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= 0031.0164.p (539 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313446|ref|YP_003777538.1| cytochrome c oxidase polypeptid... 1083 0.0 gi|300311626|ref|YP_003775718.1| cytochrome c oxidase polypeptid... 437 e-123 gi|300311778|ref|YP_003775870.1| cytochrome o ubiquinol oxidase ... 412 e-116 >gi|300313446|ref|YP_003777538.1| cytochrome c oxidase polypeptide I transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 539 Score = 1083 bits (2802), Expect = 0.0, Method: Compositional matrix adjust. Identities = 539/539 (100%), Positives = 539/539 (100%) Query: 1 MTTTVDHAPDHSHDHGHGHAHDDHAHDHPHGWRRWLFATNHKDIGTLYLWFSFTMLLSGG 60 MTTTVDHAPDHSHDHGHGHAHDDHAHDHPHGWRRWLFATNHKDIGTLYLWFSFTMLLSGG Sbjct: 1 MTTTVDHAPDHSHDHGHGHAHDDHAHDHPHGWRRWLFATNHKDIGTLYLWFSFTMLLSGG 60 Query: 61 VLALLIRAELFQPGLQFFRPEFFNQLTTMHGLVMVFGAIMPAFVGFANWMIPLQIGASDM 120 VLALLIRAELFQPGLQFFRPEFFNQLTTMHGLVMVFGAIMPAFVGFANWMIPLQIGASDM Sbjct: 61 VLALLIRAELFQPGLQFFRPEFFNQLTTMHGLVMVFGAIMPAFVGFANWMIPLQIGASDM 120 Query: 121 AFARMNNFSFWLLPPAALLLAGSFLVPGGATAAGWTLYAPLSTQMGPGMDMGIFAMHIMG 180 AFARMNNFSFWLLPPAALLLAGSFLVPGGATAAGWTLYAPLSTQMGPGMDMGIFAMHIMG Sbjct: 121 AFARMNNFSFWLLPPAALLLAGSFLVPGGATAAGWTLYAPLSTQMGPGMDMGIFAMHIMG 180 Query: 181 ASSIMGSINIIVTILNMRAPGMTLMKMPMFCWTWLITAYLLIAVMPVLAGAITMTLTDRH 240 ASSIMGSINIIVTILNMRAPGMTLMKMPMFCWTWLITAYLLIAVMPVLAGAITMTLTDRH Sbjct: 181 ASSIMGSINIIVTILNMRAPGMTLMKMPMFCWTWLITAYLLIAVMPVLAGAITMTLTDRH 240 Query: 241 FGTSFFNAAGGGDPVMYQHIFWFFGHPEVYIMILPAFGIVSQIIPAFARKPLFGYASMVY 300 FGTSFFNAAGGGDPVMYQHIFWFFGHPEVYIMILPAFGIVSQIIPAFARKPLFGYASMVY Sbjct: 241 FGTSFFNAAGGGDPVMYQHIFWFFGHPEVYIMILPAFGIVSQIIPAFARKPLFGYASMVY 300 Query: 301 ATASIAILSFIVWAHHMFTTGMPVTAQLFFMYATMLIAVPTGVKIFNWIATMWRGSMTFE 360 ATASIAILSFIVWAHHMFTTGMPVTAQLFFMYATMLIAVPTGVKIFNWIATMWRGSMTFE Sbjct: 301 ATASIAILSFIVWAHHMFTTGMPVTAQLFFMYATMLIAVPTGVKIFNWIATMWRGSMTFE 360 Query: 361 TPMLFSVGFIFVFTMGGFTGLILAVTPIDIQMQDTYYVVAHFHYVLVAGSLFALFAGYYY 420 TPMLFSVGFIFVFTMGGFTGLILAVTPIDIQMQDTYYVVAHFHYVLVAGSLFALFAGYYY Sbjct: 361 TPMLFSVGFIFVFTMGGFTGLILAVTPIDIQMQDTYYVVAHFHYVLVAGSLFALFAGYYY 420 Query: 421 WGPKWTGFMYNEWRGKFHFWASLITFNITFFPMHFLGLAGMPRRYADYPAQFTDFNMIAS 480 WGPKWTGFMYNEWRGKFHFWASLITFNITFFPMHFLGLAGMPRRYADYPAQFTDFNMIAS Sbjct: 421 WGPKWTGFMYNEWRGKFHFWASLITFNITFFPMHFLGLAGMPRRYADYPAQFTDFNMIAS 480 Query: 481 IGAFGFGLSQVYFLFFVVIPSIKGGKQAEAKPWEGAEGLEWTVPSPAPFHTFEEPPVVK 539 