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= 0001.1276.p (471 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312605|ref|YP_003776697.1| FAD/FMN-containing dehydrogenas... 462 e-131 gi|300313123|ref|YP_003777215.1| D-lactate dehydrogenase [Herbas... 160 2e-40 gi|300313121|ref|YP_003777213.1| glycolate oxidase (FAD-linked s... 159 6e-40 gi|300313341|ref|YP_003777433.1| FAD-dependent D-lactate dehydro... 65 1e-11 >gi|300312605|ref|YP_003776697.1| FAD/FMN-containing dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 475 Score = 462 bits (1190), Expect = e-131, Method: Compositional matrix adjust. Identities = 243/472 (51%), Positives = 315/472 (66%), Gaps = 5/472 (1%) Query: 1 MNENTQQLIQQLRSIVGDAGLVTAAEEQASYVKDWLNKWHGRVAVVVRPADTAQTAEVVR 60 MNE +Q R+ +G ++T A + A Y+ D ++ GR V+RPAD+A+ A VVR Sbjct: 8 MNE----FLQACRAAIGAPHVLTDAHDTAGYLTDQRGRYTGRALAVLRPADSAEVAAVVR 63 Query: 61 LCHQTHTPIVTQGGNTGMSGGATPDDSGAQVIVSTTRMNRIRAVDPINNTMTVDAGVLLA 120 LC Q P+V QGGNTG+ G+ PD G V++S R+NRIRAVD +NNT+TV++G +L Sbjct: 64 LCAQFAVPLVPQGGNTGLVLGSVPDQQGNAVVLSLRRLNRIRAVDALNNTITVESGCVLQ 123 Query: 121 HAQEAARAAGRYFPLSLGAEGSCTVGGNLATNAGGIAVLRFGNMRELALGLEVVLPDGRV 180 H QE A AAGR FPLSL AEGSCT+GGNL+TNAGG VLR+GN REL LGLEVV G + Sbjct: 124 HLQEQAAAAGRLFPLSLAAEGSCTIGGNLSTNAGGTGVLRYGNTRELCLGLEVVTAQGEI 183 Query: 181 WNGLRGLRKDNTGYDLRDLFIGSEGTLGVITGAVLKLFSQPHARATAWVGSDSLAQLAEL 240 + L+GLRKDNTGYDLRDLFIG+EGTLGVIT AV+KLF QP A+ TA AQ +L Sbjct: 184 MSSLKGLRKDNTGYDLRDLFIGAEGTLGVITAAVMKLFPQPRAQVTALAALPHPAQALQL 243 Query: 241 LARTRARCGDRLVAFEMMSAASLALVLQHVTDTRAPLAQPAHYNALIELADTE-DVGLQA 299 L +A CG L FE+MS L LV +H + R P +P L+EL+D+E + +A Sbjct: 244 LQLAQAHCGPALTGFELMSDFCLQLVRKHFPEQRLPFDRPHPQYVLLELSDSESEEHARA 303 Query: 300 MLEELLGQAMEDGLVGDAMLCTSGTQAAALWKIREGISQAQVRAGKVIKHDIALPISAIA 359 + E L+G A+E GLV DA++ S Q+ ALW++RE IS AQ GK IKHDI++PIS IA Sbjct: 304 LFEGLIGTALEQGLVDDAVIAASLAQSRALWRLRESISSAQAHEGKNIKHDISVPISRIA 363 Query: 360 GFVDEAEALIAGCGLQAEIINFGHLGDGNLHFNVMIPLSSSYEEVKQATLQLNRLVHDLV 419 F+ + L+ ++ FGHLGDGNLH+NV P + + +NR+VHD V Sbjct: 364 EFIAATDVLVQQAAPGCRMVTFGHLGDGNLHYNVSPPEGVADRDFIARQAAINRVVHDSV 423 Query: 420 TEQQGSISAEHGVGQLRRDELQHYKSPLEMELMLRIKQAFDPNLIMNPGKLL 471 GSISAEHG+G L+R+E+ YKSP+E++LM IK A DP +MNPGK+L Sbjct: 424 DRFGGSISAEHGLGALKREEITRYKSPVELQLMRAIKLALDPQQLMNPGKVL 475 >gi|300313123|ref|YP_003777215.1| D-lactate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 471 Score = 