Query gi|254780204|ref|YP_003064617.1| hypothetical protein CLIBASIA_00445 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 180 No_of_seqs 2 out of 4 Neff 1.1 Searched_HMMs 33803 Date Mon May 23 11:40:02 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780204.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >1vr8_A GTP binding regulator; 17.5 67 0.002 13.4 1.7 20 38-57 67-86 (142) 2 >1knz_A NS34, NSP3, nonstructu 15.8 29 0.00086 15.6 -0.5 13 151-163 26-38 (53) 3 >2a6h_E RNA polymerase omega c 14.6 80 0.0024 12.9 1.9 29 103-131 1-29 (77) 4 >3g4g_A DPDE3, PDE43, CAMP-spe 13.4 86 0.0025 12.7 3.1 45 12-57 5-50 (62) 5 >3dyn_A High affinity CGMP-spe 12.0 95 0.0028 12.4 2.9 46 12-57 37-82 (97) 6 >1mwv_A Bpkatg, catalase-perox 11.3 21 0.00062 16.5 -2.3 27 32-62 59-85 (110) 7 >1taz_A Calcium/calmodulin-dep 11.2 1E+02 0.003 12.3 2.9 48 12-59 6-53 (98) 8 >1evl_A Threonyl-tRNA syntheta 11.1 20 0.00059 16.6 -2.5 12 51-62 10-21 (37) 9 >2h1n_A Oligoendopeptidase F; 9.5 65 0.0019 13.4 -0.3 18 108-125 62-79 (126) 10 >1keh_A Precursor of cephalosp 9.4 1.2E+02 0.0035 11.9 2.2 22 139-160 19-40 (109) No 1 >>1vr8_A GTP binding regulator; TM1622, structural genomics, joint center for structural genomics, JCSG, protein structure initiative, PSI; 1.75A {Thermotoga maritima} (A:) Probab=17.49 E-value=67 Score=13.37 Aligned_cols=20 Identities=25% Similarity=0.448 Sum_probs=17.0 Q ss_pred HHHCHHHHHHHHHHCCCCCH Q ss_conf 52067899999760577305 Q gi|254780204|r 38 VAETPKIMWKAFKKSSGRWQ 57 (180) Q Consensus 38 vaetpkimwkafkkssgrwq 57 (180) ..|.||--||++.|..|-|- T Consensus 67 ~dE~aK~~Wkki~K~~G~~l 86 (142) T 1vr8_A 67 KGEEAKKIWKKLNGRAGFVS 86 (142) T ss_dssp ESTTHHHHHHHHHTC---CC T ss_pred CCCCHHHHHHHHHHHCCCEE T ss_conf 58337789999987619658 No 2 >>1knz_A NS34, NSP3, nonstructural RNA-binding protein 34; protein-ssRNA complex, viral protein/RNA complex; 2.45A {Simian rotavirus A} (A:58-110) Probab=15.84 E-value=29 Score=15.61 Aligned_cols=13 Identities=31% Similarity=0.619 Sum_probs=10.3 Q ss_pred CCHHCCCCCCCCC Q ss_conf 2000015555320 Q gi|254780204|r 151 PNRYWHTDSASIG 163 (180) Q Consensus 151 ~~RYwhtdsasig 163 (180) -||-|+||+..+. T Consensus 26 RN~nWmtd~~Tva 38 (53) T 1knz_A 26 RNRNWLADTSRPA 38 (53) T ss_dssp HHHHHHHCTTHHH T ss_pred HHHHHHHCCHHHH T ss_conf 4033430200798 No 3 >>2a6h_E RNA polymerase omega chain; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} (E:1-77) Probab=14.59 E-value=80 Score=12.91 Aligned_cols=29 Identities=31% Similarity=0.508 Sum_probs=22.3 Q ss_pred HCCHHHHHCCCCCCCHHHHHHHHHHHHHH Q ss_conf 23321761530000016699999988535 Q gi|254780204|r 103 IAIPTIEEGMTMNDIKYERKQVISRKAKE 131 (180) Q Consensus 103 iaiptiEE~l~lNDIKYE~~Q~I~~K~KE 131 (180) ++-|+|++||...|-||.=-.+.+..