Query gi|255764468|ref|YP_003064806.2| permease protein [Candidatus Liberibacter asiaticus str. psy62] Match_columns 361 No_of_seqs 128 out of 2077 Neff 9.8 Searched_HMMs 33803 Date Wed Jun 1 12:43:45 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 255764468.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >1fo1_A TAP (NFX1), nuclear RN 18.5 23 0.00068 13.3 -0.5 53 121-173 22-74 (95) 2 >2gop_A Trilobed protease; bet 11.2 70 0.0021 10.6 6.1 77 157-233 26-112 (149) 3 >2ojh_A Uncharacterized protei 10.3 75 0.0022 10.5 5.5 48 169-216 20-72 (99) 4 >2jq5_A SEC-C motif; structura 8.2 92 0.0027 10.0 3.3 35 174-208 92-126 (128) 5 >1xjv_A Protection of telomere 7.8 97 0.0029 9.8 4.0 47 168-214 37-87 (145) 6 >2z3z_A Dipeptidyl aminopeptid 6.7 1.2E+02 0.0035 9.4 5.1 65 156-221 7-81 (88) 7 >1oed_B Acetylcholine receptor 6.4 1.3E+02 0.0038 9.2 2.8 22 7-28 4-25 (250) 8 >1b77_A GP45, protein (sliding 6.2 43 0.0013 11.9 -2.5 46 132-177 10-56 (228) 9 >1oed_A Acetylcholine receptor 6.2 1.3E+02 0.0039 9.1 4.0 21 7-27 4-24 (227) 10 >1eue_A Cytochrome B5; heme, e 6.2 1.3E+02 0.0039 9.1 1.4 34 180-213 1-34 (86) No 1 >>1fo1_A TAP (NFX1), nuclear RNA export factor 1; ribonucleoprotein (RNP,RBD or RRM) and leucine-rich-repeat (LRR), RNA binding protein; 2.90A {Homo sapiens} (A:1-95) Probab=18.48 E-value=23 Score=13.34 Aligned_cols=53 Identities=9% Similarity=-0.038 Sum_probs=26.4 Q ss_pred HHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHCCCHHHHHHHHHHHHHCCCCCE Q ss_conf 12788776544455654200011222012101220343453444210001101 Q gi|255764468|r 121 IEPKCRSTIKQLSAKAQLALTFSYLEENLFFRLDDDLYIKISKYNPNNTLQGI 173 (361) Q Consensus 121 i~P~~~~~~~~~~~~~~~~~~~~~~~~g~f~~~~~~~~i~i~~~~~~~~l~~v 173 (361) .+|++.+.-+++.-+.-++....-..|-.|....++..+|++...-...+.++ T Consensus 22 tIp~G~kYdK~wLl~~iq~~c~v~F~Pv~fh~~~~~a~Ffv~d~~~A~aL~~~ 74 (95) T 1fo1_A 22 TIPYGRKYDKAWLLSMIQSKCSVPFTPIEFHYENTRAQFFVEDASTASALKAV 74 (95) T ss_dssp CCTTCTTSCHHHHHHHHHHHC---CCCSSCCCBTTBC-----------CCGGG T ss_pred ECCCCCCCCHHHHHHHHHHCCCCCCCCEEEEECCCEEEEEECCCHHHHHHHHH T ss_conf 62456520289999999716778876414541253034664044068888762 No 2 >>2gop_A Trilobed protease; beta propeller, open velcro, hydrolase; 2.00A {Pyrococcus furiosus} (A:1-102,A:301-347) Probab=11.18 E-value=70 Score=10.65 Aligned_cols=77 Identities=13% Similarity=0.051 Sum_probs=48.1 Q ss_pred HHHHHHHHH---HHCCCCCEEEEEECCCCCEEEEEEEEEEEECCCCEEEEE-------CCEEEEECCCCCCEEEEEECCC Q ss_conf 434534442---100011013553035785157875002572289569987-------7878885178862124430122 Q gi|255764468|r 157 LYIKISKYN---PNNTLQGIFIVDSRDTQTHKIYYAQSGSIDLDRQAIILN-------DGEVHRKSPISKDISIMKFKSY 226 (361) Q Consensus 157 ~~i~i~~~~---~~~~l~~v~i~~~~~~~~~~~i~A~~~~~~~~~~~~~l~-------~g~~~~~~~~~~~~~~~~F~~~ 226 (361) ...