BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0116.0007.p (472 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310853|ref|YP_003774945.1| cation/multidrug efflux pump pr... 262 4e-71 gi|300310854|ref|YP_003774946.1| NodT family protein [Herbaspiri... 188 6e-49 gi|300311796|ref|YP_003775888.1| outer membrane channel lipoprot... 105 8e-24 gi|300310852|ref|YP_003774944.1| cation/multidrug efflux pump tr... 95 1e-20 gi|300309656|ref|YP_003773748.1| outer membrane drug efflux prot... 91 2e-19 >gi|300310853|ref|YP_003774945.1| cation/multidrug efflux pump protein [Herbaspirillum seropedicae SmR1] Length = 1078 Score = 262 bits (670), Expect = 4e-71, Method: Compositional matrix adjust. Identities = 129/164 (78%), Positives = 147/164 (89%), Gaps = 1/164 (0%) Query: 1 LQTTLTIDRETAIRSGVTPQLIDTSLSDLFGQRQISTIYSGMNQYHVVMEAAPQYWQSPE 60 LQTTLTIDRETA+R+GVTPQLID++LSDLFGQRQISTIYSGMNQYHVVMEAAPQYWQSPE Sbjct: 713 LQTTLTIDRETAMRAGVTPQLIDSTLSDLFGQRQISTIYSGMNQYHVVMEAAPQYWQSPE 772 Query: 61 ILNSTYVSLANSTANLSPTTSALGTPPALTAGGKLNSNSSLALTLSTAASKQVPLTSFSS 120 L TYVSLA S+ NLSPTTS+L TPPAL+A GKLN+N+ LA T+STA S+Q+PL +FS Sbjct: 773 TLRDTYVSLAGSS-NLSPTTSSLSTPPALSASGKLNANTGLAQTISTAPSRQIPLAAFSR 831 Query: 121 FAPTTTSLSVSHEGQFIASTISFNLAEGVSLSQATQVINDTLAR 164 F PTTTSLSVSHEGQF+AST+SFNLAEGVSLSQAT I+ +A+ Sbjct: 832 FEPTTTSLSVSHEGQFVASTLSFNLAEGVSLSQATAAIDRAMAQ 875 >gi|300310854|ref|YP_003774946.1| NodT family protein [Herbaspirillum seropedicae SmR1] Length = 507 Score = 188 bits (478), Expect = 6e-49, Method: Compositional matrix adjust. Identities = 96/127 (75%), Positives = 109/127 (85%) Query: 345 TDQAIASYDGVAAAYKQTVLTAFQEVEDNLAALRILEQEAVVQNEALQSARQAVTLVTNQ 404 TDQAIA+YDG A YKQTVLTAFQEVEDNLAALRILEQEA VQ EALQ+ARQAVTLV NQ Sbjct: 372 TDQAIATYDGTVATYKQTVLTAFQEVEDNLAALRILEQEAAVQGEALQAARQAVTLVNNQ 431 Query: 405 YKAGTVNYTSVITAQATALTSERTALDILYRRMAASVLLTKALGGGWSEQNIADLGALAS 464 YKAGTV+Y +VITAQATAL++E ++L+IL RRMAASVLL KALGGGW E+++ DLG+L Sbjct: 432 YKAGTVSYVNVITAQATALSAELSSLNILNRRMAASVLLAKALGGGWDERSLDDLGSLQQ 491 Query: 465 QSENSKK 471 QS K Sbjct: 492 QSAEKAK 498 Score = 146 bits (368), Expect = 4e-36, Method: Compositional matrix adjust. Identities = 66/99 (66%), Positives = 79/99 (79%) Query: 242 HNLTRILMLTPLTLALAACSVGPDYVRPQAAAVPAAFKEMKDWKPAQPSELAMNGKWWEM 301 L +L + +LALAACSVGPDYVRPQ PA FKE ++WKPAQP +L +GKWWEM Sbjct: 7 FKLKPLLAMLVASLALAACSVGPDYVRPQMDTGPAIFKEGQNWKPAQPRDLVADGKWWEM 66 Query: 302 FGDPQLNALVEQIDISNQNLAQSEANFRKAMALVQAARA 340 FGDPQLNALV Q+DISNQNLA +EANFR A+ALVQ++R+ Sbjct: 67 FGDPQLNALVAQVDISNQNLALAEANFRSAVALVQSSRS 105 >gi|300311796|ref|YP_003775888.1| outer membrane channel lipoprotein [Herbaspirillum seropedicae SmR1] Length = 510 Score = 105 bits (262), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 53/93 (56%), Positives = 69/93 (74%) Query: 359 YKQTVLTAFQEVEDNLAALRILEQEAVVQNEALQSARQAVTLVTNQYKAGTVNYTSVITA 418 YKQTVL QEVED L+ LR+L+QE+ VQ +A+QSA+ A L QY+AGTV Y SV+T Sbjct: 411 YKQTVLGGLQEVEDKLSTLRVLDQESTVQAQAVQSAQLAERLAMRQYEAGTVTYLSVVTT 470 Query: 419 QATALTSERTALDILYRRMAASVLLTKALGGGW 451 QA +LT++R A+ +L R++ ASV L KA GGGW Sbjct: 471 QAASLTNQRNAVTLLGRQLVASVALIKATGGGW 503 Score = 75.1 bits (183), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 43/93 (46%), Positives = 60/93 (64%), Gaps = 3/93 (3%) Query: 250 LTPLTLA--LAACSVGPDYVRPQAAAVPAAFKEMKDWKPAQPSELAMNGKWWEMFGDPQL 307 +T L LA L C+VGPDY RP A +P A+KE WK A P ++ + WWE +GDP L Sbjct: 35 MTALVLAALLGGCAVGPDYARP-ALDLPQAYKETGPWKLAAPRQIDDHQPWWEAYGDPVL 93 Query: 308 NALVEQIDISNQNLAQSEANFRKAMALVQAARA 340 NAL++Q + +NQ + Q+ A +R+A A + ARA Sbjct: 94 NALMDQANAANQTIQQAAAQYRQAQATAEVARA 126 >gi|300310852|ref|YP_003774944.1| cation/multidrug efflux pump transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 1048 Score = 95.1 bits (235), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 59/159 (37%), Positives = 80/159 (50%), Gaps = 38/159 (23%) Query: 1 LQTTLTIDRETAIRSGVTPQLIDTSLSDLFGQRQISTIYSGMNQYHVVMEAAPQYWQSPE 60 LQ + IDR A R G+T ID +L + FGQR ISTIY+ NQY VVME P++ P Sbjct: 708 LQAYIEIDRNAASRLGITTAAIDNALYNAFGQRLISTIYTQSNQYRVVMEVKPEFQHGPA 767 Query: 61 ILNSTYVSLANSTANLSPTTSALGTPPALTAGGKLNSNSSLALTLSTAASKQVPLTSFSS 120 L+S Y+ +T+GG +VPL+S ++ Sbjct: 768 ALDSIYL---------------------VTSGG-----------------GKVPLSSIAT 789 Query: 121 FAPTTTSLSVSHEGQFIASTISFNLAEGVSLSQATQVIN 159 T L V+H GQF A+T+SFNLA+G SL +A + I Sbjct: 790 VTERTAPLVVNHIGQFPAATVSFNLAKGASLGEAVKAIK 828 >gi|300309656|ref|YP_003773748.1| outer membrane drug efflux protein [Herbaspirillum seropedicae SmR1] Length = 504 Score = 90.5 bits (223), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 54/121 (44%), Positives = 77/121 (63%), Gaps = 1/121 (0%) Query: 331 AMALVQAARAEDXVTDQAIASYDGVAAAYKQTVLTAFQEVEDNLAALRILEQEAVVQNEA 390 +M L R + V D+A ASY+ A+Y+ TVL AF+EVEDNLA LRIL+Q+ Q+EA Sbjct: 374 SMPLFDGGRRQAGV-DRARASYEEQVASYRGTVLNAFREVEDNLANLRILDQQNRAQDEA 432 Query: 391 LQSARQAVTLVTNQYKAGTVNYTSVITAQATALTSERTALDILYRRMAASVLLTKALGGG 450 + ++ +A L QY+ G V+Y SVI A T L +R ++ + R ++V L +ALGGG Sbjct: 433 VAASARAAKLSHTQYREGAVSYFSVIDADRTVLQQQRASVTLDGERARSTVNLIRALGGG 492 Query: 451 W 451 W Sbjct: 493 W 493 Score = 71.6 bits (174), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 39/91 (42%), Positives = 51/91 (56%), Gaps = 11/91 (12%) Query: 260 CSVGPDYVRPQAAAVPAAFKEM----------KDWKPAQPSELAMNGKWWEMFGDPQLNA 309 CSV P Y RP + PAAFKE WK AQP+E G+WW++FGD +LNA Sbjct: 31 CSVAPTYERP-SVDTPAAFKEAAPATQTGENGSQWKTAQPAEDIARGEWWKIFGDEKLNA 89 Query: 310 LVEQIDISNQNLAQSEANFRKAMALVQAARA 340 L + +NQ+L + A +A AL + ARA Sbjct: 90 LEDTAQQANQDLKAAAARLGQARALTRDARA 120 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.313 0.124 0.345 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 1,134,758 Number of extensions: 38674 Number of successful extensions: 203 Number of sequences better than 1.0e-08: 13 Number of HSP's gapped: 200 Number of HSP's successfully gapped: 17 Length of query: 472 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 383 Effective length of database: 1,198,455 Effective search space: 459008265 Effective search space used: 459008265 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (22.0 bits) S2: 132 (55.5 bits)