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Yorodumi- PDB-1bzl: CRYSTAL STRUCTURE OF TRYPANOSOMA CRUZI TRYPANOTHIONE REDUCTASE IN... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1bzl | ||||||
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Title | CRYSTAL STRUCTURE OF TRYPANOSOMA CRUZI TRYPANOTHIONE REDUCTASE IN COMPLEX WITH TRYPANOTHIONE, AND THE STRUCTURE-BASED DISCOVERY OF NEW NATURAL PRODUCT INHIBITORS | ||||||
Components | TRYPANOTHIONE REDUCTASE (OXIDIZED FORM) | ||||||
Keywords | OXIDOREDUCTASE / TRYPANOTHIONE REDUCTASE / FAD DEPENDENT DISULPHIDE OXIDOREDUCTASE | ||||||
Function / homology | Function and homology information trypanothione-disulfide reductase / trypanothione-disulfide reductase (NADPH) activity / cell redox homeostasis / flavin adenine dinucleotide binding / cytoplasm Similarity search - Function | ||||||
Biological species | Trypanosoma cruzi (eukaryote) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / Resolution: 2.4 Å | ||||||
Authors | Bond, C.S. / Zhang, Y. / Berriman, M. / Cunningham, M. / Fairlamb, A.H. / Hunter, W.N. | ||||||
Citation | Journal: Structure Fold.Des. / Year: 1999 Title: Crystal structure of Trypanosoma cruzi trypanothione reductase in complex with trypanothione, and the structure-based discovery of new natural product inhibitors. Authors: Bond, C.S. / Zhang, Y. / Berriman, M. / Cunningham, M.L. / Fairlamb, A.H. / Hunter, W.N. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1bzl.cif.gz | 211.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1bzl.ent.gz | 166.9 KB | Display | PDB format |
PDBx/mmJSON format | 1bzl.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/bz/1bzl ftp://data.pdbj.org/pub/pdb/validation_reports/bz/1bzl | HTTPS FTP |
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-Related structure data
Related structure data | 1tytS 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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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS oper: (Code: given Matrix: (-0.979957, 0.199187, -0.002999), Vector: |
-Components
#1: Protein | Mass: 53306.969 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Trypanosoma cruzi (eukaryote) / Strain: BRAZILIAN SILVIO STRAIN CLONE X10-1 / Production host: Escherichia coli (E. coli) References: UniProt: Q26970, UniProt: P28593*PLUS, EC: 1.6.4.8 #2: Chemical | #3: Chemical | #4: 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: 3.17 Å3/Da / Density % sol: 61 % | ||||||||||||||||
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Crystal grow | pH: 6 / Details: pH 6.0 | ||||||||||||||||
Components of the solutions |
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Crystal grow | *PLUS Method: other / Details: Zhang, Y., (1993) J. Mol. Biol., 233, 1217. | ||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 273 K |
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Diffraction source | Source: SYNCHROTRON / Site: SRS / Beamline: PX9.6 / Wavelength: 0.92 |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Mar 15, 1991 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.92 Å / Relative weight: 1 |
Reflection | Resolution: 2.4→20 Å / Num. obs: 45818 / % possible obs: 87.4 % / Observed criterion σ(I): 0 / Redundancy: 3 % / Rmerge(I) obs: 0.75 / Rsym value: 0.75 / Net I/σ(I): 6 |
Reflection shell | Resolution: 2.4→2.53 Å / Mean I/σ(I) obs: 2.5 / Rsym value: 0.275 / % possible all: 86 |
Reflection | *PLUS Num. measured all: 142903 |
-Processing
Software |
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Refinement | Starting model: PDB ENTRY 1TYT Resolution: 2.4→8 Å / Isotropic thermal model: RESTRAINED / σ(F): 0
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Displacement parameters | Biso mean: 32.4 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine analyze | Luzzati coordinate error obs: 0.3 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.4→8 Å
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Refine LS restraints |
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Refine LS restraints NCS | NCS model details: RESTRAINTS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Xplor file |
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Software | *PLUS Name: X-PLOR / Version: 3.1 / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Highest resolution: 2.4 Å / Lowest resolution: 8 Å / σ(F): 0 / Rfactor obs: 0.209 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS Biso mean: 32.4 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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