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= 0001.2681.p (503 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310854|ref|YP_003774946.1| NodT family protein [Herbaspiri... 366 e-102 gi|300311796|ref|YP_003775888.1| outer membrane channel lipoprot... 341 6e-95 gi|300309656|ref|YP_003773748.1| outer membrane drug efflux prot... 298 8e-82 gi|300313898|ref|YP_003777990.1| outer membrane drug efflux lipo... 292 5e-80 gi|300312742|ref|YP_003776834.1| outer membrane efflux protein [... 188 7e-49 >gi|300310854|ref|YP_003774946.1| NodT family protein [Herbaspirillum seropedicae SmR1] Length = 507 Score = 366 bits (939), Expect = e-102, Method: Compositional matrix adjust. Identities = 223/478 (46%), Positives = 312/478 (65%), Gaps = 8/478 (1%) Query: 8 LRLRPMAMACLLTL-LAGCAVGPDYHRPTVDM-PIAYKEAAGWKQAAPSDDQPRSAWWQA 65 +L+P+ + +L LA C+VGPDY RP +D P +KE WK A P D WW+ Sbjct: 7 FKLKPLLAMLVASLALAACSVGPDYVRPQMDTGPAIFKEGQNWKPAQPRDLVADGKWWEM 66 Query: 66 FGDEQLDALMRQVEISNQNVAQYAAQYAQAQAVVRQADASFSPTVTATASGTRSGNASGT 125 FGD QL+AL+ QV+ISNQN+A A + A A+V+ + +++SPT++A+A +R + Sbjct: 67 FGDPQLNALVAQVDISNQNLALAEANFRSAVALVQSSRSAYSPTLSASAGASRG-----S 121 Query: 126 TSSKTTTSTTSTTSTTRSGVSNEVSASGSLSWELDLWGKLRRTREEDVASAQASQADLAN 185 + S +S+ + + ++ V N + S + +WE D+WGK+RR E ASAQAS ADLA Sbjct: 122 SGSAGASSSNAASGSSAGSVRNSYTFSLTAAWEADIWGKVRRDVESSQASAQASAADLAA 181 Query: 186 ALLSAQSSLAQDYFSLRILDERIALYEKTVAAYTRYASIVENQYTEAQSSRADVAQARNQ 245 A LSAQ+ +AQ+Y LR+LD + L E+TV AY R + +NQY +++DV QA+ Q Sbjct: 182 ARLSAQAQVAQNYLQLRVLDAQQQLLEETVQAYERSLQVAQNQYAAGMVAKSDVIQAQTQ 241 Query: 246 LESAKASMHDLAWQRAQYEHAIAILLGKAPAAFSLPAVIGGPMQVPVTPVGLASTLLERR 305 L+SA+AS D RAQ EHAIA+L+GK PA F+LP + PV P G+ S LLERR Sbjct: 242 LKSAQASALDNGVTRAQVEHAIALLVGKTPAQFALPRAPLAAVAPPV-PQGVPSMLLERR 300 Query: 306 PDIASSERSMAKANAAIGVAIAAYYPDLTLSASAGFQNSSASKLFTAPYRFWSLGPSFSQ 365 PD+A++ER +A ANA IGVA AAY+P LTLSAS G+Q+S+ + FT P R WSLGP +Q Sbjct: 301 PDVAAAERRVASANAKIGVAKAAYFPSLTLSASGGYQSSTFADWFTLPGRVWSLGPQLAQ 360 Query: 366 TLFDGGSIKAQVEQARASYDAAVASYRQTVLTALGQVEDYLAKMRIMESEMQAQQAATDA 425 T+FDGG+ A +QA A+YD VA+Y+QTVLTA +VED LA +RI+E E Q A A Sbjct: 361 TIFDGGARAAATDQAIATYDGTVATYKQTVLTAFQEVEDNLAALRILEQEAAVQGEALQA 420 Query: 426 AIVSARVTRDQYEAGKINYLDVATTEATSLSAQQSLWELKGTQLTTSVQLIVALGGGW 483 A + + +QY+AG ++Y++V T +AT+LSA+ S + ++ SV L ALGGGW Sbjct: 421 ARQAVTLVNNQYKAGTVSYVNVITAQATALSAELSSLNILNRRMAASVLLAKALGGGW 478 >gi|300311796|ref|YP_003775888.1| outer membrane channel lipoprotein [Herbaspirillum seropedicae SmR1] Length = 510 Score = 341 bits (875), Expect = 6e-95, Method: Compositional matrix adjust. Identities = 234/489 (47%), Positives = 297/489 (60%), Gaps = 34/489 (6%) Query: 13 MAMACLLTLLAGCAVGPDYHRPTVDMPIAYKEAAGWKQAAPSDDQPRSAWWQAFGDEQLD 72 M L LL GCAVGPDY RP +D+P AYKE WK AAP WW+A+GD L+ Sbjct: 35 MTALVLAALLGGCAVGPDYARPALDLPQAYKETGPWKLAAPRQIDDHQPWWEAYGDPVLN 94 Query: 73 ALMRQVEISNQNVAQYAAQYAQAQAVVRQADASFSPTVTATASGTRSGNASGTTSSKTTT 132 ALM Q +NQ + Q AAQY QAQA A AS PT+ A A +R+ Sbjct: 95 ALMDQANAANQTIQQAAAQYRQAQATAEVARASLWPTIGAQAGASRA------------- 141 Query: 133 STTSTTSTTRSGVSNEVSASGSLSWELDLWGKLRRTREEDVASAQASQADLANALLSAQS 192 T+T R G N S + SWE DLWG++RR E A+AQAS A LA A LS Q+ Sbjct: 142 -QTNTNGVQRLG--NSYSVGLNASWEADLWGRIRRGAEAGEANAQASAASLAAARLSIQA 198 Query: 193 SLAQDYFSLRILDERIALYEKTVAAYTRYASIVENQYTEAQSSRADVAQARNQLESAKAS 252 +LAQDY LR+ D + LY +TVAAYTR + +QY + R+DVAQA QL +A+A Sbjct: 199 TLAQDYLQLRVTDLQKDLYRRTVAAYTRSLQLSTHQYEAGTALRSDVAQAETQLRAAQAQ 258 Query: 253 MHDLAWQRAQYEHAIAILLGKAPAAFSLPAV----------------IGGPMQVPVTPVG 296 + DL R Q EHAIA+L+GKAPA FSLPA+ + G + P PVG Sbjct: 259 LIDLDDTRNQLEHAIAMLIGKAPAQFSLPALPPAAASDSAIDANAARLQGSL--PQIPVG 316 Query: 297 LASTLLERRPDIASSERSMAKANAAIGVAIAAYYPDLTLSASAGFQNSSASKLFTAPYRF 356 L S LLERRPDIA++ER A ANA IGVA AAY+P LTLSAS G+ + + + LF P R Sbjct: 317 LPSELLERRPDIANAERLAAAANANIGVARAAYFPTLTLSASGGYNSLAFANLFNTPSRV 376 Query: 357 WSLGPSFSQTLFDGGSIKAQVEQARASYDAAVASYRQTVLTALGQVEDYLAKMRIMESEM 416 WSLG + +++LFDGG+ A+ + A A+YDAAVA Y+QTVL L +VED L+ +R+++ E Sbjct: 377 WSLGSALAESLFDGGARSARNDAAVAAYDAAVAQYKQTVLGGLQEVEDKLSTLRVLDQES 436 Query: 417 QAQQAATDAAIVSARVTRDQYEAGKINYLDVATTEATSLSAQQSLWELKGTQLTTSVQLI 476 Q A +A ++ R+ QYEAG + YL V TT+A SL+ Q++ L G QL SV LI Sbjct: 437 TVQAQAVQSAQLAERLAMRQYEAGTVTYLSVVTTQAASLTNQRNAVTLLGRQLVASVALI 496 Query: 477 VALGGGWHA 485 A GGGW A Sbjct: 497 KATGGGWQA 505 >gi|300309656|ref|YP_003773748.1| outer membrane drug efflux protein [Herbaspirillum seropedicae SmR1] Length = 504 Score = 298 bits (763), Expect = 8e-82, Method: Compositional matrix adjust. Identities = 196/484 (40%), Positives = 280/484 (57%), Gaps = 24/484 (4%) Query: 24 GCAVGPDYHRPTVDMPIAYKEAAG----------WKQAAPSDDQPRSAWWQAFGDEQLDA 73 GC+V P Y RP+VD P A+KEAA WK A P++D R WW+ FGDE+L+A Sbjct: 30 GCSVAPTYERPSVDTPAAFKEAAPATQTGENGSQWKTAQPAEDIARGEWWKIFGDEKLNA 89 Query: 74 LMRQVEISNQNVAQYAAQYAQAQAVVRQADASFSPTVTATASGTRSGNASGTTSSKTTTS 133 L + +NQ++ AA+ QA+A+ R A A + P V A TR S + + Sbjct: 90 LEDTAQQANQDLKAAAARLGQARALTRDARAGYFPQVDAGVGATRQ-RPSPASQGLPADA 148 Query: 134 TTSTTSTTRSGVSNEVSASGSLSWELDLWGKLRRTREEDVASAQASQADLANALLSAQSS 193 T + R+ V+ +S+E+DL+G++ T + A AQ S+A + LL+ Q+ Sbjct: 149 DTRPNTLYRAQVN--------VSYEVDLFGRVASTVDAATADAQRSEALFHSVLLALQAD 200 Query: 194 LAQDYFSLRILDERIALYEKTVAAYTRYASIVENQYTEAQSSRADVAQARNQLESAKASM 