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Yorodumi- PDB-1p17: Hypoxanthine Phosphoribosyltransferase from Trypanosoma cruzi, K6... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1p17 | ||||||
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Title | Hypoxanthine Phosphoribosyltransferase from Trypanosoma cruzi, K68R mutant, complexed with the product IMP | ||||||
Components | hypoxanthine phosphoribosyltransferaseHypoxanthine-guanine phosphoribosyltransferase | ||||||
Keywords | TRANSFERASE / GLYCOSYLTRANSFERASE / PHOSPHORIBOSYLTRANSFERASE / NUCLEOTIDE METABOLISM / PURINE SALVAGE / PRODUCT COMPLEX | ||||||
Function / homology | Function and homology information hypoxanthine phosphoribosyltransferase / guanine phosphoribosyltransferase activity / hypoxanthine phosphoribosyltransferase activity / IMP salvage / purine ribonucleoside salvage / nucleotide binding / metal ion binding / cytoplasm Similarity search - Function | ||||||
Biological species | Trypanosoma cruzi (eukaryote) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.7 Å | ||||||
Authors | Medrano, F.J. / Eakin, A.E. / Craig III, S.P. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2004 Title: Interactions at the dimer interface influence the relative efficiencies for purine nucleotide synthesis and pyrophosphorolysis in a phosphoribosyltransferase. Authors: Canyuk, B. / Medrano, F.J. / Wenck, M.A. / Focia, P.J. / Eakin, A.E. / Craig III, S.P. | ||||||
History |
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Remark 999 | sequence The HPRT was cloned from a different strain of Trypanosoma cruzi and varies from the ...sequence The HPRT was cloned from a different strain of Trypanosoma cruzi and varies from the reported sequence at these residues. |
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1p17.cif.gz | 176 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1p17.ent.gz | 140.7 KB | Display | PDB format |
PDBx/mmJSON format | 1p17.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/p1/1p17 ftp://data.pdbj.org/pub/pdb/validation_reports/p1/1p17 | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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2 |
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3 |
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Unit cell |
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Details | There are two copies of the biological dimer in the asymmetric unit |
-Components
#1: Protein | Mass: 25623.418 Da / Num. of mol.: 4 / Mutation: K52R Source method: isolated from a genetically manipulated source Source: (gene. exp.) Trypanosoma cruzi (eukaryote) / Gene: HGPRT / Plasmid: pTcPRT / Production host: Escherichia coli (E. coli) References: UniProt: Q27796, UniProt: Q4DRC4*PLUS, hypoxanthine phosphoribosyltransferase #2: Chemical | ChemComp-IMP / #3: 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: 2.46 Å3/Da / Density % sol: 49.93 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 4.4 Details: PEG 6000, Sodium Acetate, Ammonium Acetate, pH 4.4, VAPOR DIFFUSION, HANGING DROP, temperature 277K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: NSLS / Beamline: X12B / Wavelength: 0.97 Å |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Apr 2, 2000 |
Radiation | Monochromator: Si III / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97 Å / Relative weight: 1 |
Reflection | Resolution: 2.7→20 Å / Num. obs: 28171 / % possible obs: 98.6 % / Observed criterion σ(F): -3 / Observed criterion σ(I): -3 / Redundancy: 4 % / Rmerge(I) obs: 0.104 / Net I/σ(I): 12.1 |
Reflection shell | Resolution: 2.7→2.76 Å / Redundancy: 3.5 % / Rmerge(I) obs: 0.474 / Mean I/σ(I) obs: 2.5 / % possible all: 99.5 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 2.7→20 Å / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 2.7→20 Å
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