Query gi|254780549|ref|YP_003064962.1| signal peptide protein [Candidatus Liberibacter asiaticus str. psy62] Match_columns 271 No_of_seqs 140 out of 348 Neff 9.0 Searched_HMMs 33803 Date Wed Jun 1 18:15:03 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780549.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >1lr0_A TOLA protein; domain-s 99.8 4.6E-18 1.4E-22 121.8 10.1 99 166-271 18-121 (129) 2 >1tol_A G3P - TOLA, protein (f 99.8 2.6E-18 7.6E-23 123.2 8.5 98 164-271 118-216 (222) 3 >2grx_C Protein TONB; beta bar 99.6 9E-18 2.7E-22 120.1 -0.9 93 171-268 132-228 (229) 4 >2k9k_A TONB2; metal transport 98.4 1.7E-07 5.1E-12 61.6 3.8 88 177-269 14-105 (106) 5 >1u07_A TONB protein; beta-hai 98.2 7.8E-07 2.3E-11 57.8 3.2 79 186-269 8-88 (90) 6 >2qfd_A Probable ATP-dependent 37.9 4.9 0.00014 19.1 -1.1 17 255-271 55-74 (76) 7 >1wdd_A Ribulose bisphosphate 34.7 14 0.00041 16.6 0.8 42 229-270 200-256 (260) 8 >1lgh_A LH II, B800/850, light 30.5 21 0.00061 15.5 1.2 22 5-26 25-46 (56) 9 >1xau_A B- and T-lymphocyte at 27.1 15 0.00044 16.3 -0.0 25 245-269 56-86 (122) 10 >1bwv_A Rubisco, protein (ribu 25.2 15 0.00044 16.3 -0.3 42 229-270 197-253 (265) No 1 >>1lr0_A TOLA protein; domain-swapping, TONB, protein transport; 1.91A {Pseudomonas aeruginosa} (A:) Probab=99.76 E-value=4.6e-18 Score=121.81 Aligned_cols=99 Identities=13% Similarity=0.151 Sum_probs=86.0 Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEEEEEECCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHH Q ss_conf 11000000007899999999996225465655537529999999879981853356405888605899999999999997 Q gi|254780549|r 166 EKSSRKRIPSQDAIAIVRNRVIANWNIPSDFKRFKKLRVKMHFQLNQKGFVLGKINVDVVGGTELVRRMLRENARKAVIK 245 (271) Q Consensus 166 ~~~~~~~~~~~~~~~~ir~~I~~~w~~p~~~~~~~~~~v~v~i~l~~~G~v~~~~~~~~~~~~~~~~~~~~~~a~rAi~~ 245 (271) .........+.+|.+.|+.+|++||+||.+++ .++.|+|.|.|++||+|.+..++.+||+. .||++|++||.+ T Consensus 18 ~~~~~~~~~~~~y~~~i~~~i~~~~~yP~~a~--~~~~v~V~~~i~~dG~V~~~~i~~sSG~~-----~ld~aa~~Av~~ 90 (129) T 1lr0_A 18 LADEVGSEVTGSLDDLIVNLVSQQWRRPPSAR--NGXSVEVLIEXLPDGTITNASVSRSSGDK-----PFDSSAVAAVRN 90 (129) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHCCCCTTCC--TTCCEEEEEEECTTSBEEEEEEEECCSCH-----HHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC--CCCEEEEEEEEECCCCEEECCCCCCCCCH-----HHHHHHHHHHHH T ss_conf 65543589999999999999998568998888--89789999999279988322023578678-----999999999998 Q ss_pred HCCCCCCH-----HHHHHCCEEEEEECHHHC Q ss_conf 18898884-----677612228997444009 Q gi|254780549|r 246 SQAFRLSP-----STYKSWRNITLFFVPSKM 271 (271) Q Consensus 246 ~~p~~~p~-----~~y~~~~~~~~~F~p~~m 271 (271) |+||+.+| +.|..|.+|.