Query gi|254780510|ref|YP_003064923.1| hypothetical protein CLIBASIA_01985 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 137 No_of_seqs 10 out of 12 Neff 2.4 Searched_HMMs 23785 Date Tue May 31 20:08:38 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780510.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 2ahm_E Replicase NSP8, replica 53.8 4.9 0.00021 19.6 1.8 18 11-28 56-73 (203) 2 1e7l_A GP49, recombination end 20.8 26 0.0011 14.6 0.9 34 41-74 88-124 (157) 3 2pby_A Glutaminase; secsg, rik 17.4 44 0.0018 13.0 2.9 64 60-126 129-194 (308) 4 2k3r_A Ribonuclease P protein 15.3 49 0.0021 12.6 3.7 36 39-74 16-51 (123) 5 2o98_P H-ATPase PMA2, plasma m 11.4 63 0.0026 11.9 3.0 19 25-43 7-25 (52) 6 1o6b_A Phosphopantetheine aden 10.7 45 0.0019 12.9 0.0 20 49-68 9-31 (169) 7 1uuj_A Platelet-activating fac 8.3 81 0.0034 11.1 2.9 25 30-54 6-30 (88) 8 2j9w_A VPS28, VPS28-PROV prote 8.1 83 0.0035 11.0 1.4 45 39-84 19-63 (102) 9 2vog_B BCL-2-modifying factor; 8.1 83 0.0035 11.0 1.5 10 60-69 14-23 (27) 10 3h05_A Uncharacterized protein 7.8 48 0.002 12.7 -0.8 7 49-55 9-15 (177) No 1 >2ahm_E Replicase NSP8, replicase polyprotein 1AB, heavy chain; SARS-COV, non-structural protein, super-complex, hexadecamer, viral protein; 2.40A {Sars coronavirus} SCOP: d.302.1.1 Probab=53.85 E-value=4.9 Score=19.61 Aligned_cols=18 Identities=11% Similarity=0.200 Sum_probs=13.7 Q ss_pred HHHHHHHHHHHHHHHHHH Q ss_conf 999999999998665799 Q gi|254780510|r 11 KIITAQCCIKSIAESNLA 28 (137) Q Consensus 11 RLv~VQrhiErmAE~~LA 28 (137) |=.+|||-||||||--.+ T Consensus 56 rd~avqrKLerMAe~Amt 73 (203) T 2ahm_E 56 RDAAMQRKLEKMADQAMT 73 (203) T ss_dssp TTTHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHH T ss_conf 778999999999999999 No 2 >1e7l_A GP49, recombination endonuclease VII; resolvase, holliday junction, DNAse; HET: SO4; 1.32A {Bacteriophage T4} SCOP: a.140.4.1 d.4.1.5 PDB: 2qnc_A* 1en7_A 1e7d_A 2qnf_A* Probab=20.81 E-value=26 Score=14.62 Aligned_cols=34 Identities=15% Similarity=0.237 Sum_probs=25.9 Q ss_pred HHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999984---11114679998889999767767379 Q gi|254780510|r 41 REKLKDSI---NSTALMNPALASHYLKFYHSLSQNDQ 74 (137) Q Consensus 41 ~e~v~~ai---~S~~pvh~afs~~Ya~r~~rLs~~Dq 74 (137) .+.+++-+ -|-.|.||.|...-.++|.||+-.+| T Consensus 88 l~n~~~YL~~d~s~n~lHp~~~~d~~K~f~rl~k~~~ 124 (157) T 1e7l_A 88 LENLLTYLKSDYTQNNIHPNFVGDKSKEFSRLGKEEM 124 (157) T ss_dssp HHHHHHHHHSCCTTSCBCTHHHHHHHHHHHTSCHHHH T ss_pred HHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHCCHHHH T ss_conf 9999999704666776585213889999986489999 No 3 >2pby_A Glutaminase; secsg, riken, structural genomics, PSI, protein structure initiative; 2.07A {Geobacillus kaustophilus HTA426} Probab=17.41 