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!