160 bits (405), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 144/478 (30%), Positives = 218/478 (45%), Gaps = 38/478 (7%) Query: 6 QQLIQQLRSIVGDAGLVTAAEEQASYVKDWLNKWHGR---------VAVVVRPADTAQTA 56 Q L+ +L+++ GD T A + + HGR VV T + A Sbjct: 16 QALLDELKALFGDRCSTTLA----------MREHHGRDESSYDPMLPDAVVFAHSTEEVA 65 Query: 57 EVVRLCHQTHTPIVTQGGNTGMSGGATPDDSGAQVIVSTTRMNRIRAVDPINNTMTVDAG 116 V+LC Q TPI+ G T + G G V V ++MN++ AV + T TV AG Sbjct: 66 AFVKLCSQYDTPIIPYGAGTSLEGHVLALQGG--VTVDLSQMNQVLAVHAEDLTATVQAG 123 Query: 117 VLLAHAQEAARAAGRYFPLSLGAEGSCTVGGNLATNAGGIAVLRFGNMRELALGLEVVLP 176 V + + G +FP+ GA+ S +GG +T A G +R+G M+E L L VV Sbjct: 124 VTRKQLNQEIKDTGLFFPIDPGADAS--LGGMASTRASGTNAVRYGTMKENTLTLTVVTA 181 Query: 177 DGRVWNGLRGLRKDNTGYDLRDLFIGSEGTLGVITGAVLKLFSQPHARATAWVGSDSLAQ 236 G + +K + GYDL +++GSEGTLG+IT ++L+ QP A + A ++A Sbjct: 182 QGEIIKTGTRAKKSSAGYDLTRVYVGSEGTLGIITEVTVRLYPQPEAISAAICSFPTVAD 241 Query: 237 LAELLARTRARCGDRLVAFEMMSAASLALVLQHVTDTRAPLAQPAHYNALIELADTEDVG 296 + +T + G L E++ + + H L+ P + L E +E+ G Sbjct: 242 AVNTVIQT-IQMGVPLARVELLDENGVRAINAH-----DKLSLPVNPLLLFEFHGSEN-G 294 Query: 297 LQAMLEELLGQAMEDGLVGDAMLCTSGTQAAALWKIREGISQA--QVRAG-KVIKHDIAL 353 ++ E + A E +G T LW R A Q+R G + I D + Sbjct: 295 VKEQAELVQDIAKEFHALG-FEWATRPEDRTRLWTARHNAYFALLQLRPGARAISTDCCV 353 Query: 354 PISAIAGFVDEAEALIAGCGLQAEIINFGHLGDGNLHFNVMIPLSSSYEEVKQATLQLNR 413 PIS +A V +A GL II GH+GDGN H +M+ + ++ +A R Sbjct: 354 PISRLAECVLATKADCEEQGLTHAII--GHVGDGNFHVQMMVD-PNDPADIARAEGVNQR 410 Query: 414 LVHDLVTEQQGSISAEHGVGQLRRDELQHYKSPLEMELMLRIKQAFDPNLIMNPGKLL 471 +V + G+ + EHGVG + D L + +M IK A DP IMNPGK+L Sbjct: 411 MVARAIG-MDGTCTGEHGVGLHKMDFLIQEHGEGAIAVMRAIKHALDPKNIMNPGKIL 467 >gi|300313121|ref|YP_003777213.1| glycolate oxidase (FAD-linked subunit) oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 495 Score = 159 bits (401), Expect = 6e-40, Method: Compositional matrix adjust. Identities = 140/472 (29%), Positives = 216/472 (45%), Gaps = 24/472 (5%) Query: 6 QQLIQQLRSIVGDAGLVTAAEEQASYVKDWLNKWHGRVAVVVRPADTAQTAEVVRLCHQT 65 ++++ LR +V ++ E+ Y D L + VVV P + AQ +++ CH Sbjct: 15 REVVDALRRVVPAHCVLCDEEDTRPYECDGLAAYRQLPMVVVLPENEAQVVAIMKTCHAL 74 Query: 66 HTPIVTQGGNTGMSGGATPDDSGAQVIVSTTRMNRIRAVDPINNTMTVDAGVLLAHAQEA 125 IV +G TG+SGGATP G V+VST + N+I +D + T V GV EA Sbjct: 75 QVQIVPRGAGTGLSGGATPIADG--VVVSTAKFNQILQMDKYSRTAVVQPGVRNLAISEA 132 Query: 126 ARAAGRYFPLSLGAEGSCTVGGNLATNAGGIAVLRFGNMRELALGLEVVLPDGRVWNGLR 