2026-01-21 REL PDBe INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY PDBe PDBe 2025-03-09 2026-01-21 2026-01-21 2026-01-21 Knut and Alice Wallenberg Foundation KAW 2019.0043 Sweden Kovalova T Krol S Brzezinski P Hogbom M RESPIRATORY SUPERCOMPLEX, MEMBRANE PROTEIN, ACTINOBACTERIA, ELECTRON TRANSPORT Krol S Kovalova T Janczak M Kalsum S Akber M Hogbom M Brighenti S Adelroth P Brzezinski P Commun Biol UK 9 43 43 2025 41372535 doi:10.1038/s42003-025-09309-9 2399-3642 9qef FULLOVERLAP EMDB EMD-53065 associated EM volume

Respiratory supercomplex from Mycobacterium smegmatis with decylubiquinone

The respiratory supercomplex CIII2CIV2 The respiratory supercomplex CIII2CIV2 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 Mycolicibacterium smegmatis Cytochrome bc1 complex cytochrome c subunit Mycolicibacterium smegmatis 0.029109944999999998 2 Mycolicibacterium smegmatis LEVO MHHHHHHMGSMTSKSRRRLRRRLSAGLLLLIGLAVAGGVAATLTPQPQVAVADESQSALLRTGKQLFETSCVSCHGANLQ GVPDRGPSLIGTGEAAVYFQVSTGRMPAMRGEAQAPSKPPHFDESQIDALGAYVQANGGGPTVPRDDHGAVAQESLIGGD VARGGDLFRLNCASCHNFTGKGGALSSGKYAPDLGDANPAQIYTAMLTGPQNMPKFSDRQLTPDEKRDIVAYVRESAETP SYGGYGLGGFGPAPEGMAMWIIGMVAAIGVAMWIGSRA A0R050 7.1.1.8 Cytochrome bc1 complex cytochrome c subunit Mycolicibacterium smegmatis 0.04486939499999999 2 Mycolicibacterium smegmatis LEVO MDRIASMSQDSPDIKGTDAPGQTGVPGQPTDAELAEMSREELVKLGGKIDGVETIFKEPRWPVPGTKAEKRTERLVAYWL MLGGLSGLALLLVFLFWPWEYQPFGSEGEFLYSLATPLYGLTFGLSILSIGIGAVLFQKKFIPEEISVQDRHDGRSPEVH RKTVAANLTDALEGSTLKRRKVIGLSLGIGLGAFGAGTLVAFIGGLIKNPWKPVVPTAEGKKAVLWTSGWTPRFKGETIY LARATGRPGESPFVKMRPEDIDAGGMETVFPWRESDGDGTTVESEHKLTEIAMGVRNPVMLIRIKPADMHRVIKRKGQES FNFGELFAYTKVCSHLGCPSSLYEQQTYRILCPCHQSQFDALEFAKPIFGPAARALAQLPITIDEDGYLVANGDFVEPVG PAFWERKS A0R051 7.1.1.8 Cytochrome bc1 complex cytochrome b subunit Mycolicibacterium smegmatis 0.061514281 2 Mycolicibacterium smegmatis LEVO MSPDFAKLAAAQGDAIDSRYHPSAAVRRQLNKVFPTHWSFLLGEIALYSFIILLLTGVWLTLFFDPSMAHVTYDGVYQPL RGVQMSRAYETALDISFEVRGGLFVRQVHHWAALMFAASIMVHLARIFFTGAFRRPREANWVIGSLLLILAMFEGFFGYS LPDDLLSGTGIRAALSGITMGIPVIGTWMHWALFGGDFPGEILIPRLYALHILLIPGIILALIGAHLALVWFQKHTQFPG PGRTETNVVGVRVMPVFAVKSGAFFAMITGVLGLMGGLLTINPIWNLGPYKPSQVSAGSQPDFYMMWTDGLIRLWPAWEF YPFGHTIPQGVWVAVGMGLVFALLIAYPFIEKKVTGDDAHHNLLQRPRDVPVRTAIGSMAIALYLLLTFACMNDIIALKF HISLNATTWIGRIGMVVLPAIVYFVAYRWAISLQRSDREVLEHGVETGIIKRLPHGAYVELHQPLGPVDEHGHPIPLEYA GAPLPKRMNKLGSGGAPGTGSFLFPDPAVEHEALTEAAHASEHKSLTALKEHQDRIHGNGETNGHHKLDYKDDDDK A0R052 7.1.1.8 Transmembrane protein Mycolicibacterium smegmatis 0.011329908999999999 2 Mycolicibacterium smegmatis LEVO MSSTQDRSQLDPEEQPVANTEVERHTGVDVEDVPSAEWGWSHMPIGVMHIGGLLSAAFLLVMMRGNHVGHVEDWFLIGFA AVIVALVGRNWWLRRRGWIR A0QVH4 Probable cytochrome c oxidase subunit 3 Mycolicibacterium smegmatis 0.022196883 2 Mycolicibacterium smegmatis LEVO MTSAVGTSGTAITSRVHSLNRPNMVSVGTIVWLSSELMFFAGLFAMYFTARAQAGGAWPPEPTELNLALAVPVTLVLIAS