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= 0029.0016.p (920 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310808|ref|YP_003774900.1| NAD-dependent formate dehydroge... 1928 0.0 gi|300312208|ref|YP_003776300.1| assimilatory nitrate reductase ... 295 1e-80 gi|300311101|ref|YP_003775193.1| NADH dehydrogenase I subunit G ... 186 5e-48 gi|300311015|ref|YP_003775107.1| anaerobic (selenocysteine-conta... 142 1e-34 gi|300310774|ref|YP_003774866.1| anaerobic formate dehydrogenase... 126 9e-30 >gi|300310808|ref|YP_003774900.1| NAD-dependent formate dehydrogenase subunit alpha [Herbaspirillum seropedicae SmR1] Length = 957 Score = 1928 bits (4995), Expect = 0.0, Method: Compositional matrix adjust. Identities = 917/920 (99%), Positives = 919/920 (99%) Query: 1 MRASVEAGINVPKLCATDSLEPFGSCRLCLVEIEKDGRKMKGYPASCTTPCEPGMKVQTQ 60 MRASVEAGINVPKLCATDSLEPFGSCRLCLVEIEKDGRKMKGYPASCTTPCEPGMKVQTQ Sbjct: 38 MRASVEAGINVPKLCATDSLEPFGSCRLCLVEIEKDGRKMKGYPASCTTPCEPGMKVQTQ 97 Query: 61 TPKLAEIRRGVMELYISDHPLDCLTCPTNGNCELQDMAGVVGLREVRYGYEGENHTKMKK 120 TPKLAEIRRGVMELYISDHPLDCLTCPTNGNCELQDMAGVVGLREVRYGYEGENHTKMKK Sbjct: 98 TPKLAEIRRGVMELYISDHPLDCLTCPTNGNCELQDMAGVVGLREVRYGYEGENHTKMKK 157 Query: 121 DESNPYFTYDPSKCIVCNRCVRACEETQGTFALTINGRGFESRVSAGQMEAFMESECVSC 180 DESNPYFTYDPSKCIVCNRCVRACEETQGTFALTINGRGFESRVSAGQMEAFMESECVSC Sbjct: 158 DESNPYFTYDPSKCIVCNRCVRACEETQGTFALTINGRGFESRVSAGQMEAFMESECVSC 217 Query: 181 GACVEACPTATLTEKTVIMLGQAEHSKVTTCAYCGVGCSFKAEMKGNEVVRMVPYKDGKA 240 GACVEACPTATLTEKTVIMLGQAEHSKVTTCAYCGVGCSFKAEMKGNEVVRMVPYKDGKA Sbjct: 218 GACVEACPTATLTEKTVIMLGQAEHSKVTTCAYCGVGCSFKAEMKGNEVVRMVPYKDGKA 277 Query: 241 NQGHSCVKGRFAWGYATHKDRILNPMIRKSINDPWREVSWEEALSYAASEFRRIQAKHGK 300 NQGHSCVKGRFAWGYATHKDRILNPMIRKSINDPWREVSWEEALSYAASEFRRIQAKHGK Sbjct: 278 NQGHSCVKGRFAWGYATHKDRILNPMIRKSINDPWREVSWEEALSYAASEFRRIQAKHGK 337 Query: 301 DSIGGITSSRCTNEETYLVQKLVRAAFGNNNVDTCARVCHSPTGYGLKQTLGESAGTQTF 360 DSIGGITSSRCTNEETYLVQKLVRAAFGNNNVDTCARVCHSPTGYGLKQTLGESAGTQTF Sbjct: 338 DSIGGITSSRCTNEETYLVQKLVRAAFGNNNVDTCARVCHSPTGYGLKQTLGESAGTQTF 397 Query: 361 ESVMKSDVILIMGANPAAGHPVFASQIKRRVRQGAKLIVIDPRTTEMVKSPHIQADYHLK 420 ESVMKSDVILIMGANPAAGHPVFASQIKRRVRQGAKLIVIDPRTTEMVKSPHIQADYHLK Sbjct: 398 ESVMKSDVILIMGANPAAGHPVFASQIKRRVRQGAKLIVIDPRTTEMVKSPHIQADYHLK 457 Query: 421 LRPGTNTAIITALAHVILSEGLQDEAYIQERCDLQSYKDWKEFVLRADNSPEAMAAITGV 480 LRPGTNTAIITALAHVILSEGLQDEAYIQERCDLQSY+DWKEFVLR DNSPEAMAAITGV Sbjct: 