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= 0023.0020.p (469 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313123|ref|YP_003777215.1| D-lactate dehydrogenase [Herbas... 858 0.0 gi|300313121|ref|YP_003777213.1| glycolate oxidase (FAD-linked s... 202 5e-53 gi|300312605|ref|YP_003776697.1| FAD/FMN-containing dehydrogenas... 184 1e-47 gi|300313195|ref|YP_003777287.1| oxidoreductase [Herbaspirillum ... 75 1e-14 gi|300313120|ref|YP_003777212.1| glycolate oxidase iron-sulfur s... 65 1e-11 >gi|300313123|ref|YP_003777215.1| D-lactate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 471 Score = 858 bits (2217), Expect = 0.0, Method: Compositional matrix adjust. Identities = 403/469 (85%), Positives = 441/469 (94%) Query: 1 MNHIVDAQKLRKPVPEALLASLQSLLGNRFSTTQAMREHHGRDESSYDPMLPDAVAFAHT 60 MNH+VDA+KL++PVP+ALL L++L G+R STT AMREHHGRDESSYDPMLPDAV FAH+ Sbjct: 1 MNHLVDARKLKRPVPQALLDELKALFGDRCSTTLAMREHHGRDESSYDPMLPDAVVFAHS 60 Query: 61 TEEVAAIIKACSEHRIPVIPYGTGTSLEGHVLALQGGITIDLSQMSQVLAVNGEDLTATV 120 TEEVAA +K CS++ P+IPYG GTSLEGHVLALQGG+T+DLSQM+QVLAV+ EDLTATV Sbjct: 61 TEEVAAFVKLCSQYDTPIIPYGAGTSLEGHVLALQGGVTVDLSQMNQVLAVHAEDLTATV 120 Query: 121 QAGVTRKQLNQEIKDSGLFFPIDPGADASIGGMASTRASGTNAVRYGTMRENTLALTVVT 180 QAGVTRKQLNQEIKD+GLFFPIDPGADAS+GGMASTRASGTNAVRYGTM+ENTL LTVVT Sbjct: 121 QAGVTRKQLNQEIKDTGLFFPIDPGADASLGGMASTRASGTNAVRYGTMKENTLTLTVVT 180 Query: 181 ADGNIIKTGTRAKKSSAGYDLTRVYVGSEGTLGIITEITVRLYPQPEAVSAAICSFPSVA 240 A G IIKTGTRAKKSSAGYDLTRVYVGSEGTLGIITE+TVRLYPQPEA+SAAICSFP+VA Sbjct: 181 AQGEIIKTGTRAKKSSAGYDLTRVYVGSEGTLGIITEVTVRLYPQPEAISAAICSFPTVA 240 Query: 241 DAVNTVIQAIQVGVPLARVELLDENGVKAINAHDKMTLPENPLLLFEFHGSENGVKEQAE 300 DAVNTVIQ IQ+GVPLARVELLDENGV+AINAHDK++LP NPLLLFEFHGSENGVKEQAE Sbjct: 241 DAVNTVIQTIQMGVPLARVELLDENGVRAINAHDKLSLPVNPLLLFEFHGSENGVKEQAE 300 Query: 301 VVQELANDNNALGFEWATRPEDRSRLWAARHNAYFAILQLRHGARAISTDCCVPISRLAE 360 +VQ++A + +ALGFEWATRPEDR+RLW ARHNAYFA+LQLR GARAISTDCCVPISRLAE Sbjct: 301 LVQDIAKEFHALGFEWATRPEDRTRLWTARHNAYFALLQLRPGARAISTDCCVPISRLAE 360 Query: 361 CVLETKADCEANGLVHAIIGHVGDGNFHVQMMVDPNDPADIARAEGVNERMVTRAIEMDG 420 CVL TKADCE GL HAIIGHVGDGNFHVQMMVDPNDPADIARAEGVN+RMV RAI MDG Sbjct: 361 CVLATKADCEEQGLTHAIIGHVGDGNFHVQMMVDPNDPADIARAEGVNQRMVARAIGMDG 420 Query: 421 TCTGEHGVGLHKMDFLVQEHGDGAIDVMRAIKHALDPKNIMNPGKIVRW 469 TCTGEHGVGLHKMDFL+QEHG+GAI VMRAIKHALDPKNIMNPGKI+RW Sbjct: 421 TCTGEHGVGLHKMDFLIQEHGEGAIAVMRAIKHALDPKNIMNPGKILRW 469 >gi|300313121|ref|YP_003777213.1| glycolate oxidase (FAD-linked subunit) oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 495 Score = 202 bits (514), Expect = 5e-53, Method: Compositional matrix adjust. Identities = 123/421 (29%), Positives = 209/421 (49%), Gaps = 7/421 (1%) Query: 51 LPDAVAFAHTTEEVAAIIKACSEHRIPVIPYGTGTSLEGHVLALQGGITIDLSQMSQVLA 110 LP V +V AI+K C ++ ++P G GT L G + G+ + ++ +Q+L Sbjct: 51 LPMVVVLPENEAQVVAIMKTCHALQVQIVPRGAGTGLSGGATPIADGVVVSTAKFNQILQ 