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= 0001.1961.p (499 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311423|ref|YP_003775515.1| NodT family protein [Herbaspiri... 791 0.0 gi|300312564|ref|YP_003776656.1| outer membrane multidrug resist... 276 3e-75 gi|300312015|ref|YP_003776107.1| NodT family protein [Herbaspiri... 234 1e-62 gi|300313898|ref|YP_003777990.1| outer membrane drug efflux lipo... 162 4e-41 gi|300309656|ref|YP_003773748.1| outer membrane drug efflux prot... 150 3e-37 >gi|300311423|ref|YP_003775515.1| NodT family protein [Herbaspirillum seropedicae SmR1] Length = 487 Score = 791 bits (2044), Expect = 0.0, Method: Compositional matrix adjust. Identities = 453/499 (90%), Positives = 470/499 (94%), Gaps = 12/499 (2%) Query: 1 MKRIAFSTLPAVTVIALSLTMAGCADQGGIKPQAQVRDVAVLDAGQAIRQTASEAGWPQR 60 M RIAFS LP +TVIALSLTMAGCADQGGI+PQAQVRDVAVLDAGQAIRQ ASEAGWPQR Sbjct: 1 MTRIAFSKLPVLTVIALSLTMAGCADQGGIQPQAQVRDVAVLDAGQAIRQAASEAGWPQR 60 Query: 61 TWWQVYGDTQLDQLVKRAVAGNPSMAVAAARVRQAQSMAVVAHAGELPNAQLDVAVGRKD 120 WWQ YGD QLDQLV RAVAGNPSMAVAAARVRQAQSMAVVAHAGELP+AQLDV+VGRKD Sbjct: 61 AWWQAYGDAQLDQLVTRAVAGNPSMAVAAARVRQAQSMAVVAHAGELPSAQLDVSVGRKD 120 Query: 121 WSDNVYYGAAFRDKLTWNNTATLGLSYNVDLWDRNKNTTLRAQDEMHAVAADARAAQLDL 180 WSDNVYYGAAFR+KLTWNNTATLGLSYNVDLWDRNKN TLRAQDEMHAVAADARAAQLDL Sbjct: 121 WSDNVYYGAAFRNKLTWNNTATLGLSYNVDLWDRNKNATLRAQDEMHAVAADARAAQLDL 180 Query: 181 EGNVVRTYVQLALQYGLLDNTEAMLKEEQKILDLARRRFNGGLGTQLDITQAEAPLPETR 240 EGNVVRTYVQLALQYGLLDNTEA+LKEEQKILDLA RRF GGLGTQL+ITQAE+PLPETR Sbjct: 181 EGNVVRTYVQLALQYGLLDNTEALLKEEQKILDLAHRRFKGGLGTQLEITQAESPLPETR 240 Query: 241 RQIEALQENIALIRNQLAALLGEGPGAADGVTRPGMALHTAIGLPSALPADLVGRRPDIS 300 RQIEAL ENIALIRNQLAALLG GPGAADGVTRPGM L T++GLPSALPADLVGRRPDIS Sbjct: 241 RQIEALHENIALIRNQLAALLGAGPGAADGVTRPGMQLQTSLGLPSALPADLVGRRPDIS 300 Query: 301 AARWRVEAAAKGISVAKAAFYPNLNLLAGIGPAAAGGGLFSFLSAPNLQTTYGPAISLPI 360 AARWRVEAAAKGISVAKAAFYPN+NLLAGIGPAAAGGGLFSFLSAPNLQTTYGPAISLPI Sbjct: 301 AARWRVEAAAKGISVAKAAFYPNINLLAGIGPAAAGGGLFSFLSAPNLQTTYGPAISLPI 360 Query: 361 FEGGRLRGQLGAASAGYDIEVEHYNALLSQALKGISDQVVTLQSVARQQQQAQESVRAAQ 420 FEGGRLRGQLGAASAGYDIEVEHYNALLSQALKGISDQVVTLQSVARQQ+QAQ+SV+AAQ Sbjct: 361 FEGGRLRGQLGAASAGYDIEVEHYNALLSQALKGISDQVVTLQSVARQQEQAQQSVQAAQ 420 Query: 421 KSVDIATRAYQRGLTDYLNVLHAQTQWLRQQQIVQQLQAQRLAAYAALQTALGGGMDNGP 480 K+VDIATRAYQRGLTDYLNVLHAQTQWLRQQQIVQQLQAQRLAAYAALQTALGGG++ Sbjct: 421 KNVDIATRAYQRGLTDYLNVLHAQTQWLRQQQIVQQLQAQRLAAYAALQTALGGGIEE-- 478 Query: 481 ETPSAAATTAAEPAKVAAR 499 A PAKVAAR Sbjct: 479 ----------AAPAKVAAR 487 >gi|300312564|ref|YP_003776656.1| outer membrane multidrug resistance lipoprotein [Herbaspirillum seropedicae SmR1] Length = 515 Score = 276 bits (706), Expect = 3e-75, Method: Compositional matrix adjust. Identities = 184/470 (39%), Positives = 262/470 (55%), Gaps = 8/470 (1%) Query: 11 AVTVIALSLT---MAGCADQGGIKPQAQVRDVAVLDAGQAIRQTASEAGWPQRTWWQVYG 67 AV+V+A L MAGCA + +AQ + + + Q++ +A +A WP WW+VYG Sbjct: 25 AVSVLAAVLAATLMAGCASFSDLGERAQPKSIDRYQSQQSLAASAVQAAWPSDQWWRVYG 84 Query: 68 DTQLDQLVKRAVAGNPSMAVAAARVRQAQSMAVVAHAGELPNAQLDVAVGRKDWSDNVYY 127 D QL+ L+ A+ PSMAVA AR+ +A+ A A P + ++ R S N Sbjct: 85 DAQLNALIDEALQSAPSMAVAKARLMKAEGAAQQQGAALYPQVSANASLDRMKQSYNNGV 144 Query: 128 GAAFRDKLTWNNT--ATLGLSYNVDLWDRNKNTTLRAQDEMHAVAADARAAQLDLEGNVV 185 F K +NN ATL SY +D W +N+ A E+ A ADA A++ L ++ Sbjct: 145 PPDFVPK-DYNNATRATLDFSYEIDFWGKNRAALAAATSELEASRADAAQARITLATSIA 203 Query: 186 RTYVQLALQYGLLDNTEAMLKEEQKILDLARRRFNGGLGTQLDITQAEAPLPETRRQIEA 245 Y +LA Y D EA LK + LDL +RF GL T+ + Q EA + ++A Sbjct: 204 SAYAELAQLYAQRDTNEAALKVRVESLDLFNQRFTNGLETRGSVKQMEARRAIAQADLKA 263 Query: 246 LQENIALIRNQLAALLGEGPGAADGVTRPGMALHTAIGLPSALPADLVGRRPDISAARWR 305 E+I L RN+LAALLG GP +TRP + L LP+ LP +L+GRRPDI AAR R Sbjct: 264 TDESIGLQRNKLAALLGAGPDRGLQLTRPQIDLSRPFALPAQLPVELLGRRPDIVAARLR 323 Query: 306 VEAAAKGISVAKAAFYPNLNLLAGIGPAAAGGGLFSFLSAPNLQTTYGPAISLPIFEGGR 365 EAA K I VA+AAFYPN+NL A G + G + + A + + GPAISLPIF GGR Sbjct: 324 AEAAGKQIKVARAAFYPNVNLTAYFGFQSLGIDMLT--RAGSDIGSIGPAISLPIFNGGR 381 Query: 366 LRGQLGAASAGYDIEVEHYNALLSQALKGISDQVVTLQSVARQQQQAQESVRAAQKSVDI 425 LRGQ +ASA YD V +Y+ ++QAL+ ++D V+ +++A + Q + AA+++ I Sbjct: 382 LRGQFRSASASYDEAVANYDQAVTQALQDVADVGVSEKALAGRLADVQAAADAAEEAYRI 441 Query: 426 ATRAYQRGLTDYLNVLHAQTQWLRQQQIVQQLQAQRLAAYAALQTALGGG 475 + Y GL YL+VL+AQ + + + L+++ AL ALGGG Sbjct: 442 VSNRYNGGLATYLDVLNAQDTLISNLRQLSDLRSRMFTLDVALVRALGGG 491 >gi|300312015|ref|YP_003776107.1| NodT family protein [Herbaspirillum seropedicae SmR1] Length = 495 Score = 234 bits (597), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 162/465 (34%), Positives = 239/465 (51%), Gaps = 17/465 (3%) Query: 22 AGCADQGGI---KPQAQVRDVAVLDAGQAIRQTASEAGWPQRTWWQVYGDTQLDQLVKRA 78 +GCA GI + AQ D A + A WP W + +GD QL LV++A Sbjct: 27 SGCASFAGIGSDRQVAQAGDFATQRSLSDPNPGAPNGQWPGSDWVRQFGDAQLVALVEQA 86 Query: 79 VAGNPSMAVAAARVRQAQSMAVVAHAGELPNAQLDVAVGRKDWSDNVYYGAAFRDKLTWN 138 + +PS+ A AR+ A ++A A LP+ + +V R +S Y + Sbjct: 87 LTSSPSLQQARARIAAASALAESRGAPLLPSVNAEASVTRNQFSSTTIYPPPYGGNWYNE 146 Query: 139 NTATLGLSYNVDLWDRNKNTTLRAQDEMHAVAADARAAQLDLEGNVVRTYVQLALQYGLL 198 A L + Y +DLW++N+ +A A