IGAFGFGLSQVYFLFFVVIPSIKGGKQAEAKPWEGAEGLEWTVPSPAPFHTFEEPPVVK Sbjct: 481 IGAFGFGLSQVYFLFFVVIPSIKGGKQAEAKPWEGAEGLEWTVPSPAPFHTFEEPPVVK 539 >gi|300311626|ref|YP_003775718.1| cytochrome c oxidase polypeptide I transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 633 Score = 437 bits (1123), Expect = e-123, Method: Compositional matrix adjust. Identities = 235/535 (43%), Positives = 330/535 (61%), Gaps = 11/535 (2%) Query: 9 PDHSHDHGHGHAHDDHAHDHPHGWRRWLFATNHKDIGTLYLWFSFTMLLSGGVLALLIRA 68 PD + + P G WL A NHK I ++ +F L GG+LAL +R Sbjct: 3 PDPRAEEAR---RLEQTWSDPPGLWGWLCAVNHKAIARRFMVTTFVFFLLGGMLALAMRL 59 Query: 69 ELFQPGLQFFRPEFFNQLTTMHGLVMVFGAIMPAFVGFANWMIPLQIGASDMAFARMNNF 128 +L +P + +NQL TMHG M+F +P A +++PL IGA +AF R+N F Sbjct: 60 QLARPDAELIGARLYNQLFTMHGTTMMFLFAVPVMQAVAAYLLPLMIGARSVAFPRLNAF 119 Query: 129 SFWLLPPAALLLAGSFLVPGGATAAGWTLYAPLSTQ---MGPGMDMGIFAMHIMGASSIM 185 ++W+ LLL G+FL G GW Y PL+ G G+D+ + S+++ Sbjct: 120 AYWIFLFGGLLLYGAFLA-GSGPDVGWFAYVPLALNPYASGKGVDIWAQMITFTELSALI 178 Query: 186 GSINIIVTILNMRAPGMTLMKMPMFCWTWLITAYLLIAVMPVLAGAITMTLTDRHFGTSF 245 +I II T++ +RAPGM+L +MP+F W L+T+ +++ MP + A T +TDR T F Sbjct: 179 EAIVIITTVMKLRAPGMSLRRMPLFAWAMLVTSVMVLFAMPAVMLASTGLITDRLVNTQF 238 Query: 246 FNAAGGGDPVMYQHIFWFFGHPEVYIMILPAFGIVSQIIPAFARKPLFGYASMVYATASI 305 ++ GGD +++QH+FWFFGHPEVY++ LP G++S IIP FAR+ + GY +MV A + Sbjct: 239 YSHQNGGDALLWQHLFWFFGHPEVYLIFLPPLGMISTIIPTFARRSMVGYPAMVLALIAT 298 Query: 306 AILSFIVWAHHMFTTGMPVTAQLFFMYATMLIAVPTGVKIFNWIATMWRGSMTFETPMLF 365 A L+F +W HHMF T +P +LFF A++LIA+PT ++IF WI+T+W G F+TP+LF Sbjct: 299 AFLAFGLWVHHMFATTLPEAGKLFFTAASLLIALPTALQIFCWISTIWLGRPVFKTPLLF 358 Query: 366 SVGFIFVFTMGGFTGLILAVTPIDIQMQDTYYVVAHFHYVLVAGSLFALFAGYYYWGPKW 425 + F F+ MGG TGL+LA P+D+Q+ DTY+VVAH HYVL+ G++F LF G+YYW PK+ Sbjct: 359 VLAFFFILVMGGLTGLMLASVPLDLQLHDTYFVVAHLHYVLLGGAIFPLFGGFYYWFPKF 418 Query: 426 TGFMYNEWRGKFHFWASLITFNITFFPMHFLGLAGMPRRYADYPAQ--FTDFNMIASIGA 483 TG M +E G+++FW + FN+ FFPMH LGL GM RR Y AQ + N+ A+IGA Sbjct: 419 TGRMLDERLGRWNFWLFFVGFNVCFFPMHVLGLQGMTRRVYTYAAQMGWEGLNLTATIGA 478 Query: 484 FGFGLSQVYFLFFVVIPSIKGGKQAEAKPWEGAEGLEWTVPSPAPFHTFEEPPVV 538 F GLS + FL VV S+ G A PW GA LEW++PSP P F E PVV Sbjct: 479 FLIGLSVLLFLLNVV-HSLWRGAAAGDNPW-GAATLEWSLPSPPPAGNFLEVPVV 531 >gi|300311778|ref|YP_003775870.1| cytochrome o ubiquinol oxidase subunit I protein [Herbaspirillum seropedicae SmR1] Length = 667 Score = 412 bits (1060), Expect = e-116, Method: Compositional matrix