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- PDB-1c10: CRYSTAL STRUCTURE OF HEW LYSOZYME UNDER PRESSURE OF XENON (8 BAR) -
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Open data
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Basic information
Entry | Database: PDB / ID: 1c10 | ||||||
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Title | CRYSTAL STRUCTURE OF HEW LYSOZYME UNDER PRESSURE OF XENON (8 BAR) | ||||||
![]() | PROTEIN (LYSOZYME) | ||||||
![]() | HYDROLASE / HYDROPHOBIC CAVITY / XENON COMPLEX | ||||||
Function / homology | ![]() Lactose synthesis / Antimicrobial peptides / Neutrophil degranulation / beta-N-acetylglucosaminidase activity / cell wall macromolecule catabolic process / lysozyme / lysozyme activity / defense response to Gram-negative bacterium / killing of cells of another organism / defense response to Gram-positive bacterium ...Lactose synthesis / Antimicrobial peptides / Neutrophil degranulation / beta-N-acetylglucosaminidase activity / cell wall macromolecule catabolic process / lysozyme / lysozyme activity / defense response to Gram-negative bacterium / killing of cells of another organism / defense response to Gram-positive bacterium / defense response to bacterium / endoplasmic reticulum / extracellular space / identical protein binding / cytoplasm Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Prange, T. / Schiltz, M. / Pernot, L. / Colloc'h, N. / Longhi, S. / Bourguet, W. / Fourme, R. | ||||||
![]() | ![]() Title: Exploring hydrophobic sites in proteins with xenon or krypton. Authors: Prange, T. / Schiltz, M. / Pernot, L. / Colloc'h, N. / Longhi, S. / Bourguet, W. / Fourme, R. #1: ![]() Title: The Influence of Temperature on Lysozyme Crystals. Structure and Dynamics of Protein and Water Authors: Kurinov, I.V. / Harrison, R.W. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 41 KB | Display | ![]() |
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PDB format | ![]() | 26.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 1c1mC ![]() 1c3lC ![]() 1qtkC ![]() 1lseS 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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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 14331.160 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() | ||||||
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#2: Chemical | ChemComp-NA / | ||||||
#3: Chemical | ChemComp-CL / #4: Chemical | #5: Water | ChemComp-HOH / | Nonpolymer details | OCCUPANCY FACTORS WERE REFINED. THE FIRST SITE IS ON A SPECIAL POSSITION AND HENCE REAL OCCUPANCY ...OCCUPANCY FACTORS WERE REFINED. THE FIRST SITE IS ON A SPECIAL POSSITION AND HENCE REAL OCCUPANCY IS TWICE THE REFINED VALUE | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.03 Å3/Da / Density % sol: 39.4 % | ||||||||||||||||||||
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Crystal grow | pH: 5.5 / Details: SODIUM CHLORIDE, PH = 5.5 | ||||||||||||||||||||
Crystal grow | *PLUS Temperature: 20 ℃ / pH: 5 / Method: unknown | ||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 277 K |
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Diffraction source | Source: ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Feb 8, 1996 / Details: MULTILAYER MIRROR |
Radiation | Monochromator: SI (III) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.961 Å / Relative weight: 1 |
Reflection | Resolution: 2.03→9.9 Å / Num. obs: 6454 / % possible obs: 79 % / Observed criterion σ(I): 4 / Redundancy: 5.1 % / Rmerge(I) obs: 0.044 / Net I/σ(I): 8.9 |
Reflection shell | Resolution: 2.03→2.15 Å / Redundancy: 2.9 % / Rmerge(I) obs: 0.152 / Mean I/σ(I) obs: 4.3 / % possible all: 59 |
Reflection shell | *PLUS % possible obs: 59 % |
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Processing
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Refinement | Method to determine structure: OTHER Starting model: PDB ENTRY 1LSE Resolution: 2.03→9.9 Å / Num. parameters: 4285 / Num. restraintsaints: 4086 / σ(F): 4 / Stereochemistry target values: ENGH & HUBER / Details: USED WEIGHTED FULL MATRIX LEAST SQUARES PROCEDURE
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Refine analyze | Num. disordered residues: 0 | |||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.03→9.9 Å
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Refine LS restraints |
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