A + A+L L ++V Y QLA QY L Sbjct: 147 KKAGLNVGYELDLWNKNQAALAQAISSEKAAQASEQEARLALTASIVTVYSQLAAQYALH 206 Query: 199 DNTEAMLKEEQKILDLARRRFNGGLGTQLDITQAEAPLPETRRQIEALQENIALIRNQLA 258 D ++ + + + + R GL +Q++ Q+ + R Q+ + I L+R QL Sbjct: 207 DILQSTVDQRTSLEKITAERLRTGLDSQIERDQSRTSSADARAQLAQSEGQIVLLRQQLG 266 Query: 259 ALLGEGPGAADGVTRPGMALHTAIGLPSALPADLVGRRPDISAARWRVEAAAKGISVAKA 318 AL G+GP + P + GLP+ LP +L+GRRPDI AARW+VEAA++G+ VAKA Sbjct: 267 ALAGKGPDYGLQLAPPALQGLATPGLPAELPLNLMGRRPDIVAARWQVEAASRGVDVAKA 326 Query: 319 AFYPNLNLLAGIGPAAAGGGLFSFL------SAPNLQTTYGPAISLPIFEGGRLRGQLGA 372 FYP++NL A IG F L +A + +GPAI+LPIFEGG LR L Sbjct: 327 RFYPDINLSAMIG--------FDTLLDSNPFTAASKSIAFGPAITLPIFEGGALRAGLKG 378 Query: 373 ASAGYDIEVEHYNALLSQALKGISDQVVTLQSVARQQQQAQESVRAAQKSVDIATRAYQR 432 A Y++ V YN L+ A ++ Q+ + + RQ E+++AA+++ +A Y+ Sbjct: 379 EYASYELAVATYNKTLNDAYADVARQIAAIHATERQLPIRSEALQAAERAYALARERYRL 438 Query: 433 GLTDYLNVLHAQTQWLRQQQIVQQLQAQRLAAYAALQTALGGGMD 477 GL L +L AQT L Q+Q + LQAQR AL ALGGG D Sbjct: 439 GLVSQLTLLSAQTGVLAQRQAMVALQAQRRDQQVALYKALGGGFD 483 >gi|300313898|ref|YP_003777990.1| outer membrane drug efflux lipoprotein [Herbaspirillum seropedicae SmR1] Length = 486 Score = 162 bits (411), Expect = 4e-41, Method: Compositional matrix adjust. Identities = 143/450 (31%), Positives = 219/450 (48%), Gaps = 24/450 (5%) Query: 53 SEAGW---------PQRTWWQVYGDTQLDQLVKRAVAGNPSMAVAAARVRQAQSMAVVAH 103 SEA W P+ WW+ +GD QL+ L ++A+AGN ++A+A AR+ QA++ V Sbjct: 38 SEAPWRSMQPADATPRGPWWERFGDAQLNALQQQALAGNQTLAIATARLAQARAQLNVTG 97 Query: 104 AGELPNAQLDVAVGRKDWSDNV----YYGAAFRDKLTWNNTATLG--LSYNVDLWDRNKN 157 A + P L+ R S N Y F T N LG +SY VD + R + Sbjct: 98 AAQTPQVNLNARAARSRISANRPLTNYNSPNFS---TVQNDFALGASVSYEVDFFGRVQR 154 Query: 158 TTLRAQDEMHAVAADARAAQLDLEGNVVRTYVQLALQYGLLDNTEAMLKEEQKILDLARR 217 + A AAD +L L + Y L LD + +++ L+LA Sbjct: 155 SVEAAGAAAEQSAADLENTRLLLTAELATNYFNLRELDVELDVVRRAIALQRQALELATA 214 Query: 218 RFNGGLGTQLDITQAEAPLPETRRQIEALQENIALIRNQLAALLGEGPGAADGVTRPGMA 277 R + G + LD+ Q +A L T QI+ L A + +A L G P A +T P + Sbjct: 215 RHDLGATSGLDMAQQQALLDSTLTQIDLLGRQRAQYEHAIATLTGT-PAPAFSIT-PSLT 272 Query: 278 LHTAIGLPSALPADLVGRRPDISAARWRVEAAAKGISVAKAAFYPNLNLLAGIGPAAAGG 337 T +P +P+D++ RRPDI+AA + AA I VA AA+YP+ L G + Sbjct: 273 PITPPAIPVGVPSDVLERRPDIAAAERAMAAANAQIGVASAAYYPSFMLQPSYGVDSRNW 332 Query: 338 GLFSFLSAPNLQTTYGPAISLPIFEGGRLRGQLGAASAGYDIEVEHYNALLSQALKGISD 397 + +AP+L + G + S +F+GGRLR + + AGY+ V Y + A++ + D Sbjct: 333 A--TLFNAPSLLWSLGVSASQSLFDGGRLRAGVDFSQAGYEATVASYRRTVLTAMQEVED 390 Query: 398 QVVTLQSVARQQQQAQESVRAAQKSVDIATRAYQRGLTDYLNVLHAQTQWLRQQQIVQQL 