253 +AQ YF +R LD ALY TV +V+ ++ E S DVA+AR +L SA++ Sbjct: 201 VAQQYFLVRELDAAAALYRGTVDLRQESLRLVQRRFDEGDISEVDVARARAELASAQSEA 260 Query: 254 HDLAWQRAQYEHAIAILLGKAPAAFSLPAVIGGPMQVPVTPVGLASTLLERRPDIASSER 313 +A QRA EHA+AILLG+ PA FSLP + V V P GL S LLERRPDIA++ER Sbjct: 261 LGIARQRATAEHALAILLGRTPAEFSLPPQPLTRLAVTVPP-GLPSALLERRPDIAAAER 319 Query: 314 SMAKANAAIGVAIAAYYPDLTLSASAGFQNSSASKLFTAPYRFWSLGP----SFSQTLFD 369 +MA ANA +GVA +A++P L L+ G++++ LF R + LGP + S LFD Sbjct: 320 AMAAANARVGVAKSAFFPSLNLTGGLGYESAQLGDLFNWSSRTFLLGPLVGTALSMPLFD 379 Query: 370 GGSIKAQVEQARASYDAAVASYRQTVLTALGQVEDYLAKMRIMESEMQAQQAATDAAIVS 429 GG +A V++ARASY+ VASYR TVL A +VED LA +RI++ + +AQ A A+ + Sbjct: 380 GGRRQAGVDRARASYEEQVASYRGTVLNAFREVEDNLANLRILDQQNRAQDEAVAASARA 439 Query: 430 ARVTRDQYEAGKINYLDVATTEATSLSAQQSLWELKGTQLTTSVQLIVALGGGWHADDGE 489 A+++ QY G ++Y V + T L Q++ L G + ++V LI ALGGGW + Sbjct: 440 AKLSHTQYREGAVSYFSVIDADRTVLQQQRASVTLDGERARSTVNLIRALGGGWGVPAEQ 499 Query: 490 ASSA 493 SSA Sbjct: 500 LSSA 503 >gi|300313898|ref|YP_003777990.1| outer membrane drug efflux lipoprotein [Herbaspirillum seropedicae SmR1] Length = 486 Score = 292 bits (747), Expect = 5e-80, Method: Compositional matrix adjust. Identities = 190/471 (40%), Positives = 274/471 (58%), Gaps = 10/471 (2%) Query: 24 GCAVGPDYHRPTVDMPIAYKEAAGWKQAAPSDDQPRSAWWQAFGDEQLDALMRQVEISNQ 83 GCA GPDY RP VDMP A+ A W+ P+D PR WW+ FGD QL+AL +Q NQ Sbjct: 18 GCASGPDYTRPQVDMPAAWTSEAPWRSMQPADATPRGPWWERFGDAQLNALQQQALAGNQ 77 Query: 84 NVAQYAAQYAQAQAVVRQADASFSPTVTATASGTRSGNASGTTSSKTTTSTTSTTSTTRS 143 +A A+ AQA+A + A+ +P V A RS ++++ T+ S +T Sbjct: 78 TLAIATARLAQARAQLNVTGAAQTPQVNLNARAARSR----ISANRPLTNYNSPNFST-- 131 Query: 144 GVSNEVSASGSLSWELDLWGKLRRTREEDVASAQASQADLANALLSAQSSLAQDYFSLRI 203 V N+ + S+S+E+D +G+++R+ E A+A+ S ADL N L + LA +YF+LR Sbjct: 132 -VQNDFALGASVSYEVDFFGRVQRSVEAAGAAAEQSAADLENTRLLLTAELATNYFNLRE 190 Query: 204 LDERIALYEKTVAAYTRYASIVENQYTEAQSSRADVAQARNQLESAKASMHDLAWQRAQY 263 LD + + + +A + + ++ +S D+AQ + L+S + L QRAQY Sbjct: 191 LDVELDVVRRAIALQRQALELATARHDLGATSGLDMAQQQALLDSTLTQIDLLGRQRAQY 250 Query: 264 EHAIAILLGKAPAAFSL-PAVIGGPMQVPVTPVGLASTLLERRPDIASSERSMAKANAAI 322 EHAIA L G AFS+ P++ P+ P PVG+ S +LERRPDIA++ER+MA ANA I Sbjct: 251 EHAIATLTGTPAPAFSITPSLT--PITPPAIPVGVPSDVLERRPDIAAAERAMAAANAQI 308 Query: 323 GVAIAAYYPDLTLSASAGFQNSSASKLFTAPYRFWSLGPSFSQTLFDGGSIKAQVEQARA 382 GVA AAYYP L S G + + + LF AP WSLG S SQ+LFDGG ++A V+ ++A Sbjct: 309 GVASAAYYPSFMLQPSYGVDSRNWATLFNAPSLLWSLGVSASQSLFDGGRLRAGVDFSQA 368 Query: 383 SYDAAVASYRQTVLTALGQVEDYLAKMRIMESEMQAQQAATDAAIVSARVTRDQYEAGKI 442 Y+A VASYR+TVLTA+ +VED + + +E Q A +A + +YE G Sbjct: 369 