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- PDB-2ifw: Crystal structure of scytalido-glutamic peptidase with a transiti... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2ifw | ||||||
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Title | Crystal structure of scytalido-glutamic peptidase with a transition state analog inhibitor | ||||||
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![]() | HYDROLASE/HYDROLASE INHIBITOR / enzyme-inhibitor complex / HYDROLASE-HYDROLASE INHIBITOR complex | ||||||
Function / homology | ![]() scytalidopepsin B / glutamic-type endopeptidase activity / aspartic-type endopeptidase activity / proteolysis Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Pillai, B. / Cherney, M.M. / Hiraga, K. / Takada, K. / Oda, K. / James, M.N. | ||||||
![]() | ![]() Title: Crystal structure of scytalidoglutamic peptidase with its first potent inhibitor provides insights into substrate specificity and catalysis. Authors: Pillai, B. / Cherney, M.M. / Hiraga, K. / Takada, K. / Oda, K. / James, M.N. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 94.2 KB | Display | ![]() |
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PDB format | ![]() | 71.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 486.2 KB | Display | ![]() |
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Full document | ![]() | 499 KB | Display | |
Data in XML | ![]() | 19.8 KB | Display | |
Data in CIF | ![]() | 27 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2ifrC ![]() 1s2bS S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 21553.812 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Protein/peptide | Mass: 928.174 Da / Num. of mol.: 2 / Source method: obtained synthetically #3: Chemical | #4: Chemical | #5: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.17 Å3/Da / Density % sol: 43.22 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, sitting drop / pH: 5.5 Details: 25% PEG 3300, 0.2 M NaCl, 0.1 M Bis-Tris buffer, pH 5.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 210 / Detector: CCD / Date: Apr 20, 2005 |
Radiation | Monochromator: double crystal / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.115869 Å / Relative weight: 1 |
Reflection | Resolution: 2.3→30 Å / Num. all: 17716 / Num. obs: 17716 / % possible obs: 98.1 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 |
Reflection shell | Resolution: 2.3→2.38 Å / % possible all: 96.5 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: pdb id 1S2B Resolution: 2.3→30 Å / σ(F): 0 / σ(I): 0 / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 2.3→30 Å
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Refine LS restraints |
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