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- PDB-2v6s: Medium resolution crystal structure of pterin-4a-carbinolamine de... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2v6s | ||||||
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Title | Medium resolution crystal structure of pterin-4a-carbinolamine dehydratase from Toxoplasma gondii | ||||||
![]() | PTERIN-4A-CARBINOLAMINE DEHYDRATASE | ||||||
![]() | LYASE / PTERIN / ENZYME / TOXOPLASMA / DEHYDRATASE | ||||||
Function / homology | ![]() 4a-hydroxytetrahydrobiopterin dehydratase / 4-alpha-hydroxytetrahydrobiopterin dehydratase activity / tetrahydrobiopterin biosynthetic process / plastid Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Cameron, S. / Fyffe, S.A. / Hunter, W.N. | ||||||
![]() | ![]() Title: Crystal Structures of Toxoplasma Gondii Pterin-4A-Carbinolamine Dehydratase and Comparisons with Mammalian and Parasite Orthologues. Authors: Cameron, S. / Fyffe, S.A. / Goldie, S. / Hunter, W.N. | ||||||
History |
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Remark 650 | HELIX DETERMINATION METHOD: AUTHOR PROVIDED. | ||||||
Remark 700 | SHEET DETERMINATION METHOD: AUTHOR PROVIDED. |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 56.9 KB | Display | ![]() |
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PDB format | ![]() | 41.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 2v6tC ![]() 2v6uC ![]() 1dcpS 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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1 | ![]()
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS oper: (Code: given Matrix: (-0.01616, 0.9529, -0.3028), Vector: |
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Components
#1: Protein | Mass: 12148.687 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() References: UniProt: Q2Q449, 4a-hydroxytetrahydrobiopterin dehydratase #2: Water | ChemComp-HOH / | Sequence details | GH AT N-TERMINUS IS LEFT WHEN HEXA-HIS TAG IS REMOVED. | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.44 Å3/Da / Density % sol: 64 % / Description: NONE |
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Crystal grow | pH: 7.6 Details: 1.4M AMMONIUM SULFATE, 1M LITHIUM SULFATE, 2 MM 7,8-DIHYDROBIOPTERIN, pH 7.6 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() |
Detector | Type: RIGAKU IMAGE PLATE / Detector: IMAGE PLATE / Date: Aug 18, 2006 / Details: OSMIC CONFOCAL OPTICS |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.22→19.69 Å / Num. obs: 17850 / % possible obs: 98.6 % / Observed criterion σ(I): 0 / Redundancy: 6.4 % / Rmerge(I) obs: 0.05 / Net I/σ(I): 11.1 |
Reflection shell | Rmerge(I) obs: 0.29 / Mean I/σ(I) obs: 2.6 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1DCP Resolution: 2.22→19.69 Å / Cor.coef. Fo:Fc: 0.943 / Cor.coef. Fo:Fc free: 0.909 / SU B: 4.269 / SU ML: 0.108 / Cross valid method: THROUGHOUT / ESU R: 0.177 / ESU R Free: 0.163 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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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: 20.85 Å2
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Refinement step | Cycle: LAST / Resolution: 2.22→19.69 Å
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Refine LS restraints |
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