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= 0001.3268.p (472 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... 821 0.0 gi|300313123|ref|YP_003777215.1| D-lactate dehydrogenase [Herbas... 199 4e-52 gi|300313121|ref|YP_003777213.1| glycolate oxidase (FAD-linked s... 155 9e-39 gi|300313341|ref|YP_003777433.1| FAD-dependent D-lactate dehydro... 57 3e-09 gi|300313120|ref|YP_003777212.1| glycolate oxidase iron-sulfur s... 56 5e-09 >gi|300312605|ref|YP_003776697.1| FAD/FMN-containing dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 475 Score = 821 bits (2120), Expect = 0.0, Method: Compositional matrix adjust. Identities = 410/470 (87%), Positives = 441/470 (93%) Query: 3 SSMTDFLAACRAAIGAAHVLTDAADTAGYLTDQRGRFTGRALAVLRPANTAEVAAIVKLC 62 ++M +FL ACRAAIGA HVLTDA DTAGYLTDQRGR+TGRALAVLRPA++AEVAA+V+LC Sbjct: 6 AAMNEFLQACRAAIGAPHVLTDAHDTAGYLTDQRGRYTGRALAVLRPADSAEVAAVVRLC 65 Query: 63 AQYAVPLVPQGGNTGLVLGSVPDQQGNAVVLSLRRLNRVRAVDPINNTMTVEAGCILQQL 122 AQ+AVPLVPQGGNTGLVLGSVPDQQGNAVVLSLRRLNR+RAVD +NNT+TVE+GC+LQ L Sbjct: 66 AQFAVPLVPQGGNTGLVLGSVPDQQGNAVVLSLRRLNRIRAVDALNNTITVESGCVLQHL 125 Query: 123 QEQAAAVQRLFPLSLAAEGSCTIGGNLSTNAGGTGVLRYGNTRELCLGLEVVTAQGEVMS 182 QEQAAA RLFPLSLAAEGSCTIGGNLSTNAGGTGVLRYGNTRELCLGLEVVTAQGE+MS Sbjct: 126 QEQAAAAGRLFPLSLAAEGSCTIGGNLSTNAGGTGVLRYGNTRELCLGLEVVTAQGEIMS 185 Query: 183 SLKGLRKDNTGYDLRDLFIGAEGTLGIITAAVLKLFPPPQAQLTAMVALPAPAQALALLQ 242 SLKGLRKDNTGYDLRDLFIGAEGTLG+ITAAV+KLFP P+AQ+TA+ ALP PAQAL LLQ Sbjct: 186 SLKGLRKDNTGYDLRDLFIGAEGTLGVITAAVMKLFPQPRAQVTALAALPHPAQALQLLQ 245 Query: 243 LAQAQCGAALTGFELMSDFCLQLVRKHFPEQRLPFAQPYAHYVLLEVSDSESEQHARHLF 302 LAQA CG ALTGFELMSDFCLQLVRKHFPEQRLPF +P+ YVLLE+SDSESE+HAR LF Sbjct: 246 LAQAHCGPALTGFELMSDFCLQLVRKHFPEQRLPFDRPHPQYVLLELSDSESEEHARALF 305 Query: 303 ESLIGQALEQGLAEDAVIAASLAQSQALWRLRESISSAQAREGKNIKHDISVPISRIADF 362 E LIG ALEQGL +DAVIAASLAQS+ALWRLRESISSAQA EGKNIKHDISVPISRIA+F Sbjct: 306 EGLIGTALEQGLVDDAVIAASLAQSRALWRLRESISSAQAHEGKNIKHDISVPISRIAEF 365 Query: 363 IAVTDVLVQQASPGCRMVCFGHLGDGNLHYNISPPVGVADTDFIARQAELNRVVHDSVDR 422 IA TDVLVQQA+PGCRMV FGHLGDGNLHYN+SPP GVAD DFIARQA +NRVVHDSVDR Sbjct: 366 IAATDVLVQQAAPGCRMVTFGHLGDGNLHYNVSPPEGVADRDFIARQAAINRVVHDSVDR 425 Query: 423 FGGSISAEHGLGALKREEILRYKSPVELRLMRAIKAALDPQQLMNPGKVL 472 FGGSISAEHGLGALKREEI RYKSPVEL+LMRAIK ALDPQQLMNPGKVL Sbjct: 426 FGGSISAEHGLGALKREEITRYKSPVELQLMRAIKLALDPQQLMNPGKVL 475 >gi|300313123|ref|YP_003777215.1| D-lactate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 471 Score = 199 bits (506), Expect = 4e-52, Method: Compositional matrix adjust. Identities = 147/432 (34%), Positives = 220/432 (50%), Gaps = 22/432 (5%) Query: 45 AVLRPANTAEVAAIVKLCAQYAVPLVPQGGNTGLVLGSVPDQQGNAVVLSLRRLNRVRAV 