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Open data
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Basic information
Entry | Database: PDB / ID: 2we3 | ||||||
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Title | EBV dUTPase inactive mutant deleted of motif V | ||||||
![]() | DEOXYURIDINE 5'-TRIPHOSPHATE NUCLEOTIDOHYDROLASE | ||||||
![]() | HYDROLASE / DUTPASE / MONOMER / HUMAN HERPES VIRUS / EPSTEIN-BARR VIRUS / NUCLEOTIDE METABOLISM | ||||||
Function / homology | ![]() dUTP metabolic process / dUTP diphosphatase / dUTP diphosphatase activity / metal ion binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Freeman, L. / Buisson, M. / Tarbouriech, N. / Burmeister, W.P. | ||||||
![]() | ![]() Title: The Flexible Motif V of Epstein-Barr Virus Deoxyuridine 5'-Triphosphate Pyrophosphatase is Essential for Catalysis. Authors: Freeman, L. / Buisson, M. / Tarbouriech, N. / Van Der Heyden, A. / Labbe, P. / Burmeister, W.P. #1: ![]() Title: The Monomeric Dutpase from Epstein-Barr Virus Mimics Trimeric Dutpases Authors: Tarbouriech, N. / Buisson, M. / Seigneurin, J.M. / Cusack, S. / Burmeister, W.P. | ||||||
History |
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Remark 700 | SHEET THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN ORDER TO REPRESENT THIS FEATURE IN ... SHEET THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, TWO SHEETS ARE DEFINED. |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 66.8 KB | Display | ![]() |
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PDB format | ![]() | 47.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 2we0C ![]() 2we1C ![]() 2we2C ![]() 2bsyS S: Starting model for refinement C: citing same article ( |
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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
#1: Protein | Mass: 29529.111 Da / Num. of mol.: 1 / Fragment: RESIDUES 1-256 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Strain: B95-8 / Plasmid: PPROEX HTB / Production host: ![]() ![]() | ||
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#2: Chemical | ChemComp-DUT / | ||
#3: Chemical | ChemComp-MG / | ||
#4: Chemical | #5: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.15 Å3/Da / Density % sol: 42.93 % / Description: NONE |
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Crystal grow | pH: 8.5 Details: 0.1 M TRIS PH 8.5, 20 % PEG 3350, 200 MM LISO4, AND 10 MM DUTP |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC CCD / Detector: CCD / Date: Apr 10, 2006 / Details: TOROIDAL MIRROR |
Radiation | Monochromator: DIAMOND / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9395 Å / Relative weight: 1 |
Reflection | Resolution: 2→72.9 Å / Num. obs: 17157 / % possible obs: 99.5 % / Observed criterion σ(I): 0 / Redundancy: 3.8 % / Biso Wilson estimate: 32.09 Å2 / Rmerge(I) obs: 0.06 / Net I/σ(I): 7.2 |
Reflection shell | Resolution: 2→2.1 Å / Redundancy: 3.8 % / Rmerge(I) obs: 0.43 / Mean I/σ(I) obs: 1.7 / % possible all: 99.9 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 2BSY Resolution: 2→51.64 Å / Cor.coef. Fo:Fc: 0.948 / Cor.coef. Fo:Fc free: 0.919 / SU B: 5.421 / SU ML: 0.149 / Cross valid method: THROUGHOUT / ESU R: 0.217 / ESU R Free: 0.197 / 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: 35.51 Å2
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Refinement step | Cycle: LAST / Resolution: 2→51.64 Å
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Refine LS restraints |
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