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= 0044.0011.p (329 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3K7W0.1 B3K7W0_9BACI Cytochrome d ubiquinol oxidase, subunit II... 429 e-118 Q65DB8.1 Q65DB8_BACLD Cytochrome bd ubiquinol oxidase (Subunit II) 369 e-100 A7ZAA3.1 A7ZAA3_BACA2 CydB 364 5e-99 Q927C4.1 Q927C4_LISMO CydB protein 358 3e-97 Q7ANT8.1 Q7ANT8_LISIN CydB protein 358 3e-97 >B3K7W0.1 B3K7W0_9BACI Cytochrome d ubiquinol oxidase, subunit II EC=3.1.3.1 Length = 338 Score = 429 bits (1102), Expect = e-118, Method: Compositional matrix adjust. Identities = 215/308 (69%), Positives = 244/308 (79%) Query: 22 METQILAKNDTERRVLINSIGPFWDANEVWLITGAGAMFAAFPHWYATLFSGFYIPFVFA 81 M TQ+LAKNDT+RRVLINSIGPFWDANEVWL+T GAMFAAFP+WYATLFSGFYIP VF Sbjct: 31 MSTQLLAKNDTQRRVLINSIGPFWDANEVWLLTAGGAMFAAFPNWYATLFSGFYIPLVFL 90 Query: 82 LLALIARGVAFEFRGKRDSLAWQRTWDVCIFVGSFLPPFLLAVVFASFIKGLPIDGDMQM 141 LLALI RGVAFEFRGK + W+R WD IF GS LPPFLL VVFA I+GLPI+ +MQ+ Sbjct: 91 LLALIGRGVAFEFRGKVGDVRWKRVWDGAIFTGSVLPPFLLGVVFACLIQGLPINEEMQL 150 Query: 142 YAGFFDVVNVYTVVAGITVVMLCLVHGLMFTTLRTVGDLQERARXXXXXXXXXXXXXXXX 201 +AGFFDVVN+YTVV G+T+VMLCL+HGLMFTTLRT+GDLQERAR Sbjct: 151 HAGFFDVVNLYTVVGGLTMVMLCLLHGLMFTTLRTLGDLQERARRMARRLLIPVAALFVA 210 Query: 202 XXXMTYYMTDVFEQRXXXXXXXXXXXXXXXXXSGFFMSKKKDGLAFGMTGAVMALSVVSV 261 MTY+MTD+FE+R G+FM+ K+DG AFGMTGAV+AL V SV Sbjct: 211 FGVMTYFMTDIFEKRGVGLTVLLVLALLAFLLGGYFMNVKRDGWAFGMTGAVIALLVTSV 270 Query: 262 FVGLFPRVMISSLDQAFNLTITNAASGHYSLKVMTIVALSLLPFVLGYQIWSYFVFHKRV 321 FVGLFPRVM+SS++ AF+LTI NAASG YSLK+MTIVA+SLLPFVLGYQIWSYFVFHKRV Sbjct: 271 FVGLFPRVMVSSINAAFDLTIYNAASGPYSLKIMTIVAVSLLPFVLGYQIWSYFVFHKRV 330 Query: 322 HEKEHLEY 329 HEKEHLEY Sbjct: 331 HEKEHLEY 338 >Q65DB8.1 Q65DB8_BACLD Cytochrome bd ubiquinol oxidase (Subunit II) Length = 338 Score = 369 bits (946), Expect = e-100, Method: Compositional matrix adjust. Identities = 176/308 (57%), Positives = 220/308 (71%) Query: 22 METQILAKNDTERRVLINSIGPFWDANEVWLITGAGAMFAAFPHWYATLFSGFYIPFVFA 81 M T+ L +ND ERRV+IN+IGPFWDANEVWL+TG GA+FAAFP+WYAT+FSG+YIPFVF Sbjct: 31 MATRFLGRNDLERRVMINTIGPFWDANEVWLLTGGGAIFAAFPNWYATMFSGYYIPFVFV 90 Query: 82 LLALIARGVAFEFRGKRDSLAWQRTWDVCIFVGSFLPPFLLAVVFASFIKGLPIDGDMQM 141 LLALI RGVAFEFRGK ++ W+ TWD +F GS LPPFL V+FAS ++G+PID DM + Sbjct: 91 LLALIGRGVAFEFRGKVETAKWKNTWDWVVFFGSILPPFLFGVLFASILRGMPIDADMNL 150 Query: 142 YAGFFDVVNVYTVVAGITVVMLCLVHGLMFTTLRTVGDLQERARXXXXXXXXXXXXXXXX 201 +AGF D VNVY+V G+ V +LCL+HGL+F TLRT DL++RAR