[English] 日本語
Yorodumi- PDB-2br7: Crystal Structure of Acetylcholine-binding Protein (AChBP) from A... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2br7 | ||||||
---|---|---|---|---|---|---|---|
Title | Crystal Structure of Acetylcholine-binding Protein (AChBP) from Aplysia californica in complex with HEPES | ||||||
Components | SOLUBLE ACETYLCHOLINE RECEPTOR | ||||||
Keywords | RECEPTOR PROTEIN / GLYCOPROTEIN / IGG-FOLD / IMMUNOGLOBULIN DOMAIN / PENTAMER / NICOTINIC RECEPTOR | ||||||
Function / homology | Function and homology information extracellular ligand-gated monoatomic ion channel activity / transmembrane signaling receptor activity / membrane / identical protein binding / metal ion binding Similarity search - Function | ||||||
Biological species | APLYSIA CALIFORNICA (California sea hare) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 3 Å | ||||||
Authors | Celie, P.H.N. / Kasheverov, I.E. / Mordvintsev, D.Y. / Hogg, R.C. / Van Nierop, P. / Van Elk, R. / Van Rossum-Fikkert, S.E. / Zhmak, M.N. / Bertrand, D. / Tsetlin, V. ...Celie, P.H.N. / Kasheverov, I.E. / Mordvintsev, D.Y. / Hogg, R.C. / Van Nierop, P. / Van Elk, R. / Van Rossum-Fikkert, S.E. / Zhmak, M.N. / Bertrand, D. / Tsetlin, V. / Sixma, T.K. / Smit, A.B. | ||||||
Citation | Journal: Nat.Struct.Mol.Biol. / Year: 2005 Title: Crystal Structure of Nicotinic Acetylcholine Receptor Homolog Achbp in Complex with an Alpha- Conotoxin Pnia Variant Authors: Celie, P.H.N. / Kasheverov, I.E. / Mordvintsev, D.Y. / Hogg, R.C. / Van Nierop, P. / Van Elk, R. / Van Rossum-Fikkert, S.E. / Zhmak, M.N. / Bertrand, D. / Tsetlin, V. / Sixma, T.K. / Smit, A.B. | ||||||
History |
| ||||||
Remark 700 | SHEET THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN ORDER TO REPRESENT THIS FEATURE IN ... SHEET THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, TWO SHEETS ARE DEFINED. |
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 2br7.cif.gz | 210.5 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb2br7.ent.gz | 170.9 KB | Display | PDB format |
PDBx/mmJSON format | 2br7.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/br/2br7 ftp://data.pdbj.org/pub/pdb/validation_reports/br/2br7 | HTTPS FTP |
---|
-Related structure data
Related structure data | 2br8C 1ux2S C: citing same article (ref.) S: Starting model for refinement |
---|---|
Similar structure data |
-Links
-Assembly
Deposited unit |
| ||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||||||||||||||
Unit cell |
| ||||||||||||||||||||
Noncrystallographic symmetry (NCS) | NCS oper:
|
-Components
#1: Protein | Mass: 24688.578 Da / Num. of mol.: 5 Source method: isolated from a genetically manipulated source Details: HEPES BUFFER MOLECULE IDENTIFIED IN 4 OUT OF FIVE BINDING SITES Source: (gene. exp.) APLYSIA CALIFORNICA (California sea hare) Cell: GLIAL CELL / Plasmid: PFASTBACI / Cell line (production host): SF9 / Production host: SPODOPTERA FRUGIPERDA (fall armyworm) / References: UniProt: Q8WSF8 #2: Chemical | ChemComp-EPE / #3: Water | ChemComp-HOH / | Sequence details | PROTEIN CONTAINS SIGNAL SEQUENCE MLVSVYLALLVACVGQAHS THAT IS CLEAVED UPON SECRETION AND IS NOT ...PROTEIN CONTAINS SIGNAL SEQUENCE MLVSVYLALL | |
---|
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
---|
-Sample preparation
Crystal | Density Matthews: 3 Å3/Da / Density % sol: 58.1 % |
---|---|
Crystal grow | pH: 7 / Details: 100 MM HEPES 1.15 M SODIUM MALONATE, pH 7.00 |
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: ID14-2 / Wavelength: 0.933 |
Detector | Type: ADSC CCD / Detector: CCD / Date: Sep 30, 2004 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.933 Å / Relative weight: 1 |
Reflection | Resolution: 3→50 Å / Num. obs: 28431 / % possible obs: 100 % / Observed criterion σ(I): 1.5 / Redundancy: 8.1 % / Rmerge(I) obs: 0.16 / Net I/σ(I): 4.5 |
Reflection shell | Resolution: 3→3.16 Å / Redundancy: 8.2 % / Rmerge(I) obs: 0.49 / Mean I/σ(I) obs: 1.5 / % possible all: 100 |
-Processing
Software |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1UX2 Resolution: 3→19.84 Å / Cor.coef. Fo:Fc: 0.937 / Cor.coef. Fo:Fc free: 0.86 / SU B: 37.622 / SU ML: 0.321 / TLS residual ADP flag: LIKELY RESIDUAL / Cross valid method: THROUGHOUT / ESU R Free: 0.422 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS.
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: BABINET MODEL WITH MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 34.87 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3→19.84 Å
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints |
|