104 AV+ +T EVAA VKLC+QY P++P G T L G V QG V + L ++N+V AV Sbjct: 54 AVVFAHSTEEVAAFVKLCSQYDTPIIPYGAGTSLE-GHVLALQG-GVTVDLSQMNQVLAV 111 Query: 105 DPINNTMTVEAGCILQQLQEQAAAVQRLFPLSLAAEGSCTIGGNLSTNAGGTGVLRYGNT 164 + T TV+AG +QL ++ FP+ A+ S +GG ST A GT +RYG Sbjct: 112 HAEDLTATVQAGVTRKQLNQEIKDTGLFFPIDPGADAS--LGGMASTRASGTNAVRYGTM 169 Query: 165 RELCLGLEVVTAQGEVMSSLKGLRKDNTGYDLRDLFIGAEGTLGIITAAVLKLFPPPQAQ 224 +E L L VVTAQGE++ + +K + GYDL +++G+EGTLGIIT ++L+P P+A Sbjct: 170 KENTLTLTVVTAQGEIIKTGTRAKKSSAGYDLTRVYVGSEGTLGIITEVTVRLYPQPEAI 229 Query: 225 LTAMVALPAPAQALALLQLAQAQCGAALTGFELMSDFCLQLVRKHFPEQRLPFAQPYAHY 284 A+ + P A A+ + + Q G L EL+ + ++ + H +L P Sbjct: 230 SAAICSFPTVADAVNTV-IQTIQMGVPLARVELLDENGVRAINAH---DKLSL--PVNPL 283 Query: 285 VLLEVSDSESE-QHARHLFESLIGQALEQGLAEDAVIAASLAQSQALWRLRESISSA--Q 341 +L E SE+ + L + + + G A LW R + A Q Sbjct: 284 LLFEFHGSENGVKEQAELVQDIAKEFHALGFE----WATRPEDRTRLWTARHNAYFALLQ 339 Query: 342 AREG-KNIKHDISVPISRIADFIAVTDVLVQQASPGCRMVCFGHLGDGNLHYNISPPVGV 400 R G + I D VPISR+A+ + T ++ G GH+GDGN H + V Sbjct: 340 LRPGARAISTDCCVPISRLAECVLATKADCEEQ--GLTHAIIGHVGDGNFHVQMM--VDP 395 Query: 401 ADTDFIARQAELNRVVHDSVDRFGGSISAEHGLGALKREEILRYKSPVELRLMRAIKAAL 460 D IAR +N+ + G+ + EHG+G K + +++ + +MRAIK AL Sbjct: 396 NDPADIARAEGVNQRMVARAIGMDGTCTGEHGVGLHKMDFLIQEHGEGAIAVMRAIKHAL 455 Query: 461 DPQQLMNPGKVL 472 DP+ +MNPGK+L Sbjct: 456 DPKNIMNPGKIL 467 >gi|300313121|ref|YP_003777213.1| glycolate oxidase (FAD-linked subunit) oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 495 Score = 155 bits (391), Expect = 9e-39, Method: Compositional matrix adjust. Identities = 141/481 (29%), Positives = 215/481 (44%), Gaps = 33/481 (6%) Query: 2 PSSMTDFLAACRAAIGAAHVLTDAADTAGYLTDQRGRFTGRALAVLRPANTAEVAAIVKL 61 P+ + + A R + A VL D DT Y D + + V+ P N A+V AI+K Sbjct: 11 PARQREVVDALRRVVPAHCVLCDEEDTRPYECDGLAAYRQLPMVVVLPENEAQVVAIMKT 70 Query: 62 CAQYAVPLVPQGGNTGLVLGSVPDQQGNAVVLSLRRLNRVRAVDPINNTMTVEAGCILQQ 121 C V +VP+G TGL G+ P G VV+S + N++ +D + T V+ G Sbjct: 71 CHALQVQIVPRGAGTGLSGGATPIADG--VVVSTAKFNQILQMDKYSRTAVVQPGVRNLA 128 Query: 122 LQEQAAAVQRLFPLSLAAEGSCTIGGNLSTNAGGTGVLRYGNTRELCLGLEVVTAQGEVM 181 + E AA + +++ +C+IGGN++ N+GG L+YG T L + +VT +GEV+ Sbjct: 129 ISEAAAPHGLYYAPDPSSQIACSIGGNVAENSGGVHCLKYGLTVHNVLRVRMVTIEGEVV 188 Query: 182 SSLKGLRKDNTGYDLRDLFIGAEGTLGIITAAVLKLFPPPQAQLTAMVALPAPAQ-ALAL 240 G D G DL +FIG+EG LG++T +KL P PQA M + + A+ Sbjct: 189 ELGSGAL-DAPGLDLLAVFIGSEGMLGVVTEVTVKLVPKPQAARVIMASFDDVVKGGNAV 247 Query: 241 LQLAQAQCGAALTGFELMSDFCLQLVRKHFPEQRLPFAQP----YAHYVLLEVSDSESEQ 296 + A G G E+M ++V PF + A +LL SD E+ Sbjct: 248 ANVIAA--GIIPAGLEMMDKTSSRMVE--------PFVKAGYDIDAEAILLCESDGTVEE 297 Query: 297 HARHLFESLIGQALEQGLAEDAVIAASLAQSQA----LWRLRESISSAQAREGKNIK-HD 