++|+|++| T Consensus 91 ~~~~p~~P~~~~~~~~~~~~~~~i~F~l~~~ 121 (129) T 1lr0_A 91 VGRIPEXQQLPRATFDSLYRQRRIIFKPEDL 121 (129) T ss_dssp HCBCGGGGGSCHHHHHHHTSEEEEEECHHHH T ss_pred HCCCCCCCCCCHHHHHHHEEEEEEEECHHHC T ss_conf 5679999877977875412787899861033 No 2 >>1tol_A G3P - TOLA, protein (fusion protein consisting of minor coat protein, glycine rich linker, TOLA,...; bacteriophage M13, phage infection; 1.85A {Enterobacteria phage M13} (A:) Probab=99.76 E-value=2.6e-18 Score=123.23 Aligned_cols=98 Identities=13% Similarity=0.201 Sum_probs=82.5 Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEEEEEECCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHH Q ss_conf 11110000000078999999999962254656555375299999998799818533564058886058999999999999 Q gi|254780549|r 164 KVEKSSRKRIPSQDAIAIVRNRVIANWNIPSDFKRFKKLRVKMHFQLNQKGFVLGKINVDVVGGTELVRRMLRENARKAV 243 (271) Q Consensus 164 ~~~~~~~~~~~~~~~~~~ir~~I~~~w~~p~~~~~~~~~~v~v~i~l~~~G~v~~~~~~~~~~~~~~~~~~~~~~a~rAi 243 (271) ..............|.+.++..+++||.||.+++ ++.|+|+|.|+.||+|++..+ +||+ ++||++|+||| T Consensus 118 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~a~---~G~v~V~~~i~~~G~v~~v~~--sSG~-----~~lD~aA~~av 187 (222) T 1tol_A 118 NTKNNGASGADINNYAGQIKSAIESKFYDASSYA---GKTCTLRIKLAPDGMLLDIKP--EGGD-----PALCQAALAAA 187 (222) T ss_dssp -------CCHHHHHHHHHHHHHHHTTCTTGGGGT---TCCEEEEEEECTTSCEEEEEE--EEEC-----HHHHHHHHHHH T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCC---CCEEEEEEEECCCCEEEEEEE--CCCC-----HHHHHHHHHHH T ss_conf 8888887535688999999999997268984458---988999999868964986341--6899-----99999999999 Q ss_pred HHHCCCCCC-HHHHHHCCEEEEEECHHHC Q ss_conf 971889888-4677612228997444009 Q gi|254780549|r 244 IKSQAFRLS-PSTYKSWRNITLFFVPSKM 271 (271) Q Consensus 244 ~~~~p~~~p-~~~y~~~~~~~~~F~p~~m 271 (271) .+|.+|+.+ .+.|..|.+|.++|++++| T Consensus 188 ~~~~~~~~~p~~~~~~~~~i~i~F~l~~~ 216 (222) T 1tol_A 188 KLAKIPKPPSQAVYEVFKNAPLDFKPAAA 216 (222) T ss_dssp HHCCCCCCSCHHHHHHHTTCEEEEECCC- T ss_pred HHCCCCCCCCHHHHHHHEEEEEEECCCCC T ss_conf 85889989865676663660499888876 No 3 >>2grx_C Protein TONB; beta barrel, outer membrane, heterocomplex, inter-protein beta sheet, protein-protein, metal transport; HET: GCN KDO GMH FTT DAO MYR FCI; 3.30A {Escherichia coli} (C:) Probab=99.64 E-value=9e-18 Score=120.14 Aligned_cols=93 Identities=13% Similarity=0.066 Sum_probs=74.0 Q ss_pred CHHHHHHHHHHHHHHHHHHCCCCCCCCCCC-CEEEEEEEEECCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCC Q ss_conf 000007899999999996225465655537-5299999998799818533564058886058999999999999971889 Q gi|254780549|r 171 KRIPSQDAIAIVRNRVIANWNIPSDFKRFK-KLRVKMHFQLNQKGFVLGKINVDVVGGTELVRRMLRENARKAVIKSQAF 249 (271) Q Consensus 171 ~~~~~~~~~~~ir~~I~~~w~~p~~~~~~~-~~~v~v~i~l~~~G~v~~~~~~~~~~~~~~~~~~~~~~a~rAi~~~~p~ 249 (271) .......+...++..