|+.... ++....++++.+....+...........|.+|+.++.+. ..+++..+.+..+...+..+.+ T Consensus 26 ~iafv~~~~~~~~~~~~~~L~i~d~~g~~~~~~~~~~sP~wSPDG~~IaF~S~r~~~~~~qIy~i~~~Gg~~~~it~~~~ 105 (149) T 2gop_A 26 LVAYVLTKANLKDNKYENTIVIENLKNNARRFIENATMPRISPDGKKIAFMRANEEKKVSEIWVADLETLSSKKILERHW 105 (149) T ss_dssp EEEEEEEEEETTTTEEEEEEEEEETTTCCEEEEESCEEEEECTTSSEEEEEEEETTTTEEEEEEEETTTTEEEEEEESSE T ss_pred EEEEEEEECCCCCCCCCCEEEEEECCCCEEEECCCCCCEEECCCCCEEEEEEEECCCCCEEEEEEECCCCCEEEEECCCC T ss_conf 99999822254578653169999899982887769997068528998999998337997069999624562388404965 Q ss_pred CCCCCCC Q ss_conf 0125665 Q gi|255764468|r 227 TLQTESA 233 (361) Q Consensus 227 ~~~~~~~ 233 (361) .....+. T Consensus 106 ~~~~~~~ 112 (149) T 2gop_A 106 IMGFDVD 112 (149) T ss_dssp EEEEEES T ss_pred EEEEEEC T ss_conf 9988558 No 3 >>2ojh_A Uncharacterized protein ATU1656/AGR_C_3050; TOLB, 6-stranded beta-propeller, structural genomics, PSI-2; 1.85A {Agrobacterium tumefaciens str} (A:1-79,A:278-297) Probab=10.28 E-value=75 Score=10.47 Aligned_cols=48 Identities=19% Similarity=0.249 Sum_probs=30.4 Q ss_pred CCCCEEEEEECCCCCEEEEEEE----EEEEECCCCEEEEE-CCEEEEECCCCC Q ss_conf 0110135530357851578750----02572289569987-787888517886 Q gi|255764468|r 169 TLQGIFIVDSRDTQTHKIYYAQ----SGSIDLDRQAIILN-DGEVHRKSPISK 216 (361) Q Consensus 169 ~l~~v~i~~~~~~~~~~~i~A~----~~~~~~~~~~~~l~-~g~~~~~~~~~~ 216 (361) .-..+.|+|....+...+...+ .=.|..|+..++++ +|.+++++...+ T Consensus 20 ~~S~LeI~Dv~TG~~~VV~~~~~~iEAPNWTpDG~~Li~Ns~GrLy~l~l~g~ 72 (99) T 2ojh_A 20 XRSSIEIFNIRTRKXRVVWQTPELFEAPNWSPDGKYLLLNSEGLLYRLSLAGD 72 (99) T ss_dssp CCEEEEEEETTTTEEEEEEEESSCCEEEEECTTSSEEEEEETTEEEEEESSSC T ss_pred CEEEEEEEECCCCCEEEEECCCCCEEEEEECCCCCEEEEEECCCEEEEEECCC T ss_conf 55289999899999899988999786079988999999998996899994799 No 4 >>2jq5_A SEC-C motif; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; NMR {Rhodopseudomonas palustris} (A:) Probab=8.18 E-value=92 Score=9.98 Aligned_cols=35 Identities=17% Similarity=0.187 Sum_probs=21.0 Q ss_pred EEEEECCCCCEEEEEEEEEEEECCCCEEEEECCEE Q ss_conf 35530357851578750025722895699877878 Q gi|255764468|r 174 FIVDSRDTQTHKIYYAQSGSIDLDRQAIILNDGEV 208 (361) Q Consensus 174 ~i~~~~~~~~~~~i~A~~~~~~~~~~~~~l~~g~~ 208 (361) |....++++.......++.++...+..|...