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- PDB-1bul: 6ALPHA-(HYDROXYPROPYL)PENICILLANATE ACYLATED ON NMC-A BETA-LACTAM... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1bul | ||||||
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Title | 6ALPHA-(HYDROXYPROPYL)PENICILLANATE ACYLATED ON NMC-A BETA-LACTAMASE FROM ENTEROBACTER CLOACAE | ||||||
![]() | NMC-A BETA-LACTAMASE | ||||||
![]() | HYDROLASE / ANTIBIOTIC RESISTANCE / CLASS A CARBAPENEMASE | ||||||
Function / homology | ![]() beta-lactam antibiotic catabolic process / beta-lactamase activity / beta-lactamase / response to antibiotic Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Mourey, L. / Swaren, P. / Miyashita, K. / Bulychev, A. / Mobashery, S. / Samama, J.P. | ||||||
![]() | Journal: J.Am.Chem.Soc. / Year: 1998 Title: Inhibition of the Nmc-A B-Lactamase by a Penicillanic Acid Derivative, and the Structural Bases for the Increase in Substrate Profile of This Antibiotic Resistance Enzyme Authors: Mourey, L. / Swaren, P. / Miyashita, K. / Bulychev, A. / Mobashery, S. / Samama, J.P. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 70.2 KB | Display | ![]() |
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PDB format | ![]() | 50.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 821 KB | Display | ![]() |
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Full document | ![]() | 827.5 KB | Display | |
Data in XML | ![]() | 14.6 KB | Display | |
Data in CIF | ![]() | 21 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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: 29137.596 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Details: ACYL-ENZYME COMPLEX / Source: (natural) ![]() | ||||
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#2: Chemical | ChemComp-AP3 / | ||||
#3: Chemical | #4: Water | ChemComp-HOH / | Compound details | THE STRUCTURE DEPOSITED IS AN ACYL-ENZYME COMPLEX BETWEEN 6 ALPHA-(HYDROXYPROPYL)PENICILLANIC ACID ...THE STRUCTURE DEPOSITED IS AN ACYL-ENZYME COMPLEX BETWEEN 6 ALPHA-(HYDROXYPRO | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.35 Å3/Da / Density % sol: 47.2 % |
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Crystal grow | pH: 7.5 Details: 20% (W/V)PEG 1500, 0.200 M MES PH 5.25, 6% (V/V) N-PROPANOL, pH 7.5 |
Crystal grow | *PLUS Method: unknown |
-Data collection
Diffraction | Mean temperature: 120 K |
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Diffraction source | Source: ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Oct 15, 1997 |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97 Å / Relative weight: 1 |
Reflection | Resolution: 1.89→18.6 Å / Num. obs: 22025 / % possible obs: 98.6 % / Redundancy: 3.7 % / Biso Wilson estimate: 8 Å2 / Rmerge(I) obs: 0.046 / Net I/σ(I): 9 |
Reflection shell | Resolution: 1.89→1.96 Å / Redundancy: 3.3 % / Rmerge(I) obs: 0.098 / Mean I/σ(I) obs: 5.9 / % possible all: 95 |
Reflection | *PLUS Num. measured all: 81088 |
Reflection shell | *PLUS % possible obs: 95 % / Num. unique obs: 2019 / Num. measured obs: 6594 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: THE NMC-A BETA-LACTAMASE STRUCTURE Resolution: 1.89→18.6 Å / Rfactor Rfree error: 0.0064 / Data cutoff high absF: 100000 / Data cutoff low absF: 0.1 / Cross valid method: THROUGHOUT / σ(F): 0 Details: BULK SOLVENT CORRECTION USED WITH A DENSITY OF 0.33 E-/A**3, SOLVENT RADIUS OF 0.25 ANGSTROMS AND B VALUES OF 50 A**2.
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Displacement parameters | Biso mean: 13.1 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine analyze | Luzzati d res low obs: 18.6 Å / Luzzati sigma a obs: 0.21 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.89→18.6 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.89→1.98 Å / Rfactor Rfree error: 0.027 / Total num. of bins used: 8
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Xplor file |
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Software | *PLUS Name: ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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