+..+|.||..+...+ .+.|.|+|.+++||+|.+..++.+||+. .||++|+|||.+|.+| T Consensus 132 ~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~g~v~v~~~i~~~G~v~~~~i~~sSg~~-----~lD~aal~av~~~~~~ 206 (229) T 2grx_C 132 TSKPVTSVASGPRALSRNQPQYPARAQALRIEGQVKVKFDVTPDGRVDNVQILSAKPAN-----MFEREVKNAMRRWRYE 206 (229) T ss_dssp ----------------CCCCCCCHHHHHHTCCEEECEEEECCTTSCCEEEEECCCSSST-----TSHHHHHHHTTSCCCC T ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCEEEEEEEECCCCH-----HHHHHHHHHHHHCCCC T ss_conf 42222321246254321021103899970896489999998599989268999767956-----8999999999966798 Q ss_pred CCCHHH---HHHCCEEEEEECH Q ss_conf 888467---7612228997444 Q gi|254780549|r 250 RLSPST---YKSWRNITLFFVP 268 (271) Q Consensus 250 ~~p~~~---y~~~~~~~~~F~p 268 (271) +-+++. ...|-.|.|+|+. T Consensus 207 p~~~~g~~~~~~~~~i~~~f~l 228 (229) T 2grx_C 207 PGKPGSGIVVNILFKINGTTEI 228 (229) T ss_dssp TTCCCSCEECCEEECCCCC--- T ss_pred CCCCCCCEEEEEEEEECCEEEC T ss_conf 9986876699899998985210 No 4 >>2k9k_A TONB2; metal transport; NMR {Listonella anguillarum} (A:) Probab=98.43 E-value=1.7e-07 Score=61.56 Aligned_cols=88 Identities=15% Similarity=0.030 Sum_probs=67.9 Q ss_pred HHHHHHHHHHHHHCCCCCCCCCCC-CEEEEEEEEECCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCCCCHH- Q ss_conf 899999999996225465655537-529999999879981853356405888605899999999999997188988846- Q gi|254780549|r 177 DAIAIVRNRVIANWNIPSDFKRFK-KLRVKMHFQLNQKGFVLGKINVDVVGGTELVRRMLRENARKAVIKSQAFRLSPS- 254 (271) Q Consensus 177 ~~~~~ir~~I~~~w~~p~~~~~~~-~~~v~v~i~l~~~G~v~~~~~~~~~~~~~~~~~~~~~~a~rAi~~~~p~~~p~~- 254 (271) .|...++..+..+|.||..+...+ ++.|+|+|.++.||.|.+..++.++|.. .||++|++||.+|.+++-.++ T Consensus 14 ~~~~~~~~~~~~~~~yP~~~~~~~~~G~v~v~~~I~~~G~v~~~~i~~ss~~~-----~ld~aa~~ai~~~~~~P~~~~g 88 (106) T 2k9k_A 14 GSNQQAMPLYRVEPVYPSRALKRGVEGFVTLSFTIDTTGKAVDINVVDANPKR-----MFEREAMQALKKWKYQPQIVDG 88 (106) T ss_dssp CCSCCCCCSSCSSCCCCSHHHHHCCCCEEEEEEEEETTTEEEEEEEEEESSSS-----SSHHHHHHHHHHCCCCCCCCSS T ss_pred CCCCCEEEECCCCCCCCHHHHHCCCCEEEEEEEEEECCCCEEEEEEEECCCCH-----HHHHHHHHHHHHCCCCCCCCCC T ss_conf 88874015437799997999976991099999999779989888998668918-----8999999999976788888799 Q ss_pred H-HHH-CCEEEEEECHH Q ss_conf 7-761-22289974440 Q gi|254780549|r 255 T-YKS-WRNITLFFVPS 269 (271) Q Consensus 255 ~-y~~-~~~~~~~F~p~ 269 (271) . ... |-.+.++|+-+ T Consensus 89 ~~v~~~~~~~~~~f~l~ 105 (106) T 2k9k_A 89 KAIEQPGQTVTVEFKIA 105 (106) T ss_dssp CCSCEEEEEEEEECCCC T ss_pred EEEEEEEEEEEEEEEEC T ss_conf 68657879998999964 No 5 >>1u07_A TONB protein; beta-hairpin, protein transport; 1.13A {Escherichia coli} (A:) Probab=98.22 E-value=7.8e-07 Score=57.84 Aligned_cols=79 Identities=11% Similarity=0.050 Sum_probs=63.4 Q ss_pred HHHHCCCCCCCCCCC-CEEEEEEEEECCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCCCCHH-HHHHCCEEE Q ss_conf 996225465655537-529999999879981853356405888605899999999999997188988846-776122289 Q gi|254780549|r 186 VIANWNIPSDFKRFK-KLRVKMHFQLNQKGFVLGKINVDVVGGTELVRRMLRENARKAVIKSQAFRLSPS-TYKSWRNIT 263 (271) Q Consensus 186 I~~~w~~p~~~~~~~-~~~v~v~i~l~~~G~v~~~~~~~~~~~~~~~~~~~~~~a~rAi~~~~p~~~p~~-~y~~~~~~~ 263 (271) ++.