458 LRPGTNTAIITALAHVILSEGLQDEAYIQERCDLQSYQDWKEFVLREDNSPEAMAAITGV 517 Query: 481 PAEIIRGAARLYATGGNAAIYYGLGVTEHAQGSTTVMGIANLAMCTGNVGREGVGVNPLR 540 PAEIIRGAARLYATGGNAAIYYGLGVTEHAQGSTTVMGIANLAMCTGNVGREGVGVNPLR Sbjct: 518 PAEIIRGAARLYATGGNAAIYYGLGVTEHAQGSTTVMGIANLAMCTGNVGREGVGVNPLR 577 Query: 541 GQNNVQGSCDMGSFPHELPGYRHISDSTVRSQFEQAWGVTLNPEPGLRIPNMFDAALDGS 600 GQNNVQGSCDMGSFPHELPGYRHISDSTVR+QFEQAWGVTLNPEPGLRIPNMFDAALDGS Sbjct: 578 GQNNVQGSCDMGSFPHELPGYRHISDSTVRNQFEQAWGVTLNPEPGLRIPNMFDAALDGS 637 Query: 601 FKGLYCEGEDIVQSDPNTQHVAAALQAMECIVVQDLFLNETAKYAHVFLPGSSFLEKDGT 660 FKGLYCEGEDIVQSDPNTQHVAAALQAMECIVVQDLFLNETAKYAHVFLPGSSFLEKDGT Sbjct: 638 FKGLYCEGEDIVQSDPNTQHVAAALQAMECIVVQDLFLNETAKYAHVFLPGSSFLEKDGT 697 Query: 661 FTNAERRISRVRKVMPPKAGKSDWEVTVALAEALGYPMPYNHPSEIMDEIAALTPSFHGV 720 FTNAERRISRVRKVMPPKAGKSDWEVTVALAEALGYPMPYNHPSEIMDEIAALTPSFHGV Sbjct: 698 FTNAERRISRVRKVMPPKAGKSDWEVTVALAEALGYPMPYNHPSEIMDEIAALTPSFHGV 757 Query: 721 SYDKLEKLGSIQWPCNESAPEGTPIMHVGSFIRGKGKFINTQYFATDEKVTQRYPLILTT 780 SYDKLEKLGSIQWPCNESAPEGTPIMHVGSFIRGKGKFINTQYFATDEKVTQRYPLILTT Sbjct: 758 SYDKLEKLGSIQWPCNESAPEGTPIMHVGSFIRGKGKFINTQYFATDEKVTQRYPLILTT 817 Query: 781 GRILSQYNVGAQTRRTENSQWHSEDRLEIHPHDAEDRGIREGDWVGVESRAGQTVLRATV 840 GRILSQYNVGAQTRRTENSQWHSEDRLEIHPHDAEDRGIREGDWVGVESRAGQTVLRATV Sbjct: 818 GRILSQYNVGAQTRRTENSQWHSEDRLEIHPHDAEDRGIREGDWVGVESRAGQTVLRATV 877 Query: 841 TEKVQPGVVYTTFHFPESGANVITTDNSDWATNCPEYKVTAVQVMPVTQPSQWQQHYQRF 900 TEKVQPGVVYTTFHFPESGANVITTDNSDWATNCPEYKVTAVQVMPVTQPSQWQQHYQRF Sbjct: 878 TEKVQPGVVYTTFHFPESGANVITTDNSDWATNCPEYKVTAVQVMPVTQPSQWQQHYQRF 937 Query: 901 NREQLDLLKGQAQAEPLVTK 920 NREQLDLLKGQAQAEPLVTK Sbjct: 938 NREQLDLLKGQAQAEPLVTK 957 >gi|300312208|ref|YP_003776300.1| assimilatory nitrate reductase large subunit [Herbaspirillum seropedicae SmR1] Length = 922 Score = 295 bits (754), Expect = 1e-80, Method: Compositional matrix adjust. Identities = 209/725 (28%), Positives = 336/725 (46%), Gaps = 51/725 (7%) Query: 200 LGQAEHSKVTTCAYCGVGCSFKAEMKGNEVVRMVPYKDGKANQGHSCVKGRFAWGYATHK 259 L A + TTC YCGVGC A MK + + + AN G CVKG A G Sbjct: 8 LALAVATTSTTCPYCGVGCGVSASMKDDGRIGIQGDAQHPANFGRLCVKGS-ALGETVDL 66 Query: 260 D-RILNPMIRKSINDPWREVSWEEALSYAASEFRRIQAKHGKDSIGGITSSRCTNEETYL 318 D R+L+P +R + ++++W++AL + AS+F I A+HG D++ S + E+ Y+ Sbjct: 67 DGRLLHPQLRDA-QGQLQQLAWDQALDHVASKFSAIIAEHGPDAVALYVSGQLLTEDYYI 125 Query: 319 VQKLVRAAFGNNNVDTCARVCHSPTGYGLKQTLGESAGTQTFESVMKSDVILIMGANPAA 