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= 0132.0022.p (639 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311778|ref|YP_003775870.1| cytochrome o ubiquinol oxidase ... 1108 0.0 gi|300313446|ref|YP_003777538.1| cytochrome c oxidase polypeptid... 390 e-109 gi|300311626|ref|YP_003775718.1| cytochrome c oxidase polypeptid... 349 3e-97 >gi|300311778|ref|YP_003775870.1| cytochrome o ubiquinol oxidase subunit I protein [Herbaspirillum seropedicae SmR1] Length = 667 Score = 1108 bits (2865), Expect = 0.0, Method: Compositional matrix adjust. Identities = 546/628 (86%), Positives = 578/628 (92%), Gaps = 8/628 (1%) Query: 12 FRLWGTLWRDWITSIDHKKIGIMYVILGIVMLLRGFADALMMRAQQALSFGDSAGFLPPH 71 +RLWG LWRDW TSIDHK+IGIMY++L IVMLLRGFADA+MMRAQQA++FGD+AGFLPPH Sbjct: 48 YRLWGMLWRDWFTSIDHKRIGIMYIVLAIVMLLRGFADAVMMRAQQAIAFGDNAGFLPPH 107 Query: 72 HYDQVFTAHGVIMIFFVAMPLVTGLMNYVVPLQIGARDVAFPFLNNFSFWMTTFGAGLVM 131 HYDQVFTAHGVIMIFFVAMPLVTGLMNYVVPLQIGARDVAFPFLNNFSFWMTTFGA LVM Sbjct: 108 HYDQVFTAHGVIMIFFVAMPLVTGLMNYVVPLQIGARDVAFPFLNNFSFWMTTFGALLVM 167 Query: 132 ASLFVGEFGGXRPPEFARTGWLAYPPLSGILGSPDVGVDYYIWSLQIAGVGTLLSGINLI 191 ASLFVGEF ARTGWLAYPPLSGIL SPDVGVDYYIW+LQ+AGVGTLLSGINL+ Sbjct: 168 ASLFVGEF--------ARTGWLAYPPLSGILYSPDVGVDYYIWALQVAGVGTLLSGINLV 219 Query: 192 ATIVKMRAPGMNMMKMPVFTWTALCTNVLIVAAFPILTAVLGMLSLDRVFGTNFFTNDLG 251 TIVKMRAPGMNMMKMPVFTWT+LCTNVLIVAAFP+LTAVL MLSLDRVFGTNFFTND+G Sbjct: 220 VTIVKMRAPGMNMMKMPVFTWTSLCTNVLIVAAFPVLTAVLAMLSLDRVFGTNFFTNDMG 279 Query: 252 GNAMMYVNLIWIWGHPEVYILILPAFGIFSEIVSTFSGKRLFGYTSMVYATVVITILSYL 311 GNAMMYVNLIWIWGHPEVYIL+LPAFGIFSEIVSTFSGKRLFGYTSMVYATVVITILSYL Sbjct: 280 GNAMMYVNLIWIWGHPEVYILVLPAFGIFSEIVSTFSGKRLFGYTSMVYATVVITILSYL 339 Query: 312 VWLHHFFTMGSGASVNSFFGITTMIISIPTGAKIFNWLFTMYRGRIRFEVPMLWTIGFMI 371 VWLHHFFTMGSGASVNSFFGITTMIISIPTGAKIFNWLFTMYRGRIRFEVPMLWTIGFM+ Sbjct: 340 VWLHHFFTMGSGASVNSFFGITTMIISIPTGAKIFNWLFTMYRGRIRFEVPMLWTIGFMV 399 Query: 372 TFVIGGMTGVMLAVPPADFVLHNSLFLIAHFHNVIIGGVVFGMFAGINFWFPKAFGYKLD 431 TFVIGGMTGV+LAVPPADFVLHNSLFLIAHFHNVIIGGVVFGMFAGINFWFPKAFG+KL+ Sbjct: 400 TFVIGGMTGVLLAVPPADFVLHNSLFLIAHFHNVIIGGVVFGMFAGINFWFPKAFGFKLN 459 Query: 432 DFWGRCSFWFWCIGFWVAFTPLYVLGFMGVTRRMSHFEDPSLQIWFQIAAFGALLIAAGI 491 +FWG+CSFWFW +GF++AF PLYVLG MGVTRRMSHF+DPSLQIWF +AA GA LIA GI Sbjct: 460 EFWGKCSFWFWLVGFYLAFMPLYVLGLMGVTRRMSHFDDPSLQIWFVVAAIGAGLIALGI 519 Query: 492 GSFIIQLVVSYLRRDKLRDTTGDPWRARTLEWSTSSPPPDYNFAFTPRVHDNDAWADMKA 551 GSFIIQ+ VS R KL D TGDPW RTLEWSTSSPPP YNFAFTP VHDNDAWADMK Sbjct: 520 GSFIIQIAVSIRDRKKLADVTGDPWNGRTLEWSTSSPPPAYNFAFTPVVHDNDAWADMKK 