RPS-BLAST 2.2.22 [Sep-27-2009] Database: scop70_1_75 13,730 sequences; 2,407,596 total letters Searching..................................................done Query= gi|254780930|ref|YP_003065343.1| nodulation protein (outer membrane efflux protein) [Candidatus Liberibacter asiaticus str. psy62] (452 letters) >d1wp1a_ f.5.1.1 (A:) Outer membrane protein OprM {Pseudomonas aeruginosa [TaxId: 287]} Length = 456 Score = 175 bits (444), Expect = 6e-45 Identities = 98/457 (21%), Positives = 192/457 (42%), Gaps = 27/457 (5%) Query: 18 CTVGPEYTKPHMPLLPTQFSIG------NSKNLINIDTLKWWESFNDTSLNKLVKIALQQ 71 C++ P+Y +P P+ + G + + W E F D L +L+ +AL+ Sbjct: 1 CSLIPDYQRPEAPV-AAAYPQGQAYGQNTGAAAVPAADIGWREFFRDPQLQQLIGVALEN 59 Query: 72 NLTILQATERINAAKENILSVRADLFPSSYASISH---RFIPNLKTNSTGQLDSDWKIDL 128 N + A + A + RADLFP S R +L T + + S + + L Sbjct: 60 NRDLRVAALNVEAFRAQYRIQRADLFPRIGVDGSGTRQRLPGDLSTTGSPAISSQYGVTL 119 Query: 129 ----------FGQRRHIESSLANLDSAYAQVDIAKLNVISKLIPSYIDARHFKERISIAH 178 R + +L + A+ +++ + +Y+ + + ++ + Sbjct: 120 GTTAWELDLFGRLRSLRDQALEQYLATEQAQRSAQTTLVASVATAYLTLKADQAQLQLTK 179 Query: 179 QILDLYKKNIELSHLKFTQGATSKLSLVKLEAEIKSIESDIPTLEKSFRMNVHNISTLLG 238 L Y+K+ +L+ + G S L L + + ++ + + + + + + LLG Sbjct: 180 DTLGTYQKSFDLTQRSYDVGVASALDLRQAQTAVEGARATLAQYTRLVAQDQNALVLLLG 239 Query: 239 YPATEFLHYMQKQSNNFQPNLYIPINIGIPADLIRNRPDIRYQEKKLADSVAKIGIAKSD 298 L Q L + G+P+DL++ RPDI E +L + A IG A++ Sbjct: 240 SGIPANL----PQGLGLDQTLLTEVPAGLPSDLLQRRPDILEAEHQLMAANASIGAARAA 295 Query: 299 LYPSLSLN---GSIALTHDNSFPGYNTHWSFGPKLYLPIFDKGKIKSNIRRAESSAQEQY 355 +PS+SL G+++ F + W F P + LPIF G +++++ A+ Sbjct: 296 FFPSISLTANAGTMSRQLSGLFDAGSGSWLFQPSINLPIFTAGSLRASLDYAKIQKDINV 355 Query: 356 ITWQETVLNAIKEVENALTSINEDKKIVTKLQHAVELHKKSMSLSMINYRQGRYSLLDIL 415 +++ + A +EV + L + + + + V+ + L+ YR G + L +L Sbjct: 356 AQYEKAIQTAFQEVADGLAARGTFTEQLQAQRDLVKASDEYYQLADKRYRTGVDNYLTLL 415 Query: 416 DIERATAKVEVDLSIAKRQLAKSYVDLYIAIGSGYNP 452 D +R+ + L + S V+LY A+G G+N Sbjct: 416 DAQRSLFTAQQQLITDRLNQLTSEVNLYKALGGGWNQ 452 >d1ek9a_ f.5.1.1 (A:) Integral outer membrane protein TolC, efflux pump component {Escherichia coli [TaxId: 562]} Length = 428 Score = 120 bits (300), Expect = 2e-28 Identities = 53/409 (12%), Positives = 134/409 (32%), Gaps = 24/409 (5%) Query: 60 SLNKLVKIALQQNLTILQATERINAAKENILSVRADLFPS-------SYASISHRFIPNL 112 +L ++ + A N + ++ +AA E I R+ L P +Y++ Sbjct: 2 NLMQVYQQARLSNPELRKSAADRDAAFEKINEARSPLLPQLGLGADYTYSNGYRDANGIN 61 Query: 113 KTNSTGQLDSDWKIDLFGQRRHIESSLANLDSAYAQVDIAKLNVISKLIPSYIDARHFKE 172 ++ L I + R + + +I +Y + + + Sbjct: 62 