E-value=44 Score=12.98 Aligned_cols=64 Identities=14% Similarity=0.054 Sum_probs=50.5 Q ss_pred HHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 889999767767379887699--9999899999864899999899998534752214688999888763 Q gi|254780510|r 60 SHYLKFYHSLSQNDQKMASLQ--LVQENTLLSEKIKIDRLTEMKDETYLLEERQYDDENNNDNIEQRIL 126 (137) Q Consensus 60 ~~Ya~r~~rLs~~Dqql~giQ--qv~E~r~l~Er~K~DRLeE~m~eA~~~E~ReadDn~v~D~Idq~~a 126 (137) .+-.+||.++...=++++|=+ .+.|.-..+|+..++| +..-|+.+.....=++.+-+++|.+|- T Consensus 129 ~~~~~r~~~il~~~~~lag~~~~~~d~~v~~SE~~t~~r---N~Ala~~Lk~~g~i~~d~~~~Ld~Yf~ 194 (308) T 2pby_A 129 GSVSERLERLLAFVRRLAGNERISYSDEVARSEFETAFL---NRSLCYFLKQHRIIDEDVEELMELYTK 194 (308) T ss_dssp SSHHHHHHHHHHHHHHHHTCTTCCBCHHHHHHHHHHCHH---HHHHHHHHHHTTSCCSCHHHHHHHHHH T ss_pred CCHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCHHH---HHHHHHHHHHCCCCCCCHHHHHHHHHH T ss_conf 883789999999999984899764369999876306399---999999998579978899999999999 No 4 >2k3r_A Ribonuclease P protein component 4; PFU RPP21, RNAse P, hydrolase, tRNA processing; NMR {Pyrococcus furiosus} PDB: 2ki7_B Probab=15.29 E-value=49 Score=12.63 Aligned_cols=36 Identities=17% Similarity=0.154 Sum_probs=27.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 999999998411114679998889999767767379 Q gi|254780510|r 39 ILREKLKDSINSTALMNPALASHYLKFYHSLSQNDQ 74 (137) Q Consensus 39 ~~~e~v~~ai~S~~pvh~afs~~Ya~r~~rLs~~Dq 74 (137) .-|+-++.+-.++.+.++.+|.+|....-.++.+-+ T Consensus 16 eRi~~L~~~A~~~~~~~~~Lsr~Y~~~~~~Is~k~~ 51 (123) T 2k3r_A 16 ERIDILFSLAERVFPYSPELAKRYVELALLVQQKAK 51 (123) T ss_dssp HHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHT T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCC T ss_conf 999999999998751599999999999999999716 No 5 >2o98_P H-ATPase PMA2, plasma membrane H+ ATPase; 14-3-3, electrochemical proton gradient, cell turgor, regulation, protein binding; HET: FSC; 2.70A {Nicotiana plumbaginifolia} Probab=11.39 E-value=63 Score=11.87 Aligned_cols=19 Identities=32% Similarity=0.288 Sum_probs=15.4 Q ss_pred HHHHHHHHHHHHHHHHHHH Q ss_conf 5799999999999999999 Q gi|254780510|r 25 SNLAYTISERKKINILREK 43 (137) Q Consensus 25 ~~LAeT~rqR~ei~~~~e~ 43 (137) |++||-++-|+||+-..|. T Consensus 7 ~~iAEqAkrRAEiARLrEl 25 (52) T 2o98_P 7 NQLAEEAKRRAEIARQREL 25 (52) T ss_dssp HHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHH T ss_conf 9999999999999999999 No 6 >1o6b_A Phosphopantetheine adenylyltransferase; structural genomics; HET: ADP; 2.20A {Bacillus subtilis} SCOP: c.26.1.3 Probab=10.72 E-value=45 Score=12.88 Aligned_cols=20 Identities=5% Similarity=0.024 Sum_probs=10.4 Q ss_pred HHHHHHHH---HHHHHHHHHHHH Q ss_conf 11114679---998889999767 Q gi|254780510|r 49 NSTALMNP---ALASHYLKFYHS 68 (137) Q Consensus 49 ~S~~pvh~---afs~~Ya~r~~r 68 (137) ||++|.