adjust. Identities = 225/517 (43%), Positives = 315/517 (60%), Gaps = 13/517 (2%) Query: 32 WRRWLFATNHKDIGTLYLWFSFTMLLSGGVLALLIRAE---LFQPGLQFFRPEFFNQLTT 88 WR W + +HK IG +Y+ + MLL G A+++RA+ F F P ++Q+ T Sbjct: 55 WRDWFTSIDHKRIGIMYIVLAIVMLLRGFADAVMMRAQQAIAFGDNAGFLPPHHYDQVFT 114 Query: 89 MHGLVMVFGAIMPAFVGFANWMIPLQIGASDMAFARMNNFSFWLLPPAALLLAGSFLVPG 148 HG++M+F MP G N+++PLQIGA D+AF +NNFSFW+ ALL+ S V G Sbjct: 115 AHGVIMIFFVAMPLVTGLMNYVVPLQIGARDVAFPFLNNFSFWMTTFGALLVMASLFV-G 173 Query: 149 GATAAGWTLYAPLSTQM---GPGMDMGIFAMHIMGASSIMGSINIIVTILNMRAPGMTLM 205 GW Y PLS + G+D I+A+ + G +++ IN++VTI+ MRAPGM +M Sbjct: 174 EFARTGWLAYPPLSGILYSPDVGVDYYIWALQVAGVGTLLSGINLVVTIVKMRAPGMNMM 233 Query: 206 KMPMFCWTWLITAYLLIAVMPVLAGAITMTLTDRHFGTSFFNAAGGGDPVMYQHIFWFFG 265 KMP+F WT L T L++A PVL + M DR FGT+FF GG+ +MY ++ W +G Sbjct: 234 KMPVFTWTSLCTNVLIVAAFPVLTAVLAMLSLDRVFGTNFFTNDMGGNAMMYVNLIWIWG 293 Query: 266 HPEVYIMILPAFGIVSQIIPAFARKPLFGYASMVYATASIAILSFIVWAHHMFTTGMPVT 325 HPEVYI++LPAFGI S+I+ F+ K LFGY SMVYAT I ILS++VW HH FT G + Sbjct: 294 HPEVYILVLPAFGIFSEIVSTFSGKRLFGYTSMVYATVVITILSYLVWLHHFFTMGSGAS 353 Query: 326 AQLFFMYATMLIAVPTGVKIFNWIATMWRGSMTFETPMLFSVGFIFVFTMGGFTGLILAV 385 FF TM+I++PTG KIFNW+ TM+RG + FE PML+++GF+ F +GG TG++LAV Sbjct: 354 VNSFFGITTMIISIPTGAKIFNWLFTMYRGRIRFEVPMLWTIGFMVTFVIGGMTGVLLAV 413 Query: 386 TPIDIQMQDTYYVVAHFHYVLVAGSLFALFAGYYYWGPKWTGFMYNEWRGKFHFWASLIT 445 P D + ++ +++AHFH V++ G +F +FAG +W PK GF NE+ GK FW L+ Sbjct: 414 PPADFVLHNSLFLIAHFHNVIIGGVVFGMFAGINFWFPKAFGFKLNEFWGKCSFWFWLVG 473 Query: 446 FNITFFPMHFLGLAGMPRRYA--DYPAQFTDFNMIASIGA--FGFGLSQVYFLFFVVIPS 501 F + F P++ LGL G+ RR + D P+ F ++A+IGA G+ V I Sbjct: 474 FYLAFMPLYVLGLMGVTRRMSHFDDPSLQIWF-VVAAIGAGLIALGIGSFIIQIAVSIRD 532 Query: 502 IKGGKQAEAKPWEGAEGLEWTVPSPAPFHTFEEPPVV 538 K PW G LEW+ SP P + F PVV Sbjct: 533 RKKLADVTGDPWNG-RTLEWSTSSPPPAYNFAFTPVV 568 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 0.330 0.142 0.480 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: 1,710,644 Number of extensions: 74583 Number of successful extensions: 276 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 269 Number of HSP's successfully gapped: 4 Length of query: 539 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 449 Effective length of database: 1,193,720 Effective search space: 535980280 Effective search space used: 535980280 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.9 bits) S2: 133 (55.8 bits)