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= 0029.0263.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|300313121|ref|YP_003777213.1| glycolate oxidase (FAD-linked s... 964 0.0 gi|300313123|ref|YP_003777215.1| D-lactate dehydrogenase [Herbas... 211 1e-55 gi|300312605|ref|YP_003776697.1| FAD/FMN-containing dehydrogenas... 152 4e-38 gi|300313195|ref|YP_003777287.1| oxidoreductase [Herbaspirillum ... 75 2e-14 gi|300313341|ref|YP_003777433.1| FAD-dependent D-lactate dehydro... 57 4e-09 >gi|300313121|ref|YP_003777213.1| glycolate oxidase (FAD-linked subunit) oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 495 Score = 964 bits (2493), Expect = 0.0, Method: Compositional matrix adjust. Identities = 470/471 (99%), Positives = 471/471 (100%) Query: 1 VPAHCVLCDEEDTRPYECDGLAAYRQLPMVVVLPENEAQVVAIMKTCHALQVQIVPRGAG 60 VPAHCVLCDEEDTRPYECDGLAAYRQLPMVVVLPENEAQVVAIMKTCHALQVQIVPRGAG Sbjct: 25 VPAHCVLCDEEDTRPYECDGLAAYRQLPMVVVLPENEAQVVAIMKTCHALQVQIVPRGAG 84 Query: 61 TGLSGGATPIADGVVVSTAKFNQILKMDKYSRTAVVQPGVRNLAISEAAAPHGLYYAPDP 120 TGLSGGATPIADGVVVSTAKFNQIL+MDKYSRTAVVQPGVRNLAISEAAAPHGLYYAPDP Sbjct: 85 TGLSGGATPIADGVVVSTAKFNQILQMDKYSRTAVVQPGVRNLAISEAAAPHGLYYAPDP 144 Query: 121 SSQIACSIGGNVAENSGGVHCLKYGLTVHNVLRVRMVTIEGEVVELGSGALDAPGLDLLA 180 SSQIACSIGGNVAENSGGVHCLKYGLTVHNVLRVRMVTIEGEVVELGSGALDAPGLDLLA Sbjct: 145 SSQIACSIGGNVAENSGGVHCLKYGLTVHNVLRVRMVTIEGEVVELGSGALDAPGLDLLA 204 Query: 181 VFIGSEGMLGVVTEVTVKLVPKPQAARVIMASFDDVVKGGNAVANVIAAGIIPAGLEMMD 240 VFIGSEGMLGVVTEVTVKLVPKPQAARVIMASFDDVVKGGNAVANVIAAGIIPAGLEMMD Sbjct: 205 VFIGSEGMLGVVTEVTVKLVPKPQAARVIMASFDDVVKGGNAVANVIAAGIIPAGLEMMD 264 Query: 241 KTSSRMVEPFVKAGYDIDAEAILLCESDGTVEEVEEEIGRMTDVLNASGATAIACSQSEA 300 KTSSRMVEPFVKAGYDIDAEAILLCESDGTVEEVEEEIGRMTDVLNASGATAIACSQSEA Sbjct: 265 KTSSRMVEPFVKAGYDIDAEAILLCESDGTVEEVEEEIGRMTDVLNASGATAIACSQSEA 324 Query: 301 ERLRFWSGRKNAFPAAGRISPDYYCMDGTIPRKKLAQVLLGIAEMEKKYGLRCANVFHAG 360 ERLRFWSGRKNAFPAAGRISPDYYCMDGTIPRKKLAQVLLGIAEMEKKYGLRCANVFHAG Sbjct: 325 ERLRFWSGRKNAFPAAGRISPDYYCMDGTIPRKKLAQVLLGIAEMEKKYGLRCANVFHAG 384 Query: 361 DGNLHPLILFDANIADEFHRAELFGAEILELCVEVGGTITGEHGVGIEKINSMCVQFSPA 420 DGNLHPLILFDANIADEFHRAELFGAEILELCVEVGGTITGEHGVGIEKINSMCVQFSPA Sbjct: 385 DGNLHPLILFDANIADEFHRAELFGAEILELCVEVGGTITGEHGVGIEKINSMCVQFSPA 444 Query: 421 ERETFFKLKRAFDPAFLLNPDKAIPTLHRCAEYGKMHVQRGQLRFPDLPRF 471 ERETFFKLKRAFDPAFLLNPDKAIPTLHRCAEYGKMHVQRGQLRFPDLPRF Sbjct: 445 ERETFFKLKRAFDPAFLLNPDKAIPTLHRCAEYGKMHVQRGQLRFPDLPRF 495 >gi|300313123|ref|YP_003777215.1| D-lactate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 471 Score = 211 bits (536), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 129/421 (30%), Positives = 210/421 (49%), Gaps = 7/421 (1%) Query: 27 LPMVVVLPENEAQVVAIMKTCHALQVQIVPRGAGTGLSGGATPIADGVVVSTAKFNQILK 86 LP VV + +V A +K