Query gi|254781191|ref|YP_003065604.1| hypothetical protein CLIBASIA_05490 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 165 No_of_seqs 108 out of 117 Neff 5.2 Searched_HMMs 23785 Date Wed Jun 1 01:42:29 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254781191.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 2elu_A Zinc finger protein 406 67.2 0.68 2.9E-05 25.4 -0.7 13 4-16 10-22 (37) 2 1ru0_A DCOH-like protein dcohm 60.0 7.4 0.00031 18.8 3.5 47 27-95 4-53 (105) 3 1z5x_E Ecdysone receptor ligan 35.6 6.3 0.00027 19.3 0.0 16 1-16 18-33 (310) 4 1a6b_B Momulv, zinc finger pro 31.9 12 0.00049 17.6 0.8 14 1-14 8-21 (40) 5 1u6p_A GAG polyprotein; MLV, A 30.0 13 0.00056 17.2 0.9 14 1-14 21-34 (56) 6 2ebb_A Pterin-4-alpha-carbinol 29.5 24 0.001 15.6 2.1 28 68-95 14-43 (101) 7 2v6u_A Pterin-4A-carbinolamine 26.6 32 0.0014 14.7 2.5 29 67-95 19-50 (104) 8 3jst_A Putative pterin-4-alpha 26.1 33 0.0014 14.7 3.5 28 68-95 17-47 (97) 9 2exu_A Transcription initiatio 25.6 34 0.0014 14.6 2.6 45 67-118 146-190 (200) 10 1r5s_A GAP junction alpha-1 pr 22.7 23 0.00099 15.6 1.1 16 66-81 30-45 (132) 11 3lpe_A Putative transcription 20.7 42 0.0018 14.0 3.9 45 67-118 47-91 (92) No 1 >2elu_A Zinc finger protein 406; ZFAT zinc finger 1, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2elw_A Probab=67.15 E-value=0.68 Score=25.43 Aligned_cols=13 Identities=38% Similarity=0.777 Sum_probs=10.3 Q ss_pred CCCEECCCCCCCH Q ss_conf 4360634667488 Q gi|254781191|r 4 NACRFCRAKPRCG 16 (165) Q Consensus 4 d~CrFCkak~~Cr 16 (165) .||||||-|-+-- T Consensus 10 qhcrfckkkysdv 22 (37) T 2elu_A 10 QHCRFCKKKYSDV 22 (37) T ss_dssp CEETTTTEECSSH T ss_pred HHHHHHHHHHHHH T ss_conf 9999999887889 No 2 >1ru0_A DCOH-like protein dcohm; alpha and beta structure, lyase; 1.60A {Mus musculus} SCOP: d.74.1.1 Probab=60.00 E-value=7.4 Score=18.83 Aligned_cols=47 Identities=19% Similarity=0.179 Sum_probs=30.8 Q ss_pred HHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEECCCC-CCCCCC--CHHHHHHHHH Q ss_conf 30216689889999999859999999999999999998898688614415877-887117--9899999999 Q gi|254781191|r 27 SEHMQILSNRQLSQVMNVLPLIETWMKGVKEEALNVLSSGEDLPNYELKEGRK-GSRTYN--NDNQVEQLLM 95 (165) Q Consensus 27 ~~~~~~Lt~eei~~il~~~~~l~~W~~~v~~~A~~~~~~G~~~pG~KlVeGRs-~~R~~~--de~~a~~~l~ 95 (165) ..+.+.||.+|+.+.|..++. |||++++++. -.|.|+ |=..+...+. T Consensus 4 ~~~~~~Lt~~ei~~~L~~l~~----------------------~GW~~~~~~~~L~r~f~F~~f~~a~~F~~ 53 (105) T 1ru0_A 4 SSDAQWLTAEERDQLIPGLKA----------------------AGWSELSERDAIYKEFSFKNFNQAFGFMS 53 (105) T ss_dssp --CCSBCCHHHHHHHHHHHHH----------------------TTCEECSSSSCEEEEEECSSHHHHHHHHH T ss_pred CCCCCCCCHHHHHHHHHHCCC----------------------CCCEEECCCCEEEEEEEECCHHHHHHHHH T ss_conf 668764999999998854888----------------------99899779994999999699999999999 No 3 >1z5x_E Ecdysone receptor ligand binding domain; ponasterone A, nuclear receptor, ECR, USP, hormone/growth factor receptor complex; HET: P1A; 3.07A {Bemisia tabaci} Probab=35.62 E-value=6.3 Score=19.25 Aligned_cols=16 Identities=19% Similarity=0.345 Sum_probs=12.8 Q ss_pred CCCCCCEECCCCCCCH Q ss_conf 9764360634667488 Q gi|254781191|r 1 MDENACRFCRAKPRCG 16 (165) Q Consensus 1 ~~~d~CrFCkak~~Cr 16 (165) |++.