1LZ8
LYSOZYME PHASED ON ANOMALOUS SIGNAL OF SULFURS AND CHLORINES
X-RAY DIFFRACTION
Starting Model(s)
Initial Refinement Model(s) | |||
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Type | Source | Accession Code | Details |
experimental model | PDB | 8LYZ | PDB ENTRY 8LYZ |
Crystallization
Crystalization Experiments | ||||
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ID | Method | pH | Temperature | Details |
1 | 4.6 | BATCH METHOD. 20 MG/ML PROTEIN SOLUTION IN 50MM SODIUM ACETATE PH 4.6 AND 10% NACL. CRYSTALS GROWN AT ROOM TEMPERATURE. |
Crystal Properties | |
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Matthews coefficient | Solvent content |
2.05 | 40 |
Crystal Data
Unit Cell | |
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Length ( Å ) | Angle ( ˚ ) |
a = 78.81 | α = 90 |
b = 78.81 | β = 90 |
c = 36.8 | γ = 90 |
Symmetry | |
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Space Group | P 43 21 2 |
Diffraction
Diffraction Experiment | ||||||||||||||
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ID # | Crystal ID | Scattering Type | Data Collection Temperature | Detector | Detector Type | Details | Collection Date | Monochromator | Protocol | |||||
1 | 1 | x-ray | 120 | IMAGE PLATE | MARRESEARCH | SEGMENTED MIRROR | 1994-12-01 | M | SINGLE WAVELENGTH |
Radiation Source | |||||
---|---|---|---|---|---|
ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | SYNCHROTRON | NSLS BEAMLINE X9B | NSLS | X9B |
Data Collection
Overall | |||||||||||||||||||
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ID # | Resolution (High) | Resolution (Low) | Percent Possible (Observed) | R Merge I (Observed) | R Sym I (Observed) | Net I Over Average Sigma (I) | Redundancy | Number Reflections (All) | Number Reflections (Observed) | Observed Criterion Sigma (F) | Observed Criterion Sigma (I) | B (Isotropic) From Wilson Plot | |||||||
1 | 0.92 | 25 | 90.1 | 0.028 | 0.028 | 29.1 | 2 | 58373 | 3 | 17.7 |
Highest Resolution Shell | |||||||||||||||||||
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ID # | Resolution (High) | Resolution (Low) | Percent Possible (All) | Percent Possible (Observed) | R Merge I (Observed) | R-Sym I (Observed) | Mean I Over Sigma (Observed) | Redundancy | Number Unique Reflections (All) | ||||||||||
0.93 | 0.94 | 78 | 0.17 | 0.17 | 4.9 | 2 |
Refinement
Statistics | |||||||||||||||||||
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Diffraction ID | Structure Solution Method | Cross Validation method | Starting model | Resolution (High) | Resolution (Low) | Number Reflections (Observed) | Number Reflections (R-Free) | Percent Reflections (Observed) | R-Factor (Observed) | R-Work | R-Free | R-Free Selection Details | Mean Isotropic B | ||||||
X-RAY DIFFRACTION | MOLECULAR REPLACEMENT | FREE R | PDB ENTRY 8LYZ | 1.53 | 25 | 17923 | 915 | 100 | 0.22 | 0.22 | 0.31 | RANDOM | 19.6 |
Temperature Factor Modeling | ||||||
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Anisotropic B[1][1] | Anisotropic B[1][2] | Anisotropic B[1][3] | Anisotropic B[2][2] | Anisotropic B[2][3] | Anisotropic B[3][3] | |
1.043 | 1.043 | -1.96 |
RMS Deviations | |
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Key | Refinement Restraint Deviation |
p_transverse_tor | 20.1 |
p_staggered_tor | 14.9 |
p_planar_tor | 5.7 |
p_scangle_it | 5.1 |
p_scbond_it | 4.3 |
p_mcangle_it | 2.9 |
p_mcbond_it | 2.2 |
p_multtor_nbd | 0.294 |
p_xyhbond_nbd | 0.21 |
p_chiral_restr | 0.18 |
Non-Hydrogen Atoms Used in Refinement | |
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Non-Hydrogen Atoms | Number |
Protein Atoms | 1001 |
Nucleic Acid Atoms | |
Solvent Atoms | 224 |
Heterogen Atoms | 9 |
Software
Software | |
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Software Name | Purpose |
DENZO | data reduction |
SCALEPACK | data scaling |
CCP4 | model building |
REFMAC | refinement |
CCP4 | phasing |