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Open data
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Basic information
Entry | Database: PDB / ID: 1wvb | ||||||
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Title | Crystal structure of human arginase I: the mutant E256Q | ||||||
![]() | Arginase 1 | ||||||
![]() | HYDROLASE / TWINNED CRYSTAL / MUTANT E256Q | ||||||
Function / homology | ![]() positive regulation of neutrophil mediated killing of fungus / Urea cycle / negative regulation of T-helper 2 cell cytokine production / arginase / arginase activity / arginine catabolic process to ornithine / urea cycle / negative regulation of type II interferon-mediated signaling pathway / defense response to protozoan / negative regulation of activated T cell proliferation ...positive regulation of neutrophil mediated killing of fungus / Urea cycle / negative regulation of T-helper 2 cell cytokine production / arginase / arginase activity / arginine catabolic process to ornithine / urea cycle / negative regulation of type II interferon-mediated signaling pathway / defense response to protozoan / negative regulation of activated T cell proliferation / arginine catabolic process / negative regulation of T cell proliferation / specific granule lumen / azurophil granule lumen / manganese ion binding / adaptive immune response / innate immune response / Neutrophil degranulation / extracellular space / extracellular region / nucleus / cytoplasm / cytosol Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Di Costanzo, L. / Guadalupe, S. / Mora, A. / Centeno, F. / Christianson, D.W. | ||||||
![]() | ![]() Title: Crystal structure of human arginase I: the mutant E256Q Authors: Di Costanzo, L. / Guadalupe, S. / Mora, A. / Centeno, F. / Christianson, D.W. #1: ![]() Title: Subunit-subunit interactions in trimeric arginase. Generation of active monomers by mutation of a single amino acid Authors: Lavulo, L.T. / Sossong Jr., T.M. / Brigham-Burke, M.R. / Doyle, M.L. / Cox, J.D. / Christianson, D.W. / Ash, D.E. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 130.1 KB | Display | ![]() |
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PDB format | ![]() | 100.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 454.8 KB | Display | ![]() |
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Full document | ![]() | 481.1 KB | Display | |
Data in XML | ![]() | 27.5 KB | Display | |
Data in CIF | ![]() | 37.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1d3vS 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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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 34778.895 Da / Num. of mol.: 2 / Mutation: E256Q Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Chemical | ChemComp-MN / #3: Chemical | #4: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.34 Å3/Da / Density % sol: 47.52 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 8.5 Details: PEGMME 2000, Bis-tris, ph 6.5(reservoir), pH 8.5(SAMPLE), VAPOR DIFFUSION, HANGING DROP, temperature 298K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: CCD / Date: May 1, 2004 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.3→50 Å / Num. all: 27626 / Num. obs: 27626 / % possible obs: 100 % / Observed criterion σ(F): 1 / Observed criterion σ(I): 1 / Redundancy: 3.6 % / Biso Wilson estimate: 37 Å2 / Rmerge(I) obs: 0.108 / Rsym value: 0.109 / Net I/σ(I): 12.1 |
Reflection shell | Resolution: 2.3→2.4 Å / Redundancy: 2 % / Mean I/σ(I) obs: 2.7 / Num. unique all: 28004 / Rsym value: 0.36 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 1D3V Resolution: 2.3→50 Å / σ(F): 1 / σ(I): 1 Details: This is a twinned structure. The twinning operator is (h,k,l) -> (-h,-k,l) and the twinning fraction is 0.5.
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Refinement step | Cycle: LAST / Resolution: 2.3→50 Å
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Refine LS restraints |
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