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= 0026.0010.p (452 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... 818 0.0 gi|300313121|ref|YP_003777213.1| glycolate oxidase (FAD-linked s... 195 7e-51 gi|300312605|ref|YP_003776697.1| FAD/FMN-containing dehydrogenas... 156 4e-39 gi|300313195|ref|YP_003777287.1| oxidoreductase [Herbaspirillum ... 74 3e-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 = 818 bits (2114), Expect = 0.0, Method: Compositional matrix adjust. Identities = 387/443 (87%), Positives = 420/443 (94%) Query: 1 MNHIVDAQKLRKPVPAALLASLQALFGNRFSTTQAMREHHGRDESSYDPMLPDAVVFAHT 60 MNH+VDA+KL++PVP ALL L+ALFG+R STT AMREHHGRDESSYDPMLPDAVVFAH+ Sbjct: 1 MNHLVDARKLKRPVPQALLDELKALFGDRCSTTLAMREHHGRDESSYDPMLPDAVVFAHS 60 Query: 61 TEEVAAVIKACSEHRIPVIPYGTGTSLEGHVLALQGGITIDLSQMNQVLAVNAEDLTATV 120 TEEVAA +K CS++ P+IPYG GTSLEGHVLALQGG+T+DLSQMNQVLAV+AEDLTATV Sbjct: 61 TEEVAAFVKLCSQYDTPIIPYGAGTSLEGHVLALQGGVTVDLSQMNQVLAVHAEDLTATV 120 Query: 121 QAGVTRKQLNQEIKDSGLFFPIDPGADASIGGMASTRASGTNAVRYGTMRENTLALTVVT 180 QAGVTRKQLNQEIKD+GLFFPIDPGADAS+GGMASTRASGTNAVRYGTM+ENTL LTVVT Sbjct: 121 QAGVTRKQLNQEIKDTGLFFPIDPGADASLGGMASTRASGTNAVRYGTMKENTLTLTVVT 180 Query: 181 ADGNIIKTGTRAKKSSAGYDLTRVYVGSEGTLGIITEVTVRLYPQPEAVSAAICSFPSVA 240 A G IIKTGTRAKKSSAGYDLTRVYVGSEGTLGIITEVTVRLYPQPEA+SAAICSFP+VA Sbjct: 181 AQGEIIKTGTRAKKSSAGYDLTRVYVGSEGTLGIITEVTVRLYPQPEAISAAICSFPTVA 240 Query: 241 DAVNTVIQAIQVGVPLARVELLDENGVKAINAHDKMTLPENPLLLFEFHGSEHGVKEQAE 300 DAVNTVIQ IQ+GVPLARVELLDENGV+AINAHDK++LP NPLLLFEFHGSE+GVKEQAE Sbjct: 241 DAVNTVIQTIQMGVPLARVELLDENGVRAINAHDKLSLPVNPLLLFEFHGSENGVKEQAE 300 Query: 301 VVQELASDNNALGFEWATRPEDRTRLWTARHNAYFALLQMRPGARAISTDCCVPISRLAE 360 +VQ++A + +ALGFEWATRPEDRTRLWTARHNAYFALLQ+RPGARAISTDCCVPISRLAE Sbjct: 301 LVQDIAKEFHALGFEWATRPEDRTRLWTARHNAYFALLQLRPGARAISTDCCVPISRLAE 360 Query: 361 CVLETKADCESQGLIHAIIGHVGDGNFHVQMMVDPNDPADIARAEGVNERMVTRALEMDG 420 CVL TKADCE QGL HAIIGHVGDGNFHVQMMVDPNDPADIARAEGVN+RMV RA+ MDG Sbjct: 361 CVLATKADCEEQGLTHAIIGHVGDGNFHVQMMVDPNDPADIARAEGVNQRMVARAIGMDG 420 Query: 421 TCTGEHGVGLHKMDFLVQEHGXG 443 TCTGEHGVGLHKMDFL+QEHG G Sbjct: 421 TCTGEHGVGLHKMDFLIQEHGEG 443 >gi|300313121|ref|YP_003777213.1| glycolate oxidase (FAD-linked subunit) oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 495 Score = 195 bits (495), Expect = 7e-51, Method: Compositional matrix adjust. Identities = 118/398 (29%), Positives = 202/398 (50%), Gaps = 7/398 (1%) Query: 51 LPDAVVFAHTTEEVAAVIKACSEHRIPVIPYGTGTSLEGHVLALQGGITIDLSQMNQVLA 110 LP VV +V A++K C ++ ++P G GT L G + G+ + ++ NQ+L Sbjct: 51 LPMVVVLPENEAQVVAIMKTCHALQVQIVPRGAGTGLSGGATPIADGVVVSTAKFNQILQ 110 Query: 111 VNAEDLTATVQAGVTRKQLNQEIKDSGLFFPIDPGAD--ASIGGMASTRASGTNAVRYGT 168 ++ TA VQ GV +++ GL++ DP + SIGG + + G + ++YG Sbjct: 111 MDKYSRTAVVQPGVRNLAISEAAAPHGLYYAPDPSSQIACSIGGNVAENSGGVHCLKYGL 170 Query: 169 MRENTLALTVVTADGNIIKTGTRAKKSSAGYDLTRVYVGSEGTLGIITEVTVRLYPQPEA 228 N L + +VT +G +++ G+ A + G DL V++GSEG LG++TEVTV+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 EFHGSEHGVKEQAEVVQELASDNNALGFEWATRPEDRTRLWTARHNAYFALLQMRPGARA 346 E G+ V+E+ + ++ + + A + +R R W+ R NA+ A ++ P Sbjct: 290 ESDGTVEEVEEEIGRMTDVLNASGATAIACSQSEAERLRFWSGRKNAFPAAGRISPDYYC 349 Query: 347 ISTDCCVPISRLAECVLETKADCESQGLIHAIIGHVGDGNFHVQMMVDPNDPADIARAEG 406 + D +P +LA+ +L + GL A + H GDGN H ++ D N + RAE Sbjct: 350 M--DGTIPRKKLAQVLLGIAEMEKKYGLRCANVFHAGDGNLHPLILFDANIADEFHRAEL 407 Query: 407 VNERMVTRALEMDGTCTGEHGVGLHKMDFLVQEHGXGE 