579 Query: 552 NGYTRPKDGFVPIHMPKNTGAGFIIAALSAVIGFAVIWQMWLVAGAGFVALMAAIITHTF 611 N Y RP FV IHMPKNTGAGFIIAALSAV+GF +IW MWL A A FV L+AA I HTF Sbjct: 580 NKYQRPLGDFVEIHMPKNTGAGFIIAALSAVLGFTLIWHMWLPAVATFVVLVAATIIHTF 639 Query: 612 NYKRDYYIPADDVVRVEANRTRLLDSHV 639 NY RDYYIPAD+VVRVEA RTRLL+SHV Sbjct: 640 NYNRDYYIPADEVVRVEAERTRLLNSHV 667 >gi|300313446|ref|YP_003777538.1| cytochrome c oxidase polypeptide I transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 539 Score = 390 bits (1002), Expect = e-109, Method: Compositional matrix adjust. Identities = 216/523 (41%), Positives = 311/523 (59%), Gaps = 17/523 (3%) Query: 19 WRDWITSIDHKKIGIMYVILGIVMLLRGFADALMMRAQQALSFGDSAGFLPPHHYDQVFT 78 WR W+ + +HK IG +Y+ MLL G AL++RA+ F F P ++Q+ T Sbjct: 32 WRRWLFATNHKDIGTLYLWFSFTMLLSGGVLALLIRAEL---FQPGLQFFRPEFFNQLTT 88 Query: 79 AHGVIMIFFVAMPLVTGLMNYVVPLQIGARDVAFPFLNNFSFWMTTFGAGLVMASLFVGE 138 HG++M+F MP G N+++PLQIGA D+AF +NNFSFW+ A L+ S V Sbjct: 89 MHGLVMVFGAIMPAFVGFANWMIPLQIGASDMAFARMNNFSFWLLPPAALLLAGSFLV-- 146 Query: 139 FGGXRPPEFARTGWLAYPPLSGILGSPDVGVDYYIWSLQIAGVGTLLSGINLIATIVKMR 198 P GW Y PLS +G G+D I+++ I G +++ IN+I TI+ MR Sbjct: 147 -----PGGATAAGWTLYAPLSTQMGP---GMDMGIFAMHIMGASSIMGSINIIVTILNMR 198 Query: 199 APGMNMMKMPVFTWTALCTNVLIVAAFPILTAVLGMLSLDRVFGTNFFTNDLGGNAMMYV 258 APGM +MKMP+F WT L T L++A P+L + M DR FGT+FF GG+ +MY Sbjct: 199 APGMTLMKMPMFCWTWLITAYLLIAVMPVLAGAITMTLTDRHFGTSFFNAAGGGDPVMYQ 258 Query: 259 NLIWIWGHPEVYILILPAFGIFSEIVSTFSGKRLFGYTSMVYATVVITILSYLVWLHHFF 318 ++ W +GHPEVYI+ILPAFGI S+I+ F+ K LFGY SMVYAT I ILS++VW HH F Sbjct: 259 HIFWFFGHPEVYIMILPAFGIVSQIIPAFARKPLFGYASMVYATASIAILSFIVWAHHMF 318 Query: 319 TMGSGASVNSFFGITTMIISIPTGAKIFNWLFTMYRGRIRFEVPMLWTIGFMITFVIGGM 378 T G + FF TM+I++PTG KIFNW+ TM+RG + FE PML+++GF+ F +GG Sbjct: 319 TTGMPVTAQLFFMYATMLIAVPTGVKIFNWIATMWRGSMTFETPMLFSVGFIFVFTMGGF 378 Query: 379 TGVMLAVPPADFVLHNSLFLIAHFHNVIIGGVVFGMFAGINFWFPKAFGYKLDDFWGRCS 438 TG++LAV P D + ++ +++AHFH V++ G +F +FAG +W PK G+ +++ G+ Sbjct: 379 TGLILAVTPIDIQMQDTYYVVAHFHYVLVAGSLFALFAGYYYWGPKWTGFMYNEWRGKFH 438 Query: 439 FWFWCIGFWVAFTPLYVLGFMGVTRRMSHFEDPSLQIWFQIAAFGALLIAAGIGSFIIQL 498 FW I F + F P++ LG G+ RR + + + IA+ GA F+ + Sbjct: 439 FWASLITFNITFFPMHFLGLAGMPRRYADYPA-QFTDFNMIASIGAFGFGLSQVYFLFFV 497 Query: 499 VVSYLRRDKLRDTTGDPWR-ARTLEWSTSSPPPDYNFAFTPRV 540 V+ ++ K + PW A LEW+ SP P + F P V Sbjct: 498 VIPSIKGGKQAE--AKPWEGAEGLEWTVPSPAPFHTFEEPPVV 538 >gi|300311626|ref|YP_003775718.1| cytochrome c oxidase polypeptide I transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 