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Yorodumi- EMDB-37243: Structure of the human ATP synthase bound to bedaquiline (membran... -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-37243 | ||||||||||||
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Title | Structure of the human ATP synthase bound to bedaquiline (membrane domain) | ||||||||||||
Map data | |||||||||||||
Sample |
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Keywords | ATP synthase / Human / cryo-EM / Membrane protein | ||||||||||||
Function / homology | Function and homology information Formation of ATP by chemiosmotic coupling / Cristae formation / ATP biosynthetic process / Mitochondrial protein import / mitochondrial proton-transporting ATP synthase complex assembly / oxidative phosphorylation / response to copper ion / : / : / : ...Formation of ATP by chemiosmotic coupling / Cristae formation / ATP biosynthetic process / Mitochondrial protein import / mitochondrial proton-transporting ATP synthase complex assembly / oxidative phosphorylation / response to copper ion / : / : / : / proton-transporting ATP synthase complex, coupling factor F(o) / : / proton motive force-driven ATP synthesis / proton transmembrane transporter activity / proton motive force-driven mitochondrial ATP synthesis / response to hyperoxia / proton transmembrane transport / Mitochondrial protein degradation / substantia nigra development / aerobic respiration / proton-transporting ATP synthase activity, rotational mechanism / nuclear membrane / mitochondrial inner membrane / hydrolase activity / mitochondrial matrix / lipid binding / mitochondrion / RNA binding / membrane / nucleus Similarity search - Function | ||||||||||||
Biological species | Homo sapiens (human) | ||||||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.13 Å | ||||||||||||
Authors | Lai Y / Zhang Y / Gong H | ||||||||||||
Funding support | China, 3 items
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Citation | Journal: To Be Published Title: Structure of Mycobacterium tuberculosis ATP synthase Authors: Zhang Y / Lai Y / Liu F / Rao Z / Gong H | ||||||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_37243.map.gz | 483.5 MB | EMDB map data format | |
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Header (meta data) | emd-37243-v30.xml emd-37243.xml | 23.7 KB 23.7 KB | Display Display | EMDB header |
Images | emd_37243.png | 50.1 KB | ||
Filedesc metadata | emd-37243.cif.gz | 6.2 KB | ||
Others | emd_37243_half_map_1.map.gz emd_37243_half_map_2.map.gz | 475.6 MB 475.6 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-37243 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-37243 | HTTPS FTP |
-Validation report
Summary document | emd_37243_validation.pdf.gz | 1.2 MB | Display | EMDB validaton report |
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Full document | emd_37243_full_validation.pdf.gz | 1.2 MB | Display | |
Data in XML | emd_37243_validation.xml.gz | 18.9 KB | Display | |
Data in CIF | emd_37243_validation.cif.gz | 22.4 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-37243 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-37243 | HTTPS FTP |
-Related structure data
Related structure data | 8khfMC 8j0sC 8j0tC 8j57C 8j58C 8jr0C 8jr1C 8ki3C M: atomic model generated by this map C: citing same article (ref.) |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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Related items in Molecule of the Month |
-Map
File | Download / File: emd_37243.map.gz / Format: CCP4 / Size: 512 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||
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Voxel size | X=Y=Z: 0.73 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #1
File | emd_37243_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #2
File | emd_37243_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Sample components
+Entire : human ATP synthase
+Supramolecule #1: human ATP synthase
+Macromolecule #1: ATP synthase F(0) complex subunit C1, mitochondrial
+Macromolecule #2: ATP synthase subunit gamma, mitochondrial
+Macromolecule #3: ATP synthase subunit delta, mitochondrial
+Macromolecule #4: ATP synthase subunit epsilon, mitochondrial
+Macromolecule #5: ATP synthase F(0) complex subunit B1, mitochondrial
+Macromolecule #6: ATP synthase subunit d, mitochondrial
+Macromolecule #7: ATP synthase subunit a
+Macromolecule #8: ATP synthase subunit ATP5MJ, mitochondrial
+Macromolecule #9: ATP synthase protein 8
+Macromolecule #10: ATP synthase subunit f, mitochondrial
+Macromolecule #11: ATP synthase subunit g, mitochondrial
+Macromolecule #12: ATP synthase subunit e, mitochondrial
+Macromolecule #13: Bedaquiline
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 7.4 |
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Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: FEI FALCON IV (4k x 4k) / Average electron dose: 50.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.4 µm / Nominal defocus min: 1.2 µm |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
-Image processing
Startup model | Type of model: PDB ENTRY PDB model - PDB ID: |
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Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 3.13 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 84037 |
Initial angle assignment | Type: MAXIMUM LIKELIHOOD |
Final angle assignment | Type: MAXIMUM LIKELIHOOD |