2025-10-01 REL PDBe INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY EXPERIMENTAL_SUMMARY em_admin _em_admin.last_update STRUCTURE_SUMMARY chem_comp_atom chem_comp_bond em_admin pdbx_entry_details pdbx_modification_feature pdbx_validate_close_contact struct_conn _em_admin.last_update _pdbx_entry_details.has_protein_modification PDBe PDBe 2022-08-19 2023-03-15 2023-03-15 2025-10-01 European Research Council (ERC) 854126 European Union Biotechnology and Biological Sciences Research Council (BBSRC) BB/M000265/1 United Kingdom Wellcome Trust nr29785 United Kingdom Royal Society URF/R1/19154 United Kingdom Biotechnology and Biological Sciences Research Council (BBSRC) BB/V006630/1 United Kingdom Four subunit cytochrome b-c1 complex from Rhodobacter sphaeroides in native nanodiscs - consensus refinement in the b-b conformation Swainsbury DJK Hawkings FR Martin EC Musial S Salisbury JH Jackson PJ Farmer DA Johnson MP Siebert CA Hitchcock A Hunter CN cyt bc1 complex III membrane protein electron transport quinone cytochrome, OXIDOREDUCTASE Swainsbury DJK Hawkings FR Martin EC Musial S Salisbury JH Jackson PJ Farmer DA Johnson MP Siebert CA Hitchcock A Hunter CN Cryo-EM structure of the four-subunit Rhodobacter sphaeroides cytochrome bc 1 complex in styrene maleic acid nanodiscs. Proc.Natl.Acad.Sci.USA US 120 e2217922120 e2217922120 2023 36913593 doi:10.1073/pnas.2217922120 1091-6490 0040 PNASA6 8asi FULLOVERLAP EMDB EMD-15616 associated EM volume
Four subunit cytochrome b-c1 complex from Rhodobacter sphaeroides in native nanodiscs - consensus refinement in the b-b conformation
 Four subunit cytochrome b-c1 complex from Rhodobacter sphaeroides Four subunit cytochrome b-c1 complex from Rhodobacter sphaeroides 0 1 2 3 4
Four subunit cytochrome b-c1 complex from Rhodobacter sphaeroides purified in SMA copolymer lipid nanodiscs
Cereibacter sphaeroides 2.4.1 Ubiquinol-cytochrome c reductase iron-sulfur subunit Cereibacter sphaeroides 2.4.1 ATCC 17023 / DSM 158 / JCM 6121 / CCUG 31486 / LMG 2827 / NBRC 12203 / NCIMB 8253 / ATH 2.4.1. 0.019928374999999998 2 LEVO MSNAEDHAGTRRDFLYYATAGAGAVATGAAVWPLINQMNPSADVQALASIFVDVSSVEPGVQLTVKFLGKPIFIRRRTEA DIELGRSVQLGQLVDTNARNANIDAGAEATDQNRTLDEAGEWLVMWGVCTHLGCVPIGGVSGDFGGWFCPCHGSHYDSAG RIRKGPAPENLPIPLAKFIDETTIQLG Q3IY09 7.1.1.8 Cytochrome b Cereibacter sphaeroides 2.4.1 ATCC 17023 / DSM 158 / JCM 6121 / CCUG 31486 / LMG 2827 / NBRC 12203 / NCIMB 8253 / ATH 2.4.1. 0.050087422 2 LEVO MSGIPHDHYEPRTGIEKWLHSRLPIVALAYDTIMIPTPRNLNWMWIWGVVLAFCLVLQIVTGIVLAMHYTPHVDLAFASV EHIMRNVNGGFMLRYLHANGASLFFIAVYLHIFRGLYYGSYKAPREVTWIVGMLIYLAMMATAFMGYVLPWGQMSFWGAT VITGLFGAIPGIGHSIQTWLLGGPAVDNATLNRFFSLHYLLPFVIAALVAIHIWAFHSTGNNNPTGVEVRRTSKAEAQKD TVPFWPYFIIKDVFALAVVLLVFFAIVGFMPNYLGHPDNYIEANPLSTPAHIVPEWYFLPFYAILRAFTADVWVVQIANF ISFGIIDAKFFGVLAMFGAILVMALVPWLDTSPVRSGRYRPMFKIYFWLLAADFVILTWVGAQQTTFPYDWISLIASAYW FAYFLVILPILGAIEKPVAPPATIEEDFNAHYSPATGGTKTVVAE Q3IY10 Cytochrome c1 Cereibacter sphaeroides 2.4.1 ATCC 17023 / DSM 158 / JCM 6121 / CCUG 31486 / LMG 2827 / NBRC 12203 / NCIMB 8253 / ATH 2.4.1. 