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- PDB-1upf: STRUCTURE OF THE URACIL PHOSPHORIBOSYLTRANSFERASE, MUTANT C128V B... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1upf | ||||||
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Title | STRUCTURE OF THE URACIL PHOSPHORIBOSYLTRANSFERASE, MUTANT C128V BOUND TO THE DRUG 5-FLUOROURACIL | ||||||
![]() | URACIL PHOSPHORIBOSYLTRANSFERASE | ||||||
![]() | TRANSFERASE / GLYCOSYLTRANSFERASE / PHOSPHORIBOSYLTRANSFERASE | ||||||
Function / homology | ![]() ribosylnicotinamide kinase activity / uracil phosphoribosyltransferase / uracil phosphoribosyltransferase activity / UMP salvage / chloroplast / GTP binding Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() | ||||||
![]() | Schumacher, M.A. / Carter, D. / Scott, D. / Roos, D. / Ullman, B. / Brennan, R.G. | ||||||
![]() | ![]() Title: Crystal structures of Toxoplasma gondii uracil phosphoribosyltransferase reveal the atomic basis of pyrimidine discrimination and prodrug binding. Authors: Schumacher, M.A. / Carter, D. / Scott, D.M. / Roos, D.S. / Ullman, B. / Brennan, R.G. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 191.7 KB | Display | ![]() |
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PDB format | ![]() | 154.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 429.6 KB | Display | ![]() |
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Full document | ![]() | 505.2 KB | Display | |
Data in XML | ![]() | 29.9 KB | Display | |
Data in CIF | ![]() | 42.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related 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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Components
#1: Protein | Mass: 25543.012 Da / Num. of mol.: 4 / Mutation: C128V Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() References: UniProt: Q26998, uracil phosphoribosyltransferase #2: Chemical | ChemComp-SO4 / #3: Chemical | ChemComp-URF / #4: Water | ChemComp-HOH / | Nonpolymer details | THE STRUCTURE HAS THREE SULPHATE MOLECULES (USED IN THE CRYSTALLIZATION). ONE SULPHATE IS BOUND IN ...THE STRUCTURE HAS THREE SULPHATE MOLECULES (USED IN THE CRYSTALLIZ | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.72 Å3/Da / Density % sol: 54.7 % | ||||||||||||||||||||||||||||||||||||||||||
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Crystal | *PLUS Density % sol: 49 % | ||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS pH: 7.6 / Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 298 K |
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Detector | Date: Jan 1, 1997 |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Highest resolution: 2.3 Å |
Reflection | *PLUS Lowest resolution: 10 Å / Num. obs: 62830 / % possible obs: 86 % / Num. measured all: 91812 / Rmerge(I) obs: 0.052 |
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Processing
Software | Name: TNT / Classification: refinement | ||||||||||||||||||||||||||||||
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Refinement | Resolution: 2.3→10 Å / σ(F): 1 Details: THERE IS A TETRAMER (CHAINS A,B,C,D) IN THE ASYMMETRIC UNIT. THE P21 SPACE GROUP CAN BE TRANSFORMED INTO C2221. WITH TWO IN THE ASU. THE STRUCTURE WAS SOLVED AS P21 FOR TECHNICAL REASONS.
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Refinement step | Cycle: LAST / Resolution: 2.3→10 Å
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Refine LS restraints |
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