SNATSASLQLTQSIFDMSKWRALTLQEKAAGIQDVTYQTDQQTLILNTATAYFNVLNAID 121 Query: 173 RISIAHQILDLYKKNIELSHLKFTQGATSKLSLVKLEAEIKSIESDIPTLEKSFRMNVHN 232 +S + + ++ + +F G + + A+ ++ ++ T + V Sbjct: 122 VLSYTQAQKEAIYRQLDQTTQRFNVGLVAITDVQNARAQYDTVLANELTARNNLDNAVEQ 181 Query: 233 ISTLLGYPATEFLHYMQKQSNNFQPNLYIPINIGIPADLIRNRPDIRYQEKKLADSVAKI 292 + + G E + +P + + + + + +I Sbjct: 182 LRQITGNYYPELAALNVENFKTDKPQPVNALLK----EAEKRNLSLLQARLSQDLAREQI 237 Query: 293 GIAKSDLYPSLSLNGSI-------------ALTHDNSFPGYNTHWSFGPKLYLPIFDKGK 339 A+ P+L L S G LPI+ G Sbjct: 238 RQAQDGHLPTLDLTASTGISDTSYSGSKTRGAAGTQYDDSNMGQNKVGLSFSLPIYQGGM 297 Query: 340 IKSNIRRAESSAQEQYITWQETVLNAIKEVENALTSINEDKKIVTKLQHAVELHKKSMSL 399 + S +++A+ + + + ++ V ++ +IN + + AV + S+ Sbjct: 298 VNSQVKQAQYNFVGASEQLESAHRSVVQTVRSSFNNINASISSINAYKQAVVSAQSSLDA 357 Query: 400 SMINYRQGRYSLLDILDIERATAKVEVDLSIAKRQLAKSYVDLYIAIGS 448 Y G +++D+LD + +L+ A+ + +++ A+G+ Sbjct: 358 MEAGYSVGTRTIVDVLDATTTLYNAKQELANARYNYLINQLNIKSALGT 406 >d1w0pa1 b.29.1.8 (A:25-216) Vibrio cholerae sialidase, N-terminal and insertion domains {Vibrio cholerae [TaxId: 666]} Length = 192 Score = 33.0 bits (75), Expect = 0.055 Identities = 13/66 (19%), Positives = 27/66 (40%), Gaps = 4/66 (6%) Query: 101 YASISHRFIPNLKTNSTGQLDSDWKIDLFGQRRHIESSLANLDSAYAQVDIAKLNVISKL 160 YA+ + R +P + +S+G L ++ GQ + + Y + ++ L + Sbjct: 88 YANGTQRVLPIISLDSSGNL----VVEFEGQTGRTVLATGTAATEYHKFELVFLPGSNPS 143 Query: 161 IPSYID 166 Y D Sbjct: 144 ASFYFD 149 >d1i5ea_ c.61.1.1 (A:) Uracil PRTase, Upp {Bacillus caldolyticus [TaxId: 1394]} Length = 208 Score = 30.3 bits (68), Expect = 0.34 Identities = 12/59 (20%), Positives = 20/59 (33%) Query: 218 DIPTLEKSFRMNVHNISTLLGYPATEFLHYMQKQSNNFQPNLYIPINIGIPADLIRNRP 276 D T K FR V ++TL+ + T L + + + G +I Sbjct: 20 DKNTGTKEFRELVDEVATLMAFEITRDLPLEEVEIETPVSKARAKVIAGKKLGVIPILR 78 >d1o5oa_ c.61.1.1 (A:) Uracil PRTase, Upp {Thermotoga maritima [TaxId: 2336]} Length = 210 Score = 29.2 bits (65), Expect = 0.76 Identities = 12/39 (30%), Positives = 16/39 (41%) Query: 218 DIPTLEKSFRMNVHNISTLLGYPATEFLHYMQKQSNNFQ 256 D T K FR + I+ LL Y AT L + + Sbjct: 22 DKNTGPKEFRELLREITLLLAYEATRHLKCEEVEVETPI 60 >d4pfka_ c.89.1.1 (A:) ATP-dependent phosphofructokinase {Bacillus stearothermophilus [TaxId: 1422]} Length = 319 Score = 28.5 bits (63), Expect = 1.0 Identities = 8/51 (15%), Positives = 20/51 (39%), Gaps = 1/51 (1%) Query: 379 DKKIVTKL-QHAVELHKKSMSLSMINYRQGRYSLLDILDIERATAKVEVDL 428 D+ + ++L AVEL + + + + DI + ++ + Sbjct: 260 DRVLASRLGARAVELLLEGKGGRCVGIQNNQLVDHDIAEALANKHTIDQRM 310 >d1bd3a_ c.61.1.1 (A:) Uracil