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= 0001.4330.p (484 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310691|ref|YP_003774783.1| outer membrane drug efflux lipo... 180 3e-46 gi|300309818|ref|YP_003773910.1| drug efflux lipoprotein [Herbas... 174 2e-44 gi|300309656|ref|YP_003773748.1| outer membrane drug efflux prot... 173 3e-44 gi|300312485|ref|YP_003776577.1| outer membrane protein [Herbasp... 166 3e-42 gi|300310854|ref|YP_003774946.1| NodT family protein [Herbaspiri... 156 3e-39 >gi|300310691|ref|YP_003774783.1| outer membrane drug efflux lipoprotein [Herbaspirillum seropedicae SmR1] Length = 498 Score = 180 bits (456), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 148/495 (29%), Positives = 244/495 (49%), Gaps = 31/495 (6%) Query: 6 LTPTMSNASGASPFISRRVALIVIVTAIANTGCASGPDYHLPASPRVA-VGTFVSKPANT 64 + P++S S P ++ ++ A+ GC PDYH P +P A SK A Sbjct: 1 MKPSLSTRSPVLPM------MLPVMLAMLLGGCTLMPDYHRPDAPVAAHFAGADSKNAAG 54 Query: 65 DTAAPLPAH--WWKLYNDPALDQLVQEALTANTNLRVTLANLDRARAVYKEARGGLYPSS 122 ++AP+ A W ++ DP+L Q++ AL N +LRV + N+++ARA Y R L+PS Sbjct: 55 ASSAPVVADIGWRDVFTDPSLQQVIALALENNRDLRVAVLNIEKARAQYGVQRAALFPSI 114 Query: 123 NLSISPSYGRDQTTWTGTGQAPTQLSYNGGIDIS-YEVDLFGRVKRDIEAARDDTEAVAA 181 + S + R + TG A T SY + S YE+DLFGRV+ E A + A Sbjct: 115 KAATSETASRTPGDLSSTGSALTSRSYTATLGFSAYELDLFGRVRSLKEQALQSFLSTAE 174 Query: 182 AHDAAKVVVVADTTKAYLDACTYGESIEVAQSSIELAQRSLDLIRRQEHAGAASLLDVER 241 A + ++ ++A+ A+L + + + +AQ ++E S L +R G++S L + + Sbjct: 175 ARRSTQISLIAEVATAWLTLASDQDRLRLAQDTLESQSSSYALTQRSFELGSSSALTLRQ 234 Query: 242 AGVTLAQAQAALPPLQNQKEAALFELAALLGR------TPSQVPTSARACTKAPEVAGAL 295 A ++ A+ + Q + L L+G+ P +P + R +P + Sbjct: 235 AQTSVESARVDVESYTAQVDQDRNALVLLVGKDLPTALLPQGLPDT-RLAAASP--LATI 291 Query: 296 PIGEGTALLRRRPDLRQAERQLAADTARIGVAVADLYPRVTL----GASASYLRNDFLNG 351 P G + LL+RR D+ QAER L A A IG A A YP +TL G +++ L F G Sbjct: 292 PPGLPSDLLQRRADIVQAERDLRAANANIGAARAAFYPSITLTVNAGTASARLAGLFKGG 351 Query: 352 NRTWSFSLGPLISWSFPNTMVVRSRIVQAKAQAAASLASFDGVVLNALKESEQSL---SA 408 + +WSF P IS + ++ + A S+A ++ + A +E +L + Sbjct: 352 SGSWSFV--PQISLPIFDGGANQANLDIATVSRDISVAQYEKAIQTAFREVSDALAQRNT 409 Query: 409 YGAAMQQRQALIQARDRADKAFQLAGQRYRAGSISYLDVIVAQSSLVDARSQVAAADQRL 468 G +Q ++AL+QA +D+AF+L+ RY +G SYL V+ +Q +L A+ + Sbjct: 410 LGRQLQAQEALVQA---SDEAFRLSQARYHSGVDSYLTVLDSQRTLYSAQKNLIGTQLSR 466 Query: 469 NSAQVSVFKALGGGW 483 + V+ +K LGGGW Sbjct: 467 WTNLVTFYKTLGGGW 481 >gi|300309818|ref|YP_003773910.1| drug efflux lipoprotein [Herbaspirillum seropedicae SmR1] Length = 483 Score = 174 bits (440), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 143/478 (29%), Positives = 244/478 (51%), Gaps = 27/478 (5%) Query: 17 SPFISRRVALIVIVTAIANTGCASGPDYHLPASPRVAVGTFVSKPANTDTAAPLPA---H 73 SP + A +V+ + GC+ P Y P +P + S PA+ A L A Sbjct: 9 SPRLLHMCAALVMAGVLG--GCSLAPTYERPQAPVES-----SYPADAAGRAELQAVNLG 61 Query: 74 WWKLYNDPALDQLVQEALTANTNLRVTLANLDRARAVYKEARGGLYPSSNLSISPSYGRD 133 W + + D L QL+ AL N +LR + N++ ARA Y+ AR L P+ NLS + + R Sbjct: 62 WRQFFPDQRLQQLIAAALENNRDLRTAVLNIEEARAQYQIARADLLPNLNLSGNAARTRT 121 Query: 134 QTTWTGTGQAPTQLSYNGGIDI-SYEVDLFGRVKRDIEAARDDTEAVAAAHDAAKVVVVA 192 + + TGQ SY G+ + +YE+D FGRV+ +AA + A +A++ +VA Sbjct: 122 AASQSLTGQPTISNSYQVGLAVPAYELDFFGRVRNLKDAALASYLSTEEAQKSAQISLVA 181 Query: 193 DTTKAYLDACTYGESIEVAQSSIELAQRSLDLIRRQEHAGAASLLDVERAGVTLAQAQAA 252 +AYL +Y E +++A +++ Q +LDL +++ GA++ LD + A+ A Sbjct: 182 QVAQAYLAERSYAEQLKLADETLKSRQSNLDLAQKRLDVGASTALDFRLTQTLVESARVA 241 Query: 253 LPPLQNQKEAALFELAALLGRTPSQVPTSARACTKAPEVAGALPIGEGTALLRRRPDLRQ 312 L+ Q+ A L L+G+ ++P + + ++ +P G + LL RPD+R Sbjct: 242 KTQLERQRAQAENALTLLVGKKIGELPPAQLLSDE--KIVTDIPAGLPSDLLTNRPDIRS 299 Query: 313 AERQLAADTARIGVAVADLYPRVTL----GASASYLRNDFLNGNRTWSFSLGPLISWSFP 368 AE+ L A A IG A A +PR++L G+++S L F +G+ WSF GP +S Sbjct: 300 AEQSLLAANANIGAARAAFFPRISLTGNFGSASSTLGGLFESGSGAWSF--GPSLSLPIF 357 Query: 369 NTMVVRSRIVQAKAQAAASLASFDGVVLNALKESEQSLSAYGAAMQQ---RQALIQARDR 425 + + + A+ + ++ +++ + A +E +L A G+ +Q ++A + A+ Sbjct: 358 DFGRNSANLDLAEVRKNKAVVTYEKAIQTAFREVADALVARGSLDEQVKAQEAFLAAQ-- 415 Query: 426 ADKAFQLAGQRYRAGSISYLDVIVAQSSLVDARSQVAAADQ-RLNSAQVSVFKALGGG 482 + +L R++ G S LD + AQ L A+ + A Q RLN+A + ++KALGGG Sbjct: 416 -QERLKLTDLRFKNGIASSLDQLDAQRDLFSAQQALIQARQLRLNNA-IDLYKALGGG 471 >gi|300309656|ref|YP_003773748.1| outer membrane drug efflux protein [Herbaspirillum seropedicae SmR1] Length = 504 Score = 173 bits (438), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 145/472 (30%), Positives = 226/472 (47%), Gaps = 33/472 (6%) Query: 37 GCASGPDYHLP----------ASPRVAVGTFVSKPANTDTAAPLP-AHWWKLYNDPALDQ 85 GC+ P Y P A+P G S+ A + WWK++ D L+ Sbjct: 30 GCSVAPTYERPSVDTPAAFKEAAPATQTGENGSQWKTAQPAEDIARGEWWKIFGDEKLNA 89 Query: 86 LVQEALTANTNLRVTLANLDRARAVYKEARGGLYPSSNLSISPSYGRDQTTWTG----TG 141 L A AN +L+ A L +ARA+ ++AR G +P + + + R G Sbjct: 90 LEDTAQQANQDLKAAAARLGQARALTRDARAGYFPQVDAGVGATRQRPSPASQGLPADAD 149 Query: 142 QAPTQLSYNGGIDISYEVDLFGRVKRDIEAARDDTEAVAAAHDAAKVVVVADTTKAYLDA 201 P L Y +++SYEVDLFGRV ++AA D + A + + + AD + Y Sbjct: 150 TRPNTL-YRAQVNVSYEVDLFGRVASTVDAATADAQRSEALFHSVLLALQADVAQQYFLV 208 Query: 202 