++.||..++..+ .+.|.|+|.+++||+|.+..++.+||.. .||++|++||.+....|.++. ....+-.+. T Consensus 8 ~~~~~~YP~~a~~~~~~G~v~v~~~i~~~G~v~~~~i~~ssg~~-----~ld~~a~~av~~~~~~P~~~g~~~~~~~~~~ 82 (90) T 1u07_A 8 SRNQPQYPARAQALRIEGQVKVKFDVTPDGRVDNVQILSAKPAN-----MFEREVKNAMRRWRYEPGKPGSGIVVNILFK 82 (90) T ss_dssp ECCCCCCCHHHHHHTCCEEEEEEEEECTTSCEEEEEEEEEESSS-----SSHHHHHHHHTTCEECTTCCEEEEEEEEEEE T ss_pred CCCCCCCCHHHHHCCCEEEEEEEEEEECCCCEEEEEEEECCCCH-----HHHHHHHHHHHHCCCCCCCCCCCEEEEEEEE T ss_conf 77999897999977990189999999489989789999888974-----8999999999867789999788889999999 Q ss_pred EEECHH Q ss_conf 974440 Q gi|254780549|r 264 LFFVPS 269 (271) Q Consensus 264 ~~F~p~ 269 (271) ++|+-+ T Consensus 83 i~f~l~ 88 (90) T 1u07_A 83 INGTTE 88 (90) T ss_dssp EEEEEE T ss_pred ECCEEE T ss_conf 998941 No 6 >>2qfd_A Probable ATP-dependent RNA helicase DDX58; zinc finger, alternative splicing, antiviral defense, ATP- binding, hydrolase, immune response; 2.70A {Homo sapiens} PDB: 2qfb_A 2rmj_A (A:1-41,A:111-145) Probab=37.86 E-value=4.9 Score=19.12 Aligned_cols=17 Identities=29% Similarity=0.843 Sum_probs=13.4 Q ss_pred HHHHCCEEEE---EECHHHC Q ss_conf 7761222899---7444009 Q gi|254780549|r 255 TYKSWRNITL---FFVPSKM 271 (271) Q Consensus 255 ~y~~~~~~~~---~F~p~~m 271 (271) .|..||+|.| -|||.+| T Consensus 55 ~~sKWkdFnFekIpFdaaEm 74 (76) T 2qfd_A 55 LYSKWKDFHFEKIPFDPAEM 74 (76) T ss_dssp ECSCGGGCCSCCCBCCGGGC T ss_pred ECCCCEECCEEECCCCHHHH T ss_conf 03332057506479788995 No 7 >>1wdd_A Ribulose bisphosphate carboxylase large chain; rubisco, photosynthesis, alpha/beta barrel, N- methylmethionine, post-translational modification; HET: KCX CAP; 1.35A {Oryza sativa} (A:148-301,A:372-477) Probab=34.67 E-value=14 Score=16.55 Aligned_cols=42 Identities=17% Similarity=0.260 Sum_probs=25.7 Q ss_pred HHHHHHHHHHHHHHHHHH--------CCC-------CCCHHHHHHCCEEEEEECHHH Q ss_conf 058999999999999971--------889-------888467761222899744400 Q gi|254780549|r 229 ELVRRMLRENARKAVIKS--------QAF-------RLSPSTYKSWRNITLFFVPSK 270 (271) Q Consensus 229 ~~~~~~~~~~a~rAi~~~--------~p~-------~~p~~~y~~~~~~~~~F~p~~ 270 (271) ..++|.+-|+++.|.... .+| +-...-.+.|++|.