PRTase, Upp {Toxoplasma gondii [TaxId: 5811]} Length = 224 Score = 28.0 bits (62), Expect = 1.8 Identities = 9/49 (18%), Positives = 17/49 (34%) Query: 218 DIPTLEKSFRMNVHNISTLLGYPATEFLHYMQKQSNNFQPNLYIPINIG 266 D T ++ F + LL A L + +K+ Y ++ Sbjct: 34 DKETPKEEFVFYADRLIRLLIEEALNELPFQKKEVTTPLDVSYHGVSFY 82 >d1v9sa1 c.61.1.1 (A:1-208) Uracil PRTase, Upp {Thermus thermophilus [TaxId: 274]} Length = 208 Score = 27.2 bits (60), Expect = 2.8 Identities = 9/34 (26%), Positives = 13/34 (38%) Query: 218 DIPTLEKSFRMNVHNISTLLGYPATEFLHYMQKQ 251 D T K FR ++ L+ Y A L + Sbjct: 20 DKRTGPKDFRELAEEVAMLMAYEAMRDLELEETT 53 >d2glza1 d.81.3.1 (A:3-151) FwdE-like protein DSY1837 (Dhaf_2201) {Desulfitobacterium hafniense [TaxId: 49338]} Length = 149 Score = 26.3 bits (58), Expect = 4.7 Identities = 9/58 (15%), Positives = 18/58 (31%), Gaps = 19/58 (32%) Query: 12 IVLLAGCTVGPEYTKPHMPLLPTQFSIGNSKNLINIDTLKWWESFNDTSLNKLVKIAL 69 I +L T+G LI +T ++ F+ T + + + Sbjct: 58 IQVLNKATIGR-------------------HALIIEETHRYMYQFHFTGTQDIHQFTV 96 >d1xtta1 c.61.1.1 (A:2-216) Uracil PRTase, Upp {Sulfolobus solfataricus [TaxId: 2287]} Length = 215 Score = 26.5 bits (58), Expect = 4.7 Identities = 8/28 (28%), Positives = 14/28 (50%) Query: 224 KSFRMNVHNISTLLGYPATEFLHYMQKQ 251 +FR N+ + +LGY + L Y + Sbjct: 25 INFRKNLVRLGRILGYEISNTLDYEIVE 52 >d1w0pa2 b.29.1.8 (A:347-543) Vibrio cholerae sialidase, N-terminal and insertion domains {Vibrio cholerae [TaxId: 666]} Length = 197 Score = 26.1 bits (57), Expect = 6.3 Identities = 9/67 (13%), Positives = 25/67 (37%), Gaps = 6/67 (8%) Query: 101 YASISHRFIPNLKTNSTGQLDSDWKIDLFGQRRHIESSLANLD-SAYAQVDIAKLNVISK 159 A S +++ L + +G L +L G I + ++ ++ + ++ Sbjct: 52 VADGSRKYVVTLSIDESGGL----VANLNGVSAPIILQSEHAKVHSFHDYELQ-YSALNH 106 Query: 160 LIPSYID 166 ++D Sbjct: 107 TTTLFVD 113 Database: scop70_1_75 Posted date: Mar 27, 2010 6:21 PM Number of letters in database: 2,407,596 Number of sequences in database: 13,730 Lambda K H 0.317 0.133 0.376 Gapped Lambda K H 0.267 0.0522 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 13730 Number of Hits to DB: 1,577,600 Number of extensions: 70649 Number of successful extensions: 171 Number of sequences better than 10.0: 1 Number of HSP's gapped: 166 Number of HSP's successfully gapped: 19 Length of query: 452 Length of database: 2,407,596 Length adjustment: 88 Effective length of query: 364 Effective length of database: 1,199,356 Effective search space: 436565584 Effective search space used: 436565584 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 54 (25.1 bits)