+||+||-+--|. T Consensus 18 v~~nqCq~CRl~KC~~ 33 (310) T 1z5x_E 18 VPEFQCAVKRKEKKAQ 33 (310) T ss_dssp ---------------- T ss_pred CCHHHHHHHHHHHHHH T ss_conf 8546659999798430 No 4 >1a6b_B Momulv, zinc finger protein NCP10; nucleocapsid protein, intercalation, nucleic acid, retrovirus, viral protein/DNA complex; HET: DNA; NMR {Synthetic} SCOP: g.40.1.1 Probab=31.91 E-value=12 Score=17.58 Aligned_cols=14 Identities=29% Similarity=1.006 Sum_probs=11.0 Q ss_pred CCCCCCEECCCCCC Q ss_conf 97643606346674 Q gi|254781191|r 1 MDENACRFCRAKPR 14 (165) Q Consensus 1 ~~~d~CrFCkak~~ 14 (165) ++-|+|-|||-++- T Consensus 8 l~kdQCaYcke~GH 21 (40) T 1a6b_B 8 LDRDQCAYCKEKGH 21 (40) T ss_dssp CCSSSCSSSCCTTC T ss_pred CCCHHHHHHHHCCC T ss_conf 66015366653460 No 5 >1u6p_A GAG polyprotein; MLV, A-minor K-turn, stem loop, bulge, G-U mismatch, G-A mismatch, U-U mismatch, A-C mismatch, zinc finger, NC; HET: AP7; NMR {Moloney murine leukemia virus} SCOP: g.40.1.1 PDB: 1wwd_A 1wwe_A 1wwf_A 1wwg_A Probab=30.05 E-value=13 Score=17.21 Aligned_cols=14 Identities=29% Similarity=1.006 Sum_probs=10.0 Q ss_pred CCCCCCEECCCCCC Q ss_conf 97643606346674 Q gi|254781191|r 1 MDENACRFCRAKPR 14 (165) Q Consensus 1 ~~~d~CrFCkak~~ 14 (165) ++-|+|-|||-++- T Consensus 21 L~KDQCAyCkekGH 34 (56) T 1u6p_A 21 LDRDQCAYCKEKGH 34 (56) T ss_dssp CCTTBCSSSCCBSS T ss_pred CCCCHHHHHCCCCC T ss_conf 66205044310461 No 6 >2ebb_A Pterin-4-alpha-carbinolamine dehydratase; coenzyme biosyntheses, GK1984, structural genomics, NPPSFA; 1.60A {Geobacillus kaustophilus} Probab=29.48 E-value=24 Score=15.56 Aligned_cols=28 Identities=14% Similarity=0.160 Sum_probs=18.4 Q ss_pred CCCCCEEECCCCCCCCCC--CHHHHHHHHH Q ss_conf 688614415877887117--9899999999 Q gi|254781191|r 68 DLPNYELKEGRKGSRTYN--NDNQVEQLLM 95 (165) Q Consensus 68 ~~pG~KlVeGRs~~R~~~--de~~a~~~l~ 95 (165) ++|||++++|+.-.|.|. |=..+...+. T Consensus 14 ~l~gW~~~d~~~L~r~f~f~~f~~a~~F~~ 43 (101) T 2ebb_A 14 KADGWKLADERWIVKKYRFQDYLQGIEFVR 43 (101) T ss_dssp TSTTCEEETTTEEEEEEECSSHHHHHHHHH T ss_pred CCCCCEECCCCEEEEEEEECCHHHHHHHHH T ss_conf 498978648983999999799999999999 No 7 >2v6u_A Pterin-4A-carbinolamine dehydratase; lyase, enzyme; 1.6A {Toxoplasma gondii} PDB: 2v6s_A 2v6t_A* Probab=26.60 E-value=32 Score=14.74 Aligned_cols=29 Identities=17% Similarity=0.407 Sum_probs=18.4 Q ss_pred CCCCCCEEECCCC-CCCCCC--CHHHHHHHHH Q ss_conf 8688614415877-887117--9899999999 Q gi|254781191|r 67 EDLPNYELKEGRK-GSRTYN--NDNQVEQLLM 95 (165) Q Consensus 67 ~~~pG~KlVeGRs-~~R~~~--de~~a~~~l~ 95 (165) +.+|||++++|+. -.|.|+ |=..+...+. T Consensus 19 ~~lp~W~~~~~~~~L~r~f~f~~f~~a~~F~~ 50 (104) T 2v6u_A 19 KTVPQWHLTDGHLSIKRKFQFSDFNEAWGFMS 50 (104) T ss_dssp TTSTTSEECGGGCCEEEEEECSSHHHHHHHHH T ss_pred CCCCCCEEECCCCEEEEEEEECCHHHHHHHHH T ss_conf 66989879899056999999799999999999 No 8 >3jst_A Putative pterin-4-alpha-carbinolamine dehydratase; lyase, structural genomics, seattle structural genomics center for infectious disease; 2.10A {Brucella melitensis} Probab=26.06 E-value=33 Score=14.68 Aligned_cols=28 Identities=14% Similarity=0.311 Sum_probs=17.9 Q ss_pred CCCCCEEECCC-CCCCCCC--CHHHHHHHHH Q ss_conf 68861441587-7887117--9899999999 Q gi|254781191|r 68 DLPNYELKEGR-KGSRTYN--NDNQVEQLLM 95 (165) Q Consensus 68 ~~pG~KlVeGR-s~~R~~~--de~~a~~~l~ 95 (165) ++|||++++|+ +-.