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= 0029.0335.p (670 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311106|ref|YP_003775198.1| transmembrane NADH dehydrogenas... 1360 0.0 gi|300311634|ref|YP_003775726.1| NADH:ubiquinone oxidoreductase ... 106 8e-24 gi|300311108|ref|YP_003775200.1| NADH-ubiquinone oxidoreductase ... 88 2e-18 gi|300311107|ref|YP_003775199.1| transmembrane NADH dehydrogenas... 74 4e-14 >gi|300311106|ref|YP_003775198.1| transmembrane NADH dehydrogenase I subunit L [Herbaspirillum seropedicae SmR1] Length = 696 Score = 1360 bits (3519), Expect = 0.0, Method: Compositional matrix adjust. Identities = 670/670 (100%), Positives = 670/670 (100%) Query: 1 LGTKFFGNVVGRKVSHTATILGVLIAAIISLQTLLAVLDGATYNGTLYNWMTVAGLKLEI 60 LGTKFFGNVVGRKVSHTATILGVLIAAIISLQTLLAVLDGATYNGTLYNWMTVAGLKLEI Sbjct: 27 LGTKFFGNVVGRKVSHTATILGVLIAAIISLQTLLAVLDGATYNGTLYNWMTVAGLKLEI 86 Query: 61 GFMVDSLTAMMMCVVTFVSLMVHIYTIGYMAEDEGYNRFFSYISLFTFSMLMLVMSNNFL 120 GFMVDSLTAMMMCVVTFVSLMVHIYTIGYMAEDEGYNRFFSYISLFTFSMLMLVMSNNFL Sbjct: 87 GFMVDSLTAMMMCVVTFVSLMVHIYTIGYMAEDEGYNRFFSYISLFTFSMLMLVMSNNFL 146 Query: 121 QLFFGWEAVGLVSYLLIGFWYTRPTAIKANMKAFLVNRVGDFGFILGIGLLLAYAGSMNY 180 QLFFGWEAVGLVSYLLIGFWYTRPTAIKANMKAFLVNRVGDFGFILGIGLLLAYAGSMNY Sbjct: 147 QLFFGWEAVGLVSYLLIGFWYTRPTAIKANMKAFLVNRVGDFGFILGIGLLLAYAGSMNY 206 Query: 181 TEVFDKRAELAQLTLPGTDWMLLTVACICLFVGAMGKSAQFPLHVWLPDSMEGPTPISAL 240 TEVFDKRAELAQLTLPGTDWMLLTVACICLFVGAMGKSAQFPLHVWLPDSMEGPTPISAL Sbjct: 207 TEVFDKRAELAQLTLPGTDWMLLTVACICLFVGAMGKSAQFPLHVWLPDSMEGPTPISAL 266 Query: 241 IHAATMVTAGIFMVTRMSPLFELSDTALSFILVIGAITALFMGFLGTMQNDIKRVVAYST 300 IHAATMVTAGIFMVTRMSPLFELSDTALSFILVIGAITALFMGFLGTMQNDIKRVVAYST Sbjct: 267 IHAATMVTAGIFMVTRMSPLFELSDTALSFILVIGAITALFMGFLGTMQNDIKRVVAYST 326 Query: 301 LSQLGYMTVALGASAYSVAVFHLMTHAFFKALLFLGAGSVIIGMHHDQDMRNMGGLRKYM 360 LSQLGYMTVALGASAYSVAVFHLMTHAFFKALLFLGAGSVIIGMHHDQDMRNMGGLRKYM Sbjct: 327 LSQLGYMTVALGASAYSVAVFHLMTHAFFKALLFLGAGSVIIGMHHDQDMRNMGGLRKYM 386 Query: 361 PITWITSLLGSLALIGTPFFSGFYSKDSIIEAAAESHLAGSGFAYFAVLASVFVTAFYSF 420 PITWITSLLGSLALIGTPFFSGFYSKDSIIEAAAESHLAGSGFAYFAVLASVFVTAFYSF Sbjct: 387 PITWITSLLGSLALIGTPFFSGFYSKDSIIEAAAESHLAGSGFAYFAVLASVFVTAFYSF 446 Query: 421 RMYFMVFHGKERFGQAHGHDDHHAPAAAHGVHDDHAHDAHDDHGHDEHHHGLAPGQKPHE 480 RMYFMVFHGKERFGQAHGHDDHHAPAAAHGVHDDHAHDAHDDHGHDEHHHGLAPGQKPHE Sbjct: 447 RMYFMVFHGKERFGQAHGHDDHHAPAAAHGVHDDHAHDAHDDHGHDEHHHGLAPGQKPHE 