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- EMDB-22230: R. capsulatus CIII2CIV tripartite super-complex, conformation B (... -
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Open data
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Basic information
Entry | Database: EMDB / ID: EMD-22230 | |||||||||||||||||||||||||||
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Title | R. capsulatus CIII2CIV tripartite super-complex, conformation B (SC-1B) | |||||||||||||||||||||||||||
![]() | CIII2CIV tripartite super-complex, conformation B (SC-1B) | |||||||||||||||||||||||||||
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Function / homology | ![]() cytochrome-c oxidase / : / respiratory chain complex III / cytochrome-c oxidase / oxidative phosphorylation / quinol-cytochrome-c reductase / ubiquinol-cytochrome-c reductase activity / cytochrome-c oxidase activity / electron transport coupled proton transport / : ...cytochrome-c oxidase / : / respiratory chain complex III / cytochrome-c oxidase / oxidative phosphorylation / quinol-cytochrome-c reductase / ubiquinol-cytochrome-c reductase activity / cytochrome-c oxidase activity / electron transport coupled proton transport / : / photosynthesis / proton transmembrane transport / respiratory electron transport chain / 2 iron, 2 sulfur cluster binding / oxidoreductase activity / electron transfer activity / heme binding / membrane / metal ion binding / plasma membrane Similarity search - Function | |||||||||||||||||||||||||||
Biological species | ![]() ![]() | |||||||||||||||||||||||||||
Method | single particle reconstruction / cryo EM / Resolution: 7.2 Å | |||||||||||||||||||||||||||
![]() | Steimle S / Van Eeuwen T / Ozturk Y / Kim HJ / Braitbard M / Selamoglu N / Garcia BA / Schneidman-Duhovny D / Murakami K / Daldal F | |||||||||||||||||||||||||||
Funding support | ![]() ![]()
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![]() | ![]() Title: Cryo-EM structures of engineered active bc-cbb type CIIICIV super-complexes and electronic communication between the complexes. Authors: Stefan Steimle / Trevor van Eeuwen / Yavuz Ozturk / Hee Jong Kim / Merav Braitbard / Nur Selamoglu / Benjamin A Garcia / Dina Schneidman-Duhovny / Kenji Murakami / Fevzi Daldal / ![]() ![]() ![]() Abstract: Respiratory electron transport complexes are organized as individual entities or combined as large supercomplexes (SC). Gram-negative bacteria deploy a mitochondrial-like cytochrome (cyt) bc (Complex ...Respiratory electron transport complexes are organized as individual entities or combined as large supercomplexes (SC). Gram-negative bacteria deploy a mitochondrial-like cytochrome (cyt) bc (Complex III, CIII), and may have specific cbb-type cyt c oxidases (Complex IV, CIV) instead of the canonical aa-type CIV. Electron transfer between these complexes is mediated by soluble (c) and membrane-anchored (c) cyts. Here, we report the structure of an engineered bc-cbb type SC (CIIICIV, 5.2 Å resolution) and three conformers of native CIII (3.3 Å resolution). The SC is active in vivo and in vitro, contains all catalytic subunits and cofactors, and two extra transmembrane helices attributed to cyt c and the assembly factor CcoH. The cyt c is integral to SC, its cyt domain is mobile and it conveys electrons to CIV differently than cyt c. The successful production of a native-like functional SC and determination of its structure illustrate the characteristics of membrane-confined and membrane-external respiratory electron transport pathways in Gram-negative bacteria. | |||||||||||||||||||||||||||
History |
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Structure visualization
Movie |
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Structure viewer | EM map: ![]() ![]() ![]() |
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 4.4 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 25.3 KB 25.3 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 8.7 KB | Display | ![]() |
Images | ![]() | 140 KB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6xkzMC ![]() 6xi0C ![]() 6xktC ![]() 6xkuC ![]() 6xkvC ![]() 6xkwC ![]() 6xkxC M: atomic model generated by this map C: citing same article ( |
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Similar structure data | |
EM raw data | ![]() Data size: 35.8 TB Data #1: tripartite SC - dataset 1 [micrographs - multiframe] Data #2: tripartite SC - dataset 2 [micrographs - multiframe] Data #3: tripartite SC - dataset 3 [micrographs - multiframe] Data #4: tripartite SC - dataset 4 [micrographs - multiframe] Data #5: tripartite SC - dataset 5 [micrographs - multiframe] Data #6: tripartite SC - dataset 6 [micrographs - multiframe] Data #7: tripartite SC - dataset 7 [micrographs - multiframe] Data #8: bipartite SC - dataset 1 [micrographs - single frame] Data #9: bipartite SC - dataset 2 [micrographs - multiframe] Data #10: bipartite SC - dataset 3 [micrographs - multiframe]) |
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Links
EMDB pages | ![]() ![]() |
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Related items in Molecule of the Month |
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Map
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Annotation | CIII2CIV tripartite super-complex, conformation B (SC-1B) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.32 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
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Sample components
+Entire : CIII2CIV tripartite super-complex, conformation B (SC-1B)
+Supramolecule #1: CIII2CIV tripartite super-complex, conformation B (SC-1B)
+Supramolecule #2: CIII2
+Supramolecule #3: CIV
+Macromolecule #1: Ubiquinol-cytochrome c reductase iron-sulfur subunit
+Macromolecule #2: Cytochrome b
+Macromolecule #3: Cytochrome c1
+Macromolecule #4: Cytochrome c oxidase, Cbb3-type, subunit I
+Macromolecule #5: Cytochrome c oxidase, Cbb3-type, subunit II
+Macromolecule #6: Cbb3-type cytochrome c oxidase subunit CcoP,Cytochrome c-type cyt cy
+Macromolecule #7: FE2/S2 (INORGANIC) CLUSTER
+Macromolecule #8: HEME C
+Macromolecule #9: COPPER (II) ION
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Concentration | 4 mg/mL |
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Buffer | pH: 7.4 |
Grid | Model: C-flat-1.2/1.3 / Material: COPPER / Mesh: 400 / Pretreatment - Type: GLOW DISCHARGE |
Vitrification | Cryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 298 K / Instrument: FEI VITROBOT MARK IV |
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Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Average electron dose: 40.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: SPOT SCAN / Imaging mode: BRIGHT FIELD |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |