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= 0001.2854.p (491 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312187|ref|YP_003776279.1| outer membrane channel lipoprot... 632 0.0 gi|300312015|ref|YP_003776107.1| NodT family protein [Herbaspiri... 57 4e-09 gi|300312564|ref|YP_003776656.1| outer membrane multidrug resist... 57 4e-09 >gi|300312187|ref|YP_003776279.1| outer membrane channel lipoprotein [Herbaspirillum seropedicae SmR1] Length = 484 Score = 632 bits (1631), Expect = 0.0, Method: Compositional matrix adjust. Identities = 316/449 (70%), Positives = 379/449 (84%), Gaps = 1/449 (0%) Query: 42 DPLLARPPELDKGKLLPGDDQMLVCQSTSFRPDKVLNLADAVDLALCYQPQIQASWAAIK 101 DPLLARPP+L G+LLPGDDQ + C ++ + K L+LADA+D ALC QPQIQA+WAAIK Sbjct: 37 DPLLARPPDLITGRLLPGDDQRVECAASPYVAGKALSLADAIDQALCQQPQIQAAWAAIK 96 Query: 102 LQAAQLGEARAAYLPSFSAGASQYRDNSSSTQGSSKRSIGTLYATLTWRLLDFGGRTANQ 161 LQAAQLGEARA YLP+ ++GAS+ + GS +RS+ TLYATLTWRLLDFGGR+ANQ Sbjct: 97 LQAAQLGEARAGYLPTVTSGASKLNSATQYEGGSGRRSLTTLYATLTWRLLDFGGRSANQ 156 Query: 162 RAADVLLQAALASQDAALQKAMANAVGLYYDAHSARAAQQARERSLALARQVLETAIKRE 221 RAAD +LQ+ALAS DAA+QKA+A+ V YY+ S+ A+QQARE+S LARQ+LETAI+RE Sbjct: 157 RAADAMLQSALASHDAAVQKALASVVASYYEVQSSSASQQAREKSQQLARQLLETAIRRE 216 Query: 222 QRGVGALPETLQARTFVARAELELARAIGQHKRALVALAVGLGLLGESEDVPALTLSSEV 281 QRGVG+LPETLQARTF+A+AELE ARA GQHK+A LA +GLL E++DVP LTL E Sbjct: 217 QRGVGSLPETLQARTFLAKAELEQARASGQHKKAQAMLAAAMGLLREAQDVPVLTLVPEQ 276 Query: 282 EEDPLGLEQNLPAWLQSARQYHPAILAARAQVEAAREKVKVARSEGLPTLDMSASRFVNG 341 EE P GLEQNLPAWLQ+ARQYHPAILAARAQ+EAAREK++VARSEG+PTLD+SA ++ NG Sbjct: 277 EEYPDGLEQNLPAWLQAARQYHPAILAARAQLEAAREKLQVARSEGMPTLDLSARQYANG 336 Query: 342 RPNQGGGNRGDRETVVGLNLNIPVFEGFARNYKVDGAHAQVEQREAELRDVQAQVLGDLA 401 RPNQ GNRGDRE +VGLNL +P+FEGFAR+YKV GA AQ+E REAEL++VQ QVLGD+A Sbjct: 337 RPNQ-AGNRGDRERMVGLNLTVPIFEGFARDYKVGGAQAQIEAREAELQEVQTQVLGDIA 395 Query: 402 ITYAEATTALRSLASSRSLLEVAQRAVDSVRRKYDVGAADIVEMLNAQSALNDAELERIR 461 TYAEA TAL SL+SSR LL+ AQ AVDSVRRKYD GAADIVEMLNAQ+AL++A+ ER++ Sbjct: 396 STYAEAMTALNSLSSSRRLLDAAQGAVDSVRRKYDAGAADIVEMLNAQTALSEADQERVK 455 Query: 462 SLSDWRSARLRLLANAGEMGRASLAAAAR 490 ++SDWRSARLRLLANAG MGR ++A AR Sbjct: 456 AMSDWRSARLRLLANAGRMGRWAVAGNAR 484 >gi|300312015|ref|YP_003776107.1| NodT family protein [Herbaspirillum seropedicae SmR1] Length = 495 Score = 57.0 bits (136), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 113/408 (27%), Positives = 168/408 (41%), Gaps = 52/408 (12%) Query: 74 DKVLNLADA-----VDLALCYQPQIQASWAAIKLQAAQLGEARAAYLPSFSAGASQYRDN 128 D V DA V+ AL P +Q + A I +A A LPS +A AS R+ Sbjct: 69 DWVRQFGDAQLVALVEQALTSSPSLQQARARIAAASALAESRGAPLLPSVNAEASVTRNQ 128 Query: 129 SSSTQGSSKRSIGTLYATLTWRLLDFGGRTANQRAADVLL----------QAALA---SQ 175 SST T+Y +GG N++ A + + QAALA S Sbjct: 129 FSST---------TIYPP------PYGGNWYNEKKAGLNVGYELDLWNKNQAALAQAISS 173 Query: 176 DAALQK-------AMANAVGLYYDAHSARAAQQARERSLALARQVLETAI-KREQRGVGA 227 + A Q A+ ++ Y +A+ A +S R LE +R + G+ + Sbjct: 174 EKAAQASEQEARLALTASIVTVYSQLAAQYALHDILQSTVDQRTSLEKITAERLRTGLDS 233 Query: 228 LPETLQARTFVARAELELARAIGQHKRALVALAVGLG-LLGESEDVPALTLSSEVEED-- 284 E Q+RT A A +LA++ GQ +V L LG L G+ D L L+ + Sbjct: 234 QIERDQSRTSSADARAQLAQSEGQ----IVLLRQQLGALAGKGPDY-GLQLAPPALQGLA 288 Query: 285 PLGLEQNLPAWLQSARQYHPAILAARAQVEAAREKVKVARSEGLPTLDMSASRFVNGRPN 344 GL LP L R P I+AAR QVEAA V VA++ P +++SA + + Sbjct: 289 TPGLPAELPLNLMGRR---PDIVAARWQVEAASRGVDVAKARFYPDINLSAMIGFDTLLD 345 Query: 345 QGGGNRGDRETVVGLNLNIPVFEGFARNYKVDGAHAQVEQREAELRDVQAQVLGDLAITY 404 + G + +P+FEG A + G +A E A D+A Sbjct: 346 SNPFTAASKSIAFGPAITLPIFEGGALRAGLKGEYASYELAVATYNKTLNDAYADVARQI 405 Query: 405 AEATTALRSLASSRSLLEVAQRAVDSVRRKYDVGAADIVEMLNAQSAL 452 A R L L+ A+RA R +Y +G + +L+AQ+ + Sbjct: 406 AAIHATERQLPIRSEALQAAERAYALARERYRLGLVSQLTLLSAQTGV 453 >gi|300312564|ref|YP_003776656.1| outer membrane multidrug resistance lipoprotein [Herbaspirillum seropedicae SmR1] Length = 515 Score = 56.6 bits (135), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 110/386 (28%), Positives = 159/386 (41%), Gaps = 50/386 (12%) Query: 112 AAYLPSFSAGASQYRDNSSSTQGSSKRSIGTLYATLTWRLLDF-------GGRTANQRAA 164 AA P SA AS R S G + Y T LDF G A AA Sbjct: 121 AALYPQVSANASLDRMKQSYNNGVPPDFVPKDYNNATRATLDFSYEIDFWGKNRAALAAA 180 Query: 165 DVLLQAALASQDAA---------LQKAMANAVGLYYDAHSARAAQQARERSLALARQVLE 215 L+A+ A DAA + A A LY + AA + R SL L Q Sbjct: 181 TSELEASRA--DAAQARITLATSIASAYAELAQLYAQRDTNEAALKVRVESLDLFNQRFT 238 Query: 216 TAIKREQRGVGALPETLQARTFVARAELELA-RAIGQHKRALVALAVGLGLLGESEDV-- 272 + E RG + ++AR +A+A+L+ +IG + L AL LG D Sbjct: 239 NGL--ETRGS---VKQMEARRAIAQADLKATDESIGLQRNKLAAL------LGAGPDRGL 287 Query: 273 ----PALTLSSEVEEDPLGLEQNLPAWLQSARQYHPAILAARAQVEAAREKVKVARSEGL 328 P + LS P L LP L R P I+AAR + EAA +++KVAR+ Sbjct: 288 QLTRPQIDLSR-----PFALPAQLPVELLGRR---PDIVAARLRAEAAGKQIKVARAAFY 339 Query: 329 PTLDMSASRFVNGRPNQGGGNRGDRETVVGLNLNIPVFEGFARNYKVDGAHAQVEQREAE 388 P ++++A G +G +++P+F G + A A ++ A Sbjct: 340 PNVNLTAYFGFQSLGIDMLTRAGSDIGSIGPAISLPIFNGGRLRGQFRSASASYDEAVAN 399 Query: 389 LRDVQAQVLGDLA-ITYAEATTALRSLASSRSLLEVAQRAVDSVRRKYDVGAADIVEMLN 447 Q L D+A + +E A R LA ++ + A+ A V +Y+ G A +++LN Sbjct: 400 YDQAVTQALQDVADVGVSEKALAGR-LADVQAAADAAEEAYRIVSNRYNGGLATYLDVLN 458 Query: 448 AQSALNDAELERIRSLSDWRSARLRL 473 AQ L + +R LSD RS L Sbjct: 459 AQDTL----ISNLRQLSDLRSRMFTL 480 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 0.351 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: 1,142,591 Number of extensions: 37027 Number of successful extensions: 239 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 238 Number of HSP's successfully gapped: 17 Length of query: 491 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 402 Effective length of database: 1,198,455 Effective search space: 481778910 Effective search space used: 481778910 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)