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- PDB-2bag: 3D Structure of Torpedo californica acetylcholinesterase complexe... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2bag | ||||||
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Title | 3D Structure of Torpedo californica acetylcholinesterase complexed with Ganstigmine | ||||||
![]() | Acetylcholinesterase | ||||||
![]() | HYDROLASE / Serine hydrolase / Cholinesterase / Neurotransmitter cleavage / anti-Alzheimer drug | ||||||
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 | ![]() ![]() ![]() | ||||||
![]() | Lamba, D. / Bartolucci, C. / Siotto, M. / Racchi, M. / Villetti, G. / Delcanale, M. | ||||||
![]() | ![]() Title: Structural Determinants of Torpedo californica Acetylcholinesterase Inhibition by the Novel and Orally Active Carbamate Based Anti-Alzheimer Drug Ganstigmine (CHF-2819) Authors: Bartolucci, C. / Siotto, M. / Ghidini, E. / Amari, G. / Bolzoni, P.T. / Racchi, M. / Villetti, G. / Delcanale, M. / Lamba, D. #1: ![]() Title: Back Door opening implied by the crystal structure of a carbamoylated acetylcholinesterase Authors: Bartolucci, C. / Perola, E. / Cellai, L. / Brufani, M. / Lamba, D. #2: ![]() Title: Kinetic and structural studies on the interaction of cholinesterases with the anti-Alzheimer drug rivastigmine Authors: Bar-On, P. / Millard, C.B. / Harel, M. / Dvir, H. / Enz, A. / Sussman, J.L. / Silman, I. #3: Journal: Biochim.Biophys.Acta / Year: 1997 Title: Long chain analogs of physostigmine as potential drugs for Alzheimer's disease: new insights into the mechanism of action in the inhibition of acetylcholinesterase Authors: Perola, E. / Cellai, L. / Lamba, D. / Filocamo, L. / Brufani, 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 | ![]() | 128.7 KB | Display | ![]() |
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PDB format | ![]() | 97.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 786.6 KB | Display | ![]() |
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Full document | ![]() | 794.1 KB | Display | |
Data in XML | ![]() | 24.5 KB | Display | |
Data in CIF | ![]() | 35.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2aceS 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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1 | ![]()
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Unit cell |
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Components
-Protein / Sugars , 2 types, 3 molecules A![](data/chem/img/NAG.gif)
![](data/chem/img/NAG.gif)
#1: Protein | Mass: 61325.090 Da / Num. of mol.: 1 / Source method: isolated from a natural source Source: (natural) ![]() ![]() Organ: Eletric organ / Variant: G2 form / Tissue: Electroplaque / References: UniProt: P04058, acetylcholinesterase |
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#2: Sugar |
-Non-polymers , 4 types, 278 molecules ![](data/chem/img/1PE.gif)
![](data/chem/img/GSG.gif)
![](data/chem/img/MES.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/GSG.gif)
![](data/chem/img/MES.gif)
![](data/chem/img/HOH.gif)
#3: Chemical | ChemComp-1PE / | ||
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#4: Chemical | ChemComp-GSG / | ||
#5: Chemical | #6: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 4 Å3/Da / Density % sol: 69.2 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 6 Details: 40% PEG200, 100mM MES, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: May 31, 1998 / Details: Three-segment Pt-coated toroidal mirror |
Radiation | Monochromator: Double Crystal (Si111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.4→27.93 Å / Num. all: 37817 / Num. obs: 37817 / % possible obs: 96.4 % / Observed criterion σ(F): -3 / Observed criterion σ(I): 0 / Redundancy: 6 % / Biso Wilson estimate: 35.3 Å2 / Rmerge(I) obs: 0.063 / Rsym value: 0.057 / Net I/σ(I): 8.6 |
Reflection shell | Resolution: 2.4→2.44 Å / Redundancy: 5.1 % / Rmerge(I) obs: 0.47 / Mean I/σ(I) obs: 1.9 / Num. unique all: 2303 / Rsym value: 0.422 / % possible all: 97.4 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 2ACE Resolution: 2.4→27.93 Å / Rfactor Rfree error: 0.004 / Data cutoff high absF: 1599796.36 / Data cutoff low absF: 0 / Isotropic thermal model: Overall anisotropic / Cross valid method: THROUGHOUT / σ(F): 0 / σ(I): 0 / Stereochemistry target values: Engh & Huber
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Solvent computation | Solvent model: Flat model / Bsol: 50.11 Å2 / ksol: 0.365 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 45.6 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.4→27.93 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.4→2.55 Å / Rfactor Rfree error: 0.012 / Total num. of bins used: 6
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