Sbjct: 151 HAGFTDYVNVYSVTGGVAVTLLCLLHGLIFITLRTEADLRDRARQLAKKVVFAVLAALVA 210 Query: 202 XXXMTYYMTDVFEQRXXXXXXXXXXXXXXXXXSGFFMSKKKDGLAFGMTGAVMALSVVSV 261 ++ + TD+F R S FM +K+DG F MTGA +AL+V ++ Sbjct: 211 FVALSIFETDLFTGRGHVTIPLAALIVVCYVLSIVFMKQKRDGWTFAMTGAGIALTVATI 270 Query: 262 FVGLFPRVMISSLDQAFNLTITNAASGHYSLKVMTIVALSLLPFVLGYQIWSYFVFHKRV 321 F LFPRVMISS+ A++LT+ NA+SG YSLKVMTIVAL+LLPFVLGYQIWSY+VF KRV Sbjct: 271 FTALFPRVMISSVKSAYDLTVYNASSGDYSLKVMTIVALALLPFVLGYQIWSYYVFRKRV 330 Query: 322 HEKEHLEY 329 KE + Y Sbjct: 331 SSKEPMIY 338 >A7ZAA3.1 A7ZAA3_BACA2 CydB Length = 338 Score = 364 bits (935), Expect = 5e-99, Method: Compositional matrix adjust. Identities = 174/308 (56%), Positives = 220/308 (71%) Query: 22 METQILAKNDTERRVLINSIGPFWDANEVWLITGAGAMFAAFPHWYATLFSGFYIPFVFA 81 + T+ L N+ ERRVL+N+IGPFWDANEVWLITG GA+FAAFP+WYAT+ SG+YIPF+ Sbjct: 31 ISTRFLGHNELERRVLVNTIGPFWDANEVWLITGTGAIFAAFPNWYATMLSGYYIPFIII 90 Query: 82 LLALIARGVAFEFRGKRDSLAWQRTWDVCIFVGSFLPPFLLAVVFASFIKGLPIDGDMQM 141 LLAL+ RGVAFEFRG+ ++L W +TWD IF GS +PPF+ ++F S +G+PIDG M + Sbjct: 91 LLALMGRGVAFEFRGQVNNLKWVKTWDWVIFFGSLIPPFVFGLIFTSLFRGVPIDGHMNI 150 Query: 142 YAGFFDVVNVYTVVAGITVVMLCLVHGLMFTTLRTVGDLQERARXXXXXXXXXXXXXXXX 201 +AGF D+VNVY+V+ G V +L +HGLMF TLRT+GDLQERAR Sbjct: 151 HAGFSDIVNVYSVLGGAAVTLLSFLHGLMFITLRTIGDLQERARKMAKRVIGVIFLVVLA 210 Query: 202 XXXMTYYMTDVFEQRXXXXXXXXXXXXXXXXXSGFFMSKKKDGLAFGMTGAVMALSVVSV 261 M+ Y TD+F +R + FMSKKKDG AFGMTGA +AL+V + Sbjct: 211 FFAMSAYDTDMFTRRANITIPVFVLIVICNVLAIVFMSKKKDGWAFGMTGAGLALTVAMI 270 Query: 262 FVGLFPRVMISSLDQAFNLTITNAASGHYSLKVMTIVALSLLPFVLGYQIWSYFVFHKRV 321 F+ LFPRVM+SSL A++LT+ NA+SG YSLKVMTIVAL+LLPFV+G QIWSY+VF KRV Sbjct: 271 FISLFPRVMVSSLKSAYDLTVANASSGDYSLKVMTIVALTLLPFVIGSQIWSYYVFRKRV 330 Query: 322 HEKEHLEY 329 KE + Y Sbjct: 331 SHKEPMTY 338 >Q927C4.1 Q927C4_LISMO CydB protein Length = 337 Score = 358 bits (920), Expect = 3e-97, Method: Compositional matrix adjust. Identities = 170/308 (55%), Positives = 217/308 (70%) Query: 22 METQILAKNDTERRVLINSIGPFWDANEVWLITGAGAMFAAFPHWYATLFSGFYIPFVFA 81 M T+ +A+N ERRVL+N+IGPFWDANEVWL+T GA+FAAFP+WYAT+FSG+YIP VF Sbjct: 30 MSTRFMARNALERRVLVNTIGPFWDANEVWLLTAGGAIFAAFPNWYATMFSGYYIPLVFL 89 Query: 82 LLALIARGVAFEFRGKRDSLAWQRTWDVCIFVGSFLPPFLLAVVFASFIKGLPIDGDMQM 141 LLALI RGV+FEFRG++DS W +TWD IF GS LPPFL V+FAS I+G+PI+ DM M Sbjct: 90 LLALIGRGVSFEFRGQKDSPLWIKTWDWVIFFGSILPPFLFGVLFASLIQGMPINSDMDM 149 Query: 142 YAGFFDVVNVYTVVAGITVVMLCLVHGLMFTTLRTVGDLQERARXXXXXXXXXXXXXXXX 201 YAGFFD + V++V G+T+ ++CL+HGL+F TLRT D+Q+RAR Sbjct: 150 YAGFFDYITVFSVWGGVTITLMCLLHGLLFITLRTEEDIQDRARRMAKRVWFITVPALVI 209 Query: 202 XXXMTYYMTDVFEQRXXXXXXXXXXXXXXXXXSGFFMSKKKDGLAFGMTGAVMALSVVSV 261 + Y+ TD+F+ R S F+ K +D LAF G + ++ ++ Sbjct: 210 FVVLAYFNTDMFQVRPVLVPLMIGIVVVMYVLSALFIWKDRDILAFTFGGLGIVFTIATI 269 Query: 262 FVGLFPRVMISSLDQAFNLTITNAASGHYSLKVMTIVALSLLPFVLGYQIWSYFVFHKRV 321 FV LFPRVMISS++ AF+LTI NAASG YSL VMTIVA++LLPFVLGYQIWSY+VF KRV Sbjct: 270 FVSLFPRVMISSINSAFDLTIENAASGQYSLSVMTIVAVTLLPFVLGYQIWSYYVFRKRV 329 Query: 322 HEKEHLEY 329 KE + Y Sbjct: 330 SSKEKMTY 337 >Q7ANT8.1 Q7ANT8_LISIN CydB protein Length = 337 Score = 358 bits (920), Expect = 3e-97, Method: Compositional matrix adjust. Identities = 170/308 (55%), Positives = 217/308 (70%) Query: 22 METQILAKNDTERRVLINSIGPFWDANEVWLITGAGAMFAAFPHWYATLFSGFYIPFVFA 81 M T+ +A+N ERRVL+N+IGPFWDANEVWL+T GA+FAAFP+WYAT+FSG+YIP VF Sbjct: 30 MSTRFMARNALERRVLVNTIGPFWDANEVWLLTAGGAIFAAFPNWYATMFSGYYIPLVFL 89 Query: 82 LLALIARGVAFEFRGKRDSLAWQRTWDVCIFVGSFLPPFLLAVVFASFIKGLPIDGDMQM 141 LLALI RGV+FEFRG++DS W +TWD IF GS LPPFL V+FAS I+G+PI+ DM M Sbjct: 90 LLALIGRGVSFEFRGQKDSPLWIKTWDWVIFFGSILPPFLFGVLFASLIQGMPINSDMDM 149 Query: 142 YAGFFDVVNVYTVVAGITVVMLCLVHGLMFTTLRTVGDLQERARXXXXXXXXXXXXXXXX 201 YAGFFD + V++V G+T+ ++CL+HGL+F TLRT D+Q+RAR Sbjct: 150 YAGFFDYITVFSVWGGVTITLMCLLHGLLFITLRTEEDIQDRARRMAKRVWFITVPALVI 209 Query: 202 XXXMTYYMTDVFEQRXXXXXXXXXXXXXXXXXSGFFMSKKKDGLAFGMTGAVMALSVVSV 261 + Y+ TD+F+ R S F+ K +D LAF G + ++ ++ Sbjct: 210 FVVLAYFNTDMFQVRPVLVPLMIGIVVVMYVLSALFIWKDRDILAFTFGGLGIVFTIATI 269 Query: 262 FVGLFPRVMISSLDQAFNLTITNAASGHYSLKVMTIVALSLLPFVLGYQIWSYFVFHKRV 321 FV LFPRVMISS++ AF+LTI NAASG YSL VMTIVA++LLPFVLGYQIWSY+VF KRV Sbjct: 270 FVSLFPRVMISSINSAFDLTIENAASGQYSLSVMTIVAVTLLPFVLGYQIWSYYVFRKRV 329 Query: 322 HEKEHLEY 329 KE + Y Sbjct: 330 SSKEKMTY 337 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.331 0.142 0.443 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 1,505,765,876 Number of extensions: 53452959 Number of successful extensions: 180168 Number of sequences better than 1.0e-05: 1489 Number of HSP's gapped: 178915 Number of HSP's successfully gapped: 1733 Length of query: 329 Length of database: 3,060,696,203 Length adjustment: 136 Effective length of query: 193 Effective length of database: 1,779,438,163 Effective search space: 343431565459 Effective search space used: 343431565459 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: 131 (55.1 bits)