|++ T Consensus 1 M~~psid~ll~kv~srY~Lvi~aAKRArq 29 (77) T 2a6h_E 1 MAEPGIDKLFGMVDSKYRLTVVVAKRAQQ 29 (77) T ss_dssp -CCTTHHHHHHHSSSHHHHHHHHHHHHHH T ss_pred CCCCCHHHHHHCCCCCEEEEHHHHHHHHH T ss_conf 98635778862244422441353898999 No 4 >>3g4g_A DPDE3, PDE43, CAMP-specific 3',5'-cyclic phosphodiesterase 4D; PDE4D, UCR2, alternative splicing, cytoplasm, cytoskeleton, hydrolase, membrane; HET: D71; 2.30A {Homo sapiens} PDB: 3g45_A* (A:360-421) Probab=13.43 E-value=86 Score=12.71 Aligned_cols=45 Identities=13% Similarity=0.339 Sum_probs=27.2 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH-HHCHHHHHHHHHHCCCCCH Q ss_conf 532335999999999988999988655-2067899999760577305 Q gi|254780204|r 12 TVDYGGLILSFLSVIVSPVYSYFRHTV-AETPKIMWKAFKKSSGRWQ 57 (180) Q Consensus 12 tvdygglilsflsvivspvysyfrhtv-aetpkimwkafkkssgrwq 57 (180) +.+-...-+.|+..||.|.|.-+-.-+ .+.+. +-+.....-.+|+ T Consensus 5 ~~~~~k~QigFi~~iv~Plf~~l~~~l~p~~~~-~l~~l~~N~~~W~ 50 (62) T 3g4g_A 5 NASVEKSQVGFIDYIVHPLWETWADLVHPDAQD-ILDTLEDNREWYQ 50 (62) T ss_dssp SCCHHHHHHHHHHHTHHHHHHHHHHHTTTTTHH-HHHHHHHHHHHHH T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHCCCHHHH-HHHHHHHHHHHHH T ss_conf 444688999999999999999999880700799-9999999999999 No 5 >>3dyn_A High affinity CGMP-specific 3',5'-cyclic phosphodiesterase 9A; crystallography, phophodiestrase, enzyme mechanism, alternative splicing, hydrolase; HET: PCG IBM; 2.10A {Homo sapiens} (A:233-329) Probab=12.00 E-value=95 Score=12.45 Aligned_cols=46 Identities=15% Similarity=0.339 Sum_probs=27.1 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHCCCCCH Q ss_conf 5323359999999999889999886552067899999760577305 Q gi|254780204|r 12 TVDYGGLILSFLSVIVSPVYSYFRHTVAETPKIMWKAFKKSSGRWQ 57 (180) Q Consensus 12 tvdygglilsflsvivspvysyfrhtvaetpkimwkafkkssgrwq 57 (180) +++....-++|+..+|.|.|.-+-....+.-..+-...+..--+|+ T Consensus 37 ~~~~~~~Qi~Fi~~iv~Pl~~~l~~~~p~~~~~~~~~l~~N~~~W~ 82 (97) T 3dyn_A 37 KVTKATAQIGFIKFVLIPMFETVTKLFPMVEEIMLQPLWESRDRYE 82 (97) T ss_dssp TCCHHHHHHHHHHHTHHHHHHHHHHHCTHHHHHHHHHHHHHHHHHH T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 6771768999999999999999999877779999999999999999 No 6 >>1mwv_A Bpkatg, catalase-peroxidase protein KATG; tuberculosis, heme modification, oxidoreductase; HET: HEM; 1.70A {Burkholderia pseudomallei} (A:248-357) Probab=11.29 E-value=21 Score=16.48 Aligned_cols=27 Identities=26% Similarity=0.644 Sum_probs=16.8 Q ss_pred HHHHHHHHHCHHHHHHHHHHCCCCCHHHHHH Q ss_conf 9988655206789999976057730555655 Q gi|254780204|r 32 SYFRHTVAETPKIMWKAFKKSSGRWQWYKKS 62 (180) Q Consensus 32 syfrhtvaetpkimwkafkkssgrwqwykks 62 (180) +||+--..+. |.-.|-.+|.