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- PDB-3e2z: Crystal structure of mouse kynurenine aminotransferase III in com... -
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Open data
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Basic information
Entry | Database: PDB / ID: 3e2z | ||||||
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Title | Crystal structure of mouse kynurenine aminotransferase III in complex with kynurenine | ||||||
![]() | (Kynurenine-oxoglutarate transaminase ...) x 2 | ||||||
![]() | TRANSFERASE / LYASE / alpha beta protein / PLP dependent protein / Aminotransferase / Pyridoxal phosphate | ||||||
Function / homology | ![]() cysteine-S-conjugate beta-lyase activity / L-kynurenine catabolic process / kynurenine-glyoxylate transaminase activity / kynurenine-glyoxylate transaminase / cysteine-S-conjugate beta-lyase / kynurenine-oxoglutarate transaminase / kynurenine-oxoglutarate transaminase activity / kynurenine metabolic process / 2-oxoglutarate metabolic process / amino acid metabolic process ...cysteine-S-conjugate beta-lyase activity / L-kynurenine catabolic process / kynurenine-glyoxylate transaminase activity / kynurenine-glyoxylate transaminase / cysteine-S-conjugate beta-lyase / kynurenine-oxoglutarate transaminase / kynurenine-oxoglutarate transaminase activity / kynurenine metabolic process / 2-oxoglutarate metabolic process / amino acid metabolic process / biosynthetic process / pyridoxal phosphate binding / protein homodimerization activity / mitochondrion / cytoplasm Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Han, Q. / Robinson, R. / Cai, T. / Tagle, D.A. / Li, J. | ||||||
![]() | ![]() Title: Correction for Han et al., "Biochemical and Structural Properties of Mouse Kynurenine Aminotransferase III". Authors: Han, Q. / Robinson, H. / Cai, T. / Tagle, D.A. / Li, J. #1: Journal: Mol.Cell.Biol. / Year: 2009 Title: Biochemical and structural properties of mouse kynurenine aminotransferase III. Authors: Han, Q. / Robinson, H. / Cai, T. / Tagle, D.A. / Li, J. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 176.8 KB | Display | ![]() |
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PDB format | ![]() | 138.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 3e2fC ![]() 3e2yC ![]() 2zjgS C: citing same article ( S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
-Kynurenine-oxoglutarate transaminase ... , 2 types, 2 molecules AB
#1: Protein | Mass: 46453.098 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() References: UniProt: Q71RI9, kynurenine-oxoglutarate transaminase, cysteine-S-conjugate beta-lyase |
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#2: Protein | Mass: 46224.977 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
-Non-polymers , 4 types, 90 molecules ![](data/chem/img/KYN.gif)
![](data/chem/img/GOL.gif)
![](data/chem/img/PMP.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/GOL.gif)
![](data/chem/img/PMP.gif)
![](data/chem/img/HOH.gif)
#3: Chemical | #4: Chemical | ChemComp-GOL / #5: Chemical | ChemComp-PMP / | #6: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.38 Å3/Da / Density % sol: 48.34 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: 21% PEG 400, 150 mM CaCl2, 10% Glycerol, 100 mM HEPES, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Jun 27, 2008 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.0809 Å / Relative weight: 1 |
Reflection | Resolution: 2.8→30 Å / Num. all: 25229 / Num. obs: 24119 / % possible obs: 95.6 % / Redundancy: 11.9 % / Rmerge(I) obs: 0.12 |
Reflection shell | Resolution: 2.8→2.9 Å / Redundancy: 3.7 % / Rmerge(I) obs: 0.39 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB entry 2ZJG Resolution: 2.81→29.64 Å / Cor.coef. Fo:Fc: 0.925 / Cor.coef. Fo:Fc free: 0.894 / Cross valid method: THROUGHOUT / ESU R Free: 0.371 / Stereochemistry target values: MAXIMUM LIKELIHOOD
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 22.643 Å2
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Refinement step | Cycle: LAST / Resolution: 2.81→29.64 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.81→2.88 Å / Total num. of bins used: 20
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