+Open data
-Basic information
Entry | Database: PDB / ID: 9dp6 | ||||||
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Title | Mycolicibacterium smegmatis MmpL5-AcpM structure | ||||||
Components |
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Keywords | TRANSPORT PROTEIN / Mycolicibacterium smegmatis / MmpL5 / AcpM | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Mycolicibacterium smegmatis (bacteria) | ||||||
Method | ELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 2.81 Å | ||||||
Authors | Maharjan, R. / Klenotic, P.A. / Zhang, Z. / Yu, E.W. | ||||||
Funding support | United States, 1items
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Citation | Journal: To Be Published Title: Mycolicibacterium smegmatis MmpL5-AcpM structure Authors: Maharjan, R. / Klenotic, P.A. / Zhang, Z. / Yu, E.W. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 9dp6.cif.gz | 168.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb9dp6.ent.gz | 128.8 KB | Display | PDB format |
PDBx/mmJSON format | 9dp6.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 9dp6_validation.pdf.gz | 1.2 MB | Display | wwPDB validaton report |
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Full document | 9dp6_full_validation.pdf.gz | 1.2 MB | Display | |
Data in XML | 9dp6_validation.xml.gz | 39.8 KB | Display | |
Data in CIF | 9dp6_validation.cif.gz | 58.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/dp/9dp6 ftp://data.pdbj.org/pub/pdb/validation_reports/dp/9dp6 | HTTPS FTP |
-Related structure data
Related structure data | 47097MC M: map data used to model this data C: citing same article (ref.) |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
-Assembly
Deposited unit |
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1 |
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-Components
#1: Protein | Mass: 10743.876 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Mycolicibacterium smegmatis (bacteria) / References: UniProt: A0R0B3 |
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#2: Protein | Mass: 105598.219 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mycolicibacterium smegmatis (bacteria) / Gene: MSMEG_1382 / Production host: Mycolicibacterium smegmatis (bacteria) / References: UniProt: A0QS80 |
#3: Chemical | ChemComp-PNS / |
Has ligand of interest | N |
Has protein modification | N |
-Experimental details
-Experiment
Experiment | Method: ELECTRON MICROSCOPY |
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EM experiment | Aggregation state: PARTICLE / 3D reconstruction method: single particle reconstruction |
-Sample preparation
Component | Name: MmpL5-AcpM / Type: COMPLEX / Entity ID: #1-#2 / Source: RECOMBINANT | ||||||||||||||||||||
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Molecular weight | Experimental value: NO | ||||||||||||||||||||
Source (natural) | Organism: Mycolicibacterium smegmatis (bacteria) | ||||||||||||||||||||
Source (recombinant) | Organism: Mycolicibacterium smegmatis (bacteria) | ||||||||||||||||||||
Buffer solution | pH: 7.5 | ||||||||||||||||||||
Buffer component |
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Specimen | Conc.: 2 mg/ml / Embedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES | ||||||||||||||||||||
Vitrification | Cryogen name: ETHANE |
-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: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM |
Electron lens | Mode: BRIGHT FIELD / Nominal defocus max: 1500 nm / Nominal defocus min: 800 nm |
Image recording | Electron dose: 40.12 e/Å2 / Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) |
-Processing
CTF correction | Type: PHASE FLIPPING AND AMPLITUDE CORRECTION | ||||||||||||||||||||||||
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Particle selection | Num. of particles selected: 3334872 | ||||||||||||||||||||||||
3D reconstruction | Resolution: 2.81 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 100486 / Symmetry type: POINT | ||||||||||||||||||||||||
Refine LS restraints |
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