GYEATVASYRRTVLTAMQEVEDGITGLAALERAYAQSQLAIASARRVLEIASSRYEGGAT 428 Query: 443 NYLDVATTEATSLSAQQSLWELKGTQLTTSVQLIVALGGGWHADDGEASSA 493 YLDV T + + L++++ +L G +L SV LI ALGG W + A +A Sbjct: 429 PYLDVITAQQSLLNSERQAAQLMGQRLLVSVFLIKALGGDWQSRTPPAEAA 479 >gi|300312742|ref|YP_003776834.1| outer membrane efflux protein [Herbaspirillum seropedicae SmR1] Length = 492 Score = 188 bits (478), Expect = 7e-49, Method: Compositional matrix adjust. Identities = 147/464 (31%), Positives = 223/464 (48%), Gaps = 20/464 (4%) Query: 23 AGCAVGPDYHRPTVDMPIAYKEAAGWKQAAPSDDQ--PRSAWWQAFGDEQLDALMRQVEI 80 GCA+ P ++M + K G +Q P + WW+ FG +L L+ Q + Sbjct: 33 GGCAMREVQTDPILEMQVPDKWGGGASADVAHAEQLWPDTDWWKQFGSNELSELVEQGQR 92 Query: 81 SNQNVAQYAAQYAQAQAVVRQADASFSPTVTATASGTRSGNASGTTSSKTTTSTTSTTST 140 +N +A ++ QA+A R A A P+ A R SG T + T Sbjct: 93 NNYEIAAAYSRVKQAEAQARIAGAPLLPSAGINAGAAREIPISGGTPTNTA--------- 143 Query: 141 TRSGVSNEVSASGSLSWELDLWGKLRRTREEDVASAQASQADLANALLSAQSSLAQDYFS 200 +AS +S+E+D WGK R E A+ +A++ D L+ S + Y Sbjct: 144 ---------NASLQVSYEIDFWGKNRAGVEAAEATLRANRYDRETVALTVTSGIVSTYLQ 194 Query: 201 LRILDERIALYEKTVAAYTRYASIVENQYTEAQSSRADVAQARNQLESAKASMHDLAWQR 260 + L +R+A+ + V R +VE Q +S D+A+ R+ L + + + DL Q Sbjct: 195 VLSLRDRLAIARQNVQNAERVLRLVEAQSRAGSASPLDLARQRSALANQRQLIPDLQQQE 254 Query: 261 AQYEHAIAILLGKAPAAFSLPAVIGGPMQVPVTPVGLASTLLERRPDIASSERSMAKANA 320 + A+AILLG+ P F + +Q+P GL S LL RRPDI +E S+A ANA Sbjct: 255 QDAQTALAILLGRPPQNFKVEEKGLARIQMPRISAGLPSELLTRRPDIRRAEASLAAANA 314 Query: 321 AIGVAIAAYYPDLTLSASAGFQNSSASKLFTAPYRFWSLGPSFSQTLFDGGSIKAQVEQA 380 + VA AA +P +TL+ S G Q+S+ LF P F +LG +FDGG ++ Q + A Sbjct: 315 NVAVARAALFPSITLTGSTGAQSSALLSLFDGPNLFANLGAGLIAPIFDGGKLRGQRDLA 374 Query: 381 RASYDAAVASYRQTVLTALGQVEDYLAKMRIMESEMQAQQAATDAAIVSARVTRDQYEAG 440 A + V YRQ V+T+L +VE L +R +E + + D A + + +Y AG Sbjct: 375 IAQKEELVQVYRQRVITSLSEVEKALGAIRSLEERYRLKVGEVDQARFAFELAEIRYRAG 434 Query: 441 KINYLDVATTEATSLSAQQSLWELKGTQLTTSVQLIVALGGGWH 484 + L V T+ T AQ L ++K +L +V L ALGGGW Sbjct: 435 AEDLLVVLDTQRTLSEAQNQLGQIKLQRLQATVSLYKALGGGWQ 478 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 0.312 0.122 0.339 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: 1,280,397 Number of extensions: 44359 Number of successful extensions: 270 Number of sequences better than 1.0e-08: 18 Number of HSP's gapped: 209 Number of HSP's successfully gapped: 18 Length of query: 503 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 414 Effective length of database: 1,198,455 Effective search space: 496160370 Effective search space used: 496160370 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 (21.9 bits) S2: 133 (55.8 bits)