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Yorodumi- PDB-1lq9: Crystal Structure of a Monooxygenase from the Gene ActVA-Orf6 of ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1lq9 | ||||||
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Title | Crystal Structure of a Monooxygenase from the Gene ActVA-Orf6 of Streptomyces coelicolor Strain A3(2) | ||||||
Components | ACTVA-ORF6 MONOOXYGENASE | ||||||
Keywords | OXIDOREDUCTASE / MONOOXYGENASE / AROMATIC POLYKETIDES / ACTINORHODIN / DIHYDROKALAFUNGIN / STREPTOMYCES COELICOLOR | ||||||
Function / homology | ABM domain profile. / Antibiotic biosynthesis monooxygenase / Antibiotic biosynthesis monooxygenase domain / Alpha-Beta Plaits - #100 / Dimeric alpha-beta barrel / Alpha-Beta Plaits / 2-Layer Sandwich / Alpha Beta / ActVA 6 protein Function and homology information | ||||||
Biological species | Streptomyces coelicolor (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MIRAS / Resolution: 1.3 Å | ||||||
Authors | Sciara, G. / Kendrew, S.G. / Miele, A.E. / Marsh, N.G. / Federici, L. / Malatesta, F. / Schimperna, G. / Savino, C. / Vallone, B. | ||||||
Citation | Journal: EMBO J. / Year: 2003 Title: The structure of ActVA-Orf6, a novel type of monooxygenase involved in actinorhodin biosynthesis Authors: Sciara, G. / Kendrew, S.G. / Miele, A.E. / Marsh, N.G. / Federici, L. / Malatesta, F. / Schimperna, G. / Savino, C. / Vallone, B. #1: Journal: Acta Crystallogr.,Sect.D / Year: 2000 Title: Crystallization and preliminary X-ray diffraction studies of a monooxygenase from Streptomyces coelicolor A3(2) involved in the biosynthesis of the polyketide actinorhodin Authors: Kendrew, S.G. / Federici, L. / Savino, C. / Miele, A.E. / Marsh, E.N.G. / Vallone, B. #2: Journal: J.Bacteriol. / Year: 1997 Title: Identification of a monooxygenase from Streptomyces coelicolor A3(2) involved in biosynthesis of Actinorhodin: purification and characterization of the recombinant enzyme Authors: Kendrew, S.G. / Hopwood, D.A. / Marsh, E.N.G. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1lq9.cif.gz | 108.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1lq9.ent.gz | 84.6 KB | Display | PDB format |
PDBx/mmJSON format | 1lq9.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1lq9_validation.pdf.gz | 436.8 KB | Display | wwPDB validaton report |
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Full document | 1lq9_full_validation.pdf.gz | 438.3 KB | Display | |
Data in XML | 1lq9_validation.xml.gz | 13.6 KB | Display | |
Data in CIF | 1lq9_validation.cif.gz | 19.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/lq/1lq9 ftp://data.pdbj.org/pub/pdb/validation_reports/lq/1lq9 | HTTPS FTP |
-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Details | The biological unit is a dimer in the asymmetric unit |
-Components
#1: Protein | Mass: 11978.420 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Streptomyces coelicolor (bacteria) / Strain: A3(2) / Gene: ActVA - Orf6 / Plasmid: PT7-7 / Production host: Escherichia coli (E. coli) / References: UniProt: Q53908 #2: Chemical | ChemComp-PG4 / | #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: 2.11 Å3/Da / Density % sol: 41.59 % | ||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 293 K / Method: vapor diffusion / pH: 7 Details: ammonium sulfate, PEG 200, Tris or Hepes buffer, pH 7.0, VAPOR DIFFUSION, temperature 293K | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: ID14-1 / Wavelength: 0.9326 Å |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Oct 4, 2000 |
Radiation | Monochromator: DIAMOND 111 / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9326 Å / Relative weight: 1 |
Reflection | Resolution: 1.3→20 Å / Num. all: 50305 / Num. obs: 50305 / % possible obs: 99.7 % / Observed criterion σ(F): -4 / Redundancy: 15.9 % / Biso Wilson estimate: 10.2 Å2 / Rmerge(I) obs: 0.059 |
Reflection shell | Resolution: 1.3→1.32 Å / Rmerge(I) obs: 0.136 / Mean I/σ(I) obs: 12.2 / % possible all: 100 |
Reflection | *PLUS Num. obs: 50368 / % possible obs: 99.8 % / Num. measured all: 798091 |
Reflection shell | *PLUS % possible obs: 100 % |
-Processing
Software |
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Refinement | Method to determine structure: MIRAS / Resolution: 1.3→20 Å / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 1.3→20 Å
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Refinement | *PLUS % reflection Rfree: 5 % | ||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||
Refine LS restraints | *PLUS
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