[English] 日本語
![](img/lk-miru.gif)
- PDB-2xz5: MMTS-modified Y53C mutant of Aplysia AChBP in complex with acetyl... -
+
Open data
-
Basic information
Entry | Database: PDB / ID: 2xz5 | ||||||
---|---|---|---|---|---|---|---|
Title | MMTS-modified Y53C mutant of Aplysia AChBP in complex with acetylcholine | ||||||
![]() | SOLUBLE ACETYLCHOLINE RECEPTOR | ||||||
![]() | RECEPTOR / AMIDATION / CONFORMATIONAL FLEXIBILITY / CONOTOXIN / NEUROTOXINNICOTINIC / POSTSYNAPTIC NEUROTOXIN / RECEPTOR/TOXIN | ||||||
Function / homology | ![]() acetylcholine receptor activity / acetylcholine-gated monoatomic cation-selective channel activity / response to nicotine / neuron projection / synapse / identical protein binding / membrane / metal ion binding Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Brams, M. / Gay, E.A. / Colon Saez, J. / Guskov, A. / van Elk, R. / van der Schors, R.C. / Peigneur, S. / Tytgat, J. / Strelkov, S.V. / Smit, A.B. ...Brams, M. / Gay, E.A. / Colon Saez, J. / Guskov, A. / van Elk, R. / van der Schors, R.C. / Peigneur, S. / Tytgat, J. / Strelkov, S.V. / Smit, A.B. / Yakel, J.L. / Ulens, C. | ||||||
![]() | ![]() Title: Crystal Structures of a Cysteine-Modified Mutant in Loop D of Acetylcholine Binding Protein Authors: Brams, M. / Gay, E.A. / Colon Saez, J. / Guskov, A. / Van Elk, R. / Van Der Schors, R.C. / Peigneur, S. / Tytgat, J. / Strelkov, S.V. / Smit, A.B. / Yakel, J.L. / Ulens, C. | ||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 435.3 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 360.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 533.1 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 564 KB | Display | |
Data in XML | ![]() | 46 KB | Display | |
Data in CIF | ![]() | 59.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2xz6C ![]() 2uz6S C: citing same article ( S: Starting model for refinement |
---|---|
Similar structure data |
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
| ||||||||
Noncrystallographic symmetry (NCS) | NCS oper: (Code: given Matrix: (-1, -0.029, -0.004), Vector: |
-
Components
-Protein / Sugars , 2 types, 7 molecules ABCDE![](data/chem/img/NAG.gif)
![](data/chem/img/NAG.gif)
#1: Protein | Mass: 24674.639 Da / Num. of mol.: 5 / Fragment: RESIDUES 20-236 / Mutation: YES Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Production host: ![]() ![]() #6: Sugar | |
---|
-Non-polymers , 5 types, 273 molecules ![](data/chem/img/ACH.gif)
![](data/chem/img/CL.gif)
![](data/chem/img/PO4.gif)
![](data/chem/img/MPD.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/CL.gif)
![](data/chem/img/PO4.gif)
![](data/chem/img/MPD.gif)
![](data/chem/img/HOH.gif)
#2: Chemical | ChemComp-ACH / #3: Chemical | ChemComp-CL / #4: Chemical | ChemComp-PO4 / #5: Chemical | ChemComp-MPD / ( #7: Water | ChemComp-HOH / | |
---|
-Details
Compound details | ENGINEERED RESIDUE IN CHAIN A, TYR 72 TO CYS ENGINEERED RESIDUE IN CHAIN B, TYR 72 TO CYS ...ENGINEERED |
---|---|
Nonpolymer details | THE MODIFIED RESIDUE S-METHYL-THIO-CYSTEINE (SCH) HAS BEEN GENERATED AT A SPECIFIC MUTATION SITE ...THE MODIFIED RESIDUE S-METHYL-THIO-CYSTEINE (SCH) HAS BEEN GENERATED AT A SPECIFIC MUTATION SITE TYR53 WHICH HAS BEEN MUTATED TO CYS. |
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 2.63 Å3/Da / Density % sol: 53.18 % / Description: NONE |
---|---|
Crystal grow | Details: 200 MM NH4(H2PO4), 100 MM TRIS PH 8.5 AND 50% MPD. |
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARMOSAIC 225 mm CCD / Detector: CCD |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.8726 Å / Relative weight: 1 |
Reflection | Resolution: 2.8→47.6 Å / Num. obs: 31966 / % possible obs: 92 % / Observed criterion σ(I): 1.9 / Redundancy: 5.9 % / Biso Wilson estimate: 50.49 Å2 / Rmerge(I) obs: 0.13 / Net I/σ(I): 11.8 |
Reflection shell | Resolution: 2.8→2.87 Å / Redundancy: 3.3 % / Rmerge(I) obs: 0.59 / Mean I/σ(I) obs: 1.9 / % possible all: 77.5 |
-
Processing
Software |
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 2UZ6 Resolution: 2.8→47.59 Å / Cor.coef. Fo:Fc: 0.9189 / Cor.coef. Fo:Fc free: 0.8814 / Cross valid method: THROUGHOUT / σ(F): 0 Details: NCS REPRESENTATION : RESTRAINT LSSR (-AUTONCS). IDEAL-DIST CONTACT TERM CONTACT SETUP. RESIDUE TYPES WITHOUT CCP4 ATOM TYPE IN LIBRARY=SCH NAG ACH CL. NUMBER OF ATOMS WITH PROPER CCP4 ATOM ...Details: NCS REPRESENTATION : RESTRAINT LSSR (-AUTONCS). IDEAL-DIST CONTACT TERM CONTACT SETUP. RESIDUE TYPES WITHOUT CCP4 ATOM TYPE IN LIBRARY=SCH NAG ACH CL. NUMBER OF ATOMS WITH PROPER CCP4 ATOM TYPE=8552. NUMBER WITH APPROX DEFAULT DEFAULT CCP4 ATOM TYPE=168. NUMBER TREATED BY BAD NON-BONDED CONTACTS=5.
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 47.85 Å2
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine analyze | Luzzati coordinate error obs: 0.32 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.8→47.59 Å
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints |
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
LS refinement shell | Resolution: 2.8→2.89 Å / Total num. of bins used: 16
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement TLS group |
|