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= 0001.2744.p (500 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312015|ref|YP_003776107.1| NodT family protein [Herbaspiri... 810 0.0 gi|300312564|ref|YP_003776656.1| outer membrane multidrug resist... 285 9e-78 gi|300311423|ref|YP_003775515.1| NodT family protein [Herbaspiri... 225 8e-60 gi|300309656|ref|YP_003773748.1| outer membrane drug efflux prot... 154 2e-38 gi|300313898|ref|YP_003777990.1| outer membrane drug efflux lipo... 152 7e-38 >gi|300312015|ref|YP_003776107.1| NodT family protein [Herbaspirillum seropedicae SmR1] Length = 495 Score = 810 bits (2091), Expect = 0.0, Method: Compositional matrix adjust. Identities = 410/469 (87%), Positives = 444/469 (94%) Query: 30 SGCASFDGIGSDKQLAQARDFNTQRSLSDPNPGAPDGQWPGSDWVQQFGDAQLTALIQEA 89 SGCASF GIGSD+Q+AQA DF TQRSLSDPNPGAP+GQWPGSDWV+QFGDAQL AL+++A Sbjct: 27 SGCASFAGIGSDRQVAQAGDFATQRSLSDPNPGAPNGQWPGSDWVRQFGDAQLVALVEQA 86 Query: 90 LASSPNLQQARARIGAAAALVEARGAPLLPSVDAQASVIRNEFSSTSIYPPPYGGNWYNE 149 L SSP+LQQARARI AA+AL E+RGAPLLPSV+A+ASV RN+FSST+IYPPPYGGNWYNE Sbjct: 87 LTSSPSLQQARARIAAASALAESRGAPLLPSVNAEASVTRNQFSSTTIYPPPYGGNWYNE 146 Query: 150 KKAGLNVGYELDLWNKNQAALAQAISSEKAAQASEQEARLALTASIVSVYSQLAAQYAVQ 209 KKAGLNVGYELDLWNKNQAALAQAISSEKAAQASEQEARLALTASIV+VYSQLAAQYA+ Sbjct: 147 KKAGLNVGYELDLWNKNQAALAQAISSEKAAQASEQEARLALTASIVTVYSQLAAQYALH 206 Query: 210 DILQRTVQQRSALESITAERLKTGLDSQIERNQSRTSSADARAQLEQSAGQIVLLRQQLG 269 DILQ TV QR++LE ITAERL+TGLDSQIER+QSRTSSADARAQL QS GQIVLLRQQLG Sbjct: 207 DILQSTVDQRTSLEKITAERLRTGLDSQIERDQSRTSSADARAQLAQSEGQIVLLRQQLG 266 Query: 270 ALTGRGPDRGLQLAPPTLQNLATPALPAKLPLNLLGRRPDIVAARWQVEAASRGVDVAKA 329 AL G+GPD GLQLAPP LQ LATP LPA+LPLNL+GRRPDIVAARWQVEAASRGVDVAKA Sbjct: 267 ALAGKGPDYGLQLAPPALQGLATPGLPAELPLNLMGRRPDIVAARWQVEAASRGVDVAKA 326 Query: 330 RFYPDINLSAMIGFDSLMDSNPFTAASKSIAFGPAITLPIFEGGALRAGLKGEYANYELA 389 RFYPDINLSAMIGFD+L+DSNPFTAASKSIAFGPAITLPIFEGGALRAGLKGEYA+YELA Sbjct: 327 RFYPDINLSAMIGFDTLLDSNPFTAASKSIAFGPAITLPIFEGGALRAGLKGEYASYELA 386 Query: 390 VATYNKTLNDAYADVARQIAAIHSTERQLPIRREALQAAERAHDLARERYRLGLISHLTL 449 VATYNKTLNDAYADVARQIAAIH+TERQLPIR EALQAAERA+ LARERYRLGL+S LTL Sbjct: 387 VATYNKTLNDAYADVARQIAAIHATERQLPIRSEALQAAERAYALARERYRLGLVSQLTL 446 Query: 450 LSAETGVLAQRQSLVALQAQRREQQVALYKALGGGFDAQQAGLAYSAAP 498 LSA+TGVLAQRQ++VALQAQRR+QQVALYKALGGGFDAQ+ GLAY A P Sbjct: 447 LSAQTGVLAQRQAMVALQAQRRDQQVALYKALGGGFDAQRDGLAYGAQP 495 >gi|300312564|ref|YP_003776656.1| outer membrane multidrug resistance lipoprotein [Herbaspirillum