185 A G Y+ ++ +C++GGN+A N+GG+ L++G L + +V +G V L Sbjct: 133 AAPHGLYYAPDPSSQIACSIGGNVAENSGGVHCLKYGLTVHNVLRVRMVTIEGEVVE-LG 191 Query: 186 GLRKDNTGYDLRDLFIGSEGTLGVITGAVLKLFSQPHARATAWVGSDSLAQLAELLARTR 245 D G DL +FIGSEG LGV+T +KL +P A D + + +A Sbjct: 192 SGALDAPGLDLLAVFIGSEGMLGVVTEVTVKLVPKPQAARVIMASFDDVVKGGNAVANVI 251 Query: 246 ARCGDRLVAFEMMSAASLALVLQHVTDTRAPLAQPAHYNALIE-LADTEDVGLQAMLEEL 304 A G EMM S +V V A Y+ E + E G +EE Sbjct: 252 A-AGIIPAGLEMMDKTSSRMVEPFVK---------AGYDIDAEAILLCESDGTVEEVEEE 301 Query: 305 LGQAMEDGLVGDAMLCTSGTQAAA----LWKIREGISQAQVR-AGKVIKHDIALPISAIA 359 +G+ M D L + +Q+ A W R+ A R + D +P +A Sbjct: 302 IGR-MTDVLNASGATAIACSQSEAERLRFWSGRKNAFPAAGRISPDYYCMDGTIPRKKLA 360 Query: 360 GFVDEAEALIAGCGLQAEIINFGHLGDGNLHFNVMIPLSSSYEEVKQATLQLNRLVHDLV 419 + + GL+ N H GDGNLH ++ + + +E +A L + +L Sbjct: 361 QVLLGIAEMEKKYGLRCA--NVFHAGDGNLHPLILFDANIA-DEFHRAEL-FGAEILELC 416 Query: 420 TEQQGSISAEHGVGQLRRDELQHYKSPLEMELMLRIKQAFDPNLIMNPGKLL 471 E G+I+ EHGVG + + + SP E E ++K+AFDP ++NP K + Sbjct: 417 VEVGGTITGEHGVGIEKINSMCVQFSPAERETFFKLKRAFDPAFLLNPDKAI 468 >gi|300313341|ref|YP_003777433.1| FAD-dependent D-lactate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 587 Score = 65.1 bits (157), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 47/166 (28%), Positives = 80/166 (48%), Gaps = 10/166 (6%) Query: 1 MNENTQQLIQQLRSIVGDAGLVTAAEEQASYVKDWLNKWHGRVAVVVRPADTAQTAEVVR 60 M T +I +L +IVG ++T + Q + L G V VVRP + V++ Sbjct: 7 MERRTMDVISKLEAIVGSKHVLTG-DAQTRRFRQGLRYGGGEVLAVVRPGRLLEMWRVLQ 65 Query: 61 LCHQTHTPIVTQGGNTGMSGGATPDDSGAQ---VIVSTTRMNRIRAVDPINNTMTVDAGV 117 +CH + I+ Q NTG++GG+TP G V+++T R+ R+ +D ++ GV Sbjct: 66 VCHAANMVIICQAANTGLTGGSTPIAEGYDRPVVLINTMRLTRLELLDQGQQVLS-QPGV 124 Query: 118 LLAHAQEAARAAGRYFPLSLGAEGSC---TVGGNLATNAGGIAVLR 160 L + + GR +G+ SC ++ G + N+GG + R Sbjct: 125 TLDQLERRLKPLGREPHSVIGS--SCIGASITGGICNNSGGSLIQR 168 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 0.318 0.134 0.385 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: 1,471,218 Number of extensions: 62730 Number of successful extensions: 276 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 268 Number of HSP's successfully gapped: 5 Length of query: 471 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 382 Effective length of database: 1,198,455 Effective search space: 457809810 Effective search space used: 457809810 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)