHTCCTTSC
T ss_pred             HHHHHHCCCCCC
T ss_conf             899970987898


No 8  
>2gpv_G Nuclear receptor corepressor 2; estrogen related receptor, ERR, ERRG, ESRRG, steroid receptor, SMRT, tamoxifen, transcription; HET: OHT; 2.85A {Homo sapiens}
Probab=4.26  E-value=2.1e+02  Score=11.56  Aligned_cols=15  Identities=47%  Similarity=0.671  Sum_probs=11.7

Q ss_pred             HCCCHHHHHHHHHHH
Q ss_conf             126378888998764
Q gi|254781001|r   56 ANSGLYMIVKKALVR   70 (93)
Q Consensus        56 ansglymivkkalvr   70 (93)
                      .|-||-.|..|||..
T Consensus         1 tnmgleaiirkalmg   15 (26)
T 2gpv_G            1 TNMGLEAIIRKALMG   15 (26)
T ss_pred             CCCCHHHHHHHHHHC
T ss_conf             963499999999821


No 9  
>1y88_A Hypothetical protein AF1548; APC5567, structural genomics, protein structure initiative, PSI; 1.85A {Archaeoglobus fulgidus} SCOP: a.60.4.3 c.52.1.30
Probab=3.81  E-value=79  Score=13.80  Aligned_cols=28  Identities=14%  Similarity=0.282  Sum_probs=19.8

Q ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHH
Q ss_conf             5567776412637888899876411000
Q gi|254781001|r   48 RDTLDERVANSGLYMIVKKALVRSKKRK   75 (93)
Q Consensus        48 rdtldervansglymivkkalvrskkrk   75 (93)
                      .+.|-+|+-.+|||-+....+.++.++.
T Consensus       128 ~~~L~~~I~~~~lypit~~~l~~~~~~~  155 (199)
T 1y88_A          128 KEGIEVLLESKGLYPITILRIDKEVLDE  155 (199)
T ss_dssp             TTSHHHHHHTTTCCBGGGSSCCHHHHHH
T ss_pred             CCHHHHHHHHCCCCCEEECCCCHHHHHH
T ss_conf             4219999863288621220503677765


No 10 
>3e6q_A Putative 5-carboxymethyl-2-hydroxymuconate isomerase; structural genomics, APC7683, PSI-2, protein structure initiative; HET: GOL IMD; 1.75A {Pseudomonas aeruginosa}
Probab=3.22  E-value=1.5e+02  Score=12.28  Aligned_cols=36  Identities=25%  Similarity=0.180  Sum_probs=27.5

Q ss_pred             HHHCCCCCEEHHHHHHHHHHCCCHHHHHHHHHHHHH
Q ss_conf             650778862035567776412637888899876411
Q gi|254781001|r   37 IFSMPSGSIEYRDTLDERVANSGLYMIVKKALVRSK   72 (93)
Q Consensus        37 ifsmpsgsieyrdtldervansglymivkkalvrsk   72 (93)
                      +-.||-=.|||-+.|++++.-..|.--+..+++-+.
T Consensus        19 ~~~MPHiiIEYS~nL~~~~d~~~Ll~~lh~~l~~sg   54 (146)
T 3e6q_A           19 FQGMPHLVIEATANLRLETSPGELLEQANAALFASG   54 (146)
T ss_dssp             CCCCCEEEEEEETTCEESSCHHHHHHHHHHHHHHTT
T ss_pred             ECCCCEEEEEECCCCCCCCCHHHHHHHHHHHHHHCC
T ss_conf             158983899988780100599999999999998469


Done!