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- PDB-2ivg: SITE DIRECTED MUTAGENESIS OF KEY RESIDUES INVOLVED IN THE CATALYT... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2ivg | |||||||||
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Title | SITE DIRECTED MUTAGENESIS OF KEY RESIDUES INVOLVED IN THE CATALYTIC MECHANISM OF CYANASE | |||||||||
![]() | CYANATE LYASE | |||||||||
![]() | LYASE / MIDWEST CENTER FOR STRUCTURAL GENOMICS / PROTEIN STRUCTURE INITIATIVE / PSI / MCSG / CYANATE DEGRADATION | |||||||||
Function / homology | ![]() cyanate catabolic process / cyanase / cyanate hydratase activity / DNA binding Similarity search - Function | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Guilloton, M. / Walsh, M.A. / Joachimiak, A. / Anderson, P.M. | |||||||||
![]() | ![]() Title: A Twin Set of Low Pka Arginines Ensures the Concerted Acid Base Catalytic Mechanism of Cyanase Authors: Guilloton, M. / Walsh, M.A. / Joachimiak, A. / Anderson, P.M. #1: ![]() Title: Structure of Cyanase Reveals that a Novel Dimeric and Decameric Arrangement of Subunits is Required for Formation of the Enzyme Active Site. Authors: Walsh, M.A. / Otwinowski, Z. / Perrakis, A. / Anderson, P.M. / Joachimiak, A. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 339 KB | Display | ![]() |
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PDB format | ![]() | 277.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 2iu7C ![]() 2iuoC ![]() 2iv1C ![]() 2ivbC ![]() 2ivqC ![]() 1dw9S C: citing same article ( 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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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS oper:
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Components
#1: Protein | Mass: 17011.686 Da / Num. of mol.: 10 / Mutation: YES Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Chemical | ChemComp-SO4 / #3: Chemical | ChemComp-CL / #4: Chemical | ChemComp-AZI / | #5: Water | ChemComp-HOH / | Compound details | ENGINEERED RESIDUE IN CHAIN A, LEU 151 TO GLY ENGINEERED RESIDUE IN CHAIN B, LEU 151 TO GLY ...ENGINEERED | Sequence details | LEUCINE 151 MUTATED TO GLYCINE | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.67 Å3/Da / Density % sol: 54 % |
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Crystal grow | Method: vapor diffusion, sitting drop / pH: 7.3 Details: CRYSTALLIZATION CONDITIONS: CRYSTALS WERE GROWN BY THE SITTING DROP METHOD OF VAPOUR DIFFUSION FROM 50% AMMONIUM SULPHATE SOLUTIONS BUFFERED WITH 50MM NAKPO4, PH = 7.3, AND IN THE PRESENCE ...Details: CRYSTALLIZATION CONDITIONS: CRYSTALS WERE GROWN BY THE SITTING DROP METHOD OF VAPOUR DIFFUSION FROM 50% AMMONIUM SULPHATE SOLUTIONS BUFFERED WITH 50MM NAKPO4, PH = 7.3, AND IN THE PRESENCE OF 50 MM TRIC/HCL, PH =7.3. |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC CCD / Detector: CCD / Details: MIRRORS |
Radiation | Monochromator: SI 111 / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.033 Å / Relative weight: 1 |
Reflection | Resolution: 1.87→99 Å / Num. obs: 133334 / % possible obs: 95.1 % / Redundancy: 2.1 % / Rmerge(I) obs: 0.03 / Net I/σ(I): 23.6 |
Reflection shell | Resolution: 1.87→1.93 Å / Redundancy: 1.8 % / Rmerge(I) obs: 0.11 / Mean I/σ(I) obs: 6 / % possible all: 90.7 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1DW9 Resolution: 1.87→76.7 Å / Cor.coef. Fo:Fc: 0.962 / Cor.coef. Fo:Fc free: 0.938 / SU B: 2.368 / SU ML: 0.073 / Cross valid method: THROUGHOUT / ESU R: 0.124 / ESU R Free: 0.12 / 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: 1.4 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 10.87 Å2
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Refinement step | Cycle: LAST / Resolution: 1.87→76.7 Å
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Refine LS restraints |
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