2026-09-02 REL PDBe INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY EXPERIMENTAL_SUMMARY em_admin _em_admin.last_update REMEDIATION REPOSITORY Metalloprotein remediation STRUCTURE_SUMMARY chem_comp em_admin pdbx_entry_details pdbx_modification_feature pdbx_nonpoly_atom_coordination pdbx_nonpoly_atom_coordination_sphere pdbx_nonpoly_atom_coordination_sphere_order _chem_comp.formula _em_admin.last_update _pdbx_entry_details.has_protein_modification PDBe PDBe 2023-10-05 2024-04-24 2024-04-24 2026-09-02 Netherlands Organisation for Scientific Research (NWO) 731.016.407 Netherlands Netherlands Organisation for Scientific Research (NWO) 184.034.014 Netherlands Health-Holland LSHM21029 Netherlands Cryo-EM structure of E. coli cytochrome bo3 quinol oxidase assembled in peptidiscs Gao Y Zhang Y Hakke S Peters PJ Ravelli RBG E. coli, membrane protein, Ni-NTA resin, cytochrome bo3 quinol oxidase; ubiquinone-8 release; peptidisc; single particle analysis; cryo-EM Gao Y Zhang Y Hakke S Mohren R Sijbers LJPM Peters PJ Ravelli RBG Cryo-EM structure of cytochrome bo 3 quinol oxidase assembled in peptidiscs reveals an "open" conformation for potential ubiquinone-8 release. Biochim Biophys Acta Bioenerg NE 1865 149045 149045 2024 38614453 doi:10.1016/j.bbabio.2024.149045 1879-2650 8qqk FULLOVERLAP EMDB EMD-18594 associated EM volume
Cryo-EM structure of E. coli cytochrome bo3 quinol oxidase assembled in peptidiscs
 Cytochrome bo3 quinol oxidase Cytochrome bo3 quinol oxidase 0 1 2 3 4
Heme-copper-oxidoreductase purified from E. coli native membranes by Ni-NTA affinity chromatography.
Escherichia coli C41 0.144 Cytochrome bo(3) ubiquinol oxidase subunit 1 Escherichia coli BL21(DE3) 0.074424469 1 LEVO MFGKLSLDAVPFHEPIVMVTIAGIILGGLALVGLITYFGKWTYLWKEWLTSVDHKRLGIMYIIVAIVMLLRGFADAIMMR SQQALASAGEAGFLPPHHYDQIFTAHGVIMIFFVAMPFVIGLMNLVVPLQIGARDVAFPFLNNLSFWFTVVGVILVNVSL GVGEFAQTGWLAYPPLSGIEYSPGVGVDYWIWSLQLSGIGTTLTGINFFVTILKMRAPGMTMFKMPVFTWASLCANVLII ASFPILTVTVALLTLDRYLGTHFFTNDMGGNMMMYINLIWAWGHPEVYILILPVFGVFSEIAATFSRKRLFGYTSLVWAT VCITVLSFIVWLHHFFTMGAGANVNAFFGITTMIIAIPTGVKIFNWLFTMYQGRIVFHSAMLWTIGFIVTFSVGGMTGVL LAVPGADFVLHNSLFLIAHFHNVIIGGVVFGCFAGMTYWWPKAFGFKLNETWGKRAFWFWIIGFFVAFMPLYALGFMGMT RRLSQQIDPQFHTMLMIAASGAVLIALGILCLVIQMYVSIRDRDQNRDLTGDPWGGRTLEWATSSPPPFYNFAVVPHVHE RDAFWEMKEKGEAYKKPDHYEEIHMPKNSGAGIVIAAFSTIFGFAMIWHIWWLAIVGFAGMIITWIVKSFDEDVDYYVPV AEIEKLENQHFDEITKAGLKNGN P0ABI8 7.1.1.3 Cytochrome bo(3) ubiquinol oxidase