||++ T Consensus 92 F~A~y~~~~~~~~~~~ErS~F~r~~g~W~YvdG~~ 126 (128) T 2jq5_A 92 FIARFRRGGGPEQSHHERSQFRKARGRWYFSEGEA 126 (128) T ss_dssp EEEEEEESSSCEEEEEEEEEEEEETTEEEEEEEES T ss_pred EEEEEEECCCCEEEEEEEEEEEEECCEEEEECCEE T ss_conf 99999958980788998430498899999979998 No 5 >>1xjv_A Protection of telomeres 1; protein-DNA complex, single-stranded DNA, transcription/DNA complex; 1.73A {Homo sapiens} (A:1-145) Probab=7.84 E-value=97 Score=9.84 Aligned_cols=47 Identities=6% Similarity=0.046 Sum_probs=32.2 Q ss_pred CCCCCEEEEEECCCCCEEEEEEEEEEE----ECCCCEEEEECCEEEEECCC Q ss_conf 001101355303578515787500257----22895699877878885178 Q gi|255764468|r 168 NTLQGIFIVDSRDTQTHKIYYAQSGSI----DLDRQAIILNDGEVHRKSPI 214 (361) Q Consensus 168 ~~l~~v~i~~~~~~~~~~~i~A~~~~~----~~~~~~~~l~~g~~~~~~~~ 214 (361) .....+.+.|........+++.+++.- ...+....+.++++..+... T Consensus 37 ~~~~~l~i~D~t~~~i~v~lw~~~~~~l~~~~~~Gdvi~l~~~~v~~~~g~ 87 (145) T 1xjv_A 37 DYCSVVTIVDQTNVKLTCLLFSGNYEALPIIYKNGDIVRFHRLKIQVYKKE 87 (145) T ss_dssp SEEEEEEEECTTCCEEEEEEEESSGGGSCCCCSTTCEEEEEEEEEEEETTE T ss_pred EEEEEEEEECCCCCCEEEEEECCCHHHCCCCCCCCCEEEEEEEEEEEECCC T ss_conf 599999998189998189997888666998677798999977899997893 No 6 >>2z3z_A Dipeptidyl aminopeptidase IV; peptidase family S9, prolyl oligopeptidase family, serine protease, proline-specific peptidase; HET: AIO; 1.95A {Porphyromonas gingivalis W83} PDB: 2z3w_A* 2d5l_A 2eep_A* 2dcm_A* (A:361-448) Probab=6.71 E-value=1.2e+02 Score=9.35 Aligned_cols=65 Identities=11% Similarity=0.103 Sum_probs=30.5 Q ss_pred HHHHHHHHHHHHCCCCCEEEEEECCCCCEEEEEEE----EEEEECCCCEEEEE--C----CEEEEECCCCCCEEEE Q ss_conf 34345344421000110135530357851578750----02572289569987--7----8788851788621244 Q gi|255764468|r 156 DLYIKISKYNPNNTLQGIFIVDSRDTQTHKIYYAQ----SGSIDLDRQAIILN--D----GEVHRKSPISKDISIM 221 (361) Q Consensus 156 ~~~i~i~~~~~~~~l~~v~i~~~~~~~~~~~i~A~----~~~~~~~~~~~~l~--~----g~~~~~~~~~~~~~~~ 221 (361) |..++.....++....+++..+....+... ++.. ...|.+|+.++.+. + .+++..+.+++....+ T Consensus 7 G~~i~f~~~~~~~~~~~l~~~~~~~~~~~~-lt~~~~~~~~~~Spdg~~i~~~~~~~~~~~~i~~~~~~~~~~~~l 81 (88) T 2z3z_A 7 GTRLYFESTEASPLERHFYCIDIKGGKTKD-LTPESGMHRTQLSPDGSAIIDIFQSPTVPRKVTVTNIGKGSHTLL 81 (88) T ss_dssp SSEEEEEESSSCTTCBEEEEEETTCCCCEE-SCCSSSEEEEEECTTSSEEEEEEECSSCSCEEEEEESSSCEEEEE T ss_pred CCEEEEEEECCCCCEEEEEEECCCCCCCEE-EEECCCCCEEECCCCCCEEEEEECCCCCCEEEEEEECCCCCEEEE T ss_conf 403688862278635789971478873035-420266310002788760478731576530589840688716886 No 7 >>1oed_B Acetylcholine receptor protein, beta chain; ION channel/receptor, ION channel, tubular crystal, transmembrane; 4.0A {Torpedo marmorata} (B:) Probab=6.39 E-value=1.3e+02 Score=9.20 Aligned_cols=22 Identities=32% Similarity=0.369 Sum_probs=13.8 Q ss_pred HHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999999999999999999999 Q gi|255764468|r 7 YILRCIGRSFLMSCLFIVFIAW 28 (361) Q Consensus 7 Yi~k~~l~~f~~~~~~l~~i~~ 28 (361) |++.