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= 0027.0156.p (558 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... 852 0.0 gi|300311626|ref|YP_003775718.1| cytochrome c oxidase polypeptid... 339 4e-94 gi|300311778|ref|YP_003775870.1| cytochrome o ubiquinol oxidase ... 307 1e-84 >gi|300313446|ref|YP_003777538.1| cytochrome c oxidase polypeptide I transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 539 Score = 852 bits (2202), Expect = 0.0, Method: Compositional matrix adjust. Identities = 481/558 (86%), Positives = 489/558 (87%), Gaps = 19/558 (3%) Query: 1 MTTTADHAPDHSHDHGHGHAHDDHAHDHPHGWRRWLFATNHKDIGTLYLWFSFTMLLSGG 60 MTTT DHAPDHSHDHGHGHAHDDHAHDHPHGWRRWLFATNHKDIGTLYLWFSFTMLLSGG 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 FGTSFFNAAGGREDVLXPRVLVLRPPRGLHHDPAGLRHRLADHPGLRAQGAVRLCIDGVC 300 FGTSFFNAAGG + V+ + H L A G V I Sbjct: 241 FGTSFFNAAGGGDPVMYQHIFWF------------FGHPEVYIMILPAFGIVSQIIPAFA 288 Query: 301 DGLDCDPVLHRLGAPHVHTHTHTHTHTQRSCSSCTXFTTGMPVTAQLFFMYATMLIAVPT 360 P+ G + T + + FTTGMPVTAQLFFMYATMLIAVPT Sbjct: 289 R----KPL---FGYASMVYATASIAILSFIVWAHHMFTTGMPVTAQLFFMYATMLIAVPT 341 Query: 361 GVKIFNWIATMWRGSMTFETPMLFSVGFIFVFTMGGFTGLILAVTPIDIQMQDTYYVVAH 420 GVKIFNWIATMWRGSMTFETPMLFSVGFIFVFTMGGFTGLILAVTPIDIQMQDTYYVVAH Sbjct: 342 GVKIFNWIATMWRGSMTFETPMLFSVGFIFVFTMGGFTGLILAVTPIDIQMQDTYYVVAH 401 Query: 421 FHYVLVAGSLFALFAGYYYWGPKWTGFMYNEWRGKFHFWASLITFNITFFPMHFLGLAGM 480 FHYVLVAGSLFALFAGYYYWGPKWTGFMYNEWRGKFHFWASLITFNITFFPMHFLGLAGM Sbjct: 402 FHYVLVAGSLFALFAGYYYWGPKWTGFMYNEWRGKFHFWASLITFNITFFPMHFLGLAGM 461 Query: 481 PRRYADYPAQFTDFNMIASIGAFGFGLSQVYFLFFVVIPSIKGGKKAEAKPWEGAEGLEW 540 PRRYADYPAQFTDFNMIASIGAFGFGLSQVYFLFFVVIPSIKGGK+AEAKPWEGAEGLEW Sbjct: 462 PRRYADYPAQFTDFNMIASIGAFGFGLSQVYFLFFVVIPSIKGGKQAEAKPWEGAEGLEW 521 Query: 541 TVPSPAPFHTFEEPPVVK 558 TVPSPAPFHTFEEPPVVK Sbjct: 522 TVPSPAPFHTFEEPPVVK 539 >gi|300311626|ref|YP_003775718.1| cytochrome c oxidase polypeptide I transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 633 Score = 339 bits (869), Expect = 4e-94, Method: Compositional matrix adjust. Identities = 212/566 (37%), Positives = 302/566 (53%), Gaps = 54/566 (9%) 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 FNAAGGREDVLX---------PRV-LVLRPPRGLHHD--PAGLRHRLADHPGLRAQGAVR 293 ++ G + +L P V L+ PP G+ P R + +P + Sbjct: 239 YSHQNGGDALLWQHLFWFFGHPEVYLIFLPPLGMISTIIPTFARRSMVGYPAM------- 291 Query: 294 LCIDGVCDGLDCDPVLHRLGAPHVHTHTHTHTHTQRSCSSCTXFTTGMPVTAQLFFMYAT 353 VL + + H F T +P +LFF A+ Sbjct: 292 --------------VLALIATAFLAFGLWVHH----------MFATTLPEAGKLFFTAAS 327 Query: 354 MLIAVPTGVKIFNWIATMWRGSMTFETPMLFSVGFIFVFTMGGFTGLILAVTPIDIQMQD 413 +LIA+PT ++IF WI+T+W G F+TP+LF + F F+ MGG TGL+LA P+D+Q+ D Sbjct: 328 