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= 0001.3731.p (495 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... 988 0.0 gi|300313123|ref|YP_003777215.1| D-lactate dehydrogenase [Herbas... 207 2e-54 gi|300312605|ref|YP_003776697.1| FAD/FMN-containing dehydrogenas... 157 2e-39 gi|300313195|ref|YP_003777287.1| oxidoreductase [Herbaspirillum ... 78 2e-15 gi|300313341|ref|YP_003777433.1| FAD-dependent D-lactate dehydro... 57 3e-09 >gi|300313121|ref|YP_003777213.1| glycolate oxidase (FAD-linked subunit) oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 495 Score = 988 bits (2555), Expect = 0.0, Method: Compositional matrix adjust. Identities = 480/495 (96%), Positives = 489/495 (98%) Query: 1 MNAPAQPSFAPARQREVVDALRRVVPAHCVLFDEEDTRPYECDGLAAYRQLPMVVVLPET 60 MNAP QPSFAPARQREVVDALRRVVPAHCVL DEEDTRPYECDGLAAYRQLPMVVVLPE Sbjct: 1 MNAPVQPSFAPARQREVVDALRRVVPAHCVLCDEEDTRPYECDGLAAYRQLPMVVVLPEN 60 Query: 61 EAQVVAILRTCHALQVQIVPRGAGTGLSGGAMPIADGVVLSTAKFNQILKMDKYSRTAVV 120 EAQVVAI++TCHALQVQIVPRGAGTGLSGGA PIADGVV+STAKFNQIL+MDKYSRTAVV Sbjct: 61 EAQVVAIMKTCHALQVQIVPRGAGTGLSGGATPIADGVVVSTAKFNQILQMDKYSRTAVV 120 Query: 121 QPGVRNLAISEAAAPHGLYYAPDPSSQIACTIGGNVAENSGGVHCLKYGLTVHNVLRVRM 180 QPGVRNLAISEAAAPHGLYYAPDPSSQIAC+IGGNVAENSGGVHCLKYGLTVHNVLRVRM Sbjct: 121 QPGVRNLAISEAAAPHGLYYAPDPSSQIACSIGGNVAENSGGVHCLKYGLTVHNVLRVRM 180 Query: 181 VTIEGDVVELGSGALDAPGLDLLAVFIGSEGMLGVVTEVTVKLVPKPQAARVIMASFDDV 240 VTIEG+VVELGSGALDAPGLDLLAVFIGSEGMLGVVTEVTVKLVPKPQAARVIMASFDDV Sbjct: 181 VTIEGEVVELGSGALDAPGLDLLAVFIGSEGMLGVVTEVTVKLVPKPQAARVIMASFDDV 240 Query: 241 VKGGNAVANVIAAGIIPAGLEMMDKTSSRMVEPFVKAGYDIDAEAILLCESDGTTEEVEE 300 VKGGNAVANVIAAGIIPAGLEMMDKTSSRMVEPFVKAGYDIDAEAILLCESDGT EEVEE Sbjct: 241 VKGGNAVANVIAAGIIPAGLEMMDKTSSRMVEPFVKAGYDIDAEAILLCESDGTVEEVEE 300 Query: 301 EIGRMTDVLNASGATAIACSQSEAERLRFWSGRKNAFPAAGRISPDYYCMDGTIPRKQLA 360 EIGRMTDVLNASGATAIACSQSEAERLRFWSGRKNAFPAAGRISPDYYCMDGTIPRK+LA Sbjct: 301 EIGRMTDVLNASGATAIACSQSEAERLRFWSGRKNAFPAAGRISPDYYCMDGTIPRKKLA 360 Query: 361 QVLLGIAEMEKKYGLRCANVFHAGDGNLHPLILFDANLADEFHRAELFGAEILELCVEVG 420 QVLLGIAEMEKKYGLRCANVFHAGDGNLHPLILFDAN+ADEFHRAELFGAEILELCVEVG Sbjct: 361 QVLLGIAEMEKKYGLRCANVFHAGDGNLHPLILFDANIADEFHRAELFGAEILELCVEVG 420 Query: 421 GTITGEHGVGIEKINSMCVQFSPAERESFFKLKRAFDPPFLLNPDKAIPTLHRCAEYGKM 480 GTITGEHGVGIEKINSMCVQFSPAERE+FFKLKRAFDP FLLNPDKAIPTLHRCAEYGKM Sbjct: 421 GTITGEHGVGIEKINSMCVQFSPAERETFFKLKRAFDPAFLLNPDKAIPTLHRCAEYGKM 480 Query: 481 HVQRGQLRFPDLPRF 495 HVQRGQLRFPDLPRF Sbjct: 481 HVQRGQLRFPDLPRF 495 >gi|300313123|ref|YP_003777215.1| D-lactate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 471 Score = 207 bits (527), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 125/421 (29%), Positives = 