457 + L ++ R Q+Q ++ +A++ ++IA+ Y+ G T YL+V+ AQ L ++ QL Sbjct: 391 GITGLAALERAYAQSQLAIASARRVLEIASSRYEGGATPYLDVITAQQSLLNSERQAAQL 450 Query: 458 QAQRLAAYAALQTALGGGMDNGPETPSAAA 487 QRL L ALGG D TP A A Sbjct: 451 MGQRLLVSVFLIKALGG--DWQSRTPPAEA 478 >gi|300309656|ref|YP_003773748.1| outer membrane drug efflux protein [Herbaspirillum seropedicae SmR1] Length = 504 Score = 150 bits (378), Expect = 3e-37, Method: Compositional matrix adjust. Identities = 133/430 (30%), Positives = 213/430 (49%), Gaps = 31/430 (7%) Query: 62 WWQVYGDTQLDQLVKRAVAGNPSMAVAAARVRQAQSMAVVAHAGELPNAQLDVAVGRKDW 121 WW+++GD +L+ L A N + AAAR+ QA+++ A AG P Q+D VG Sbjct: 78 WWKIFGDEKLNALEDTAQQANQDLKAAAARLGQARALTRDARAGYFP--QVDAGVGATRQ 135 Query: 122 SDNVYYGAAFRDKLTWNNT---ATLGLSYNVDLWDRNKNTTLRAQDEMHAVAADARAAQL 178 + D T NT A + +SY VDL+ R +T + A ADA+ ++ Sbjct: 136 RPSPASQGLPADADTRPNTLYRAQVNVSYEVDLFGRVAST-------VDAATADAQRSEA 188 Query: 179 DLEGNVVRTYVQLALQYGL---LDNTEAMLKE----EQKILDLARRRFNGGLGTQLDITQ 231 ++ +A QY L LD A+ + Q+ L L +RRF+ G +++D+ + Sbjct: 189 LFHSVLLALQADVAQQYFLVRELDAAAALYRGTVDLRQESLRLVQRRFDEGDISEVDVAR 248 Query: 232 AEAPLPETRRQIEALQENIALIRNQLAALLGEGPGAADGVTRPGMALHTAIGLPSALPAD 291 A A L + + + A + LA LLG P A+ P A+ +P LP+ Sbjct: 249 ARAELASAQSEALGIARQRATAEHALAILLGRTP--AEFSLPPQPLTRLAVTVPPGLPSA 306 Query: 292 LVGRRPDISAARWRVEAAAKGISVAKAAFYPNLNLLAGIGPAAAG-GGLF-----SFLSA 345 L+ RRPDI+AA + AA + VAK+AF+P+LNL G+G +A G LF +FL Sbjct: 307 LLERRPDIAAAERAMAAANARVGVAKSAFFPSLNLTGGLGYESAQLGDLFNWSSRTFLLG 366 Query: 346 PNLQTTYGPAISLPIFEGGRLRGQLGAASAGYDIEVEHYNALLSQALKGISDQVVTLQSV 405 P G A+S+P+F+GGR + + A A Y+ +V Y + A + + D + L+ + Sbjct: 367 P----LVGTALSMPLFDGGRRQAGVDRARASYEEQVASYRGTVLNAFREVEDNLANLRIL 422 Query: 406 ARQQQQAQESVRAAQKSVDIATRAYQRGLTDYLNVLHAQTQWLRQQQIVQQLQAQRLAAY 465 +Q + E+V A+ ++ ++ Y+ G Y +V+ A L+QQ+ L +R + Sbjct: 423 DQQNRAQDEAVAASARAAKLSHTQYREGAVSYFSVIDADRTVLQQQRASVTLDGERARST 482 Query: 466 AALQTALGGG 475 L ALGGG Sbjct: 483 VNLIRALGGG 492 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 0.130 0.370 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: 1,156,125 Number of extensions: 39290 Number of successful extensions: 264 Number of sequences better than 1.0e-08: 18 Number of HSP's gapped: 222 Number of HSP's successfully gapped: 18 Length of query: 499 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 410 Effective length of database: 1,198,455 Effective search space: 491366550 Effective search space used: 491366550 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 (21.7 bits) S2: 132 (55.5 bits)