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- PDB-1hx3: CRYSTAL STRUCTURE OF E.COLI ISOPENTENYL DIPHOSPHATE:DIMETHYLALLYL... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1hx3 | ||||||
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Title | CRYSTAL STRUCTURE OF E.COLI ISOPENTENYL DIPHOSPHATE:DIMETHYLALLYL DIPHOSPHATE ISOMERASE | ||||||
![]() | ISOPENTENYL DIPHOSPHATE DELTA-ISOMERASE | ||||||
![]() | ISOMERASE / ISOPENTENYL / DIMETHYLALLYL / ISOPRENOIDS | ||||||
Function / homology | ![]() isopentenyl-diphosphate Delta-isomerase / isopentenyl-diphosphate delta-isomerase activity / dimethylallyl diphosphate biosynthetic process / isoprenoid biosynthetic process / DNA damage response / magnesium ion binding / zinc ion binding / cytoplasm Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Durbecq, V. / Sainz, G. / Oudjama, Y. / Clantin, B. / Bompard-Gilles, C. / Tricot, C. / Caillet, J. / Stalon, V. / Droogmans, L. / Villeret, V. | ||||||
![]() | ![]() Title: Crystal structure of isopentenyl diphosphate:dimethylallyl diphosphate isomerase. Authors: Durbecq, V. / Sainz, G. / Oudjama, Y. / Clantin, B. / Bompard-Gilles, C. / Tricot, C. / Caillet, J. / Stalon, V. / Droogmans, L. / Villeret, V. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 86 KB | Display | ![]() |
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PDB format | ![]() | 64.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 449.6 KB | Display | ![]() |
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Full document | ![]() | 453.7 KB | Display | |
Data in XML | ![]() | 16.9 KB | Display | |
Data in CIF | ![]() | 23 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 21570.318 Da / Num. of mol.: 2 / Mutation: C67A Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() References: UniProt: Q46822, isopentenyl-diphosphate Delta-isomerase #2: Chemical | #3: Chemical | #4: Chemical | #5: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.79 Å3/Da / Density % sol: 55.53 % | ||||||||||||||||||||
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 5.5 Details: 10-15% PEG2000 monomethylether, 10mM MnCl2, 100mM Tris-maleate buffer, 100mM ammonium sulfate, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K | ||||||||||||||||||||
Crystal grow | *PLUS pH: 7.5 / Method: microdialysis | ||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 293 K |
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Diffraction source | Source: ![]() |
Detector | Type: MARRESEARCH / Detector: AREA DETECTOR / Date: Jul 13, 2000 / Details: Osmics |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.54 Å / Relative weight: 1 |
Reflection | Resolution: 2.1→30 Å / Num. all: 27702 / Num. obs: 26206 / % possible obs: 94.5 % / Redundancy: 4.6 % / Rsym value: 0.087 |
Reflection shell | Resolution: 2.1→2.21 Å / Redundancy: 4.6 % / Num. unique all: 3696 / Rsym value: 0.27 / % possible all: 92.9 |
Reflection | *PLUS Lowest resolution: 30 Å |
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Processing
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Refinement | Method to determine structure: ![]()
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Refinement step | Cycle: LAST / Resolution: 2.1→30 Å
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Software | *PLUS Name: CNS / Version: 1 / Classification: refinement | ||||||||||||||||||||
Refinement | *PLUS Highest resolution: 2.1 Å / Lowest resolution: 30 Å / σ(F): 0 | ||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||
Refine LS restraints | *PLUS
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