506 Query: 481 SPLVVTLPLILLAIPSVIIGFFAISPMLYGDFFKGVIFFGENHKVMEELAHEYHGPVAMV 540 SPLVVTLPLILLAIPSVIIGFFAISPMLYGDFFKGVIFFGENHKVMEELAHEYHGPVAMV Sbjct: 507 SPLVVTLPLILLAIPSVIIGFFAISPMLYGDFFKGVIFFGENHKVMEELAHEYHGPVAMV 566 Query: 541 LHAFTSAPLWLAIAGVVVAYYCYMINPRVPAWFKEKFSIIYTILDNKYYMDKFNEVVFAG 600 LHAFTSAPLWLAIAGVVVAYYCYMINPRVPAWFKEKFSIIYTILDNKYYMDKFNEVVFAG Sbjct: 567 LHAFTSAPLWLAIAGVVVAYYCYMINPRVPAWFKEKFSIIYTILDNKYYMDKFNEVVFAG 626 Query: 601 GARLLGSGLSTVGDRGLIDGLFVNGSAKVVGWFSKFTRLWQSGYIYHYAFVMIIGVLGFL 660 GARLLGSGLSTVGDRGLIDGLFVNGSAKVVGWFSKFTRLWQSGYIYHYAFVMIIGVLGFL Sbjct: 627 GARLLGSGLSTVGDRGLIDGLFVNGSAKVVGWFSKFTRLWQSGYIYHYAFVMIIGVLGFL 686 Query: 661 VWFMPFPFAK 670 VWFMPFPFAK Sbjct: 687 VWFMPFPFAK 696 >gi|300311634|ref|YP_003775726.1| NADH:ubiquinone oxidoreductase subunit L/Multisubunit Na+/H+ antiporter MnhA subunit [Herbaspirillum seropedicae SmR1] Length = 536 Score = 106 bits (264), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 76/257 (29%), Positives = 137/257 (53%), Gaps = 8/257 (3%) Query: 85 YTIGYMAEDEGYNRFFSYISLFTFSMLMLVMSNNFLQLFFGWEAVGLVSYLLIGFWYTRP 144 ++ Y+ + G ++ ++ ++ +L++++++L L W AVGL L+ F+ RP Sbjct: 105 FSARYLQGEGGQRQYAVALAAVLTAVHLLLLADHWLVLIAAWAAVGLALEHLLCFYPERP 164 Query: 145 TAIKANMKAFLVNRVGDFGFILGIGLLLAYAGSMNYTEVFDKRAELAQLTLPGTDWMLLT 204 A A K + +R+ D + L + GS + + ++ A A G L Sbjct: 165 FARLAAYKKRIADRLADLLLGVAALLAWSATGSGSLSALWQHLA--AHGMSAG-----LQ 217 Query: 205 VACICLFVGAMGKSAQFPLHVWLPDSMEGPTPISALIHAATMVTAGIFMVTRMSPLFELS 264 V+ +C+ + + ++A P+H WL ME PTP+SAL+HA +V G F++ R +PL + + Sbjct: 218 VSALCVVLAVILRTALLPVHGWLIQVMEAPTPVSALLHAG-VVNLGGFVLIRFAPLLQQA 276 Query: 265 DTALSFILVIGAITALFMGFLGTMQNDIKRVVAYSTLSQLGYMTVALGASAYSVAVFHLM 324 A S +L++ T L G + + IK +A+ST++Q+G+M + A Y+ A HL+ Sbjct: 277 IPARSVLLLMAVATVLLAGMVMLTRISIKVRLAWSTVAQMGFMLLECAAGLYTFAALHLI 336 Query: 325 THAFFKALLFLGAGSVI 341 H+ +KA FL A SV+ Sbjct: 337 GHSLYKAHAFLSASSVV 353 >gi|300311108|ref|YP_003775200.1| NADH-ubiquinone oxidoreductase subunit N [Herbaspirillum seropedicae SmR1] Length = 502 Score = 87.8 bits (216), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 96/353 (27%), Positives = 167/353 (47%), Gaps = 46/353 (13%) Query: 101 SYISLFTFSML---MLVMSNNFLQLFFGWEAVGLVSYLLIGFWYTRPTAIKANMKAFLVN 157 Y +L F++L +++ N+FL ++ G E + L Y L+ + +A MK F++ Sbjct: 110 EYYALALFALLGQMVMISGNSFLSIYLGLELMSLSLYALVALRRDHAASTEAGMKYFILG 169 Query: 158 