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= 0001.2129.p (517 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311796|ref|YP_003775888.1| outer membrane channel lipoprot... 758 0.0 gi|300310854|ref|YP_003774946.1| NodT family protein [Herbaspiri... 417 e-118 gi|300309656|ref|YP_003773748.1| outer membrane drug efflux prot... 293 3e-80 gi|300313898|ref|YP_003777990.1| outer membrane drug efflux lipo... 292 4e-80 gi|300310691|ref|YP_003774783.1| outer membrane drug efflux lipo... 201 1e-52 >gi|300311796|ref|YP_003775888.1| outer membrane channel lipoprotein [Herbaspirillum seropedicae SmR1] Length = 510 Score = 758 bits (1958), Expect = 0.0, Method: Compositional matrix adjust. Identities = 441/507 (86%), Positives = 469/507 (92%) Query: 1 MVVPFRRVAASVSSRHFTHPPHKSPFRAKKGMTVLALAALLGGCAVGPDYVRPAMDLPQA 60 MVVPFRRVAASVSSRHFTH PFRA KGMT L LAALLGGCAVGPDY RPA+DLPQA Sbjct: 4 MVVPFRRVAASVSSRHFTHSTQYLPFRATKGMTALVLAALLGGCAVGPDYARPALDLPQA 63 Query: 61 YKEQGPWKVAAPRPVDDRQHWWEAYGDPILNDLIAQANAANQTIQQAAAQYRQAQATAAV 120 YKE GPWK+AAPR +DD Q WWEAYGDP+LN L+ QANAANQTIQQAAAQYRQAQATA V Sbjct: 64 YKETGPWKLAAPRQIDDHQPWWEAYGDPVLNALMDQANAANQTIQQAAAQYRQAQATAEV 123 Query: 121 ARASLWPTVGAQTGATRAQTNTNGVQRLGDNYTVGLNASWEADIWGRIRRGAEAGDANAQ 180 ARASLWPT+GAQ GA+RAQTNTNGVQRLG++Y+VGLNASWEAD+WGRIRRGAEAG+ANAQ Sbjct: 124 ARASLWPTIGAQAGASRAQTNTNGVQRLGNSYSVGLNASWEADLWGRIRRGAEAGEANAQ 183 Query: 181 ASADSLAAARLTIQATLAQDYLQLRVTDLQKDLYRRTVAAYTRSLELTTHQYQAGTALRS 240 ASA SLAAARL+IQATLAQDYLQLRVTDLQKDLYRRTVAAYTRSL+L+THQY+AGTALRS Sbjct: 184 ASAASLAAARLSIQATLAQDYLQLRVTDLQKDLYRRTVAAYTRSLQLSTHQYEAGTALRS 243 Query: 241 DVAQAETQLRSAQAQWIDLDATRNQLEHAIAMLIGKAPAAFSLAPLTPADANDSAIDANA 300 DVAQAETQLR+AQAQ IDLD TRNQLEHAIAMLIGKAPA FSL L PA A+DSAIDANA Sbjct: 244 DVAQAETQLRAAQAQLIDLDDTRNQLEHAIAMLIGKAPAQFSLPALPPAAASDSAIDANA 303 Query: 301 QRLQASLPQIPAGLPSDLLERRPDIANAERLAAAANANIGVARAAYFPTLTLSASGGYNS 360 RLQ SLPQIP GLPS+LLERRPDIANAERLAAAANANIGVARAAYFPTLTLSASGGYNS Sbjct: 304 ARLQGSLPQIPVGLPSELLERRPDIANAERLAAAANANIGVARAAYFPTLTLSASGGYNS 363 Query: 361 LAFGQLFDTPSRVWSLGAALAETIFDGGARSARNDAAVAAYDAAVAQYKQTVLAGLQDVE 420 LAF LF+TPSRVWSLG+ALAE++FDGGARSARNDAAVAAYDAAVAQYKQTVL