[English] 日本語
Yorodumi- PDB-1hl7: Gamma lactamase from an Aureobacterium species in complex with 3a... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1hl7 | ||||||
---|---|---|---|---|---|---|---|
Title | Gamma lactamase from an Aureobacterium species in complex with 3a,4,7,7a-tetrahydro-benzo [1,3] dioxol-2-one | ||||||
Components | GAMMA LACTAMASE | ||||||
Keywords | HYDROLASE / ALPHA/BETA HYDROLASE / CO-FACTOR FREE HALOPEROXIDASE / TETRAHEDRAL INTERMEDIATE | ||||||
Function / homology | Function and homology information | ||||||
Biological species | MICROBACTERIUM SP. (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.73 Å | ||||||
Authors | Line, K. / Isupov, M.N. / Littlechild, J.A. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2004 Title: The Crystal Structure of a (-)Gamma-Lactamase from an Aureobacterium Species Reveals a Tetrahedral Intermediate in the Active Site Authors: Line, K. / Isupov, M.N. / Littlechild, J.A. | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 1hl7.cif.gz | 134.7 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb1hl7.ent.gz | 106.9 KB | Display | PDB format |
PDBx/mmJSON format | 1hl7.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/hl/1hl7 ftp://data.pdbj.org/pub/pdb/validation_reports/hl/1hl7 | HTTPS FTP |
---|
-Related structure data
Related structure data | 1hkhC 1broS C: citing same article (ref.) S: Starting model for refinement |
---|---|
Similar structure data |
-Links
-Assembly
Deposited unit |
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
2 |
| ||||||||
Unit cell |
| ||||||||
Noncrystallographic symmetry (NCS) | NCS oper: (Code: given Matrix: (0.32744, 0.77849, -0.53548), Vector: |
-Components
#1: Protein | Mass: 30878.264 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) MICROBACTERIUM SP. (bacteria) / Description: CHIROTECH CULTURE COLLECTION / Plasmid: PTRC99 / Production host: ESCHERICHIA COLI DH5[ALPHA] (bacteria) / References: UniProt: Q8GJP7 #2: Chemical | #3: Water | ChemComp-HOH / | Sequence details | NAMED CO-FACTOR FREE HALOPEROXI | |
---|
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
---|
-Sample preparation
Crystal | Density Matthews: 4.72 Å3/Da / Density % sol: 73.73 % |
---|---|
Crystal grow | pH: 8 / Details: pH 8.00 |
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: SYNCHROTRON / Site: EMBL/DESY, HAMBURG / Beamline: X11 / Wavelength: 0.8482 |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Jun 15, 2001 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.8482 Å / Relative weight: 1 |
Reflection | Resolution: 1.73→11 Å / Num. obs: 118797 / % possible obs: 100 % / Redundancy: 7.5 % / Biso Wilson estimate: 15.9 Å2 / Rmerge(I) obs: 0.079 / Net I/σ(I): 28.18 |
Reflection shell | Resolution: 1.73→1.76 Å / Redundancy: 7.2 % / Rmerge(I) obs: 0.345 / Mean I/σ(I) obs: 4.5 / % possible all: 100 |
-Processing
Software |
| ||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1BRO Resolution: 1.73→11 Å / SU B: 0.981 / SU ML: 0.033 / Cross valid method: THROUGHOUT / ESU R: 0.061 / ESU R Free: 0.06
| ||||||||||||||||||||
Displacement parameters | Biso mean: 15.6 Å2 | ||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.73→11 Å
|