Query gi|254780210|ref|YP_003064623.1| hypothetical protein CLIBASIA_00475 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 57 No_of_seqs 1 out of 3 Neff 1.0 Searched_HMMs 23785 Date Mon May 23 14:39:19 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780210.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 2yxh_A MAZG-related protein; T 3.9 2.3E+02 0.0099 11.5 1.0 11 35-45 81-91 (116) 2 3a1q_C Ubiquitin interaction m 3.8 1.6E+02 0.0067 12.4 -0.2 31 22-52 14-44 (45) 3 3brv_A Inhibitor of nuclear fa 3.8 1.7E+02 0.0071 12.2 -0.0 15 19-33 2-16 (48) 4 2dyo_B Autophagy protein 16; u 3.4 2.6E+02 0.011 11.3 1.2 25 21-45 8-32 (57) 5 3cra_A Protein MAZG; tandem-re 3.1 2.8E+02 0.012 11.2 1.3 12 35-46 219-230 (265) 6 1z9e_A PC4 and SFRS1 interacti 3.0 2.3E+02 0.0098 11.5 0.0 13 13-25 112-124 (127) 7 2ckc_A Chromodomain-helicase-D 2.5 3.4E+02 0.014 10.7 0.4 12 14-25 37-48 (80) 8 2c55_A Protein P6; HIV-1, P6-G 2.4 3.4E+02 0.014 10.7 1.0 18 17-34 18-37 (52) 9 2ei9_A Non-LTR retrotransposon 2.2 3.7E+02 0.016 10.5 0.7 30 4-33 202-231 (240) 10 3nkz_A Flagellar protein FLIT; 2.2 3.3E+02 0.014 10.8 0.0 13 6-18 109-121 (123) No 1 >2yxh_A MAZG-related protein; TM0360, LEFT-handed superhelix fold, structural genomics, NPPSFA; 2.00A {Thermotoga maritima MSB8} Probab=3.89 E-value=2.3e+02 Score=11.53 Aligned_cols=11 Identities=27% Similarity=0.253 Sum_probs=7.7 Q ss_pred HHHHHHHHHHH Q ss_conf 15668888876 Q gi|254780210|r 35 QQENRKFIRRS 45 (57) Q Consensus 35 qqenrkfirrs 45 (57) ..-|.|||||- T Consensus 81 ~~~~~K~irRh 91 (116) T 2yxh_A 81 QKVVEKISHRK 91 (116) T ss_dssp HHHHHHHHHHC T ss_pred HHHHHHHHHHC T ss_conf 99999998658 No 2 >3a1q_C Ubiquitin interaction motif-containing protein 1; protein complex, cytoplasm, nucleus, phosphoprotein, UBL conjugation, transcription regulation; 2.20A {Mus musculus} Probab=3.80 E-value=1.6e+02 Score=12.38 Aligned_cols=31 Identities=32% Similarity=0.325 Sum_probs=20.8 Q ss_pred HHHHHCCCCCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 1222161227883156688888764321200 Q gi|254780210|r 22 RKKSEQPKREPQPQQENRKFIRRSEISTRTH 52 (57) Q Consensus 22 rkkseqpkrepqpqqenrkfirrseistrth 52 (57) -+-|||-.|+-.-|||...-+-|..|...-| T Consensus 14 ~~mseqea~~vn~~~e~e~ellrkai~esl~ 44 (45) T 3a1q_C 14 LKMSEQEAREVNNQEEKEEELLRKAIAESLN 44 (45) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHCHHHHHHHHHHHHHHHHHHC T ss_conf 9985999876011477799999999998814 No 3 >3brv_A Inhibitor of nuclear factor kappa-B kinase subunit beta; NEMO, IKK-gamma, FIP3, ikkap1, NF-KB essential modulator, acetylation, ATP-binding, cytoplasm, kinase; 2.20A {Synthetic} PDB: 3brt_A Probab=3.78 E-value=1.7e+02 Score=12.24 Aligned_cols=15 Identities=47% Similarity=0.485 Sum_probs=10.6 Q ss_pred CCCHHHHHCCCCCCC Q ss_conf 044122216122788 Q gi|254780210|r 19 EAPRKKSEQPKREPQ 33 (57) Q Consensus 19 eaprkkseqpkrepq 33 (57) -||-||||.-.-|.| T Consensus 2 map~kKSEeLv~Ea~ 16 (48) T 3brv_A 2 MAPAKKSEELVAEAH 16 (48) T ss_dssp ------CHHHHHHHH T ss_pred CCCCCCCHHHHHHHH T ss_conf 885111199999999 No 4 >2dyo_B Autophagy protein 16; ubiquitin-fold, herix-bundle, protein turnover/protein turnover complex; 1.97A {Saccharomyces cerevisiae} PDB: 2dym_B Probab=3.36 E-value=2.6e+02 Score=11.27 Aligned_cols=25 Identities=32% Similarity=0.535 Sum_probs=17.4 Q ss_pred CHHHHHCCCCCCCCHHHHHHHHHHH Q ss_conf 4122216122788315668888876 Q gi|254780210|r 21 PRKKSEQPKREPQPQQENRKFIRRS 45 (57) Q Consensus 21 prkkseqpkrepqpqqenrkfirrs 45 (57) .|||.......||...-..-.