GLQ+VE Sbjct: 364 LAFANLFNTPSRVWSLGSALAESLFDGGARSARNDAAVAAYDAAVAQYKQTVLGGLQEVE 423 Query: 421 DNLSTLRVLDQESAVQAQAVKSAQLAERLAMSQYQAGTVTYLSVVTTQATSLTNQRSAVT 480 D LSTLRVLDQES VQAQAV+SAQLAERLAM QY+AGTVTYLSVVTTQA SLTNQR+AVT Sbjct: 424 DKLSTLRVLDQESTVQAQAVQSAQLAERLAMRQYEAGTVTYLSVVTTQAASLTNQRNAVT 483 Query: 481 LLGRQLVASVALIKATGGGWQVGQPDP 507 LLGRQLVASVALIKATGGGWQ G+ P Sbjct: 484 LLGRQLVASVALIKATGGGWQAGRDAP 510 >gi|300310854|ref|YP_003774946.1| NodT family protein [Herbaspirillum seropedicae SmR1] Length = 507 Score = 417 bits (1073), Expect = e-118, Method: Compositional matrix adjust. Identities = 247/487 (50%), Positives = 323/487 (66%), Gaps = 27/487 (5%) Query: 26 FRAKKGMTVLALAALLGGCAVGPDYVRPAMDL-PQAYKEQGPWKVAAPRPVDDRQHWWEA 84 F+ K + +L + L C+VGPDYVRP MD P +KE WK A PR + WWE Sbjct: 7 FKLKPLLAMLVASLALAACSVGPDYVRPQMDTGPAIFKEGQNWKPAQPRDLVADGKWWEM 66 Query: 85 YGDPILNDLIAQANAANQTIQQAAAQYRQAQATAAVARASLWPTVGAQTGATRAQTNTNG 144 +GDP LN L+AQ + +NQ + A A +R A A +R++ PT+ A GA+R + + G Sbjct: 67 FGDPQLNALVAQVDISNQNLALAEANFRSAVALVQSSRSAYSPTLSASAGASRGSSGSAG 126 Query: 145 VQR-----------LGDNYTVGLNASWEADIWGRIRRGAEAGDANAQASADSLAAARLTI 193 + ++YT L A+WEADIWG++RR E+ A+AQASA LAAARL+ Sbjct: 127 ASSSNAASGSSAGSVRNSYTFSLTAAWEADIWGKVRRDVESSQASAQASAADLAAARLSA 186 Query: 194 QATLAQDYLQLRVTDLQKDLYRRTVAAYTRSLELTTHQYQAGTALRSDVAQAETQLRSAQ 253 QA +AQ+YLQLRV D Q+ L TV AY RSL++ +QY AG +SDV QA+TQL+SAQ Sbjct: 187 QAQVAQNYLQLRVLDAQQQLLEETVQAYERSLQVAQNQYAAGMVAKSDVIQAQTQLKSAQ 246 Query: 254 AQWIDLDATRNQLEHAIAMLIGKAPAAFSLAPLTPADANDSAIDANAQRLQASLPQIPAG 313 A +D TR Q+EHAIA+L+GK PA F+L P P L A P +P G Sbjct: 247 ASALDNGVTRAQVEHAIALLVGKTPAQFAL-PRAP--------------LAAVAPPVPQG 291 Query: 314 LPSDLLERRPDIANAERLAAAANANIGVARAAYFPTLTLSASGGYNSLAFGQLFDTPSRV 373 +PS LLERRPD+A AER A+ANA IGVA+AAYFP+LTLSASGGY S F F P RV Sbjct: 292 VPSMLLERRPDVAAAERRVASANAKIGVAKAAYFPSLTLSASGGYQSSTFADWFTLPGRV 351 Query: 374 WSLGAALAETIFDGGARSARNDAAVAAYDAAVAQYKQTVLAGLQDVEDNLSTLRVLDQES 433 WSLG LA+TIFDGGAR+A D A+A YD VA YKQTVL Q+VEDNL+ LR+L+QE+ Sbjct: 352 WSLGPQLAQTIFDGGARAAATDQAIATYDGTVATYKQTVLTAFQEVEDNLAALRILEQEA 411 Query: 434 AVQAQAVKSAQLAERLAMSQYQAGTVTYLSVVTTQATSLTNQRSAVTLLGRQLVASVALI 