633 Score = 349 bits (896), Expect = 3e-97, Method: Compositional matrix adjust. Identities = 200/536 (37%), Positives = 314/536 (58%), Gaps = 28/536 (5%) Query: 14 LWGTLWRDWITSIDHKKIGIMYVILGIVMLLRGFADALMMRAQQALSFGDSAGFLPPHHY 73 LWG W+ +++HK I +++ V L G AL MR Q A + G Y Sbjct: 23 LWG-----WLCAVNHKAIARRFMVTTFVFFLLGGMLALAMRLQLARPDAELIG---ARLY 74 Query: 74 DQVFTAHGVIMIFFVAMPLVTGLMNYVVPLQIGARDVAFPFLNNFSFWMTTFGAGLVMAS 133 +Q+FT HG M+F A+P++ + Y++PL IGAR VAFP LN F++W+ FG GL++ Sbjct: 75 NQLFTMHGTTMMFLFAVPVMQAVAAYLLPLMIGARSVAFPRLNAFAYWIFLFG-GLLLYG 133 Query: 134 LFVGEFGGXRPPEFARTGWLAYPPLSGILGSPDVGVDYYIWSLQIAGVGTLLSGINLIAT 193 F+ G P+ GW AY PL+ + GVD + + + L+ I +I T Sbjct: 134 AFLAGSG----PD---VGWFAYVPLALNPYASGKGVDIWAQMITFTELSALIEAIVIITT 186 Query: 194 IVKMRAPGMNMMKMPVFTWTALCTNVLIVAAFP-ILTAVLGMLSLDRVFGTNFFTNDLGG 252 ++K+RAPGM++ +MP+F W L T+V+++ A P ++ A G+++ DR+ T F+++ GG Sbjct: 187 VMKLRAPGMSLRRMPLFAWAMLVTSVMVLFAMPAVMLASTGLIT-DRLVNTQFYSHQNGG 245 Query: 253 NAMMYVNLIWIWGHPEVYILILPAFGIFSEIVSTFSGKRLFGYTSMVYATVVITILSYLV 312 +A+++ +L W +GHPEVY++ LP G+ S I+ TF+ + + GY +MV A + L++ + Sbjct: 246 DALLWQHLFWFFGHPEVYLIFLPPLGMISTIIPTFARRSMVGYPAMVLALIATAFLAFGL 305 Query: 313 WLHHFFTMGSGASVNSFFGITTMIISIPTGAKIFNWLFTMYRGRIRFEVPMLWTIGFMIT 372 W+HH F + FF +++I++PT +IF W+ T++ GR F+ P+L+ + F Sbjct: 306 WVHHMFATTLPEAGKLFFTAASLLIALPTALQIFCWISTIWLGRPVFKTPLLFVLAFFFI 365 Query: 373 FVIGGMTGVMLAVPPADFVLHNSLFLIAHFHNVIIGGVVFGMFAGINFWFPKAFGYKLDD 432 V+GG+TG+MLA P D LH++ F++AH H V++GG +F +F G +WFPK G LD+ Sbjct: 366 LVMGGLTGLMLASVPLDLQLHDTYFVVAHLHYVLLGGAIFPLFGGFYYWFPKFTGRMLDE 425 Query: 433 FWGRCSFWFWCIGFWVAFTPLYVLGFMGVTRRMSHFEDPSLQIWFQ----IAAFGALLIA 488 GR +FW + +GF V F P++VLG G+TRR+ + + Q+ ++ A GA LI Sbjct: 426 RLGRWNFWLFFVGFNVCFFPMHVLGLQGMTRRVYTY---AAQMGWEGLNLTATIGAFLIG 482 Query: 489 AGIGSFIIQLVVSYLRRDKLRDTTGDPWRARTLEWSTSSPPPDYNFAFTPRVHDND 544 + F++ +V S R D +PW A TLEWS SPPP NF P VH D Sbjct: 483 LSVLLFLLNVVHSLWRGAAAGD---NPWGAATLEWSLPSPPPAGNFLEVPVVHAAD 535 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 0.331 0.144 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: 2,175,287 Number of extensions: 95829 Number of successful extensions: 343 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 329 Number of HSP's successfully gapped: 3 Length of query: 639 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 548 Effective length of database: 1,188,985 Effective search space: 651563780 Effective search space used: 651563780 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: 134 (56.2 bits)