LLIALPTALQIFCWISTIWLGRPVFKTPLLFVLAFFFILVMGGLTGLMLASVPLDLQLHD 387 Query: 414 TYYVVAHFHYVLVAGSLFALFAGYYYWGPKWTGFMYNEWRGKFHFWASLITFNITFFPMH 473 TY+VVAH HYVL+ G++F LF G+YYW PK+TG M +E G+++FW + FN+ FFPMH Sbjct: 388 TYFVVAHLHYVLLGGAIFPLFGGFYYWFPKFTGRMLDERLGRWNFWLFFVGFNVCFFPMH 447 Query: 474 FLGLAGMPRRYADYPAQ--FTDFNMIASIGAFGFGLSQVYFLFFVVIPSIKGGKKAEAKP 531 LGL GM RR Y AQ + N+ A+IGAF GLS + FL VV S+ G A P Sbjct: 448 VLGLQGMTRRVYTYAAQMGWEGLNLTATIGAFLIGLSVLLFLLNVV-HSLWRGAAAGDNP 506 Query: 532 WEGAEGLEWTVPSPAPFHTFEEPPVV 557 W GA LEW++PSP P F E PVV Sbjct: 507 W-GAATLEWSLPSPPPAGNFLEVPVV 531 >gi|300311778|ref|YP_003775870.1| cytochrome o ubiquinol oxidase subunit I protein [Herbaspirillum seropedicae SmR1] Length = 667 Score = 307 bits (787), Expect = 1e-84, Method: Compositional matrix adjust. Identities = 202/548 (36%), Positives = 291/548 (53%), Gaps = 56/548 (10%) 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 KMPMFCWTWLITAYLLIAVMPVLAGAITMTLTDRHFGTSFF-NAAGGREDVLX------- 257 KMP+F WT L T L++A PVL + M DR FGT+FF N GG + Sbjct: 234 KMPVFTWTSLCTNVLIVAAFPVLTAVLAMLSLDRVFGTNFFTNDMGGNAMMYVNLIWIWG 293 Query: 258 -PRVLVL-RPPRGLHHDPAGLRHRLADHPGLRAQGAVRLCIDGVCDGLDCDPV-LHRLGA 314 P V +L P G+ + ++ G R G + V + V LH Sbjct: 294 HPEVYILVLPAFGIFSEI------VSTFSGKRLFGYTSMVYATVVITILSYLVWLHHF-- 345 Query: 315 PHVHTHTHTHTHTQRSCSSCTXFTTGMPVTAQLFFMYATMLIAVPTGVKIFNWIATMWRG 374 FT G + FF TM+I++PTG KIFNW+ TM+RG Sbjct: 346 ----------------------FTMGSGASVNSFFGITTMIISIPTGAKIFNWLFTMYRG 383 Query: 375 SMTFETPMLFSVGFIFVFTMGGFTGLILAVTPIDIQMQDTYYVVAHFHYVLVAGSLFALF 434 + FE PML+++GF+ F +GG TG++LAV P D + ++ +++AHFH V++ G +F +F Sbjct: 384 RIRFEVPMLWTIGFMVTFVIGGMTGVLLAVPPADFVLHNSLFLIAHFHNVIIGGVVFGMF 443 Query: 435 AGYYYWGPKWTGFMYNEWRGKFHFWASLITFNITFFPMHFLGLAGMPRRYA--DYPAQFT 492 AG +W PK GF NE+ GK FW L+ F + F P++ LGL G+ RR + D P+ Sbjct: 444 AGINFWFPKAFGFKLNEFWGKCSFWFWLVGFYLAFMPLYVLGLMGVTRRMSHFDDPSLQI 503 Query: 493 DFNMIASIGAFGFGLSQVYFLFFVVIPSIKGGKK---AEAKPWEGAEGLEWTVPSPAPFH 549 F ++A+IGA L F+ + + SI+ KK PW G LEW+ SP P + Sbjct: 504 WF-VVAAIGAGLIALGIGSFIIQIAV-SIRDRKKLADVTGDPWNG-RTLEWSTSSPPPAY 560 Query: 550 TFEEPPVV 557 F PVV Sbjct: 561 NFAFTPVV 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 0.329 0.142 0.479 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: 1,702,992 Number of extensions: 71087 Number of successful extensions: 254 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 247 Number of HSP's successfully gapped: 6 Length of query: 558 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 468 Effective length of database: 1,193,720 Effective search space: 558660960 Effective search space used: 558660960 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: 133 (55.8 bits)