110 Query: 111 VNGEDLTATVQAGVTRKQLNQEIKDSGLFFPIDPGAD--ASIGGMASTRASGTNAVRYGT 168 ++ TA VQ GV +++ GL++ DP + SIGG + + G + ++YG Sbjct: 111 MDKYSRTAVVQPGVRNLAISEAAAPHGLYYAPDPSSQIACSIGGNVAENSGGVHCLKYGL 170 Query: 169 MRENTLALTVVTADGNIIKTGTRAKKSSAGYDLTRVYVGSEGTLGIITEITVRLYPQPEA 228 N L + +VT +G +++ G+ A + G DL V++GSEG LG++TE+TV+L P+P+A Sbjct: 171 TVHNVLRVRMVTIEGEVVELGSGALDAP-GLDLLAVFIGSEGMLGVVTEVTVKLVPKPQA 229 Query: 229 VSAAICSFPSVADAVNTVIQAIQVGVPLARVELLDENGVKAINAHDK--MTLPENPLLLF 286 + SF V N V I G+ A +E++D+ + + K + +LL Sbjct: 230 ARVIMASFDDVVKGGNAVANVIAAGIIPAGLEMMDKTSSRMVEPFVKAGYDIDAEAILLC 289 Query: 287 EFHGSENGVKEQAEVVQELANDNNALGFEWATRPEDRSRLWAARHNAYFAILQLRHGARA 346 E G+ V+E+ + ++ N + A + +R R W+ R NA+ A R Sbjct: 290 ESDGTVEEVEEEIGRMTDVLNASGATAIACSQSEAERLRFWSGRKNAFPA--AGRISPDY 347 Query: 347 ISTDCCVPISRLAECVLETKADCEANGLVHAIIGHVGDGNFHVQMMVDPNDPADIARAEG 406 D +P +LA+ +L + GL A + H GDGN H ++ D N + RAE Sbjct: 348 YCMDGTIPRKKLAQVLLGIAEMEKKYGLRCANVFHAGDGNLHPLILFDANIADEFHRAEL 407 Query: 407 VNERMVTRAIEMDGTCTGEHGVGLHKMDFLVQEHGDGAIDVMRAIKHALDPKNIMNPGKI 466 ++ +E+ GT TGEHGVG+ K++ + + + +K A DP ++NP K Sbjct: 408 FGAEILELCVEVGGTITGEHGVGIEKINSMCVQFSPAERETFFKLKRAFDPAFLLNPDKA 467 Query: 467 V 467 + Sbjct: 468 I 468 >gi|300312605|ref|YP_003776697.1| FAD/FMN-containing dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 475 Score = 184 bits (467), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 136/432 (31%), Positives = 214/432 (49%), Gaps = 36/432 (8%) Query: 61 TEEVAAIIKACSEHRIPVIPYGTGTSLE-GHVLALQG-GITIDLSQMSQVLAVNGEDLTA 118 + EVAA+++ C++ +P++P G T L G V QG + + L +++++ AV+ + T Sbjct: 55 SAEVAAVVRLCAQFAVPLVPQGGNTGLVLGSVPDQQGNAVVLSLRRLNRIRAVDALNNTI 114 Query: 119 TVQAGVTRKQLNQEIKDSGLFFPIDPGADAS--IGGMASTRASGTNAVRYGTMRENTLAL 176 TV++G + L ++ +G FP+ A+ S IGG ST A GT +RYG RE L L Sbjct: 115 TVESGCVLQHLQEQAAAAGRLFPLSLAAEGSCTIGGNLSTNAGGTGVLRYGNTRELCLGL 174 Query: 177 TVVTADGNIIKTGTRAKKSSAGYDLTRVYVGSEGTLGIITEITVRLYPQPEAVSAAICSF 236 VVTA G I+ + +K + GYDL +++G+EGTLG+IT ++L+PQP A A+ + Sbjct: 175 EVVTAQGEIMSSLKGLRKDNTGYDLRDLFIGAEGTLGVITAAVMKLFPQPRAQVTALAAL 234 Query: 237 P-SVADAVNTVIQAIQVGVPLARVELLDENGVKAINAH---DKMTL--PENPLLLFEFHG 290 P + G L EL+ + ++ + H ++ P +L E Sbjct: 235 PHPAQALQLLQLAQAHCGPALTGFELMSDFCLQLVRKHFPEQRLPFDRPHPQYVLLELSD 294 Query: 291 SENGVKEQAEVV----------QELANDNNALGFEWATRPEDRSRLWAARHNAYFAILQL 340 SE+ +E A + Q L +D A+ + R+ LW R + A Sbjct: 295 SES--EEHARALFEGLIGTALEQGLVDD----AVIAASLAQSRA-LWRLRESISSA---Q 344 Query: 341 RHGARAISTDCCVPISRLAECVLETKADCE--ANGLVHAIIGHVGDGNFHVQMMVDPNDP 398 H + I D VPISR+AE + T + A G GH+GDGN H + P Sbjct: 345 AHEGKNIKHDISVPISRIAEFIAATDVLVQQAAPGCRMVTFGHLGDGNLHYNVS-PPEGV 403 Query: 399 AD---IARAEGVNERMVTRAIEMDGTCTGEHGVGLHKMDFLVQEHGDGAIDVMRAIKHAL 455 AD IAR +N + G+ + EHG+G K + + + + +MRAIK AL Sbjct: 404 ADRDFIARQAAINRVVHDSVDRFGGSISAEHGLGALKREEITRYKSPVELQLMRAIKLAL 463 