C I+P GAGT L G + GV V ++ NQ+L Sbjct: 51 LPDAVVFAHSTEEVAAFVKLCSQYDTPIIPYGAGTSLEGHVLALQGGVTVDLSQMNQVLA 110 Query: 87 MDKYSRTAVVQPGVRNLAISEAAAPHGLYYAPDPSSQIACSIGGNVAENSGGVHCLKYGL 146 + TA VQ GV +++ GL++ DP + S+GG + + G + ++YG Sbjct: 111 VHAEDLTATVQAGVTRKQLNQEIKDTGLFFPIDPGAD--ASLGGMASTRASGTNAVRYGT 168 Query: 147 TVHNVLRVRMVTIEGEVVELGSGALDAP-GLDLLAVFIGSEGMLGVVTEVTVKLVPKPQA 205 N L + +VT +GE+++ G+ A + G DL V++GSEG LG++TEVTV+L P+P+A Sbjct: 169 MKENTLTLTVVTAQGEIIKTGTRAKKSSAGYDLTRVYVGSEGTLGIITEVTVRLYPQPEA 228 Query: 206 ARVIMASFDDVVKGGNAVANVIAAGIIPAGLEMMDKTSSRMVEPFVKAGYDIDAEAILLC 265 + SF V N V I G+ A +E++D+ R + K ++ +LL Sbjct: 229 ISAAICSFPTVADAVNTVIQTIQMGVPLARVELLDENGVRAINAHDKLSLPVNP--LLLF 286 Query: 266 ESDGTVEEVEEEIGRMTDVLNASGATAIACSQSEAERLRFWSGRKNAFPAAGRISPDYYC 325 E G+ V+E+ + D+ A + +R R W+ R NA+ A ++ P Sbjct: 287 EFHGSENGVKEQAELVQDIAKEFHALGFEWATRPEDRTRLWTARHNAYFALLQLRPGARA 346 Query: 326 M--DGTIPRKKLAQVLLGIAEMEKKYGLRCANVFHAGDGNLHPLILFDANIADEFHRAEL 383 + D +P +LA+ +L ++ GL A + H GDGN H ++ D N + RAE Sbjct: 347 ISTDCCVPISRLAECVLATKADCEEQGLTHAIIGHVGDGNFHVQMMVDPNDPADIARAEG 406 Query: 384 FGAEILELCVEVGGTITGEHGVGIEKINSMCVQFSPAERETFFKLKRAFDPAFLLNPDKA 443 ++ + + GT TGEHGVG+ K++ + + +K A DP ++NP K Sbjct: 407 VNQRMVARAIGMDGTCTGEHGVGLHKMDFLIQEHGEGAIAVMRAIKHALDPKNIMNPGKI 466 Query: 444 I 444 + Sbjct: 467 L 467 >gi|300312605|ref|YP_003776697.1| FAD/FMN-containing dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 475 Score = 152 bits (385), Expect = 4e-38, Method: Compositional matrix adjust. Identities = 128/453 (28%), Positives = 203/453 (44%), Gaps = 15/453 (3%) Query: 6 VLCDEEDTRPYECDGLAAYRQLPMVVVLPENEAQVVAIMKTCHALQVQIVPRGAGTGLSG 65 VL D DT Y D Y + V+ P + A+V A+++ C V +VP+G TGL Sbjct: 24 VLTDAHDTAGYLTDQRGRYTGRALAVLRPADSAEVAAVVRLCAQFAVPLVPQGGNTGLVL 83 Query: 66 GATPIADG--VVVSTAKFNQILKMDKYSRTAVVQPGVRNLAISEAAAPHGLYYAPDPSSQ 123 G+ P G VV+S + N+I +D + T V+ G + E AA G + +++ Sbjct: 84 GSVPDQQGNAVVLSLRRLNRIRAVDALNNTITVESGCVLQHLQEQAAAAGRLFPLSLAAE 143 Query: 124 IACSIGGNVAENSGGVHCLKYGLTVHNVLRVRMVTIEGEVVELGSGAL-DAPGLDLLAVF 182 +C+IGGN++ N+GG L+YG T L + +VT +GE++ G D G DL +F Sbjct: 144 GSCTIGGNLSTNAGGTGVLRYGNTRELCLGLEVVTAQGEIMSSLKGLRKDNTGYDLRDLF 203 Query: 183 IGSEGMLGVVTEVTVKLVPKPQAARVIMASF-DDVVKGGNAVANVIAAGIIPAGLEMMDK 241 IG+EG LGV+T +KL P+P+A +A+ G G E+M Sbjct: 204 IGAEGTLGVITAAVMKLFPQPRAQVTALAALPHPAQALQLLQLAQAHCGPALTGFELMSD 263 Query: 242 TSSRMVE---PFVKAGYDI-DAEAILLCESDGTVEEVEEEI--GRMTDVLNASGATAIAC 295 ++V P + +D + +LL SD EE + G + L Sbjct: 264 FCLQLVRKHFPEQRLPFDRPHPQYVLLELSDSESEEHARALFEGLIGTALEQGLVDDAVI 323 Query: 296 SQSEAERLRFWSGRKNAFPAAGRISPDYYCMDGTIPRKKLAQVLLGIAEMEKKY--GLRC 353 + S A+ W R++ A + D ++P ++A+ + + ++ G R Sbjct: 324 AASLAQSRALWRLRESISSAQAHEGKNIK-HDISVPISRIAEFIAATDVLVQQAAPGCRM 382 Query: 354 