+Open data
-Basic information
Entry | Database: PDB / ID: 1i89 | ||||||
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Title | Chalcone synthase (G256L) | ||||||
Components | CHALCONE SYNTHASE 2 | ||||||
Keywords | TRANSFERASE / chalcone synthase / polyketide synthase | ||||||
Function / homology | Function and homology information chalcone biosynthetic process / chalcone synthase activity / chalcone synthase / naringenin-chalcone synthase activity / flavonoid biosynthetic process Similarity search - Function | ||||||
Biological species | Medicago sativa (alfalfa) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / FOURIER SYNTHESIS / Resolution: 1.86 Å | ||||||
Authors | Jez, J.M. / Bowman, M.E. / Noel, J.P. | ||||||
Citation | Journal: Biochemistry / Year: 2001 Title: Structure-guided programming of polyketide chain-length determination in chalcone synthase. Authors: Jez, J.M. / Bowman, M.E. / Noel, J.P. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1i89.cif.gz | 166.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1i89.ent.gz | 132.3 KB | Display | PDB format |
PDBx/mmJSON format | 1i89.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/i8/1i89 ftp://data.pdbj.org/pub/pdb/validation_reports/i8/1i89 | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 42843.383 Da / Num. of mol.: 2 / Mutation: G256L Source method: isolated from a genetically manipulated source Source: (gene. exp.) Medicago sativa (alfalfa) / Species (production host): Escherichia coli / Production host: Escherichia coli BL21 (bacteria) / Strain (production host): BL21 / References: UniProt: P30074, chalcone synthase #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.12 Å3/Da / Density % sol: 42.11 % | ||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 6.5 Details: 2.2-2.4 M ammonium sulfate, 0.1 M PIPES, 5 mM DTT, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 4 ℃ | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 105 K |
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Diffraction source | Source: SYNCHROTRON / Site: SSRL / Beamline: BL7-1 / Wavelength: 1.08 Å |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Jul 9, 1999 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.08 Å / Relative weight: 1 |
Reflection | Resolution: 1.86→31.2 Å / Num. all: 62023 / Num. obs: 57245 / % possible obs: 97.3 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 6.3 % / Biso Wilson estimate: 19.174 Å2 / Rmerge(I) obs: 0.042 / Net I/σ(I): 21.9 |
Reflection shell | Resolution: 1.86→1.9 Å / Redundancy: 4.3 % / Rmerge(I) obs: 0.145 / Mean I/σ(I) obs: 5.7 / % possible all: 85 |
Reflection | *PLUS Num. measured all: 390574 |
Reflection shell | *PLUS % possible obs: 85 % |
-Processing
Software |
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Refinement | Method to determine structure: FOURIER SYNTHESIS Starting model: wild-type CHS Resolution: 1.86→31.2 Å / σ(F): 0
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Displacement parameters | Biso mean: 23.6 Å2 | ||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.86→31.2 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.861→1.956 Å
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Software | *PLUS Name: REFMAC / Classification: refinement | ||||||||||||||||||||
Refinement | *PLUS σ(F): 0 / % reflection Rfree: 5 % / Rfactor obs: 0.206 | ||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||
Refine LS restraints | *PLUS
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