378 KL++ G+ N+DT +R+C S G K+ GE +E + +D+++++G+N A Sbjct: 126 ANKLMKGYIGSANIDTNSRLCMSSAVAGHKRAFGEDLVPVCYEDLELADLVVLVGSNAAW 185 Query: 379 GHPVFASQIKR--RVRQGAKLIVIDPRTTEMVKSPHIQADYHLKLRPGTNTAIITALAHV 436 HP+ +I R R +L+VIDPR T + AD HL ++PGT+ + L Sbjct: 186 CHPILFQRIARLKETRPALRLVVIDPRRTATCE----LADLHLPIKPGTDVWLFNGLMSY 241 Query: 437 ILSEGLQDEAYIQERCDLQSYKDWKEFVLRAD---NSPEAMAAITGVPAEIIRGAARLYA 493 + GL+D A+I+ K + E + AD P +A + + + + +A Sbjct: 242 LAHRGLRDNAFIEAHT-----KGFDEALAVADADCADPATVARLCKIDLKDLLAFYEAFA 296 Query: 494 TGGNAAIYYGLGVTEHAQGSTTVMGIANLAMCTGNVGREGVGVNPLRGQNNVQGSCDMGS 553 + +GV + + G+ V I N + TG +G+ G+G + GQ N G ++G Sbjct: 297 NTEKVVTGFSMGVNQSSAGTDKVNSIINCHLATGRIGKPGMGPFSITGQPNAMGGREVGG 356 Query: 554 FPHELPGYRHISDSTVRSQFEQAW-GVTLNPEPGLRIPNMFDAALDGSFKGLYCEGEDIV 612 + L + + R + W + +PGL+ +MF A +G K ++ + + Sbjct: 357 LANMLAAHMDLDQPLHRQIVQDFWQSPRIADKPGLKAVDMFRAIEEGRIKAVWIMATNPM 416 Query: 613 QSDPNTQHVAAALQAMECIVVQDLFLN-ETAKYAHVFLPGSSFLEKDGTFTNAERRISRV 671 S P+ V ALQ E +V D+ +T AHV LP ++ EKDGT TN+ERRISR Sbjct: 417 VSLPDADLVQRALQKCELVVSSDVITQTDTNALAHVLLPALAWGEKDGTVTNSERRISRQ 476 Query: 672 RKVM-PPKAGKSDWEVTVALAEALGYP-MPYNHPSEIMDEIAALT--------------- 714 R + P + DW + +A +G+ + P EI DE A L+ Sbjct: 477 RAFLSAPGEARGDWRIICDVARRMGFDGFDFAGPHEIFDEHARLSAHRNGEADASRVRRV 536 Query: 715 ---PSFHGVSYDKLEKLGSIQWPC---NESAPEGTPIM---HVGSFIRGKGKFINTQYFA 765 G+ + L IQWP ++ + GT + H S G+ +F+ T + Sbjct: 537 FNLAGLTGMDRAAYDALAPIQWPVQRLSDGSVSGTARVLEDHRFSHADGRARFVPTAPRS 596 Query: 766 TDEKVTQRYPLILTTGRILSQYNVGAQTRRTENSQWH-SEDRLEIHPHDAEDRGIREGDW 824 + YPLIL TGR+ ++ +T R+ H E ++IHP DA G+REG Sbjct: 597 AAHAACEDYPLILNTGRVRDHWHTMTRTGRSATLASHIPESFIDIHPQDALLYGVREGGL 656 Query: 825 VGVESRAGQTVLRATVTEKVQPGVVYTTFHFPESGAN-----VITTDNSDWATNCPEYKV 879 + SR G V R + G V+ H+ A+ + D + PE+K Sbjct: 657 ARISSRWGAMVARVQHGGGIARGSVFVPIHWNGQSASDARVGAVVNPVVDPVSGEPEFKH 716 Query: 880 TAVQV 884 T V + Sbjct: 717 TPVAI 721 >gi|300311101|ref|YP_003775193.1| NADH dehydrogenase I subunit G [Herbaspirillum seropedicae SmR1] Length = 772 Score = 186 bits (473), Expect = 5e-48, Method: Compositional matrix adjust. Identities = 121/402 (30%), Positives = 205/402 (50%), Gaps = 19/402 (4%) Query: 1 MRASVEAGINVPKLCATDSLEPFGSCRLCLVEIEKDGRKMKGYPASCTTPCEPGMKVQTQ 60 M A+ + G +P C L +CR+CLVE+EK + + PA C TP GM V+T Sbjct: 20 MDAANKLGTYIPHFCYHKKLSIAANCRMCLVEVEKAPKPL---PA-CATPVNAGMIVRTA 75 Query: 61 