|+|++-+ T Consensus 200 a~a~r~a~ea~~~~~~~g~~~~~~~~~~l~~~a~~~~~L~~al~~W~~i~f~~~~~d 256 (260) T 1wdd_A 200 AAANRVALEACVQARNEGRDLAREGNEIIRSACKWSPELAAACEIWKAIKFEFEPVD 256 (260) T ss_dssp HHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHTTCCCCCCCSC T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHCCHHHHHHHHHHCCCEEECCCCC T ss_conf 999999999999851002656654559999997509799999998478668324578 No 8 >>1lgh_A LH II, B800/850, light harvesting complex II; bacteriochlorophyll, dexter energy transfer, foerster exciton transfer mechanism; HET: BCL LYC DET HTO; 2.40A {Phaeospirillum molischianum} (A:) Probab=30.47 E-value=21 Score=15.53 Aligned_cols=22 Identities=18% Similarity=0.262 Sum_probs=16.5 Q ss_pred HHHHHHHHHHHHHHHHHHHHCC Q ss_conf 4699999999999999987175 Q gi|254780549|r 5 NGLAISMILHVMFLLLLYFNFN 26 (271) Q Consensus 5 ~gL~lSi~lH~~li~l~~f~~~ 26 (271) ..+++.+.+|+.+|.+-.|+|- T Consensus 25 av~~~ai~VH~~vl~l~g~~w~ 46 (56) T 1lgh_A 25 VATVVAIAVHAAVLAAPGFNWI 46 (56) T ss_dssp HHHHHHHHHHHHHHHSGGGCHH T ss_pred HHHHHHHHHHHHHHHCCCCHHH T ss_conf 9999999999998706771088 No 9 >>1xau_A B- and T-lymphocyte attenuator; IG domain, beta sandwich, structural genomics, PSI, protein structure initiative; 1.80A {Mus musculus} (A:) Probab=27.09 E-value=15 Score=16.34 Aligned_cols=25 Identities=28% Similarity=0.615 Sum_probs=21.1 Q ss_pred HHCCCCCCHHHHHHCCE------EEEEECHH Q ss_conf 71889888467761222------89974440 Q gi|254780549|r 245 KSQAFRLSPSTYKSWRN------ITLFFVPS 269 (271) Q Consensus 245 ~~~p~~~p~~~y~~~~~------~~~~F~p~ 269 (271) .|.||..-|..|..|.+ |+|.|+|- T Consensus 56 ~c~~Le~~~q~~TsW~e~~n~s~FiLhF~pi 86 (122) T 1xau_A 56 IWVPLEVGPQLYTSWEENRSVPVFVLHFKPI 86 (122) T ss_dssp SEEECCCBTTEEEEEECSSSSCEEEEEETTC T ss_pred EEEEEECCCCCCCCHHHCCCEEEEEEEEEEE T ss_conf 7887001765444511158735999983000 No 10 >>1bwv_A Rubisco, protein (ribulose bisphosphate carboxylase); carbon dioxide fixation,complex (rubisco/reaction intermediate), high specificity factor; HET: KCX CAP; 2.40A {Galdieria partita} (A:158-308,A:380-493) Probab=25.20 E-value=15 Score=16.34 Aligned_cols=42 Identities=14% Similarity=0.242 Sum_probs=24.5 Q ss_pred HHHHHHHHHHHHHHHHHHCC--------C-------CCCHHHHHHCCEEEEEECHHH Q ss_conf 05899999999999997188--------9-------888467761222899744400 Q gi|254780549|r 229 ELVRRMLRENARKAVIKSQA--------F-------RLSPSTYKSWRNITLFFVPSK 270 (271) Q Consensus 229 ~~~~~~~~~~a~rAi~~~~p--------~-------~~p~~~y~~~~~~~~~F~p~~ 270 (271) ..++|.+-|+.+.|....-. | +-...-.+.|++|.|+|+.-+ T Consensus 197 ~~a~r~a~ea~~~~~~~g~~~~~~g~~~l~~~a~~~~~l~~al~~w~~i~f~~~~~d 253 (265) T 1bwv_A 197 ATANRVALEAMILARNENRDYLTEGPEILREAAKTCGALRTALDLWKDITFNYTSTD 253 (265) T ss_dssp HHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHCHHHHHHHHHHTTCCCCCCCSS T ss_pred HHHHHHHHHHHHHHCCCCHHHHHHCHHHHHHHHHCCHHHHHHHHHHCCCEEECCCCC T ss_conf 999999999999725631455553649999987529899999998667368336787 Done!