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- PDB-8w5j: Cryo-EM structure of the yeast TOM core complex (from TOM-TIM23 c... -
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Open data
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Basic information
Entry | Database: PDB / ID: 8w5j | ||||||
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Title | Cryo-EM structure of the yeast TOM core complex (from TOM-TIM23 complex) | ||||||
![]() | (Mitochondrial import receptor subunit ...) x 5 | ||||||
![]() | TRANSLOCASE / TOM complex | ||||||
Function / homology | ![]() mitochondrial outer membrane translocase complex assembly / mitochondrial outer membrane translocase complex / protein import into mitochondrial matrix / protein targeting to mitochondrion / protein insertion into mitochondrial outer membrane / porin activity / pore complex / protein transmembrane transporter activity / monoatomic ion transport / mitochondrial intermembrane space ...mitochondrial outer membrane translocase complex assembly / mitochondrial outer membrane translocase complex / protein import into mitochondrial matrix / protein targeting to mitochondrion / protein insertion into mitochondrial outer membrane / porin activity / pore complex / protein transmembrane transporter activity / monoatomic ion transport / mitochondrial intermembrane space / mitochondrial outer membrane / mitochondrion / cytosol Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 4.4 Å | ||||||
![]() | Wang, Q. / Guan, Z.Y. / Zhuang, J.J. / Huang, R. / Yin, P. | ||||||
Funding support | ![]()
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![]() | ![]() Title: The architecture of substrate-engaged TOM-TIM23 supercomplex reveals preprotein proximity sites for mitochondrial protein translocation. Authors: Qiang Wang / Jinjin Zhuang / Rui Huang / Zeyuan Guan / Ling Yan / Sixing Hong / Liying Zhang / Can Huang / Zhu Liu / Ping Yin / ![]() | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 178.7 KB | Display | ![]() |
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PDB format | ![]() | 138 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1.3 MB | Display | ![]() |
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Full document | ![]() | 1.3 MB | Display | |
Data in XML | ![]() | 41.5 KB | Display | |
Data in CIF | ![]() | 58.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 37294MC ![]() 8w5kC M: map data used to model this data C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
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Assembly
Deposited unit | ![]()
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1 |
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Components
-Mitochondrial import receptor subunit ... , 5 types, 10 molecules AIBJCKDLEM
#1: Protein | Mass: 42071.141 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: TOM40, ISP42, MOM38, YMR203W, YM8325.04 Production host: ![]() ![]() References: UniProt: P23644 #2: Protein | Mass: 16801.373 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: TOM22, MAS17, MAS22, MOM22, YNL131W, N1217, N1862 Production host: ![]() ![]() References: UniProt: P49334 #3: Protein/peptide | Mass: 5993.924 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: TOM5, MOM8A, YPR133W-A Production host: ![]() ![]() References: UniProt: P80967 #4: Protein | Mass: 6410.460 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: TOM6, ISP6, YOR045W Production host: ![]() ![]() References: UniProt: P33448 #5: Protein | Mass: 6876.955 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: TOM7, MOM7, YNL070W, N2378 Production host: ![]() ![]() References: UniProt: P53507 |
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-Non-polymers , 1 types, 1 molecules ![](data/chem/img/46E.gif)
#6: Chemical | ChemComp-46E / ( |
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-Details
Has ligand of interest | Y |
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-Experimental details
-Experiment
Experiment | Method: ELECTRON MICROSCOPY |
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EM experiment | Aggregation state: PARTICLE / 3D reconstruction method: single particle reconstruction |
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Sample preparation
Component | Name: TOM-TIM23 complex / Type: COMPLEX / Entity ID: #1-#5 / Source: RECOMBINANT |
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Source (natural) | Organism: ![]() ![]() |
Buffer solution | pH: 7.4 |
Specimen | Conc.: 2.5 mg/ml / Embedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES |
Vitrification | Cryogen name: ETHANE |
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Electron microscopy imaging
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
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Microscopy | Model: FEI TITAN KRIOS |
Electron gun | Electron source: ![]() |
Electron lens | Mode: BRIGHT FIELD / Nominal defocus max: 2200 nm / Nominal defocus min: 1200 nm |
Image recording | Electron dose: 50 e/Å2 / Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) |
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Processing
CTF correction | Type: NONE | ||||||||||||||||||||||||
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Symmetry | Point symmetry: C1 (asymmetric) | ||||||||||||||||||||||||
3D reconstruction | Resolution: 4.4 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 50070 / Symmetry type: POINT | ||||||||||||||||||||||||
Refine LS restraints |
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