TPKLAEIRRGVMELYISDHPLDCLTCPTNGNCELQDMAGVVGLREVRYGYEGENHTKMKK 120 + K + ++GVME + +HPLDC C G C+LQD+A VG Y+ E K Sbjct: 76 SDKAVKAQKGVMEFLLINHPLDCPICDQGGECQLQDLA--VGYGGSSSRYQEEKRVVEPK 133 Query: 121 DESNPYFTYDPSKCIVCNRCVRACEETQGTFALTINGRGFESRVSAGQMEAFMESECVSC 180 D + ++CI C RCVR +E G L + GRG S ++ + ++SE Sbjct: 134 DVGPLISMKEMNRCIHCTRCVRFGQEVAGVMELGMLGRGEHSEITTF-VGKTVDSEL--S 190 Query: 181 GACVEACPTATLTEKTVIMLGQA-EHSKVTTCA-YCGVGCSFKAEMKGNEVVRMVPYKDG 238 G ++ CP LT K + E S+ + + + VG + ++K +V+R++P+++ Sbjct: 191 GNMIDLCPVGALTSKPFRYSARTWELSRRKSVSPHDSVGANLIVQVKNGKVMRVLPFENE 250 Query: 239 KANQGHSCVKGRFAWGYATHKDRILNPMIRKSINDPWREVSWEEALSYAASEFRRIQAKH 298 + N+ K RFA+ + R+ PM+++ + W+EV W+ AL Y A R I+ +H Sbjct: 251 EVNECWISDKDRFAYEALDSEQRLTKPMLKQ--DGKWQEVDWQTALEYVAHGLRNIRHEH 308 Query: 299 GKDSIGGITSSRCTNEETYLVQKLVRAAFGNNNVDTCARVCHSPTGYGLKQTLGESAGTQ 358 G D+I + + T EE L+QK+VR G+ N+D R + +GL + G Sbjct: 309 GADAIAALGTPYSTLEELSLLQKIVR-GVGSENIDFRLR----QSDFGLDGQIKPWLGMS 363 Query: 359 TFESVMKSDVILIMGANPAAGHPVFASQIKRRVRQGAKLIVI 400 E + + + ++G+ HP+ ++++++ + GAK+ V+ Sbjct: 364 IVE-FSQLNRVFVIGSFLRKDHPLLSARLRQSAKSGAKVSVL 404 >gi|300311015|ref|YP_003775107.1| anaerobic (selenocysteine-containing) formate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 775 Score = 142 bits (359), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 102/397 (25%), Positives = 169/397 (42%), Gaps = 42/397 (10%) Query: 261 RILNPMIRKSINDPWREVSWEEALSYAASEFRRIQAKHGKDSIGGITSSRCTNEETYLVQ 320 R+ +PM+ + D ++++ W +A + A + + A D S R +NE +L Q Sbjct: 111 RLTHPMVYDAATDKYKKIEWADAFALMA---KHLNALPDPDMADFYVSGRASNEAAFLFQ 167 Query: 321 KLVRAAFGNNNVDTCARVCHSPTGYGLKQTLGESAGTQTFESVMKSDVILIMGANPAAGH 380 VR +G NN C+ +CH PT GL T+G GT E D +L+ G NPA H Sbjct: 168 LFVRQ-YGTNNFPDCSNMCHEPTSVGLPGTVGIGKGTVLLEDFDHCDTLLLFGQNPATNH 226 Query: 381 PVFASQIKRRVRQGAKLIVIDP------------------------RTTEMVKSPHIQAD 416 P +++ ++GA ++ I+P R + M P + D Sbjct: 227 PRMMGELRHASKRGATIVAINPLKERGLERFADPQSKVEMLTMGSTRISSMFIHPTLGGD 286 Query: 417 YHLKLRPGTNTAIITALAHVILSEGLQDEAYIQERCDLQSYKDWKEFVLRAD-NSPEAMA 475 L T + A +E + D +I+E ++EF +A S + + Sbjct: 287 LALIKGVIKRTIELDDAARAAGAERVIDVKFIEEHT-----AGFEEFAAQARAESWDDIV 341 Query: 476 AITGVPAEIIRGAARLYATGGNAAIYYGLGVTEHAQGSTTVMGIANLAMCTGNVGREGVG 535 A +GV E I A++Y G +G+G+T+H T+ ++N+ M GN+GR+G G Sbjct: 342 AESGVSREDIEKLAQVYVKGKAVIATWGMGLTQHKHAVATIQLLSNMMMLRGNIGRQGAG 401 Query: 536 VNPLRGQNNVQGSCDMGSFPHELPGYRHISDSTVRSQFEQAWGVTLNPEPGLRIPNMFDA 