RVGDFGFIL-GIGLLL-AYAGSMNYTEVFDKRAELAQLTLPGT-DWMLLTVACICLFVGA 214 + GF+L G+ +L A G++ EVF RA ++ GT D L + + G Sbjct: 170 ALAS-GFLLYGMSMLYGATGGALELNEVF--RAIVS-----GTVDRTPLVFGIVFVVAGL 221 Query: 215 MGKSAQFPLHVWLPDSMEG-PTPISALIHAA-TMVTAGIFMVTRMSPLFELSDTALSFIL 272 K P H+W+PD +G PTP++ L+ AA + T I + + L+ ++ Sbjct: 222 AFKLGAVPFHMWVPDVYQGSPTPVTLLLGAAPKLATFAITFRLLVEGMLPLAVDWQQMLM 281 Query: 273 VIGAITALFMGFLGTMQNDIKRVVAYSTLSQLGYMTVAL-----------GASAYSVAVF 321 V+ ++ + Q +IKR++AYST+S +G+M + + +AYS ++F Sbjct: 282 VLAVLSIILGNVTAIAQTNIKRMLAYSTISHMGFMLLGMMSGVVDGNLFSAVNAYSSSLF 341 Query: 322 HLMTHAFFKALLFLGAGSVIIGMHHD----QDMRNMGGLRKYMPITWITSLLGSLALIGT 377 + +T+ LG+ VII + + + GL + P ++ +L G Sbjct: 342 YAVTYVITT----LGSFGVIILLSRSGFEADTLDDFKGLNQRSPWFAAVMMIMMFSLAGI 397 Query: 378 PFFSGFYSKDSIIEAAAESHLAGSGFAYFAVLASVF--VTAFYSFR----MYF 424 P GFY+K S+++AA +G + VLA +F + AFY R MYF Sbjct: 398 PPLVGFYAKLSVLQAA-----MATGQIWLPVLAVIFSLIGAFYYIRVVKVMYF 445 >gi|300311107|ref|YP_003775199.1| transmembrane NADH dehydrogenase I subunit M [Herbaspirillum seropedicae SmR1] Length = 496 Score = 73.9 bits (180), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 52/185 (28%), Positives = 98/185 (52%), Gaps = 8/185 (4%) Query: 217 KSAQFPLHVWLPDS-MEGPTPISALIHAATMVTAGIFMVTRMS-PLFELSDTALS-FILV 273 K +P+H WLPD+ ++ PT +++ AA M+ G + R S P+ + ALS F++ Sbjct: 225 KVPMWPVHTWLPDAHVQAPTG-GSIVLAAIMLKLGAYGFLRFSLPILPDASHALSGFMIF 283 Query: 274 IGAITALFMGFLGTMQNDIKRVVAYSTLSQLGYMTVA---LGASAYSVAVFHLMTHAFFK 330 + + +++G + +Q D+K++VAYS+++ +G++T+ A + +++H F Sbjct: 284 LSLVAVIYIGLVALVQQDMKKLVAYSSIAHMGFVTLGFFMFNDMAVQGGIVQMISHGFVS 343 Query: 331 ALLFLGAGSVIIGMHHDQDMRNMGGLRKYMPITWITSLLGSLALIGTPFFSGFYSKDSII 390 +F+ G V+ H +++ GG+ MP +L SLA G P SGF + +I Sbjct: 344 GAMFMCIG-VLYDQMHTREISQYGGVVNKMPRFAFFFILFSLANCGLPATSGFVGEFMVI 402 Query: 391 EAAAE 395 A + Sbjct: 403 LGAVK 407 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 0.329 0.142 0.444 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: 1,873,487 Number of extensions: 72811 Number of successful extensions: 289 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 282 Number of HSP's successfully gapped: 4 Length of query: 670 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 578 Effective length of database: 1,184,250 Effective search space: 684496500 Effective search space used: 684496500 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.8 bits) S2: 134 (56.2 bits)