493 AVQ +A+++A+ A L +QY+AGTV+Y++V+T QAT+L+ + S++ +L R++ ASV L Sbjct: 412 AVQGEALQAARQAVTLVNNQYKAGTVSYVNVITAQATALSAELSSLNILNRRMAASVLLA 471 Query: 494 KATGGGW 500 KA GGGW Sbjct: 472 KALGGGW 478 >gi|300309656|ref|YP_003773748.1| outer membrane drug efflux protein [Herbaspirillum seropedicae SmR1] Length = 504 Score = 293 bits (749), Expect = 3e-80, Method: Compositional matrix adjust. Identities = 196/481 (40%), Positives = 269/481 (55%), Gaps = 36/481 (7%) Query: 43 GCAVGPDYVRPAMDLPQAYKEQGP----------WKVAAPRPVDDRQHWWEAYGDPILND 92 GC+V P Y RP++D P A+KE P WK A P R WW+ +GD LN Sbjct: 30 GCSVAPTYERPSVDTPAAFKEAAPATQTGENGSQWKTAQPAEDIARGEWWKIFGDEKLNA 89 Query: 93 LIAQANAANQTIQQAAAQYRQAQATAAVARASLWPTVGAQTGATRAQTN--TNGVQRLGD 150 L A ANQ ++ AAA+ QA+A ARA +P V A GATR + + + G+ D Sbjct: 90 LEDTAQQANQDLKAAAARLGQARALTRDARAGYFPQVDAGVGATRQRPSPASQGLPADAD 149 Query: 151 N-----YTVGLNASWEADIWGRIRRGAEAGDANAQASADSLAAARLTIQATLAQDYLQLR 205 Y +N S+E D++GR+ +A A+AQ S + L +QA +AQ Y +R Sbjct: 150 TRPNTLYRAQVNVSYEVDLFGRVASTVDAATADAQRSEALFHSVLLALQADVAQQYFLVR 209 Query: 206 VTDLQKDLYRRTVAAYTRSLELTTHQYQAGTALRSDVAQAETQLRSAQAQWIDLDATRNQ 265 D LYR TV SL L ++ G DVA+A +L SAQ++ + + R Sbjct: 210 ELDAAAALYRGTVDLRQESLRLVQRRFDEGDISEVDVARARAELASAQSEALGIARQRAT 269 Query: 266 LEHAIAMLIGKAPAAFSLAPLTPADANDSAIDANAQRLQASLPQIPAGLPSDLLERRPDI 325 EHA+A+L+G+ PA FSL P Q L +P GLPS LLERRPDI Sbjct: 270 AEHALAILLGRTPAEFSLPP---------------QPLTRLAVTVPPGLPSALLERRPDI 314 Query: 326 ANAERLAAAANANIGVARAAYFPTLTLSASGGYNSLAFGQLFDTPSRVWSLG----AALA 381 A AER AAANA +GVA++A+FP+L L+ GY S G LF+ SR + LG AL+ Sbjct: 315 AAAERAMAAANARVGVAKSAFFPSLNLTGGLGYESAQLGDLFNWSSRTFLLGPLVGTALS 374 Query: 382 ETIFDGGARSARNDAAVAAYDAAVAQYKQTVLAGLQDVEDNLSTLRVLDQESAVQAQAVK 441 +FDGG R A D A A+Y+ VA Y+ TVL ++VEDNL+ LR+LDQ++ Q +AV Sbjct: 375 MPLFDGGRRQAGVDRARASYEEQVASYRGTVLNAFREVEDNLANLRILDQQNRAQDEAVA 434 Query: 442 SAQLAERLAMSQYQAGTVTYLSVVTTQATSLTNQRSAVTLLGRQLVASVALIKATGGGWQ 501 ++ A +L+ +QY+ G V+Y SV+ T L QR++VTL G + ++V LI+A GGGW Sbjct: 435 ASARAAKLSHTQYREGAVSYFSVIDADRTVLQQQRASVTLDGERARSTVNLIRALGGGWG 494 Query: 502 V 502 V Sbjct: 495 V 495 >gi|300313898|ref|YP_003777990.1| outer membrane