Query         gi|254780811|ref|YP_003065224.1| hypothetical protein CLIBASIA_03510 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 178
No_of_seqs    115 out of 1169
Neff          5.5 
Searched_HMMs 23785
Date          Mon May 30 12:55:50 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780811.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 2zsh_B Della protein GAI; plan  13.5      49  0.0021   11.8   1.3   23   24-46     62-84  (110)
  2 1m0k_A BR, bacteriorhodopsin;   12.1      54  0.0023   11.6   7.5   59   43-102    52-111 (262)
  3 1pi1_A MOB1A; mitotic EXIT net  12.1      54  0.0023   11.6   1.2   47   47-93     83-129 (185)
  4 2oa4_A SIR5; structure, struct   9.4      67  0.0028   11.0   1.5   35   12-46     35-74  (101)
  5 1v9v_A KIAA0561 protein; helix   7.3      83  0.0035   10.4   1.5   13   81-93     11-23  (114)
  6 3cuc_A Protein of unknown func   7.0      86  0.0036   10.4   0.6   10   41-50     98-107 (291)
  7 3a98_B Engulfment and cell mot   6.7      89  0.0038   10.3   0.6   11   51-61    138-148 (203)
  8 3omd_A Uncharacterized protein   6.2      46  0.0019   12.0  -1.5   46   55-102    20-69  (145)
  9 1t8s_A AMP nucleosidase; alpha   5.9      41  0.0017   12.3  -2.0   25  138-162   458-482 (484)
 10 3ofo_D 30S ribosomal protein S   5.5 1.1E+02  0.0045    9.8   3.3   30   63-92     72-101 (205)

No 1  
>2zsh_B Della protein GAI; plant hormone receptor, gibberellin, gibberellin signaling pathway, hydrolase, nucleus, receptor, developmental protein; HET: GA3; 1.80A {Arabidopsis thaliana} PDB: 2zsi_B*
Probab=13.45  E-value=49  Score=11.81  Aligned_cols=23  Identities=9%  Similarity=0.134  Sum_probs=15.4

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHH
Q ss_conf             99999999960814668999999
Q gi|254780811|r   24 FLFLSLLCFFFLTSQFNLCIKSI   46 (178)
Q Consensus        24 ~~~~~~~~~~~~~~~~YlwiKal   46 (178)
                      .+-++----++||+|++.|+.+.
T Consensus        62 ls~LasDtVHYNPSDLs~WvesM   84 (110)
T 2zsh_B           62 LSQLATETVHYNPAELYTWLDSM   84 (110)
T ss_dssp             ---CHHHHTTSCTTBHHHHHHHH
T ss_pred             HHHHCCCCCCCCHHHHHHHHHHH
T ss_conf             76741564004868889999999


No 2  
>1m0k_A BR, bacteriorhodopsin; ION pump, membrane protein, retinal protein, lipids, photoreceptor, haloarchaea, 7-transmembrane, serpentine; HET: RET LI1 SQU; 1.43A {Halobacterium salinarum} SCOP: f.13.1.1 PDB: 1m0l_A* 1m0m_A* 2zfe_A* 2zzl_A* 1p8h_A* 1o0a_A* 1py6_A* 1r2n_A* 1ucq_A* 1vjm_A* 2ntu_A* 2ntw_A* 3har_A* 1c8r_A* 2i21_A* 1p8i_A* 1p8u_A* 3han_A* 1mgy_A* 1jv7_A* ...
Probab=12.12  E-value=54  Score=11.57  Aligned_cols=59  Identities=10%  Similarity=0.098  Sum_probs=32.8

Q ss_pred             HHHHHHH-HHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9999999-99999999999989999987554674267999999999999999899999999
Q gi|254780811|r   43 IKSIHIL-SVISWMAGLLYMPRIFVYHSLSAPDTDQYKTFEIMEERLFKVIMNPAMILSWV  102 (178)
Q Consensus        43 iKalHIi-~Vi~WmAGLfyLPRlfVyh~e~~~~~~~~~~~~~merrL~~~I~~PAmila~i  102 (178)
                      -|.+|.+ ++++=.|++-|. ++.....+.....+...+--..-|-.+..+|+|.|++...
T Consensus        52 ~r~~~~ls~li~~iA~~~Y~-~Ma~~~g~~~~~~~~~~~~v~~~RYiDW~iTtPLll~~l~  111 (262)
T 1m0k_A           52 AKKFYAITTLVPAIAFTMYL-SMLLGYGLTMVPFGGEQNPIYWARYADWLFTTPLLLLDLA  111 (262)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH-HHHTTTTCEEEEETTEEEEECTHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEEEHHHHHHHHHHHHHH-HHHHHCCEEECCCCCCCCCCCHHHHCCHHHHHHHHHHHHH
T ss_conf             03543179999999999999-9997432332125898772007576168887899999999


No 3  
>1pi1_A MOB1A; mitotic EXIT network, mitosis, DBF2, cell cycle; 2.00A {Homo sapiens} SCOP: a.29.7.1 PDB: 1r3b_A
Probab=12.10  E-value=54  Score=11.56  Aligned_cols=47  Identities=17%  Similarity=0.199  Sum_probs=32.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999989999987554674267999999999999999
Q gi|254780811|r   47 HILSVISWMAGLLYMPRIFVYHSLSAPDTDQYKTFEIMEERLFKVIM   93 (178)
Q Consensus        47 HIi~Vi~WmAGLfyLPRlfVyh~e~~~~~~~~~~~~~merrL~~~I~   93 (178)
                      -|-.++.|..+++-=+++|--....+--+......+..-|||+|+..
T Consensus        83 Yi~~~~~w~~~~l~de~iFPt~~~~~fP~~F~~~vk~I~rrLfRVyA  129 (185)
T 1pi1_A           83 YIDYLMTWVQDQLDDETLFPSKIGVPFPKNFMSVAKTILKRLFRVYA  129 (185)
T ss_dssp             HHHHHHHHHHHHHTCTTTSCSSTTSCCCTTHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999998605964488989998987799999999999999999


No 4  
>2oa4_A SIR5; structure, structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; NMR {Silicibacter pomeroyi} SCOP: a.4.12.3
Probab=9.41  E-value=67  Score=11.00  Aligned_cols=35  Identities=11%  Similarity=0.009  Sum_probs=22.7

Q ss_pred             HHHHHHHHHHHHHHH-----HHHHHHHCCCHHHHHHHHHH
Q ss_conf             899999999999999-----99999960814668999999
Q gi|254780811|r   12 KAQAIAFIALFVFLF-----LSLLCFFFLTSQFNLCIKSI   46 (178)
Q Consensus        12 ~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~YlwiKal   46 (178)
                      .|+.+|-+-+.+...     .+..-+...++++|.|.+++
T Consensus        35 vA~RKa~VV~aV~~G~~S~~EAcrrY~LS~eEf~~W~~a~   74 (101)
T 2oa4_A           35 VASRKIAVVRGVIYGLITLAEAKQTYGLSDEEFNSWVSAL   74 (101)
T ss_dssp             CHHHHHHHHHHHHHTTCCHHHHHHTTCSSHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHH
T ss_conf             6999999999998384579999988399999999999999


No 5  
>1v9v_A KIAA0561 protein; helix bundle, MAST205, microtubule-associated serine/threonine protein kinase, structural genomics; NMR {Homo sapiens} SCOP: a.29.10.1
Probab=7.30  E-value=83  Score=10.45  Aligned_cols=13  Identities=31%  Similarity=0.325  Sum_probs=8.4

Q ss_pred             HHHHHHHHHHHHH
Q ss_conf             9999999999999
Q gi|254780811|r   81 FEIMEERLFKVIM   93 (178)
Q Consensus        81 ~~~merrL~~~I~   93 (178)
                      -+.||.||-.+|.
T Consensus        11 taQMEerL~~fi~   23 (114)
T 1v9v_A           11 TAQMEGRLQEFLT   23 (114)
T ss_dssp             THHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
T ss_conf             8999999999999


No 6  
>3cuc_A Protein of unknown function with A FIC domain; FIC protein family, structural genomics, joint center for ST genomics, JCSG; HET: MSE; 2.71A {Bacteroides thetaiotaomicron vpi-5482}
Probab=7.02  E-value=86  Score=10.36  Aligned_cols=10  Identities=10%  Similarity=0.086  Sum_probs=5.0

Q ss_pred             HHHHHHHHHH
Q ss_conf             9999999999
Q gi|254780811|r   41 LCIKSIHILS   50 (178)
Q Consensus        41 lwiKalHIi~   50 (178)
                      ..++.+|-+-
T Consensus        98 ~~i~~lH~~l  107 (291)
T 3cuc_A           98 SFIRELNRTI  107 (291)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
T ss_conf             9999998875


No 7  
>3a98_B Engulfment and cell motility protein 1; protein-protein complex, DOCK2, ELMO1, SH3 domain, PH domain bundle, proline-rich sequence, cytoskeleton; 2.10A {Homo sapiens} PDB: 2vsz_A
Probab=6.68  E-value=89  Score=10.26  Aligned_cols=11  Identities=27%  Similarity=0.531  Sum_probs=8.3

