+Open data
-Basic information
Entry | Database: PDB / ID: 1r56 | ||||||
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Title | UNCOMPLEXED URATE OXIDASE FROM ASPERGILLUS FLAVUS | ||||||
Components | Uricase | ||||||
Keywords | OXIDOREDUCTASE / URIC ACID DEGRADATION / DIMERIC BARREL / TUNNEL-SHAPED PROTEIN | ||||||
Function / homology | Function and homology information purine nucleobase catabolic process / factor-independent urate hydroxylase / urate oxidase activity / urate catabolic process / peroxisome Similarity search - Function | ||||||
Biological species | Aspergillus flavus (mold) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.3 Å | ||||||
Authors | Retailleau, P. / Colloc'h, N. / Prange, T. | ||||||
Citation | Journal: Acta Crystallogr.,Sect.D / Year: 2004 Title: Complexed and ligand-free high-resolution structures of urate oxidase (Uox) from Aspergillus flavus: a reassignment of the active-site binding mode. Authors: Retailleau, P. / Colloc'h, N. / Vivares, D. / Bonnete, F. / Castro, B. / El-Hajji, M. / Mornon, J.P. / Monard, G. / Prange, T. #1: Journal: Nat.Struct.Biol. / Year: 1997 Title: Crystal Structure of the Protein Drug Urate Oxidase-Inhibitor Complex at 2.05 A Resolution Authors: Colloc'h, N. / El Hajji, M. / Bachet, B. / L'Hermite, G. / Schiltz, M. / Prange, T. / Castro, B. / Mornon, J.P. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1r56.cif.gz | 468.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1r56.ent.gz | 389.2 KB | Display | PDB format |
PDBx/mmJSON format | 1r56.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1r56_validation.pdf.gz | 505.5 KB | Display | wwPDB validaton report |
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Full document | 1r56_full_validation.pdf.gz | 534.5 KB | Display | |
Data in XML | 1r56_validation.xml.gz | 82.7 KB | Display | |
Data in CIF | 1r56_validation.cif.gz | 113 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/r5/1r56 ftp://data.pdbj.org/pub/pdb/validation_reports/r5/1r56 | HTTPS FTP |
-Related structure data
Related structure data | 1r4sC 1r4uC 1r51C 1uox C: citing same article (ref.) S: Starting model for refinement |
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Similar structure data |
-Links
-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: 34199.586 Da / Num. of mol.: 8 / Source method: isolated from a natural source / Source: (natural) Aspergillus flavus (mold) References: UniProt: Q00511, factor-independent urate hydroxylase #2: Chemical | #3: 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: 2.89 Å3/Da / Density % sol: 57.11 % |
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Crystal grow | Temperature: 291 K / pH: 8 Details: 8.5MG/ML PROTEIN, 5-7% W/V PEG 8000, 100MM TRIS/HCL, temperature 291K, pH 8.00 |
-Data collection
Diffraction | Mean temperature: 283 K |
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Diffraction source | Source: SYNCHROTRON / Site: LURE / Beamline: DW32 / Wavelength: 0.97 |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97 Å / Relative weight: 1 |
Reflection | Resolution: 2.3→32 Å / Num. obs: 136450 / % possible obs: 99.2 % / Redundancy: 5.2 % / Rsym value: 0.076 / Net I/σ(I): 12.3 |
Reflection shell | Highest resolution: 2.3 Å / Rmerge(I) obs: 0.426 / Mean I/σ(I) obs: 3.6 / % possible all: 98.3 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1UOX 1uox Resolution: 2.3→10 Å / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 2.3→10 Å
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Refine LS restraints |
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