drug efflux lipoprotein [Herbaspirillum seropedicae SmR1] Length = 486 Score = 292 bits (748), Expect = 4e-80, Method: Compositional matrix adjust. Identities = 193/473 (40%), Positives = 266/473 (56%), Gaps = 26/473 (5%) Query: 43 GCAVGPDYVRPAMDLPQAYKEQGPWKVAAPRPVDDRQHWWEAYGDPILNDLIAQANAANQ 102 GCA GPDY RP +D+P A+ + PW+ P R WWE +GD LN L QA A NQ Sbjct: 18 GCASGPDYTRPQVDMPAAWTSEAPWRSMQPADATPRGPWWERFGDAQLNALQQQALAGNQ 77 Query: 103 TIQQAAAQYRQAQATAAVARASLWPTVG-------AQTGATRAQTNTN--GVQRLGDNYT 153 T+ A A+ QA+A V A+ P V ++ A R TN N + +++ Sbjct: 78 TLAIATARLAQARAQLNVTGAAQTPQVNLNARAARSRISANRPLTNYNSPNFSTVQNDFA 137 Query: 154 VGLNASWEADIWGRIRRGAEAGDANAQASADSLAAARLTIQATLAQDYLQLRVTDLQKDL 213 +G + S+E D +GR++R EA A A+ SA L RL + A LA +Y LR D++ D+ Sbjct: 138 LGASVSYEVDFFGRVQRSVEAAGAAAEQSAADLENTRLLLTAELATNYFNLRELDVELDV 197 Query: 214 YRRTVAAYTRSLELTTHQYQAGTALRSDVAQAETQLRSAQAQWIDLDATRNQLEHAIAML 273 RR +A ++LEL T ++ G D+AQ + L S Q L R Q EHAIA L Sbjct: 198 VRRAIALQRQALELATARHDLGATSGLDMAQQQALLDSTLTQIDLLGRQRAQYEHAIATL 257 Query: 274 IGKAPAAFSLAP-LTPADANDSAIDANAQRLQASLPQIPAGLPSDLLERRPDIANAERLA 332 G AFS+ P LTP + P IP G+PSD+LERRPDIA AER Sbjct: 258 TGTPAPAFSITPSLTPI----------------TPPAIPVGVPSDVLERRPDIAAAERAM 301 Query: 333 AAANANIGVARAAYFPTLTLSASGGYNSLAFGQLFDTPSRVWSLGAALAETIFDGGARSA 392 AAANA IGVA AAY+P+ L S G +S + LF+ PS +WSLG + ++++FDGG A Sbjct: 302 AAANAQIGVASAAYYPSFMLQPSYGVDSRNWATLFNAPSLLWSLGVSASQSLFDGGRLRA 361 Query: 393 RNDAAVAAYDAAVAQYKQTVLAGLQDVEDNLSTLRVLDQESAVQAQAVKSAQLAERLAMS 452 D + A Y+A VA Y++TVL +Q+VED ++ L L++ A A+ SA+ +A S Sbjct: 362 GVDFSQAGYEATVASYRRTVLTAMQEVEDGITGLAALERAYAQSQLAIASARRVLEIASS 421 Query: 453 QYQAGTVTYLSVVTTQATSLTNQRSAVTLLGRQLVASVALIKATGGGWQVGQP 505 +Y+ G YL V+T Q + L ++R A L+G++L+ SV LIKA GG WQ P Sbjct: 422 RYEGGATPYLDVITAQQSLLNSERQAAQLMGQRLLVSVFLIKALGGDWQSRTP 474 >gi|300310691|ref|YP_003774783.1| outer membrane drug efflux lipoprotein [Herbaspirillum seropedicae SmR1] Length = 498 Score = 201 bits (510), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 162/491 (32%), Positives = 253/491 (51%), Gaps = 34/491 (6%) Query: 32 MTVLALAALLGGCAVGPDYVRPAMDLPQAYKEQGPWKV----AAPRPVDDRQHWWEAYGD 87 