seropedicae SmR1] Length = 515 Score = 285 bits (728), Expect = 9e-78, Method: Compositional matrix adjust. Identities = 189/479 (39%), Positives = 277/479 (57%), Gaps = 9/479 (1%) Query: 11 PRVIATHAVLAALIGALALSGCASFDGIGSDKQLAQARDFNTQRSLSDPNPGAPDGQWPG 70 PR ++ VLAA++ A ++GCASF +G Q + +Q+SL+ A WP Sbjct: 23 PRAVS---VLAAVLAATLMAGCASFSDLGERAQPKSIDRYQSQQSLA---ASAVQAAWPS 76 Query: 71 SDWVQQFGDAQLTALIQEALASSPNLQQARARIGAAAALVEARGAPLLPSVDAQASVIRN 130 W + +GDAQL ALI EAL S+P++ A+AR+ A + +GA L P V A AS+ R Sbjct: 77 DQWWRVYGDAQLNALIDEALQSAPSMAVAKARLMKAEGAAQQQGAALYPQVSANASLDRM 136 Query: 131 EFSSTSIYPPPYGGNWYNE-KKAGLNVGYELDLWNKNQAALAQAISSEKAAQASEQEARL 189 + S + PP + YN +A L+ YE+D W KN+AALA A S +A++A +AR+ Sbjct: 137 KQSYNNGVPPDFVPKDYNNATRATLDFSYEIDFWGKNRAALAAATSELEASRADAAQARI 196 Query: 190 ALTASIVSVYSQLAAQYAVQDILQRTVQQRSALESITAERLKTGLDSQIERNQSRTSSAD 249 L SI S Y++LA YA +D + ++ R + +R GL+++ Q A Sbjct: 197 TLATSIASAYAELAQLYAQRDTNEAALKVRVESLDLFNQRFTNGLETRGSVKQMEARRAI 256 Query: 250 ARAQLEQSAGQIVLLRQQLGALTGRGPDRGLQLAPPTLQNLATP-ALPAKLPLNLLGRRP 308 A+A L+ + I L R +L AL G GPDRGLQL P + +L+ P ALPA+LP+ LLGRRP Sbjct: 257 AQADLKATDESIGLQRNKLAALLGAGPDRGLQLTRPQI-DLSRPFALPAQLPVELLGRRP 315 Query: 309 DIVAARWQVEAASRGVDVAKARFYPDINLSAMIGFDSLMDSNPFTAASKSIAFGPAITLP 368 DIVAAR + EAA + + VA+A FYP++NL+A GF SL A S + GPAI+LP Sbjct: 316 DIVAARLRAEAAGKQIKVARAAFYPNVNLTAYFGFQSLGIDMLTRAGSDIGSIGPAISLP 375 Query: 369 IFEGGALRAGLKGEYANYELAVATYNKTLNDAYADVARQIAAIHSTERQLPIRREALQAA 428 IF GG LR + A+Y+ AVA Y++ + A DVA + + +L + A AA Sbjct: 376 IFNGGRLRGQFRSASASYDEAVANYDQAVTQALQDVADVGVSEKALAGRLADVQAAADAA 435 Query: 429 ERAHDLARERYRLGLISHLTLLSAETGVLAQRQSLVALQAQRREQQVALYKALGGGFDA 487 E A+ + RY GL ++L +L+A+ +++ + L L+++ VAL +ALGGG+ A Sbjct: 436 EEAYRIVSNRYNGGLATYLDVLNAQDTLISNLRQLSDLRSRMFTLDVALVRALGGGYRA 494 >gi|300311423|ref|YP_003775515.1| NodT family protein [Herbaspirillum seropedicae SmR1] Length = 487 Score = 225 bits (573), Expect = 8e-60, Method: Compositional matrix adjust. Identities = 169/470 (35%), Positives = 250/470 (53%), Gaps = 5/470 (1%) Query: 19 VLAALIGALALSGCASFDGIGSDKQLAQARDFNTQRSLSDPNPGAPDGQWPGSDWVQQFG 78 VL + +L ++GCA GI + AQ RD + A + WP W Q +G Sbjct: 11 VLTVIALSLTMAGCADQGGI---QPQAQVRDVAVLDAGQAIRQAASEAGWPQRAWWQAYG 67 Query: 79 DAQLTALIQEALASSPNLQQARARIGAAAALVEARGAPLLPSVDAQASVIRNEFSSTSIY 138 DAQL L+ A+A +P++ A AR+ A ++ A LPS SV R ++S Y Sbjct: 68 DAQLDQLVTRAVAGNPSMAVAAARVRQAQSMAVVAHAGELPSAQLDVSVGRKDWSDNVYY 127 Query: 139 PPPYGGNWYNEKKAGLNVGYELDLWNKNQAALAQAISSEKAAQASEQEARLALTASIVSV 198 + A L + Y +DLW++N+ A +A A A + A+L L ++V Sbjct: 128 GAAFRNKLTWNNTATLGLSYNVDLWDRNKNATLRAQDEMHAVAADARAAQLDLEGNVVRT 187 Query: 199 YSQLAAQYAVQDILQRTVQQRSALESITAERLKTGLDSQIERNQSRTSSADARAQLEQSA 258 Y QLA QY + D + +++ + + R K GL +Q+E Q+ + + R Q+E Sbjct: 188 YVQLALQYGLLDNTEALLKEEQKILDLAHRRFKGGLGTQLEITQAESPLPETRRQIEALH 247 Query: 259 GQIVLLRQQLGALTGRGPDRGLQLAPPTLQNLATPALPAKLPLNLLGRRPDIVAARWQVE 318 I L+R QL AL G GP + P +Q + LP+ LP +L+GRRPDI AARW+VE Sbjct: 248 ENIALIRNQLAALLGAGPGAADGVTRPGMQLQTSLGLPSALPADLVGRRPDISAARWRVE 307 Query: 319 AASRGVDVAKARFYPDINLSAMIGFDSLMDS--NPFTAASKSIAFGPAITLPIFEGGALR 376 AA++G+ VAKA FYP+INL A IG + + +A + +GPAI+LPIFEGG LR Sbjct: 308 AAAKGISVAKAAFYPNINLLAGIGPAAAGGGLFSFLSAPNLQTTYGPAISLPIFEGGRLR 367 Query: 377 AGLKGEYANYELAVATYNKTLNDAYADVARQIAAIHSTERQLPIRREALQAAERAHDLAR 436 L A Y++ V YN L+ A ++ Q+ + S RQ ++++QAA++ D+A Sbjct: 368 GQLGAASAGYDIEVEHYNALLSQALKGISDQVVTLQSVARQQEQAQQSVQAAQKNVDIAT 427 Query: 437 ERYRLGLISHLTLLSAETGVLAQRQSLVALQAQRREQQVALYKALGGGFD 486 Y+ GL +L +L A+T L Q+Q + LQAQR AL ALGGG + Sbjct: 428 RAYQRGLTDYLNVLHAQTQWLRQQQIVQQLQAQRLAAYAALQTALGGGIE 477 >gi|300309656|ref|YP_003773748.1| outer membrane drug efflux protein [Herbaspirillum seropedicae SmR1] Length = 504 Score = 154 bits (389), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 132/419 (31%), Positives = 212/419 (50%), Gaps = 7/419 (1%) Query: 72 DWVQQFGDAQLTALIQEALASSPNLQQARARIGAAAALVEARGAPLLPSVDAQASVIRNE 131 +W + FGD +L AL A ++ +L+ A AR+G A AL A P VDA R Sbjct: 77 EWWKIFGDEKLNALEDTAQQANQDLKAAAARLGQARALTRDARAGYFPQVDAGVGATRQR 136 Query: 132 FSSTSIYPPPYGGNWYNE-KKAGLNVGYELDLWNKNQAALAQAISSEKAAQASEQEARLA 190 S S P N +A +NV YE+DL+ + + + A + + ++A LA Sbjct: 137 PSPASQGLPADADTRPNTLYRAQVNVSYEVDLFGRVASTVDAATADAQRSEALFHSVLLA 196 Query: 191 LTASIVSVYSQLAAQYAVQDILQRTVQQRSALESITAERLKTGLDSQIERNQSRTSSADA 250 L A + Y + A + + TV R + R G S+++ ++R A A Sbjct: 197 LQADVAQQYFLVRELDAAAALYRGTVDLRQESLRLVQRRFDEGDISEVDVARARAELASA 256 Query: 251 RAQLEQSAGQIVLLRQQLGALTGRGPDRGLQLAPPTLQNLATPALPAKLPLNLLGRRPDI 310 +++ A Q L L GR P L P L LA +P LP LL RRPDI Sbjct: 257 QSEALGIARQRATAEHALAILLGRTPAE-FSLPPQPLTRLAV-TVPPGLPSALLERRPDI 314 Query: 311 VAARWQVEAASRGVDVAKARFYPDINLSAMIGFDSLMDSNPFTAASKSIAFGP----AIT 366 AA + AA+ V VAK+ F+P +NL+ +G++S + F +S++ GP A++ Sbjct: 315 AAAERAMAAANARVGVAKSAFFPSLNLTGGLGYESAQLGDLFNWSSRTFLLGPLVGTALS 374 Query: 367 LPIFEGGALRAGLKGEYANYELAVATYNKTLNDAYADVARQIAAIHSTERQLPIRREALQ 426 +P+F+GG +AG+ A+YE VA+Y T+ +A+ +V +A + ++Q + EA+ Sbjct: 375 MPLFDGGRRQAGVDRARASYEEQVASYRGTVLNAFREVEDNLANLRILDQQNRAQDEAVA 