|.|. |=..+...+. T Consensus 17 ~l~gW~~~~~~~~L~r~f~f~~f~~a~~F~~ 47 (97) T 3jst_A 17 ALDGWQKVDGREAITRSFKFKDFSTAFGFMA 47 (97) T ss_dssp TSTTCEECTTSSCEEEEEECSSHHHHHHHHH T ss_pred CCCCCEEECCCCEEEEEEEECCHHHHHHHHH T ss_conf 2999878489865999999799999999999 No 9 >2exu_A Transcription initiation protein SPT4/SPT5; helixs surrounding beta sheet; 2.23A {Saccharomyces cerevisiae} Probab=25.56 E-value=34 Score=14.62 Aligned_cols=45 Identities=16% Similarity=0.109 Sum_probs=29.9 Q ss_pred CCCCCCEEECCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHC Q ss_conf 8688614415877887117989999999971674310125689999999865 Q gi|254781191|r 67 EDLPNYELKEGRKGSRTYNNDNQVEQLLMRELGDEAYNRTLLSPTETEQLVK 118 (165) Q Consensus 67 ~~~pG~KlVeGRs~~R~~~de~~a~~~l~~~g~~~~y~~klls~t~~EKllg 118 (165) ..++||=.||.++ ...+.+++...-+-......++++.+|+.+|. T Consensus 146 ~~lKGYIyVEA~~-------~~~V~~ai~Gl~~v~~~~~~lVpi~Em~~lL~ 190 (200) T 2exu_A 146 DNYTGRIYIEAPK-------QSVIEKFCNGVPDIYISQKLLIPVQELPLLLK 190 (200) T ss_dssp TTSTTEEEEECSC-------HHHHHHHHTTCTTEEEEEEEECCGGGHHHHHC T ss_pred CCCCEEEEEEECC-------HHHHHHHHHCCCCEECCCCCEECHHHHHHHCC T ss_conf 9974799998798-------89999998525001334651058899876466 No 10 >1r5s_A GAP junction alpha-1 protein; CX43CT, membrane protein; NMR {Rattus norvegicus} SCOP: f.50.1.1 Probab=22.73 E-value=23 Score=15.63 Aligned_cols=16 Identities=25% Similarity=0.503 Sum_probs=12.2 Q ss_pred CCCCCCCEEECCCCCC Q ss_conf 9868861441587788 Q gi|254781191|r 66 GEDLPNYELKEGRKGS 81 (165) Q Consensus 66 G~~~pG~KlVeGRs~~ 81 (165) -..-||||||.|-.++ T Consensus 30 pmsppgYkl~T~dr~n 45 (132) T 1r5s_A 30 PMSPPGYKLVTGDRNN 45 (132) T ss_dssp CCCCCCCCSCTTCCSS T ss_pred CCCCCCCEEEECCCCC T ss_conf 7788861434215677 No 11 >3lpe_A Putative transcription antitermination protein NU; transcription regulation, SPT4, SPT5, NUSG, archaea, evoluti directed RNA polymerase; 1.90A {Methanocaldococcus jannaschii} PDB: 3ewg_A Probab=20.73 E-value=42 Score=14.02 Aligned_cols=45 Identities=24% Similarity=0.265 Sum_probs=31.2 Q ss_pred CCCCCCEEECCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHC Q ss_conf 8688614415877887117989999999971674310125689999999865 Q gi|254781191|r 67 EDLPNYELKEGRKGSRTYNNDNQVEQLLMRELGDEAYNRTLLSPTETEQLVK 118 (165) Q Consensus 67 ~~~pG~KlVeGRs~~R~~~de~~a~~~l~~~g~~~~y~~klls~t~~EKllg 118 (165) ..+.||=.||.++ +..+..++...-+-......++++.+|+++|. T Consensus 47 ~~lkGYIyVEA~~-------~~~V~~ai~gl~~v~~~~~~~vp~~E~~~~L~ 91 (92) T 3lpe_A 47 ESLKGYVLVEAET-------KGDVEELIKGMPRVRGIVPGTIAIEEIEPLLT 91 (92) T ss_dssp TTSTTEEEEEESS-------HHHHHHHHTTCTTEEEECSSCCCHHHHHHHHC T ss_pred CCCCEEEEEEECC-------HHHHHHHHHCCCCEECCCCCCCCHHHHHHHCC T ss_conf 9982799999598-------89999998546657420466528999986349 Done!