CTYGESIEVAQSSIELAQRSLDLIRRQEHAGAASLLDVERAGVTLAQAQAALPPLQNQKE 261 + + + +++L Q SL L++R+ G S +DV RA LA AQ+ + Q+ Sbjct: 209 RELDAAAALYRGTVDLRQESLRLVQRRFDEGDISEVDVARARAELASAQSEALGIARQRA 268 Query: 262 AALFELAALLGRTPSQVPTSARACTKAPEVAGALPIGEGTALLRRRPDLRQAERQLAADT 321 A LA LLGRTP++ + T+ +A +P G +ALL RRPD+ AER +AA Sbjct: 269 TAEHALAILLGRTPAEFSLPPQPLTR---LAVTVPPGLPSALLERRPDIAAAERAMAAAN 325 Query: 322 ARIGVAVADLYPRVTLGASASYLR---NDFLNGNRTWS---FSLGPLISWSFPNTMVVRS 375 AR+GVA + +P + L Y D N WS F LGPL+ + + Sbjct: 326 ARVGVAKSAFFPSLNLTGGLGYESAQLGDLFN----WSSRTFLLGPLVGTALSMPLFDGG 381 Query: 376 R----IVQAKAQAAASLASFDGVVLNALKESEQSLSAYGAAMQQRQALIQARDRADKAFQ 431 R + +A+A +AS+ G VLNA +E E +L+ QQ +A +A + +A + Sbjct: 382 RRQAGVDRARASYEEQVASYRGTVLNAFREVEDNLANLRILDQQNRAQDEAVAASARAAK 441 Query: 432 LAGQRYRAGSISYLDVIVAQSSLVDARSQVAAADQRLNSAQVSVFKALGGGW 483 L+ +YR G++SY VI A +++ + D + V++ +ALGGGW Sbjct: 442 LSHTQYREGAVSYFSVIDADRTVLQQQRASVTLDGERARSTVNLIRALGGGW 493 >gi|300312485|ref|YP_003776577.1| outer membrane protein [Herbaspirillum seropedicae SmR1] Length = 491 Score = 166 bits (421), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 142/457 (31%), Positives = 225/457 (49%), Gaps = 15/457 (3%) Query: 41 GPDYHLP--ASPRVAVG-TFVSKPANTDTAAPLPAHWWKLYNDPALDQLVQEALTANTNL 97 GPDY P A+P+ A G FV + T AP+ WW+ D L L++ AL AN NL Sbjct: 31 GPDYAGPPEAAPQAAHGGQFVRGGDSATTTAPI-NQWWQGLGDAQLTSLIERALQANPNL 89 Query: 98 RVTLANLDRARAVYKEARGGLYPSSNLSISPSYGR---------DQTTWTGTGQAPTQLS 148 + A L ++RA + PS S + R +G G + Sbjct: 90 GIARARLQQSRAGLALEQANAAPSVGASALAGHARLPPANLGALTGGASSGNGSPTSANL 149 Query: 149 YNGGIDISYEVDLFGRVKRDIEAARDDTEAVAAAHDAAKVVVVADTTKAYLDACTYGESI 208 Y+ G D S+E+DLFG +R ++AA +A A+ +V + A+ AY+ + + Sbjct: 150 YSLGFDASWEIDLFGGRRRAVQAATATADAAQASLADVQVSLAAEVANAYISLRDRQQRL 209 Query: 209 EVAQSSIELAQRSLDLIRRQEHAGAASLLDVERAGVTLAQAQAALPPLQNQKEAALFELA 268 + Q +++ ++ L L ++ G AS LD R L ++A L PLQ ++A L +LA Sbjct: 210 ALGQQAVQAQEQMLQLTGQRVERGTASSLDQLRIQNQLDASRADLVPLQADRDAYLNQLA 269 Query: 269 ALLGRTPSQVPTSARACTKAPEVAGALPIGEGTALLRRRPDLRQAERQLAADTARIGVAV 328 LLG+ P + A P + +G+ +LLRRRPD+R AER LAADTA+IG A Sbjct: 270 TLLGQEPGTLDGELAATVPVPLPPQQVAVGDPVSLLRRRPDVRAAERTLAADTAKIGQAE 329 Query: 329 ADLYPRVTLGASASYLRNDFLNGNRTWSF-SLG-PLISWSFPNTMVVRSRIVQAKAQAAA 386 A YP + L + R F +LG P++SW+F + ++R+ QA+ Sbjct: 330 AARYPSLKLFGVIGLGGTHPSDLTRLDDFAALGAPMLSWNFLDFGRAKARVTQAERVRDE 389 Query: 387 SLASFDGVVLNALKESEQSLSAYGAAMQQRQALIQARDRADKAFQLAGQRYRAGSISYLD 446 + + VL AL+++E +LS + + + + AD+A LA QRY+AG+ + ++ Sbjct: 390 AEMKYRQSVLEALRDAEDALSRFRYGRVSVATIARTKLSADRALALARQRYQAGTGTLIE 