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Yorodumi- PDB-1bhz: LOW TEMPERATURE MIDDLE RESOLUTION STRUCTURE OF HEN EGG WHITE LYSO... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1bhz | ||||||
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Title | LOW TEMPERATURE MIDDLE RESOLUTION STRUCTURE OF HEN EGG WHITE LYSOZYME FROM MASC DATA | ||||||
Components | LYSOZYME | ||||||
Keywords | HYDROLASE / O-GLYCOSYL / MASC / MULTIWAVELENGTH ANOMALOUS SOLVENT CONTRAST | ||||||
Function / homology | Function and homology information Antimicrobial peptides / Neutrophil degranulation / beta-N-acetylglucosaminidase activity / cell wall macromolecule catabolic process / lysozyme / lysozyme activity / killing of cells of another organism / defense response to Gram-negative bacterium / defense response to Gram-positive bacterium / defense response to bacterium ...Antimicrobial peptides / Neutrophil degranulation / beta-N-acetylglucosaminidase activity / cell wall macromolecule catabolic process / lysozyme / lysozyme activity / killing of cells of another organism / defense response to Gram-negative bacterium / defense response to Gram-positive bacterium / defense response to bacterium / endoplasmic reticulum / extracellular space / identical protein binding / cytoplasm Similarity search - Function | ||||||
Biological species | Gallus gallus (chicken) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT, RIGID BODY REFINEMENT / Resolution: 3.9 Å | ||||||
Authors | Ramin, M. / Shepard, W. / Fourme, R. / Kahn, R. | ||||||
Citation | Journal: Acta Crystallogr.,Sect.D / Year: 1999 Title: Multiwavelength anomalous solvent contrast (MASC): derivation of envelope structure-factor amplitudes and comparison with model values. Authors: Ramin, M. / Shepard, W. / Fourme, R. / Kahn, R. #1: Journal: Nature / Year: 1965 Title: Structure of Hen Egg-White Lysozyme. A Three-Dimensional Fourier Synthesis at 2 Angstrom Resolution Authors: Blake, C.C. / Koenig, D.F. / Mair, G.A. / North, A.C. / Phillips, D.C. / Sarma, V.R. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1bhz.cif.gz | 29.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1bhz.ent.gz | 22.3 KB | Display | PDB format |
PDBx/mmJSON format | 1bhz.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/bh/1bhz ftp://data.pdbj.org/pub/pdb/validation_reports/bh/1bhz | HTTPS FTP |
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-Related structure data
Related structure data | 1bhwC 1bhyC 1lseS S: Starting model for refinement C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 14331.160 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Gallus gallus (chicken) / Cell: EGG / Cellular location: CYTOPLASM (WHITE) / References: UniProt: P00698, lysozyme |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 1.9 Å3/Da / Density % sol: 30.3 % |
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Crystal grow | Details: PROTEIN WAS CRYSTALLIZED FROM SODIUM CHLORIDE SOLUTIONS |
-Data collection
Diffraction | Mean temperature: 124 K |
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Diffraction source | Source: SYNCHROTRON / Site: LURE / Beamline: DW21B / Wavelength: 1.39 |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Nov 1, 1996 / Details: MIRRORS |
Radiation | Monochromator: SI(111) / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.39 Å / Relative weight: 1 |
Reflection | Resolution: 3.91→33.5 Å / Num. obs: 1092 / % possible obs: 84.7 % / Observed criterion σ(I): 3 / Redundancy: 9.4 % / Rmerge(I) obs: 0.028 / Rsym value: 0.028 / Net I/σ(I): 18.3 |
Reflection shell | Resolution: 3.91→4 Å / Redundancy: 2 % / Rmerge(I) obs: 0.028 / Mean I/σ(I) obs: 46.7 / Rsym value: 0.028 / % possible all: 78 |
Reflection | *PLUS Num. measured all: 10257 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT, RIGID BODY REFINEMENT Starting model: 1LSE Resolution: 3.9→8 Å / Cross valid method: THROUGHOUT
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Refinement step | Cycle: LAST / Resolution: 3.9→8 Å
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