211/421 (50%), Gaps = 7/421 (1%) Query: 51 LPMVVVLPETEAQVVAILRTCHALQVQIVPRGAGTGLSGGAMPIADGVVLSTAKFNQILK 110 LP VV + +V A ++ C I+P GAGT L G + + GV + ++ NQ+L Sbjct: 51 LPDAVVFAHSTEEVAAFVKLCSQYDTPIIPYGAGTSLEGHVLALQGGVTVDLSQMNQVLA 110 Query: 111 MDKYSRTAVVQPGVRNLAISEAAAPHGLYYAPDPSSQIACTIGGNVAENSGGVHCLKYGL 170 + TA VQ GV +++ GL++ DP + ++GG + + G + ++YG Sbjct: 111 VHAEDLTATVQAGVTRKQLNQEIKDTGLFFPIDPGAD--ASLGGMASTRASGTNAVRYGT 168 Query: 171 TVHNVLRVRMVTIEGDVVELGSGALDAP-GLDLLAVFIGSEGMLGVVTEVTVKLVPKPQA 229 N L + +VT +G++++ G+ A + G DL V++GSEG LG++TEVTV+L P+P+A Sbjct: 169 MKENTLTLTVVTAQGEIIKTGTRAKKSSAGYDLTRVYVGSEGTLGIITEVTVRLYPQPEA 228 Query: 230 ARVIMASFDDVVKGGNAVANVIAAGIIPAGLEMMDKTSSRMVEPFVKAGYDIDAEAILLC 289 + SF V N V I G+ A +E++D+ R + K ++ +LL Sbjct: 229 ISAAICSFPTVADAVNTVIQTIQMGVPLARVELLDENGVRAINAHDKLSLPVNP--LLLF 286 Query: 290 ESDGTTEEVEEEIGRMTDVLNASGATAIACSQSEAERLRFWSGRKNAFPAAGRISPDYYC 349 E G+ V+E+ + D+ A + +R R W+ R NA+ A ++ P Sbjct: 287 EFHGSENGVKEQAELVQDIAKEFHALGFEWATRPEDRTRLWTARHNAYFALLQLRPGARA 346 Query: 350 M--DGTIPRKQLAQVLLGIAEMEKKYGLRCANVFHAGDGNLHPLILFDANLADEFHRAEL 407 + D +P +LA+ +L ++ GL A + H GDGN H ++ D N + RAE Sbjct: 347 ISTDCCVPISRLAECVLATKADCEEQGLTHAIIGHVGDGNFHVQMMVDPNDPADIARAEG 406 Query: 408 FGAEILELCVEVGGTITGEHGVGIEKINSMCVQFSPAERESFFKLKRAFDPPFLLNPDKA 467 ++ + + GT TGEHGVG+ K++ + + +K A DP ++NP K Sbjct: 407 VNQRMVARAIGMDGTCTGEHGVGLHKMDFLIQEHGEGAIAVMRAIKHALDPKNIMNPGKI 466 Query: 468 I 468 + Sbjct: 467 L 467 >gi|300312605|ref|YP_003776697.1| FAD/FMN-containing dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 475 Score = 157 bits (396), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 135/471 (28%), Positives = 211/471 (44%), Gaps = 15/471 (3%) Query: 12 ARQREVVDALRRVVPAHCVLFDEEDTRPYECDGLAAYRQLPMVVVLPETEAQVVAILRTC 71 A E + A R + A VL D DT Y D Y + V+ P A+V A++R C Sbjct: 6 AAMNEFLQACRAAIGAPHVLTDAHDTAGYLTDQRGRYTGRALAVLRPADSAEVAAVVRLC 65 Query: 72 HALQVQIVPRGAGTGLSGGAMPIADG--VVLSTAKFNQILKMDKYSRTAVVQPGVRNLAI 129 V +VP+G TGL G++P G VVLS + N+I +D + T V+ G + Sbjct: 66 AQFAVPLVPQGGNTGLVLGSVPDQQGNAVVLSLRRLNRIRAVDALNNTITVESGCVLQHL 125 Query: 130 SEAAAPHGLYYAPDPSSQIACTIGGNVAENSGGVHCLKYGLTVHNVLRVRMVTIEGDVVE 189 E AA G + +++ +CTIGGN++ N+GG L+YG T L + +VT +G+++ Sbjct: 126 QEQAAAAGRLFPLSLAAEGSCTIGGNLSTNAGGTGVLRYGNTRELCLGLEVVTAQGEIMS 185 Query: 190 LGSGAL-DAPGLDLLAVFIGSEGMLGVVTEVTVKLVPKPQAARVIMASF-DDVVKGGNAV 247 G D G DL +FIG+EG LGV+T +KL P+P+A +A+ Sbjct: 186 SLKGLRKDNTGYDLRDLFIGAEGTLGVITAAVMKLFPQPRAQVTALAALPHPAQALQLLQ 245 Query: 248 ANVIAAGIIPAGLEMMDKTSSRMVE---PFVKAGYDI-DAEAILLCESDGTTEEVEEEI- 302 G G E+M ++V P + +D + +LL SD +EE + Sbjct: 246 LAQAHCGPALTGFELMSDFCLQLVRKHFPEQRLPFDRPHPQYVLLELSDSESEEHARALF 305 Query: 303 -GRMTDVLNASGATAIACSQSEAERLRFWSGRKNAFPAAGRISPDYYCMDGTIPRKQLAQ 361 G + L + S A+ W R++ A + D ++P ++A+ Sbjct: 306 EGLIGTALEQGLVDDAVIAASLAQSRALWRLRESISSAQAHEGKNIK-HDISVPISRIAE 364 Query: 362 VLLGIAEMEKKY--GLRCANVFHAGDGNLHPLILFDANLADE--FHRAELFGAEILELCV 417 + + ++ G R H GDGNLH + +AD R + + Sbjct: 365 FIAATDVLVQQAAPGCRMVTFGHLGDGNLHYNVSPPEGVADRDFIARQAAINRVVHDSVD 424 Query: 418 EVGGTITGEHGVGIEKINSMCVQFSPAERESFFKLKRAFDPPFLLNPDKAI 468 GG+I+ EHG+G K + SP E + +K A DP L+NP K + Sbjct: 425 RFGGSISAEHGLGALKREEITRYKSPVELQLMRAIKLALDPQQLMNPGKVL 475 >gi|300313195|ref|YP_003777287.1| oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 1333 Score = 77.8 bits (190), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 59/186 (31%), Positives = 92/186 (49%), Gaps = 9/186 (4%) Query: 14 QREVVDALRRVVPAHCVLFDEEDTRPYECDGLAAYRQLPMVVVLPETEAQVVAILRTCHA 73 ++ L R + FD + D + P VV+ P+TE ++ +++ C Sbjct: 157 RKRATKVLGRFTAKDNIKFDGLSRVSHVTDATDWRVEYPFVVLTPDTEDEMAGLVKACIE 216 Query: 74 LQVQIVPRGAGTGLSGGAMPIAD-GVVLSTAKFNQILK--------MDKYSRTAVVQPGV 124 L + I+PRG GTG +GGA+P+ V++T K Q+ +DK T GV Sbjct: 217 LGLTIIPRGGGTGYTGGAIPLTPMSAVINTEKLEQLGAVEMEILPGLDKPYATIYSGAGV 276 Query: 125 RNLAISEAAAPHGLYYAPDPSSQIACTIGGNVAENSGGVHCLKYGLTVHNVLRVRMVTIE 184 +S+AA G +A DP+S A IGGNVA N+GG + +G + N+ RMV + Sbjct: 277 VTKRVSDAAEKAGFVFAVDPTSAEASCIGGNVAMNAGGKKAVLWGTALDNLASWRMVDPQ 336 Query: 185 GDVVEL 190 GD +E+ Sbjct: 337 GDWLEV 342 >gi|300313341|ref|YP_003777433.1| FAD-dependent D-lactate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 587 Score = 57.4 bits (137), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 46/156 (29%), Positives = 78/156 (50%), Gaps = 8/156 (5%) Query: 13 RQREVVDALRRVVPAHCVLFDEEDTRPYECDGLAAYRQLPMVVVLPETEAQVVAILRTCH 72 R +V+ L +V + VL + TR + GL + VV P ++ +L+ CH Sbjct: 10 RTMDVISKLEAIVGSKHVLTGDAQTRRFR-QGLRYGGGEVLAVVRPGRLLEMWRVLQVCH 68 Query: 73 ALQVQIVPRGAGTGLSGGAMPIADG-----VVLSTAKFNQILKMDKYSRTAVVQPGVRNL 127 A + I+ + A TGL+GG+ PIA+G V+++T + ++ +D+ + + QPGV Sbjct: 69 AANMVIICQAANTGLTGGSTPIAEGYDRPVVLINTMRLTRLELLDQ-GQQVLSQPGVTLD 127 Query: 128 AISEAAAPHGLY-YAPDPSSQIACTIGGNVAENSGG 162 + P G ++ SS I +I G + NSGG Sbjct: 128 QLERRLKPLGREPHSVIGSSCIGASITGGICNNSGG 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 0.321 0.137 0.405 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: 1,467,781 Number of extensions: 58287 Number of successful extensions: 197 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 188 Number of HSP's successfully gapped: 5 Length of query: 495 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 406 Effective length of database: 1,198,455 Effective search space: 486572730 Effective search space used: 486572730 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)