Query: 456 DPKNIMNPGKIV 467 DP+ +MNPGK++ Sbjct: 464 DPQQLMNPGKVL 475 >gi|300313195|ref|YP_003777287.1| oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 1333 Score = 75.1 bits (183), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 101/396 (25%), Positives = 159/396 (40%), Gaps = 75/396 (18%) Query: 37 REHHGRDESSYDPMLPDAVAFAHTTEEVAAIIKACSEHRIPVIPYGTGTSLEGHVLALQG 96 R H D + + P V T +E+A ++KAC E + +IP G GT G + L Sbjct: 180 RVSHVTDATDWRVEYPFVVLTPDTEDEMAGLVKACIELGLTIIPRGGGTGYTGGAIPLTP 239 Query: 97 -GITIDLSQMSQVLAVNGEDL------TATVQ--AGVTRKQLNQEIKDSGLFFPIDP-GA 146 I+ ++ Q+ AV E L AT+ AGV K+++ + +G F +DP A Sbjct: 240 MSAVINTEKLEQLGAVEMEILPGLDKPYATIYSGAGVVTKRVSDAAEKAGFVFAVDPTSA 299 Query: 147 DAS-IGGMASTRASGTNAVRYGTMRENTLALTVVTADGNIIK------------------ 187 +AS IGG + A G AV +GT +N + +V G+ ++ Sbjct: 300 EASCIGGNVAMNAGGKKAVLWGTALDNLASWRMVDPQGDWLEVTRLDHNLGKIHDVEVAR 359 Query: 188 -------------------------TGTRAKKSSAGYDLTRVY------VGSEGTLGIIT 216 +G + +K G D+T + V EG G+IT Sbjct: 360 FKLEWSHPGEKGQKTEVFKTEILEISGKKFRKEGLGKDVTDKFLSGLPGVQKEGCDGLIT 419 Query: 217 EITVRLYPQPEAVSAAICSFPSVA-DAVNTVI--------QAIQVGVPLARVELLDENGV 267 L+ P+ F A DA+ +++ + + G LA +E LDE + Sbjct: 420 SARWILHKMPKQTRTVCLEFFGQARDAIPSIVEIKDYLDAETKKGGAILAGLEHLDERYL 479 Query: 268 KAINAHDKM---TLPENPLLLFEFHGSENGVKEQAEVVQELANDNNALGFEWATRPEDRS 324 +A+ K LP+ L+ EN V A V +AN+ GF A PE R Sbjct: 480 RAVGYATKSKRGVLPKMVLIGDIVGDDENAVAAAASEVIRMANNRVGEGFV-AVSPEARK 538 Query: 325 RLWAARHNAYFAILQLRHGARAISTDCCVPISRLAE 360 + W R A + A I+ D +P++R+ E Sbjct: 539 KFWLDRSRT--AAIAKHTNAFKINEDVVIPLNRMGE 572 >gi|300313120|ref|YP_003777212.1| glycolate oxidase iron-sulfur subunit oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 359 Score = 64.7 bits (156), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 38/140 (27%), Positives = 69/140 (49%), Gaps = 3/140 (2%) Query: 97 GITIDLSQMSQVLAVNGEDLTATVQAGVTRKQLNQEIKDSGLFFPIDP---GADASIGGM 153 G +D S ++ +L T + G +++ + +P G A++GGM Sbjct: 43 GELLDTRAYSGIIDYEPTELVITARCGTPLSEIDAALAQHNQMLAWEPPSFGGAATVGGM 102 Query: 154 ASTRASGTNAVRYGTMRENTLALTVVTADGNIIKTGTRAKKSSAGYDLTRVYVGSEGTLG 213 + SG G +R+ L ++ A G + G + K+ AGYD++R+ GS GTLG Sbjct: 103 VAAGLSGPARASAGAVRDFVLGAVLMDAQGEPLHFGGQVMKNVAGYDISRLLAGSLGTLG 162 Query: 214 IITEITVRLYPQPEAVSAAI 233 +I E+++++ P+P A S + Sbjct: 163 LILEVSLKVLPRPIASSTRV 182 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 0.317 0.133 0.387 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: 1,482,492 Number of extensions: 61632 Number of successful extensions: 200 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 189 Number of HSP's successfully gapped: 5 Length of query: 469 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 380 Effective length of database: 1,198,455 Effective search space: 455412900 Effective search space used: 455412900 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)