M + LA LLGGC + PDY RP D P A G A+ PV W + + D Sbjct: 15 MLPVMLAMLLGGCTLMPDYHRP--DAPVAAHFAGADSKNAAGASSAPVVADIGWRDVFTD 72 Query: 88 PILNDLIAQANAANQTIQQAAAQYRQAQATAAVARASLWPTVGAQTGATRAQT----NTN 143 P L +IA A N+ ++ A +A+A V RA+L+P++ A T T ++T ++ Sbjct: 73 PSLQQVIALALENNRDLRVAVLNIEKARAQYGVQRAALFPSIKAATSETASRTPGDLSST 132 Query: 144 GVQRLGDNYTVGLNAS-WEADIWGRIRRGAEAGDANAQASADSLAAARLTIQATLAQDYL 202 G +YT L S +E D++GR+R E + ++A++ + ++++ A +A +L Sbjct: 133 GSALTSRSYTATLGFSAYELDLFGRVRSLKEQALQSFLSTAEARRSTQISLIAEVATAWL 192 Query: 203 QLRVTDLQKDLYRRTVAAYTRSLELTTHQYQAGTALRSDVAQAETQLRSAQAQWIDLDAT 262 L + L + T+ + + S LT ++ G++ + QA+T + SA+ A Sbjct: 193 TLASDQDRLRLAQDTLESQSSSYALTQRSFELGSSSALTLRQAQTSVESARVDVESYTAQ 252 Query: 263 RNQLEHAIAMLIGK-APAAFSLAPLTPADANDSAIDANAQRLQASLP--QIPAGLPSDLL 319 +Q +A+ +L+GK P A L P D+ RL A+ P IP GLPSDLL Sbjct: 253 VDQDRNALVLLVGKDLPTA-----LLPQGLPDT-------RLAAASPLATIPPGLPSDLL 300 Query: 320 ERRPDIANAERLAAAANANIGVARAAYFPTLTLSASGGYNSLAFGQLFDTPSRVWSLGAA 379 +RR DI AER AANANIG ARAA++P++TL+ + G S LF S WS Sbjct: 301 QRRADIVQAERDLRAANANIGAARAAFYPSITLTVNAGTASARLAGLFKGGSGSWSFVPQ 360 Query: 380 LAETIFDGGARSARNDAAVAAYDAAVAQYKQTVLAGLQDVEDNLSTLRVLDQESAVQAQA 439 ++ IFDGGA A D A + D +VAQY++ + ++V D L+ L ++ Q Sbjct: 361 ISLPIFDGGANQANLDIATVSRDISVAQYEKAIQTAFREVSDALAQRNTLGRQLQAQEAL 420 Query: 440 VKSAQLAERLAMSQYQAGTVTYLSVVTTQATSLTNQRSAVTLLGRQL---VASVALIKAT 496 V+++ A RL+ ++Y +G +YL+V+ +Q T + Q++ L+G QL V K Sbjct: 421 VQASDEAFRLSQARYHSGVDSYLTVLDSQRTLYSAQKN---LIGTQLSRWTNLVTFYKTL 477 Query: 497 GGGW--QVGQP 505 GGGW + G P Sbjct: 478 GGGWVERTGTP 488 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 0.315 0.126 0.361 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: 1,187,872 Number of extensions: 36653 Number of successful extensions: 265 Number of sequences better than 1.0e-08: 18 Number of HSP's gapped: 213 Number of HSP's successfully gapped: 18 Length of query: 517 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 428 Effective length of database: 1,198,455 Effective search space: 512938740 Effective search space used: 512938740 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: 133 (55.8 bits)