449 Query: 447 VIVAQSSLVDARSQVAAADQRLNSAQVSVFKALGGGW 483 V+ + A+ + A+ L + V + KALG GW Sbjct: 450 VLDTTRQQITAQQNLLQAEANLTRSFVGIQKALGLGW 486 >gi|300310854|ref|YP_003774946.1| NodT family protein [Herbaspirillum seropedicae SmR1] Length = 507 Score = 156 bits (395), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 145/479 (30%), Positives = 239/479 (49%), Gaps = 32/479 (6%) Query: 26 LIVIVTAIANTGCASGPDYHLPASPRVAVGTFVSKPA-NTDTAAP----LPAHWWKLYND 80 L ++V ++A C+ GPDY P++ G + K N A P WW+++ D Sbjct: 13 LAMLVASLALAACSVGPDY---VRPQMDTGPAIFKEGQNWKPAQPRDLVADGKWWEMFGD 69 Query: 81 PALDQLVQEALTANTNLRVTLANLDRARAVYKEARGGLYPS-------SNLSISPSYGRD 133 P L+ LV + +N NL + AN A A+ + +R P+ S S + Sbjct: 70 PQLNALVAQVDISNQNLALAEANFRSAVALVQSSRSAYSPTLSASAGASRGSSGSAGASS 129 Query: 134 QTTWTGTGQAPTQLSYNGGIDISYEVDLFGRVKRDIEAARDDTEAVAAAHDAAKVVVVAD 193 +G+ + SY + ++E D++G+V+RD+E+++ +A AA AA++ A Sbjct: 130 SNAASGSSAGSVRNSYTFSLTAAWEADIWGKVRRDVESSQASAQASAADLAAARLSAQAQ 189 Query: 194 TTKAYLDACTYGESIEVAQSSIELAQRSLDLIRRQEHAGAASLLDVERAGVTLAQAQAAL 253 + YL ++ + +++ +RSL + + Q AG + DV +A L AQA+ Sbjct: 190 VAQNYLQLRVLDAQQQLLEETVQAYERSLQVAQNQYAAGMVAKSDVIQAQTQLKSAQAS- 248 Query: 254 PPLQNQKEAALFE--LAALLGRTPSQVPTSARACTKAPEVAGALPIGEG--TALLRRRPD 309 L N A E +A L+G+TP+Q A +AP A A P+ +G + LL RRPD Sbjct: 249 -ALDNGVTRAQVEHAIALLVGKTPAQF-----ALPRAPLAAVAPPVPQGVPSMLLERRPD 302 Query: 310 LRQAERQLAADTARIGVAVADLYPRVTLGASASYLRNDFLNG----NRTWSFSLGPLISW 365 + AER++A+ A+IGVA A +P +TL AS Y + F + R W SLGP ++ Sbjct: 303 VAAAERRVASANAKIGVAKAAYFPSLTLSASGGYQSSTFADWFTLPGRVW--SLGPQLAQ 360 Query: 366 SFPNTMVVRSRIVQAKAQAAASLASFDGVVLNALKESEQSLSAYGAAMQQRQALIQARDR 425 + + + QA A ++A++ VL A +E E +L+A Q+ +A Sbjct: 361 TIFDGGARAAATDQAIATYDGTVATYKQTVLTAFQEVEDNLAALRILEQEAAVQGEALQA 420 Query: 426 ADKAFQLAGQRYRAGSISYLDVIVAQSSLVDARSQVAAADQRLNSAQVSVFKALGGGWE 484 A +A L +Y+AG++SY++VI AQ++ + A R +A V + KALGGGW+ Sbjct: 421 ARQAVTLVNNQYKAGTVSYVNVITAQATALSAELSSLNILNRRMAASVLLAKALGGGWD 479 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 0.316 0.128 0.360 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: 1,276,348 Number of extensions: 49296 Number of successful extensions: 335 Number of sequences better than 1.0e-08: 17 Number of HSP's gapped: 266 Number of HSP's successfully gapped: 17 Length of query: 484 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 395 Effective length of database: 1,198,455 Effective search space: 473389725 Effective search space used: 473389725 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 (21.6 bits) S2: 132 (55.5 bits)