|||- T Consensus 8 erkkakeersnpqtdsmddllirrl 32 (57) T 2dyo_B 8 ERKKAKEERSNPQTDSMDDLLIRRL 32 (57) T ss_dssp --------------CHHHHHHHHHH T ss_pred HHHHHHHHCCCCCCCHHHHHHHHHH T ss_conf 1256676404877450889999986 No 5 >3cra_A Protein MAZG; tandem-repeat domain, hydrolase; 2.10A {Escherichia coli} PDB: 3crc_A* Probab=3.14 E-value=2.8e+02 Score=11.15 Aligned_cols=12 Identities=50% Similarity=0.636 Sum_probs=7.8 Q ss_pred HHHHHHHHHHHH Q ss_conf 156688888764 Q gi|254780210|r 35 QQENRKFIRRSE 46 (57) Q Consensus 35 qqenrkfirrse 46 (57) .+.|+||++|-. T Consensus 219 r~an~KF~~RF~ 230 (265) T 3cra_A 219 QKANEKFERRFR 230 (265) T ss_dssp HHHHHHHHHHHH T ss_pred HHHHHHHHHHHH T ss_conf 999999999999 No 6 >1z9e_A PC4 and SFRS1 interacting protein 2; heat repeat-like, ledgf, protein binding/transcription complex; NMR {Homo sapiens} SCOP: a.48.4.1 Probab=2.96 E-value=2.3e+02 Score=11.55 Aligned_cols=13 Identities=38% Similarity=0.532 Sum_probs=5.8 Q ss_pred CCCCCCCCCHHHH Q ss_conf 2111210441222 Q gi|254780210|r 13 GKVAGEEAPRKKS 25 (57) Q Consensus 13 gkvageeaprkks 25 (57) ++-+|+++|+++. T Consensus 112 ~~~~~~~~~~~~~ 124 (127) T 1z9e_A 112 TKDQGKKGPNKKL 124 (127) T ss_dssp ------------- T ss_pred HHHCCCCCHHHHH T ss_conf 7640122646552 No 7 >2ckc_A Chromodomain-helicase-DNA-binding protein 7; protein-protein interaction, phosphorylation, disease mutation, nucleotide-binding; NMR {Homo sapiens} SCOP: d.76.2.1 PDB: 2v0e_A Probab=2.47 E-value=3.4e+02 Score=10.73 Aligned_cols=12 Identities=42% Similarity=0.963 Sum_probs=8.4 Q ss_pred CCCCCCCCHHHH Q ss_conf 111210441222 Q gi|254780210|r 14 KVAGEEAPRKKS 25 (57) Q Consensus 14 kvageeaprkks 25 (57) +.+|++||..+. T Consensus 37 ~L~G~~AP~~~~ 48 (80) T 2ckc_A 37 RLVGEDAPKNKD 48 (80) T ss_dssp EECTTSSCBHHH T ss_pred CCCCCCCCCHHH T ss_conf 866777977789 No 8 >2c55_A Protein P6; HIV-1, P6-GAG, AIDS, core protein, lipoprotein, membrane, metal-binding, myristate, phosphorylation, polyprotein; NMR {Human immunodeficiency virus type 1} Probab=2.45 E-value=3.4e+02 Score=10.71 Aligned_cols=18 Identities=44% Similarity=0.702 Sum_probs=0.0 Q ss_pred CCC--CCHHHHHCCCCCCCC Q ss_conf 210--441222161227883 Q gi|254780210|r 17 GEE--APRKKSEQPKREPQP 34 (57) Q Consensus 17 gee--aprkkseqpkrepqp 34 (57) ||| +|..|-|+-.+|..| T Consensus 18 gEe~~~p~qkqe~~dke~yP 37 (52) T 2c55_A 18 GEETTTPSQKQEPIDKELYP 37 (52) T ss_dssp GGGSSCSCSSSCCCSSSSST T ss_pred CCCCCCCCCCCCCCCCCCCC T ss_conf 66657988676777787784 No 9 >2ei9_A Non-LTR retrotransposon R1BMKS ORF2 protein; four layered alpha beta sandwich, gene regulation; 2.00A {Bombyx mori} Probab=2.22 E-value=3.7e+02 Score=10.54 Aligned_cols=30 Identities=23% Similarity=0.145 Sum_probs=0.0 Q ss_pred EEECCCCCCCCCCCCCCCHHHHHCCCCCCC Q ss_conf 230143222211121044122216122788 Q gi|254780210|r 4 VRYGSLSDHGKVAGEEAPRKKSEQPKREPQ 33 (57) Q Consensus 4 vrygslsdhgkvageeaprkkseqpkrepq 33 (57) |.-...|||--+..+-..+.....|.++|+ T Consensus 202 v~~~~~SDH~~I~~~l~~~~~~~~~~~~~~ 231 (240) T 2ei9_A 202 VTNESSSDHRLIVFGVGGGTTGERDEDEEA 231 (240) T ss_dssp ECSCCSSSBCCEEEEEEC------------ T ss_pred ECCCCCCCCHHEEEEEECCCCCCCCCCCCC T ss_conf 668999995456999977878899998887 No 10 >3nkz_A Flagellar protein FLIT; structural genomics, PSI-2, protein structure initiative, MC midwest center for structural genomics; HET: MSE PG4; 2.11A {Yersinia enterocolitica subsp} Probab=2.21 E-value=3.3e+02 Score=10.80 Aligned_cols=13 Identities=46% Similarity=0.945 Sum_probs=0.0 Q ss_pred ECCCCCCCCCCCC Q ss_conf 0143222211121 Q gi|254780210|r 6 YGSLSDHGKVAGE 18 (57) Q Consensus 6 ygslsdhgkvage 18 (57) ||.++++--+.|| T Consensus 109 Ygqf~~~~l~~~~ 121 (123) T 3nkz_A 109 YGQFPDHALLLGE 121 (123) T ss_dssp ------------- T ss_pred HHCCCCCCCCCCC T ss_conf 8578998578999 Done!