444 ++ +E+ GT TGEHGVG+ K++ + + E Sbjct: 408 FGAEILELCVEVGGTITGEHGVGIEKINSMCVQFSPAE 445 >gi|300312605|ref|YP_003776697.1| FAD/FMN-containing dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 475 Score = 156 bits (394), Expect = 4e-39, Method: Compositional matrix adjust. Identities = 129/410 (31%), Positives = 194/410 (47%), Gaps = 44/410 (10%) Query: 54 AVVFAHTTEEVAAVIKACSEHRIPVIPYGTGTSLE-GHVLALQG-GITIDLSQMNQVLAV 111 AV+ + EVAAV++ C++ +P++P G T L G V QG + + L ++N++ AV Sbjct: 48 AVLRPADSAEVAAVVRLCAQFAVPLVPQGGNTGLVLGSVPDQQGNAVVLSLRRLNRIRAV 107 Query: 112 NAEDLTATVQAGVTRKQLNQEIKDSGLFFPIDPGADAS--IGGMASTRASGTNAVRYGTM 169 +A + T TV++G + L ++ +G FP+ A+ S IGG ST A GT +RYG Sbjct: 108 DALNNTITVESGCVLQHLQEQAAAAGRLFPLSLAAEGSCTIGGNLSTNAGGTGVLRYGNT 167 Query: 170 RENTLALTVVTADGNIIKTGTRAKKSSAGYDLTRVYVGSEGTLGIITEVTVRLYPQPEAV 229 RE L L VVTA G I+ + +K + GYDL +++G+EGTLG+IT ++L+PQP A Sbjct: 168 RELCLGLEVVTAQGEIMSSLKGLRKDNTGYDLRDLFIGAEGTLGVITAAVMKLFPQPRAQ 227 Query: 230 SAAICSFP-SVADAVNTVIQAIQVGVPLARVELLDENGVKAINAHDKMTLPENPL----- 283 A+ + P + G L EL+ + ++ + H PE L Sbjct: 228 VTALAALPHPAQALQLLQLAQAHCGPALTGFELMSDFCLQLVRKH----FPEQRLPFDRP 283 Query: 284 ----LLFEFHGSEHGVKEQAEVV----------QELASDNNALGFEWATRPEDRTRLWTA 329 +L E SE +E A + Q L D A+ + R LW Sbjct: 284 HPQYVLLELSDSES--EEHARALFEGLIGTALEQGLVDD----AVIAASLAQSRA-LWRL 336 Query: 330 RHNAYFALLQMRPGARAISTDCCVPISRLAECVLETKADCE--SQGLIHAIIGHVGDGNF 387 R + A Q G + I D VPISR+AE + T + + G GH+GDGN Sbjct: 337 RESISSA--QAHEG-KNIKHDISVPISRIAEFIAATDVLVQQAAPGCRMVTFGHLGDGNL 393 Query: 388 HVQMMVDPNDPAD---IARAEGVNERMVTRALEMDGTCTGEHGVGLHKMD 434 H + P AD IAR +N + G+ + EHG+G K + Sbjct: 394 HYNVS-PPEGVADRDFIARQAAINRVVHDSVDRFGGSISAEHGLGALKRE 442 >gi|300313195|ref|YP_003777287.1| oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 1333 Score = 73.6 bits (179), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 99/396 (25%), Positives = 159/396 (40%), Gaps = 75/396 (18%) Query: 37 REHHGRDESSYDPMLPDAVVFAHTTEEVAAVIKACSEHRIPVIPYGTGTSLEGHVLALQG 96 R H D + + P V+ T +E+A ++KAC E + +IP G GT G + L Sbjct: 180 RVSHVTDATDWRVEYPFVVLTPDTEDEMAGLVKACIELGLTIIPRGGGTGYTGGAIPLTP 239 Query: 97 -GITIDLSQMNQVLAVNAEDL------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 EVTVRLYPQPEAVSAAICSFPSVA-DAVNTVIQAIQV--------GVPLARVELLDENGV 267 L+ P+ F A DA+ ++++ G LA +E LDE + Sbjct: 420 SARWILHKMPKQTRTVCLEFFGQARDAIPSIVEIKDYLDAETKKGGAILAGLEHLDERYL 479 Query: 268 KAINAHDKM---TLPENPLLLFEFHGSEHGVKEQAEVVQELASDNNALGFEWATRPEDRT 324 +A+ K LP+ L+ E+ V A V +A++ GF A PE R Sbjct: 480 RAVGYATKSKRGVLPKMVLIGDIVGDDENAVAAAASEVIRMANNRVGEGFV-AVSPEARK 538 Query: 325 RLWTARHNAYFALLQMRPGARAISTDCCVPISRLAE 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 GITIDLSQMNQVLAVNAEDLTATVQAGVTRKQLNQEIKDSGLFFPIDP---GADASIGGM 153 G +D + ++ +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 IITEVTVRLYPQPEAVSAAI 233 +I EV++++ 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 0.132 0.383 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: 1,436,121 Number of extensions: 58947 Number of successful extensions: 206 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 194 Number of HSP's successfully gapped: 5 Length of query: 452 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 364 Effective length of database: 1,203,190 Effective search space: 437961160 Effective search space used: 437961160 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)