-+++..+++++..++..+ T Consensus 4 y~~~~~~P~~li~~ls~~~F~l 25 (250) T 1oed_B 4 YIVYTIIPCILISILAILVFYL 25 (250) T ss_dssp HHHHHHHHHHHHHHHHHHHHHH T ss_pred EEEEHHHHHHHHHHHHHHHHEE T ss_conf 9871998899999999987150 No 8 >>1b77_A GP45, protein (sliding clamp); replisome; 2.10A {Bacteriophage RB69} (A:) Probab=6.24 E-value=43 Score=11.85 Aligned_cols=46 Identities=7% Similarity=-0.088 Sum_probs=20.4 Q ss_pred HHHHHHHHCCCCCCCCHHHHCCCH-HHHHHHHHHHHHCCCCCEEEEE Q ss_conf 455654200011222012101220-3434534442100011013553 Q gi|255764468|r 132 LSAKAQLALTFSYLEENLFFRLDD-DLYIKISKYNPNNTLQGIFIVD 177 (361) Q Consensus 132 ~~~~~~~~~~~~~~~~g~f~~~~~-~~~i~i~~~~~~~~l~~v~i~~ 177 (361) ...+-..-.+...++||.+..... +..+|+...-++.--.++=||| T Consensus 10 iLkNFs~IN~sI~l~pGn~I~T~s~~~~iyAeA~i~d~fd~e~~IYD 56 (228) T 1b77_A 10 ILKNFASINSGILLSQGKFIMTRAVNGTTYAEANISDEIDFDVALYD 56 (228) T ss_dssp HHHHHHTTCSCEEECSEEEEEEECTTSSEEEEEEEEEEECSCEEESC T ss_pred HHHHHHHCCCCEEECCCCEEEEEECCCCEEEEEEECCCCCCCEEEEE T ss_conf 98768752887398589867875142106999981356774043566 No 9 >>1oed_A Acetylcholine receptor protein, alpha chain; ION channel/receptor, ION channel, tubular crystal, transmembrane; 4.0A {Torpedo marmorata} (A:) Probab=6.22 E-value=1.3e+02 Score=9.12 Aligned_cols=21 Identities=19% Similarity=0.255 Sum_probs=11.6 Q ss_pred HHHHHHHHHHHHHHHHHHHHH Q ss_conf 999999999999999999999 Q gi|255764468|r 7 YILRCIGRSFLMSCLFIVFIA 27 (361) Q Consensus 7 Yi~k~~l~~f~~~~~~l~~i~ 27 (361) |++.-++...+++.+..++.. T Consensus 4 Y~~~~~iP~~li~~ls~v~F~ 24 (227) T 1oed_A 4 FVVNVIIPCLLFSFLTGLVFY 24 (227) T ss_dssp HHHHHHHHHHHHHHHHHHHHH T ss_pred EEEHHHHHHHHHHHHHHHHHE T ss_conf 987199999999999998705 No 10 >>1eue_A Cytochrome B5; heme, electron transport; HET: HEM; 1.80A {Rattus norvegicus} (A:) Probab=6.18 E-value=1.3e+02 Score=9.09 Aligned_cols=34 Identities=9% Similarity=0.085 Sum_probs=0.0 Q ss_pred CCCCEEEEEEEEEEEECCCCEEEEECCEEEEECC Q ss_conf 5785157875002572289569987787888517 Q gi|255764468|r 180 DTQTHKIYYAQSGSIDLDRQAIILNDGEVHRKSP 213 (361) Q Consensus 180 ~~~~~~~i~A~~~~~~~~~~~~~l~~g~~~~~~~ 213 (361) ++..+....++-++.+..+..|+..+|.+|+... T Consensus 1 e~~~~~~t~~ev~~h~~~~~~wv~i~g~VYDvt~ 34 (86) T 1eue_A 1 DPAVTYYRLEEVAKRNTAEETWMVIHGRVYDITR 34 (86) T ss_dssp CCSCCEECHHHHTTCEETTEEEEEETTEEEECGG T ss_pred CCCCCEECHHHHHHHCCCCCEEEEECCEEEECCE T ss_conf 9977788799999658988879999999983715 Done!