434 Query: 427 AAERAHDLARERYRLGLISHLTLLSAETGVLAQRQSLVALQAQRREQQVALYKALGGGF 485 A+ RA L+ +YR G +S+ +++ A+ VL Q+++ V L +R V L +ALGGG+ Sbjct: 435 ASARAAKLSHTQYREGAVSYFSVIDADRTVLQQQRASVTLDGERARSTVNLIRALGGGW 493 >gi|300313898|ref|YP_003777990.1| outer membrane drug efflux lipoprotein [Herbaspirillum seropedicae SmR1] Length = 486 Score = 152 bits (383), Expect = 7e-38, Method: Compositional matrix adjust. Identities = 137/431 (31%), Positives = 211/431 (48%), Gaps = 21/431 (4%) Query: 69 PGSDWVQQFGDAQLTALIQEALASSPNLQQARARIGAAAALVEARGAPLLPSVDAQASVI 128 P W ++FGDAQL AL Q+ALA + L A AR+ A A + GA P V+ A Sbjct: 52 PRGPWWERFGDAQLNALQQQALAGNQTLAIATARLAQARAQLNVTGAAQTPQVNLNARAA 111 Query: 129 RNEFSST---SIYPPPYGGNWYNEKKAGLNVGYELDLWNKNQAALAQAISSEKAAQASEQ 185 R+ S+ + Y P N+ G +V YE+D + + Q ++ A ++ + + A + Sbjct: 112 RSRISANRPLTNYNSPNFSTVQNDFALGASVSYEVDFFGRVQRSVEAAGAAAEQSAADLE 171 Query: 186 EARLALTASIVSVYSQLAAQYAVQDILQRTVQ-QRSALESITAERLKTGLDSQIERNQSR 244 RL LTA + + Y L D+++R + QR ALE TA R G S ++ Q + Sbjct: 172 NTRLLLTAELATNYFNLRELDVELDVVRRAIALQRQALELATA-RHDLGATSGLDMAQQQ 230 Query: 245 TSSADARAQLEQSAGQIVLLRQQ-------LGALTGRGPDRGLQLAPPTLQNLATPALPA 297 A L+ + QI LL +Q + LTG P + P +L + PA+P Sbjct: 231 -------ALLDSTLTQIDLLGRQRAQYEHAIATLTGT-PAPAFSITP-SLTPITPPAIPV 281 Query: 298 KLPLNLLGRRPDIVAARWQVEAASRGVDVAKARFYPDINLSAMIGFDSLMDSNPFTAASK 357 +P ++L RRPDI AA + AA+ + VA A +YP L G DS + F A S Sbjct: 282 GVPSDVLERRPDIAAAERAMAAANAQIGVASAAYYPSFMLQPSYGVDSRNWATLFNAPSL 341 Query: 358 SIAFGPAITLPIFEGGALRAGLKGEYANYELAVATYNKTLNDAYADVARQIAAIHSTERQ 417 + G + + +F+GG LRAG+ A YE VA+Y +T+ A +V I + + ER Sbjct: 342 LWSLGVSASQSLFDGGRLRAGVDFSQAGYEATVASYRRTVLTAMQEVEDGITGLAALERA 401 Query: 418 LPIRREALQAAERAHDLARERYRLGLISHLTLLSAETGVLAQRQSLVALQAQRREQQVAL 477 + A+ +A R ++A RY G +L +++A+ +L + L QR V L Sbjct: 402 YAQSQLAIASARRVLEIASSRYEGGATPYLDVITAQQSLLNSERQAAQLMGQRLLVSVFL 461 Query: 478 YKALGGGFDAQ 488 KALGG + ++ Sbjct: 462 IKALGGDWQSR 472 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 0.129 0.359 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: 1,351,384 Number of extensions: 49609 Number of successful extensions: 292 Number of sequences better than 1.0e-08: 19 Number of HSP's gapped: 252 Number of HSP's successfully gapped: 19 Length of query: 500 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 411 Effective length of database: 1,198,455 Effective search space: 492565005 Effective search space used: 492565005 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)