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- PDB-1dqp: CRYSTAL STRUCTURE OF GIARDIA GUANINE PHOSPHORIBOSYLTRANSFERASE CO... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1dqp | ||||||
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Title | CRYSTAL STRUCTURE OF GIARDIA GUANINE PHOSPHORIBOSYLTRANSFERASE COMPLEXED WITH IMMUCILLING | ||||||
![]() | GUANINE PHOSPHORIBOSYLTRANSFERASE | ||||||
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Function / homology | ![]() guanine salvage / hypoxanthine metabolic process / ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Shi, W. / Munagala, N.R. / Wang, C.C. / Li, C.M. / Tyler, P.C. / Furneaux, R.H. / Grubmeyer, C. / Schramm, V.L. / Almo, S.C. | ||||||
![]() | ![]() Title: Crystal structures of Giardia lamblia guanine phosphoribosyltransferase at 1.75 A(,). Authors: Shi, W. / Munagala, N.R. / Wang, C.C. / Li, C.M. / Tyler, P.C. / Furneaux, R.H. / Grubmeyer, C. / Schramm, V.L. / Almo, S.C. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 113.9 KB | Display | ![]() |
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PDB format | ![]() | 88.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Details | The biological assembly is a dimer in the asymmetric unit. |
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Components
#1: Protein | Mass: 26367.279 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() ![]() References: UniProt: Q24973, ![]() #2: Chemical | #3: Chemical | ![]() #4: Water | ChemComp-HOH / | ![]() Nonpolymer details | 9-deazaguanine is the only part of immucillinG ligand that could be seen in the density. Because ...9-deazaguanine is the only part of immucillinG ligand that could be seen in the density. Because immucillinG lacks a 5'-phosphate group, the sugar part of the ligand is not well ordered in this structure. | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.36 Å3/Da / Density % sol: 47.92 % | |||||||||||||||||||||||||
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Crystal grow![]() | Temperature: 296 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: 20% polyethylene glycol 4000, 5% isopropanol, 100 mM Hepes, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 296K | |||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 18 ℃ | |||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Aug 22, 1999 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 1.75→20 Å / Num. all: 50590 / Num. obs: 50590 / % possible obs: 98.9 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 4.2 % / Biso Wilson estimate: 17 Å2 / Rsym value: 0.039 / Net I/σ(I): 40.8 |
Reflection shell | Resolution: 1.75→1.78 Å / Redundancy: 3.6 % / Num. unique all: 2485 / Rsym value: 0.075 / % possible all: 98.7 |
Reflection | *PLUS Num. measured all: 210690 / Rmerge(I) obs: 0.039 |
Reflection shell | *PLUS % possible obs: 98.7 % / Rmerge(I) obs: 0.075 |
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Processing
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Refinement | Resolution: 1.75→20 Å / σ(F): 2 / σ(I): 1.4 / Stereochemistry target values: Engh & Huber / Details: Used weighted full matrix least squares procedure
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Refinement step | Cycle: LAST / Resolution: 1.75→20 Å
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Refine LS restraints |
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Software | *PLUS Name: CNS / Version: 0.9 / Classification: refinement | |||||||||||||||||||||||||
Refinement | *PLUS Num. reflection obs: 45122 | |||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||
Displacement parameters | *PLUS |