351 E IG+ + L A + +QS+A W R++ A R + D Sbjct: 298 -----VEEEIGR-MTDVLNASGATAIACSQSEAERLRFWSGRKNAFPAAGRISPDYYCMD 351 Query: 352 ISVPISRIADFIAVTDVLVQQASPGCRMVCFGHLGDGNLHYNISPPVGVADTDFIARQAE 411 ++P ++A + + + G R H GDGNLH I +AD R Sbjct: 352 GTIPRKKLAQVL--LGIAEMEKKYGLRCANVFHAGDGNLHPLILFDANIADE--FHRAEL 407 Query: 412 LNRVVHDSVDRFGGSISAEHGLGALKREEILRYKSPVELRLMRAIKAALDPQQLMNPGKV 471 + + GG+I+ EHG+G K + SP E +K A DP L+NP K Sbjct: 408 FGAEILELCVEVGGTITGEHGVGIEKINSMCVQFSPAERETFFKLKRAFDPAFLLNPDKA 467 Query: 472 L 472 + Sbjct: 468 I 468 >gi|300313341|ref|YP_003777433.1| FAD-dependent D-lactate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 587 Score = 57.0 bits (136), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 49/164 (29%), Positives = 78/164 (47%), Gaps = 18/164 (10%) Query: 7 DFLAACRAAIGAAHVLTDAADTAGYLTDQRGRFTGRALAVLRPANTAEVAAIVKLCAQYA 66 D ++ A +G+ HVLT A T + R G LAV+RP E+ ++++C Sbjct: 13 DVISKLEAIVGSKHVLTGDAQTRRFRQGLR-YGGGEVLAVVRPGRLLEMWRVLQVCHAAN 71 Query: 67 VPLVPQGGNTGLVLGSVPDQQGN---AVVLSLRRLNRVRAVDPINNTMTVEAGCILQQLQ 123 + ++ Q NTGL GS P +G V+++ RL R+ +D ++ + G L QL+ Sbjct: 72 MVIICQAANTGLTGGSTPIAEGYDRPVVLINTMRLTRLELLDQGQQVLS-QPGVTLDQLE 130 Query: 124 EQAAAVQRLFPLSLAAE---GSCTIG----GNLSTNAGGTGVLR 160 +RL PL GS IG G + N+GG+ + R Sbjct: 131 ------RRLKPLGREPHSVIGSSCIGASITGGICNNSGGSLIQR 168 >gi|300313120|ref|YP_003777212.1| glycolate oxidase iron-sulfur subunit oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 359 Score = 56.2 bits (134), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 46/162 (28%), Positives = 71/162 (43%), Gaps = 9/162 (5%) Query: 68 PLVPQGGNTGLVLGSVPDQQGNAVVLSLRRLNRVRAVDPINNTMTVEAGCILQQLQEQAA 127 PL +GG T G P + +L R + + +P +T G L ++ A Sbjct: 25 PLQIRGGGTKDWYGQTPSGE----LLDTRAYSGIIDYEPTELVITARCGTPLSEIDAALA 80 Query: 128 AVQRLF---PLSLAAEGSCTIGGNLSTNAGGTGVLRYGNTRELCLGLEVVTAQGEVMSSL 184 ++ P S G+ T+GG ++ G G R+ LG ++ AQGE + Sbjct: 81 QHNQMLAWEPPSFG--GAATVGGMVAAGLSGPARASAGAVRDFVLGAVLMDAQGEPLHFG 138 Query: 185 KGLRKDNTGYDLRDLFIGAEGTLGIITAAVLKLFPPPQAQLT 226 + K+ GYD+ L G+ GTLG+I LK+ P P A T Sbjct: 139 GQVMKNVAGYDISRLLAGSLGTLGLILEVSLKVLPRPIASST 180 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 0.320 0.135 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: 1,331,024 Number of extensions: 51218 Number of successful extensions: 182 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 173 Number of HSP's successfully gapped: 6 Length of query: 472 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 383 Effective length of database: 1,198,455 Effective search space: 459008265 Effective search space used: 459008265 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 132 (55.5 bits)