ANVFHAGDGNLHPLILFDANIADE--FHRAELFGAEILELCVEVGGTITGEHGVGIEKIN 411 H GDGNLH + +AD R + + GG+I+ EHG+G K Sbjct: 383 VTFGHLGDGNLHYNVSPPEGVADRDFIARQAAINRVVHDSVDRFGGSISAEHGLGALKRE 442 Query: 412 SMCVQFSPAERETFFKLKRAFDPAFLLNPDKAI 444 + SP E + +K A DP L+NP K + Sbjct: 443 EITRYKSPVELQLMRAIKLALDPQQLMNPGKVL 475 >gi|300313195|ref|YP_003777287.1| oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 1333 Score = 74.7 bits (182), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 96/392 (24%), Positives = 152/392 (38%), Gaps = 76/392 (19%) Query: 26 QLPMVVVLPENEAQVVAIMKTCHALQVQIVPRGAGTGLSGGATPIAD-GVVVSTAKFNQI 84 + P VV+ P+ E ++ ++K C L + I+PRG GTG +GGA P+ V++T K Q+ Sbjct: 193 EYPFVVLTPDTEDEMAGLVKACIELGLTIIPRGGGTGYTGGAIPLTPMSAVINTEKLEQL 252 Query: 85 LK--------MDKYSRTAVVQPGVRNLAISEAAAPHGLYYAPDPSSQIACSIGGNVAENS 136 +DK T GV +S+AA G +A DP+S A IGGNVA N+ Sbjct: 253 GAVEMEILPGLDKPYATIYSGAGVVTKRVSDAAEKAGFVFAVDPTSAEASCIGGNVAMNA 312 Query: 137 GGVHCLKYGLTVHNVLRVRMVTIEG----------------------------------- 161 GG + +G + N+ RMV +G Sbjct: 313 GGKKAVLWGTALDNLASWRMVDPQGDWLEVTRLDHNLGKIHDVEVARFKLEWSHPGEKGQ 372 Query: 162 -------EVVELGSGALDAPGL--DLLAVFIG------SEGMLGVVTEVTVKLVPKPQAA 206 E++E+ GL D+ F+ EG G++T L P+ Sbjct: 373 KTEVFKTEILEISGKKFRKEGLGKDVTDKFLSGLPGVQKEGCDGLITSARWILHKMPKQT 432 Query: 207 RVIMASF----DDVVKGGNAVANVIAA-----GIIPAGLEMMDKTSSRMVEPFVKAGYDI 257 R + F D + + + + A G I AGLE +D+ R V K+ + Sbjct: 433 RTVCLEFFGQARDAIPSIVEIKDYLDAETKKGGAILAGLEHLDERYLRAVGYATKSKRGV 492 Query: 258 DAEAILL----CESDGTVEEVEEEIGRMTDVLNASGATAIACSQSEAERLRFWSGRKNAF 313 + +L+ + + V E+ RM + G A+ S R +FW R Sbjct: 493 LPKMVLIGDIVGDDENAVAAAASEVIRMANNRVGEGFVAV----SPEARKKFWLDRSRTA 548 Query: 314 PAAGRISPDYYCMDGTIPRKKLAQVLLGIAEM 345 A + D IP ++ + GI + Sbjct: 549 AIAKHTNAFKINEDVVIPLNRMGEYTDGIERI 580 >gi|300313341|ref|YP_003777433.1| FAD-dependent D-lactate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 587 Score = 56.6 bits (135), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 37/116 (31%), Positives = 63/116 (54%), Gaps = 7/116 (6%) Query: 29 MVVVLPENEAQVVAIMKTCHALQVQIVPRGAGTGLSGGATPIADG-----VVVSTAKFNQ 83 + VV P ++ +++ CHA + I+ + A TGL+GG+TPIA+G V+++T + + Sbjct: 49 LAVVRPGRLLEMWRVLQVCHAANMVIICQAANTGLTGGSTPIAEGYDRPVVLINTMRLTR 108 Query: 84 ILKMDKYSRTAVVQPGVRNLAISEAAAPHGLY-YAPDPSSQIACSIGGNVAENSGG 138 + +D+ + + QPGV + P G ++ SS I SI G + NSGG Sbjct: 109 LELLDQ-GQQVLSQPGVTLDQLERRLKPLGREPHSVIGSSCIGASITGGICNNSGG 163 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 0.137 0.406 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: 1,354,787 Number of extensions: 51792 Number of successful extensions: 171 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 163 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 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 132 (55.5 bits)