0.030661663999999998 2 LEVO MIRKLTLTAATALALSGGAAMAAGGGHVEDVPFSFEGPFGTFDQHQLQRGLQVYTEVCAACHGMKFVPIRSLSEPGGPEL PEDQVRAYATQFTVTDEETGEDREGKPTDHFPHSALENAPDLSLMAKARAGFHGPMGTGISQLFNGIGGPEYIYSVLTGF PEEPPKCAEGHEPDGFYYNRAFQNGSVPDTCKDANGVKTTAGSWIAMPPPLMDDLVEYADGHDASVHAMAEDVSAFLMWA AEPKLMARKQAGFTAVMFLTVLSVLLYLTNKRLWAGVKGKKKTNV Q3IY11 Cytochrome b-c1 subunit IV Cereibacter sphaeroides 2.4.1 ATCC 17023 / DSM 158 / JCM 6121 / CCUG 31486 / LMG 2827 / NBRC 12203 / NCIMB 8253 / ATH 2.4.1. 0.014415300999999998 2 LEVO MFSFIDDIPSFEQIKARVRDDLRKHGWEKRWNDSRLVQKSRELLNDEELKIDPATWIWKRMPSREEVAARRQRDFETVWK YRYRLGGFASGALLALALAGIFSTGNFGGSSDAGNRPSVVYPIE Q3J2Z2 FE2/S2 (INORGANIC) CLUSTER 0.00017581999999999998 2 FES 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine 0.000744034 12 PEE PROTOPORPHYRIN IX CONTAINING FE 0.000616487 4 HEM HEME C 0.0006185030000000001 2 HEC UBIQUINONE-10 0.0008633429999999999 1 U10 singleParticle particle 8.0 20.0 2-Amino-2-(hydroxymethyl)-1,3-propanediol Tris 200.0 NaCl NaCl
Solutions were freshly prepared from concentrated stock solutions.
 Quantifoil R1.2/1.3 COPPER 300 CARBON HOLEY ARRAY GLOW DISCHARGE OTHER ETHANE 80 298 LEICA EM GP
15 ul of sample was applied to the grid, incubated for 30 s, blotted for 4 s then plunged in liquid ethane..
Monodisperse particles consisting of four-subunit cyt b-c1 solubilised in styrene maleic acid nanodiscs
 FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 50.0 2.7 0.8 2.0 130000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN 20 GATAN K3 (6k x 4k) 5760 4092 1 15867 1.13 1.0 1
Images were motion corrected using Motiocorr 2 within RELION using 5 x 5 patches.
4060135
Particles were picked using crYOLO 1.7.5 using a model trained on this dataset
 CTFFIND 4.1.14 Run within RELION 3.1 PHASE FLIPPING AND AMPLITUDE CORRECTION 1 C1 FOURIER SPACE 2.9 FSC 0.143 CUT-OFF RELION 3.1 282636 MAXIMUM LIKELIHOOD RELION 3.1 MAXIMUM LIKELIHOOD RELION 3.1 10 RELION 3.1
One high quality class was selected for final refinement
 emd_15616.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 220 220 220 0 0 0 220 220 220 257.796 257.796 257.796 90.0 90.0 90.0 X Y Z -0.13314694 0.25730422 0.000107765845 0.005024016 1.1717999 1.1717999 1.1717999 0.018 AUTHOR Postprocess refined map from RELION 3.1 REAL emd_15616_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 220 220 220 0 0 0 220 220 220 257.796 257.796 257.796 90.0 90.0 90.0 X Y Z -0.33781114 0.58217835 0.0021462224 0.020491645 1.1717999 1.1717999 1.1717999 AUTHOR LocScale sharpened map emd_15616_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 220 220 220 0 0 0 220 220 220 257.796 257.796 257.796 90.0 90.0 90.0 X Y Z -0.027629552 0.06476268 0.000009857778 0.0018507864 1.1717999 1.1717999 1.1717999 AUTHOR Half map 2 emd_15616_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 220 220 220 0 0 0 220 220 220 257.796 257.796 257.796 90.0 90.0 90.0 X Y Z -0.026386539 0.06588137 0.0000090664835 0.0018486808 1.1717999 1.1717999 1.1717999 AUTHOR Half map 1