Q ss_pred             HHHHHHHHHHH
Q ss_conf             99999999999
Q gi|254780811|r   51 VISWMAGLLYM   61 (178)
Q Consensus        51 Vi~WmAGLfyL   61 (178)
                      .-.|+.||.+|
T Consensus       138 a~~WlDGL~~L  148 (203)
T 3a98_B          138 YCIWTDGLNAL  148 (203)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
T ss_conf             99999999999


No 8  
>3omd_A Uncharacterized protein; PSI-2, midwest center for structural genomics, protein struc initiative, MCSG, unknown function; HET: MSE; 1.50A {Leptospirillum rubarum}
Probab=6.22  E-value=46  Score=11.97  Aligned_cols=46  Identities=11%  Similarity=0.107  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHHH---HHHCCCCCHHHHHHHHHHHHHHHHHH-HHHHHHHHH
Q ss_conf             9999999899999---87554674267999999999999999-899999999
Q gi|254780811|r   55 MAGLLYMPRIFVY---HSLSAPDTDQYKTFEIMEERLFKVIM-NPAMILSWV  102 (178)
Q Consensus        55 mAGLfyLPRlfVy---h~e~~~~~~~~~~~~~merrL~~~I~-~PAmila~i  102 (178)
                      +.|+.||||+.--   |...+..+..  --+-+.+++..+.. .|+.+...+
T Consensus        20 lgG~~~LpR~idK~R~~~~G~L~~~~--~~~g~D~~~~~~lgI~~~~~~~~V   69 (145)
T 3omd_A           20 LGGMDHLKRVIDKARAHVAGTLGEYT--YNCPLDQAFFSFFGLDHEKFAEAV   69 (145)
T ss_dssp             BTTBSSHHHHHHHHHHHHHTCCTTCC--TTSHHHHHHHHHHTCCHHHHHHHH
T ss_pred             HCCEEEHHHHHHHHHHHHCCCCCCCC--CCCCHHHHHHHHHCCCHHHHHHHH
T ss_conf             48952188899999999758796655--798413999988398999999999


No 9  
>1t8s_A AMP nucleosidase; alpha-beta-alpha sandwich, alpha-beta fold, hydrolase; HET: FMP; 2.60A {Escherichia coli} SCOP: c.56.2.1 PDB: 1t8r_A* 1t8w_A 1t8y_A 2guw_A
Probab=5.89  E-value=41  Score=12.28  Aligned_cols=25  Identities=16%  Similarity=0.171  Sum_probs=16.6

Q ss_pred             HHHHHHHCCCCCCCHHHHHHHHHHH
Q ss_conf             9999995699998846899999999
Q gi|254780811|r  138 FVMRKFRDKKLFHSPKYFKIINEIP  162 (178)
Q Consensus       138 ~~lk~~~~g~~~~s~~~~R~~NEiP  162 (178)
                      +.++++++...+..++.+|-|||.|
T Consensus       458 ~a~~~L~~~~e~~hsrklr~f~e~~  482 (484)
T 1t8s_A          458 RAIDLLRAEGDRLHSRKLRTFNEPP  482 (484)
T ss_dssp             HHHHHHHHTTTTTCCSTTCCTTCCS
T ss_pred             HHHHHHHHHHHHCCCCCCCCCCCCC
T ss_conf             9999998544422342114578888


No 10 
>3ofo_D 30S ribosomal protein S4; protein biosynthesis, ribosomes, RNA, tRNA, transfer, eryThr ketolide, macrolide, antibiotic, EXIT, peptidyl; 3.10A {Escherichia coli} PDB: 1p6g_D 1p87_D 2aw7_D 2avy_D 2i2u_D 2i2p_D* 2qan_D* 2qb9_D* 2qbb_D* 2qbd_D 2qbf_D 2qbh_D* 2qbj_D* 2qou_D* 2qow_D* 2qoy_D* 2qp0_D* 2vho_D 2vhp_D 2wwl_D* ...
Probab=5.51  E-value=1.1e+02  Score=9.78  Aligned_cols=30  Identities=17%  Similarity=0.228  Sum_probs=0.0

Q ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             999998755467426799999999999999
Q gi|254780811|r   63 RIFVYHSLSAPDTDQYKTFEIMEERLFKVI   92 (178)
Q Consensus        63 RlfVyh~e~~~~~~~~~~~~~merrL~~~I   92 (178)
                      |-++.-+....+...+..+...|+||+..+
T Consensus        72 ~~~~~~A~~~~g~tg~~ll~lLE~RLDnvv  101 (205)
T 3ofo_D           72 RNYYKEAARLKGNTGENLLALLEGRLDNVV  101 (205)
T ss_dssp             HHHHHHHHHSSSCHHHHHHHHHHHBHHHHH
T ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHHHHHH
T ss_conf             999999974799689999999998777898


Done!