595 + P+RG +NVQG +G P + + EQ +G G A Sbjct: 402 LCPVRGHSNVQGDRTVGIDEKPTPAF--------LDRLEQVFGFKAPRHHGNDTVGSVMA 453 Query: 596 ALDGSFKGLYCEGEDIVQSDPNTQHVAAALQAMECIV 632 L+G K G + + P+T A+++ V Sbjct: 454 MLEGRTKVFIGLGGNFAMATPDTPRTFEAMRSCNLTV 490 >gi|300310774|ref|YP_003774866.1| anaerobic formate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 790 Score = 126 bits (316), Expect = 9e-30, Method: Compositional matrix adjust. Identities = 107/405 (26%), Positives = 174/405 (42%), Gaps = 59/405 (14%) Query: 261 RILNPMIRKSINDPWREVSWEEALSYAASEFRRIQAKHGKDSIGGITSSRCTNEETYLVQ 320 R+ PM + +D + VSW EA A++ R + K + S R + E +YL Q Sbjct: 132 RVTEPMKYDAASDRYLPVSWSEAFDDIAAQLRAMDPK----KVVFYASGRASLETSYLYQ 187 Query: 321 KLVRAAFGNNNVDTCARVCHSPTGYGLKQTLGESAGTQTFESVMKSDVILIMGANPAAGH 380 + R +G NN+ + +CH T L QT+G GT T + ++D IL G N Sbjct: 188 LMARM-YGTNNLPDSSNMCHESTSVALPQTIGVPVGTVTLDDFGQTDCILFFGHNTGTNA 246 Query: 381 PVFASQIKRRVRQGAKLIVIDP-------------RTTEMVKSPHIQ-ADYHLKLRPGTN 426 P ++ ++G +I +P EMV H + +L+++ G + Sbjct: 247 PRMLHPLEEVRKRGVPVITFNPLRERGLERFVNPQSPKEMVTPAHTDISTQYLQIKIGGD 306 Query: 427 TAIITALAHVIL-------SEGLQ---DEAYIQERCD-LQSYKD------WKEFVLRADN 469 +A +A IL EGL D A+I+E + + D W E Sbjct: 307 SAAAIGMAKRILERDDKARQEGLPRLLDLAFIEEHTSGFEQFADAVRAAPWDEL------ 360 Query: 470 SPEAMAAITGVPAEIIRGAARLYATGGNAAIYYGLGVTEHAQGSTTVMGIANLAMCTGNV 529 E A ++ E+ AA YA G A + YG+GVT+H + T+ + NL + GN+ Sbjct: 361 --ERHAGVSRAELEL---AADTYAGAGRAMLMYGMGVTQHREAVRTIHMLTNLLLMRGNI 415 Query: 530 GREGVGVNPLRGQNNVQGSCDMGSFPHELPGYRHISDSTVRSQFEQAWGVTLNP--EPGL 587 G+ G G+ P+RG +NVQG +G E P + + +R+ + P E GL Sbjct: 416 GKPGAGICPIRGHSNVQGQRTVGI--TEKPEL--VPNDKLRALYH------FEPPMEKGL 465 Query: 588 RIPNMFDAALDGSFKGLYCEGEDIVQSDPNTQHVAAALQAMECIV 632 + DG + G + V++ P+ + AA + + V Sbjct: 466 NTVEACEKIRDGELSAFFMLGGNFVRAIPDHGVMEAAWRKLPLTV 510 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 0.404 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: 2,899,823 Number of extensions: 121469 Number of successful extensions: 307 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 285 Number of HSP's successfully gapped: 6 Length of query: 920 Length of database: 1,619,870 Length adjustment: 94 Effective length of query: 826 Effective length of database: 1,174,780 Effective search space: 970368280 Effective search space used: 970368280 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: 135 (56.6 bits)