SFTCQMGVFAAERGDVFGLRRWYVITFLMGLFFVLGQGYEYIHLVEHGTTIPGSAYGSVFYLATGFHGLHVIGGLVAFVL LLARTKMSKFTPAQATAAIVVSYYWHFVDIVWIALFATIYFVR A0R049 Cytochrome c oxidase polypeptide 4 Mycolicibacterium smegmatis 0.015177424 2 Mycolicibacterium smegmatis LEVO MHIEARLFEILTAFFALAAVVYAVLTAMFATGGVEWAGTTALVLTTGLTLITGTFFRFVARRLDTRPEDYEDAEISDGAG ELGFFAPHSWWPILISLSFSTAAVGAALWLPWLIAAGVAFVITSVCGLVFEYYWGPEKH A0R056 7.1.1.9 Cytochrome c oxidase subunit 1 Mycolicibacterium smegmatis 0.06416296499999999 2 Mycolicibacterium smegmatis LEVO MVAEAPPIGELEARRPFPERMGPKGNLIYKLITTTDHKLIGIMYCVVCFAFFLVGGLMALFMRTELAMPGLQFLSNEQFN QLFTMHGTVMLLFYATPIVFGFANLVLPLQIGAPDVAFPRLNALSFWLFLFGALIAIAGFITPGGAADFGWTAYSPLTDA IHSPGAGGDLWIMGLAVGGLGTILGGVNMITTVVCMRAPGMTMFRMPIFTWNILVTSILVLIAFPILTAALFGLAADRHL GAHIYDPANGGVLLWQHLFWFFGHPEVYIIALPFFGIVSEIFPVFSRKPIFGYTTLIYATLAIAALSVAVWAHHMYATGA VLLPFFSFMTFLIAVPTGIKFFNWIGTMWKGQLTFETPMLFSVGFLITFLLGGLSGVLLASPPLDFHVTDSYFVIAHFHY VLFGTIVFATYAGIYFWFPKMTGRLLDERLGKLHFWLTFIGFHTTFLVQHWLGDEGMPRRYADYLPTDGFTTLNVISTVG AFILGVSMLPFVWNVFKSWRYGEPVTVDDPWGYGNSLEWATSCPPPRHNFTELPRIRSERPAFELHYPHMVERMRAEAHV GRAHHPELETADKSS A0A2U9PNL2 7.1.1.9 cytochrome-c oxidase Mycolicibacterium smegmatis 0.038077465 2 Mycolicibacterium smegmatis LEVO MTPRGFRVVALSIVLGGSALLLSGCSWSDALALGWPTGITPEAKLNRELWIGSVIASFAVGAIVWGLIFWTSAFHRKKAT DTELPRQFGYNMPLELTLTVIPFLIISVLFYFTVVVQERMMHKDPNPEVVIDVTAFQWNWKFGYQKIAFADGSFDYDGAD PERKEAMTSRPEGKDEHGIEKVGPIRGMTPEDRTYLNFDKIETLGTSSEIPVLVLPAGKRIEFVLNSADVIHGFWVPEFL FKRDVLPEPKANNSDNVFQVSEIQQTGAFVGRCTEMCGTFHAMMNFEVRVVEPNDFKAYIDQRNAGKTNAEALAAINQPP LAITTEPFESRRGELVPQASK A0R057 7.1.1.9 Cytochrome c oxidase subunit Mycolicibacterium smegmatis 0.008365549 2 Mycolicibacterium smegmatis LEVO MSTALTHGLIGGVPLVLFAVLALIFLTRKGPHPDTYKMSDPWTHAPILWAAEEPREHGHGGHGHDSHGVVIGGGASGKW A0R1B6 Uncharacterized protein MSMEG_4692/MSMEI_4575 Mycolicibacterium smegmatis 0.015910971 2 Mycolicibacterium smegmatis LEVO MASGDIATVANAELDLPYGSALTSSGRISAVTEPGELSVHYPFPTMDLVVLDDALKYGSRAAKARFAVYIGPLGADTAAT AREILANVPTPENAVLLAVSPDQRAIEVVYGADVKGRGIESAAPLGVSAAAASFKEGNLIDGLISAVRVMSAGVSPA A0R1B5 LpqE protein Mycolicibacterium smegmatis 0.019118969 2 Mycolicibacterium smegmatis LEVO MNRFSSRAGLAVCGLATAVALTACSAGQISQTTTQEPAVNGVNAQAGQVSLRNVHLRAPQQTDYVEPGTTVELLFVAAND STEGSNKLKSITSDVGEVTLTGDSTVPADGVLIVGEPDGQIQAVENAEAADAVTAEVELTKPITNGLLYDFTFTFEDGET TVAVPISAGEQPRRPVPPAGPGSSEH A0R562 Superoxide dismutase [Cu-Zn] Mycolicibacterium smegmatis 0.023232375 2 Mycolicibacterium smegmatis LEVO MLKPVSVAVLFATPVLALSACSPPGETASSEPGTTPAIWTGSPSPAAPSGEDHGGGHGAGAAGAGETLTAELKTADGTSV ATADFQFADGFATVTIETTTPGRLTPGFHGVHIHSVGKCEANSVAPTGGAPGDFNSAGGHFQVSGHSGHPASGDLSSLQV RADGSGKLVTTTDAFTAEDLLDGAKTAIIIHEKADNFANIPPERYQQVNGAPGPDQTTMATGDAGSRVACGVISAG A0QQQ1 1.15.1.1 Co-purified transmembrane protein Mycolicibacterium smegmatis 0.013027842 2 Mycolicibacterium smegmatis LEVO MRHRLERTAVPYVSYVLVLVGFVAFGALVASLAYGSHIPAGIAGAVLAGSLTGAVIGFRAAARRLRADRGDAHNVSIFDT PLEPEMVDRYARRYRATGTDAEESAVAVLPAAETAAARERRAA