|. .+....++.|++ T Consensus 9 GsFdPiH~GHl~l~~~a~~~~D~ 31 (169) T 1o6b_A 9 GSFDPVTYGHLDIIKRGAHIFEQ 31 (169) T ss_dssp ECCTTCCHHHHHHHHHHHHHSSE T ss_pred ECCCCCCHHHHHHHHHHHHHCCE T ss_conf 25685779999999999987998 No 7 >1uuj_A Platelet-activating factor acetylhydrolase IB alpha subunit; mitosis, neurogenesis, cytoskeleton, cell division, microtubule; 1.75A {Mus musculus} SCOP: a.221.1.1 Probab=8.31 E-value=81 Score=11.10 Aligned_cols=25 Identities=12% Similarity=0.037 Sum_probs=18.3 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999999999999999984111146 Q gi|254780510|r 30 TISERKKINILREKLKDSINSTALM 54 (137) Q Consensus 30 T~rqR~ei~~~~e~v~~ai~S~~pv 54 (137) |.||+.|++-++=.-+.+.|..+.. T Consensus 6 T~rQ~eEL~kaI~~YL~~~~~~~~~ 30 (88) T 1uuj_A 6 SQRQRDELNRAIADYLRSNGYEEAY 30 (88) T ss_dssp CHHHHHHHHHHHHHHHHHTTCHHHH T ss_pred CHHHHHHHHHHHHHHHHHCCCHHHH T ss_conf 8999999999999999988878999 No 8 >2j9w_A VPS28, VPS28-PROV protein; MVB, CHMP, ESCRT, NZF finger, HIV budding, protein transport; 1.30A {Xenopus laevis} Probab=8.12 E-value=83 Score=11.04 Aligned_cols=45 Identities=16% Similarity=0.219 Sum_probs=30.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999999984111146799988899997677673798876999999 Q gi|254780510|r 39 ILREKLKDSINSTALMNPALASHYLKFYHSLSQNDQKMASLQLVQE 84 (137) Q Consensus 39 ~~~e~v~~ai~S~~pvh~afs~~Ya~r~~rLs~~Dqql~giQqv~E 84 (137) -.||++.--+.+.|-+||.++-=+ .-+.||+.-.....|-..|.+ T Consensus 19 T~MDaLKL~~~a~DqLhPlL~dL~-~slnrl~~lp~dFegk~kv~~ 63 (102) T 2j9w_A 19 TVMDKLRLEIRAMDEIQPDLRELM-ETMNRMSHLPPDFEGREKVSQ 63 (102) T ss_dssp HHHHHHHTTCCBHHHHHHHHHHHH-HHHHHCTTSCTTCHHHHHHHH T ss_pred HHHHHHHCCCHHHHHHHHHHHHHH-HHHHHCCCCCCCCCHHHHHHH T ss_conf 999998616625998847799999-999861689977323889999 No 9 >2vog_B BCL-2-modifying factor; protein-protein complex, BH3, cytoplasm, apoptosis, Pro-surviVal; 1.9A {Mus musculus} Probab=8.08 E-value=83 Score=11.03 Aligned_cols=10 Identities=20% Similarity=0.328 Sum_probs=0.0 Q ss_pred HHHHHHHHHH Q ss_conf 8899997677 Q gi|254780510|r 60 SHYLKFYHSL 69 (137) Q Consensus 60 ~~Ya~r~~rL 69 (137) +-.||+|+|| T Consensus 14 qciadqfhrl 23 (27) T 2vog_B 14 QCIADQFHRL 23 (27) T ss_dssp HHHHHHHHHH T ss_pred HHHHHHHHHH T ss_conf 9999999998 No 10 >3h05_A Uncharacterized protein VPA0413; nucleotidylyl, transferase, MCSG, midwest center for structural genomics, PSI; 1.65A {Vibrio parahaemolyticus} Probab=7.77 E-value=48 Score=12.66 Aligned_cols=7 Identities=0% Similarity=-0.202 Sum_probs=0.0 Q ss_pred HHHHHHH Q ss_conf 1111467 Q gi|254780510|r 49 NSTALMN 55 (137) Q Consensus 49 ~S~~pvh 55 (137) ||+||+| T Consensus 9 GsFdP~h 15 (177) T 3h05_A 9 SAFNPPS 15 (177) T ss_dssp ECCSSCC T ss_pred CCCCHHH T ss_conf 5455412 Done!