subunit 2 Escherichia coli BL21(DE3) 0.034947203 1 LEVO MRLRKYNKSLGWLSLFAGTVLLSGCNSALLDPKGQIGLEQRSLILTAFGLMLIVVIPAILMAVGFAWKYRASNKDAKYSP NWSHSNKVEAVVWTVPILIIIFLAVLTWKTTHALEPSKPLAHDEKPITIEVVSMDWKWFFIYPEQGIATVNEIAFPANTP VYFKVTSNSVMNSFFIPRLGSQIYAMAGMQTRLHLIANEPGTYDGISASYSGPGFSGMKFKAIATPDRAAFDQWVAKAKQ SPNTMSDMAAFEKLAAPSEYNQVEYFSNVKPDLFADVINKFMAHGKSMDMTQPEGEHSAHEGMEGMDMSHAESAH P0ABJ1 Cytochrome bo(3) ubiquinol oxidase subunit 3 Escherichia coli BL21(DE3) 0.022642566 1 LEVO MATDTLTHATAHAHEHGHHDAGGTKIFGFWIYLMSDCILFSILFATYAVLVNGTAGGPTGKDIFELPFVLVETFLLLFSS ITYGMAAIAMYKNNKSQVISWLALTWLFGAGFIGMEIYEFHHLIVNGMGPDRSGFLSAFFALVGTHGLHVTSGLIWMAVL MVQIARRGLTSTNRTRIMCLSLFWHFLDVVWICVFTVVYLMGAM P0ABJ3 Cytochrome bo(3) ubiquinol oxidase subunit 4 Escherichia coli BL21(DE3) 0.012037401999999999 1 LEVO MSHSTDHSGASHGSVKTYMTGFILSIILTVIPFWMVMTGAASPAVILGTILAMAVVQVLVHLVCFLHMNTKSDEGWNMTA FVFTVLIIAILVVGSIWIMWNLNYNMMMH P0ABJ6 (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate 0.0007600759999999999 3 POV 1,2-Distearoyl-sn-glycerophosphoethanolamine 0.000748065 3 3PE PROTOPORPHYRIN IX CONTAINING FE 0.000616487 1 HEM HEME O 0.000838854 1 HEO COPPER (II) ION 6.354599999999999e-05 1 CU singleParticle particle 1.6 8.0 20.0 C4H11NO3 Tris 150.0 NaCl Sodium Chloride 2.0 C3H8O3 Glycerol
20mM Tris-HCL, 150mM NaCl, 2% Glycerol, filtered and degassed.
 UltrAuFoil R1.2/1.3 GOLD 300 GLOW DISCHARGE AIR ETHANE 95 277.15 FEI VITROBOT MARK IV FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 100.0 1.5 2.0 105000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN GATAN K3 BIOQUANTUM (6k x 4k) 5760 4092 1 8050 2.1 50.0 1 1277595 RELION PHASE FLIPPING AND AMPLITUDE CORRECTION 1 C1 FOURIER SPACE 2.8 FSC 0.143 CUT-OFF RELION 45014 MAXIMUM LIKELIHOOD RELION MAXIMUM LIKELIHOOD RELION 3 RELION emd_18594.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 213.504 213.504 213.504 90.0 90.0 90.0 X Y Z 0.0 17.376232000000002 0.2608704 0.80367327 0.834 0.834 0.834 4.5 AUTHOR Map sharpened by LocSpiral 1FFT PDB experimental model FLEXIBLE FIT REAL 59.969999999999999 emd_18594_msk_1.map emd_18594_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 213.504 213.504 213.504 90.0 90.0 90.0 X Y Z -0.07141259 0.11294966 0.00019057644 0.007247159 0.834 0.834 0.834 AUTHOR emd_18594_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 213.504 213.504 213.504 90.0 90.0 90.0 X Y Z -0.07355541 0.11199183 0.00015148814 0.007158906 0.834 0.834 0.834 AUTHOR