|||+-+. T Consensus 59 ~YF~~L~~~e----Wel~kspaGa~Qw~~~d 85 (110) T 1mwv_A 59 NFFENLFGYE----WELTKSPAGAHQWVAKG 85 (110) T ss_dssp HHHHHHHHSC----EEEEECTTCCEEEEETT T ss_pred HHHHHHHCCC----CEEECCCCCCCCCCCCC T ss_conf 9987552477----56731898761114676 No 7 >>1taz_A Calcium/calmodulin-dependent 3',5'-cyclic nucleotide phosphodiesterase 1B; PDE1B, hydrolase; HET: CME; 1.77A {Homo sapiens} (A:268-365) Probab=11.16 E-value=1e+02 Score=12.28 Aligned_cols=48 Identities=15% Similarity=0.202 Sum_probs=32.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHCCCCCHHH Q ss_conf 532335999999999988999988655206789999976057730555 Q gi|254780204|r 12 TVDYGGLILSFLSVIVSPVYSYFRHTVAETPKIMWKAFKKSSGRWQWY 59 (180) Q Consensus 12 tvdygglilsflsvivspvysyfrhtvaetpkimwkafkkssgrwqwy 59 (180) ++.-...-+.|+.-||.|.|.-+-+.+.+.-..|-...++....|+=. T Consensus 6 ~~~~~~sQigFidfiv~Plf~~l~~~~p~~~~~~~~~l~~N~~~W~~~ 53 (98) T 1taz_A 6 STLVAQSQIGFIDFIVEPTFSVLTDVAEKSVQPLADEDSKSKNQPSFQ 53 (98) T ss_dssp HHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHC---------------- T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHH T ss_conf 441078899999999999999999977376688889999988877887 No 8 >>1evl_A Threonyl-tRNA synthetase; amino acid recognition, zinc ION, adenylate analog, deletion mutant, ligase; HET: TSB; 1.55A {Escherichia coli} (A:55-91) Probab=11.10 E-value=20 Score=16.62 Aligned_cols=12 Identities=33% Similarity=0.947 Sum_probs=9.8 Q ss_pred HCCCCCHHHHHH Q ss_conf 057730555655 Q gi|254780204|r 51 KSSGRWQWYKKS 62 (180) Q Consensus 51 kssgrwqwykks 62 (180) +.||.|+.|+.. T Consensus 10 ~~SGH~~~Y~e~ 21 (37) T 1evl_A 10 EKTGHWDNYKDA 21 (37) T ss_dssp HHHTHHHHSGGG T ss_pred HHCCCCCCCCCC T ss_conf 764865544505 No 9 >>2h1n_A Oligoendopeptidase F; structural genomics, protein structure initiative, midwest center for structural genomics, MCSG, PSI; 3.00A {Geobacillus stearothermophilus} PDB: 2h1j_A (A:1-126) Probab=9.54 E-value=65 Score=13.44 Aligned_cols=18 Identities=28% Similarity=0.405 Sum_probs=10.0 Q ss_pred HHHCCCCCCCHHHHHHHH Q ss_conf 761530000016699999 Q gi|254780204|r 108 IEEGMTMNDIKYERKQVI 125 (180) Q Consensus 108 iEE~l~lNDIKYE~~Q~I 125 (180) |--..-.+|--|++||.- T Consensus 62 IR~siDT~DefY~~E~~f 79 (126) T 2h1n_A 62 IRHTIDTNDEFYKKEQDF 79 (126) T ss_dssp HHHHHCTTCHHHHHHHHH T ss_pred HHHHCCCCHHHHHHHHHH T ss_conf 998105887999999999 No 10 >>1keh_A Precursor of cephalosporin acylase; glutaryl-7-ACA, hydrolase; 2.50A {Brevundimonas diminuta} (A:473-581) Probab=9.36 E-value=1.2e+02 Score=11.88 Aligned_cols=22 Identities=23% Similarity=0.203 Sum_probs=0.0 Q ss_pred HHHHHHHHHHHCCCHHCCCCCC Q ss_conf 9999898986052000015555 Q gi|254780204|r 139 YQISEFAACLEHPNRYWHTDSA 160 (180) Q Consensus 139 ~q~sE~~ACL~~~~RYwhtdsa 160 (180) .-++|+|+-|.+.||-+..||. T Consensus 19 ~d~~~Ac~vL~~WD~r~~~dS~ 40 (109) T 1keh_A 19 PEVQAAARLLAAWDRDFTSDSR 40 (109) T ss_dssp HHHHHHHHHHHTCCSBCCTTCS T ss_pred HHHHHHHHHHHHCCCCCCCCCH T ss_conf 6799999998627787887852 Done!