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- PDB-2vt7: Native Torpedo californica acetylcholinesterase collected with a ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2vt7 | ||||||
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Title | Native Torpedo californica acetylcholinesterase collected with a cumulated dose of 800000 Gy | ||||||
![]() | ACETYLCHOLINESTERASE | ||||||
![]() | HYDROLASE / SERINE ESTERASE / ALTERNATIVE SPLICING / NATIVE TORPEDO CALIFORNICA ACETYLCHOLINESTERASE / NEUROTRANSMITTER DEGRADATION / LIPOPROTEIN / GLYCOPROTEIN / CELL JUNCTION / SYNAPSE / MEMBRANE / GPI-ANCHOR | ||||||
Function / homology | ![]() acetylcholine catabolic process in synaptic cleft / acetylcholinesterase / acetylcholinesterase activity / choline metabolic process / side of membrane / synaptic cleft / synapse / extracellular space / plasma membrane Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Colletier, J.P. / Bourgeois, D. / Sanson, B. / Fournier, D. / Sussman, J.L. / Silman, I. / Weik, M. | ||||||
![]() | ![]() Title: Shoot-and-Trap: Use of Specific X-Ray Damage to Study Structural Protein Dynamics by Temperature-Controlled Cryo-Crystallography. Authors: Colletier, J.P. / Bourgeois, D. / Sanson, B. / Fournier, D. / Sussman, J.L. / Silman, I. / Weik, M. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 243.9 KB | Display | ![]() |
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PDB format | ![]() | 196.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 480.8 KB | Display | ![]() |
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Full document | ![]() | 508.6 KB | Display | |
Data in XML | ![]() | 52.7 KB | Display | |
Data in CIF | ![]() | 76.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2vjaC ![]() 2vjbC ![]() 2vjcC ![]() 2vjdC ![]() 2vt6C ![]() 1w75S C: citing same article ( S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 60736.516 Da / Num. of mol.: 2 / Fragment: RESIDUES 22-558 / Source method: isolated from a natural source Source: (natural) ![]() ![]() Organ: ELECTRIC ORGAN / Variant: G2 FORM / Tissue: ELECTROPLAQUE / References: UniProt: P04058, acetylcholinesterase #2: Sugar | ChemComp-NAG / #3: Chemical | #4: Chemical | ChemComp-PGE / #5: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.8 Å3/Da / Density % sol: 68 % / Description: NONE |
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Crystal grow | Temperature: 277 K / pH: 5.8 / Details: 32% PEG200, 150MM MES, PH6, 4DEG. C., pH 5.8 |
-Data collection
Diffraction | Mean temperature: 150 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC CCD / Detector: CCD / Date: May 5, 2008 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.977 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→20 Å / Num. obs: 73562 / % possible obs: 98.1 % / Observed criterion σ(I): 3 / Redundancy: 7.1 % / Biso Wilson estimate: 23.2 Å2 / Rmerge(I) obs: 0.07 / Net I/σ(I): 15.7 |
Reflection shell | Resolution: 2.2→2.3 Å / Redundancy: 6.9 % / Rmerge(I) obs: 0.46 / Mean I/σ(I) obs: 4.04 / % possible all: 97.6 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1W75 Resolution: 2.2→19.96 Å / Rfactor Rfree error: 0.004 / Data cutoff high absF: 3424641.26 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: BULK SOLVENT MODEL USED
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 59.2703 Å2 / ksol: 0.35 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 41.3 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.2→19.96 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.2→2.34 Å / Rfactor Rfree error: 0.014 / Total num. of bins used: 6
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Xplor file |
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