A0A653FDI6 Co-purified peptide Mycolicibacterium smegmatis 0.007075939 2 Mycolicibacterium smegmatis LEVO MWGVADKKKKQYVDNGWPTLSGDDDHAVTELASDRTGALSPFGDVVFPLPAEQLPFLPAVTVVNR I7FT03 HEME C 0.0006185030000000001 4 HEC MENAQUINONE-9 0.0007852329999999999 7 MQ9 acyl-phosphatidyl-myo-inositol dimannoside (AcPIM2) 0.0014158019999999999 4 WUO FE2/S2 (INORGANIC) CLUSTER 0.00017581999999999998 2 FES [(2~{R})-3-[[(1~{S},2~{R},3~{S},4~{S},5~{R},6~{R})-2-[(2~{R},3~{S},4~{S},5~{S},6~{R})-6-[[(2~{S},3~{S},4~{S},5~{S},6~{R})-6-[[(2~{S},3~{S},4~{S},5~{S},6~{R})-6-(hydroxymethyl)-3-[(2~{R},3~{S},4~{S},5~{S},6~{R})-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-4,5-bis(oxidanyl)oxan-2-yl]oxymethyl]-3,4,5-tris(oxidanyl)oxan-2-yl]oxymethyl]-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-3,4,5-tris(oxidanyl)-6-[(2~{R},3~{S},4~{S},5~{S},6~{R})-3,4,5-tris(oxidanyl)-6-(undecanoyloxymethyl)oxan-2-yl]oxy-cyclohexyl]oxy-oxidanyl-phosphoryl]oxy-2-undecanoyloxy-propyl] (10~{R})-10-methyldodecanoate 0.0016777979999999999 2 IZL (2R)-2-(hexadecanoyloxy)-3-{[(S)-hydroxy{[(1R,2R,3R,4R,5R,6S)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propyl (9S)-9-methyloctadecanoate 0.000853112 4 9YF (1R)-2-(dodecanoyloxy)-1-[(phosphonooxy)methyl]ethyl tetradecanoate 0.000564732 5 7PH PROTOPORPHYRIN IX CONTAINING FE 0.000616487 4 HEM CARDIOLIPIN 0.0014640429999999997 17 CDL PALMITIC ACID 0.00025642399999999994 4 PLM (2S)-1-(hexadecanoyloxy)propan-2-yl (10S)-10-methyloctadecanoate 0.0005949919999999999 4 9XX TRIDECANE 0.000184361 10 TRD 1,2-Distearoyl-sn-glycerophosphoethanolamine 0.000748065 2 3PE HEME-A 0.000852837 4 HEA COPPER (II) ION 6.354599999999999e-05 6 CU MAGNESIUM ION 2.4305e-05 2 MG CALCIUM ION 4.0078e-05 2 CA 2-decyl-5,6-dimethoxy-3-methylcyclohexa-2,5-diene-1,4-dione 0.000322439 1 DCQ water 1.8015e-05 606 HOH singleParticle particle 7.4 Quantifoil R2/2 COPPER 300 ETHANE 100 277 FEI VITROBOT MARK IV TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 0.6 2.2 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN GATAN K3 BIOQUANTUM (6k x 4k) 40.0 1 PHASE FLIPPING AND AMPLITUDE CORRECTION 2.5 FSC 0.143 CUT-OFF 79 MAXIMUM LIKELIHOOD MAXIMUM LIKELIHOOD emd_53065_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 540 540 540 0 0 0 540 540 540 445.5 445.5 445.5 90.0 90.0 90.0 X Y Z -0.68832177 1.398452 -0.0006263623 0.043495603 0.825 0.825 0.825 AUTHOR ::::EMDATABANK.org::::EMD-53065:::: emd_53065_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 540 540 540 0 0 0 540 540 540 445.5 445.5 445.5 90.0 90.0 90.0 X Y Z -1.7400875 1.6824039 0.00043042452 0.19033602 0.825 0.825 0.825 AUTHOR ::::EMDATABANK.org::::EMD-53065:::: emd_53065_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 540 540 540 0 0 0 540 540 540 445.5 445.5 445.5 90.0 90.0 90.0 X Y Z -1.7239759 1.687771 0.00043255615 0.19169125 0.825 0.825 0.825 AUTHOR ::::EMDATABANK.org::::EMD-53065::::