1JSE
FULL-MATRIX LEAST-SQUARES REFINEMENT OF TURKEY LYSOZYME
X-RAY DIFFRACTION
Starting Model(s)
Initial Refinement Model(s) | |||
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Type | Source | Accession Code | Details |
experimental model | PDB | 1LZ3 | PDB ENTRY 1LZ3 |
Crystallization
Crystalization Experiments | ||||
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ID | Method | pH | Temperature | Details |
1 | 4.2 | 2.2M AMMONIUM SULFATE SOLUTION AT PH 4.2 CONTAINING 10% 1-PROPANOL AND 4% PROTEIN |
Crystal Properties | |
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Matthews coefficient | Solvent content |
1.91 | 35.6 |
Crystal Data
Unit Cell | |
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Length ( Å ) | Angle ( ˚ ) |
a = 38.15 | α = 90 |
b = 33.32 | β = 110.14 |
c = 46.24 | γ = 90 |
Symmetry | |
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Space Group | P 1 21 1 |
Diffraction
Diffraction Experiment | ||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ID # | Crystal ID | Scattering Type | Data Collection Temperature | Detector | Detector Type | Details | Collection Date | Monochromator | Protocol | |||||
1 | 1 | x-ray | 285 | AREA DETECTOR | ENRAF-NONIUS | 1996-01-09 | M |
Radiation Source | |||||
---|---|---|---|---|---|
ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | ROTATING ANODE | ENRAF-NONIUS FR571 |
Data Collection
Overall | |||||||||||||||||||
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ID # | Resolution (High) | Resolution (Low) | Percent Possible (Observed) | R Merge 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 | 1.12 | 22.3 | 86.1 | 0.043 | 5.3 | 3.1 | 36320 |
Highest Resolution Shell | |||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ID # | Resolution (High) | Resolution (Low) | Percent Possible (All) | Percent Possible (Observed) | R Merge I (Observed) | Mean I Over Sigma (Observed) | Redundancy | Number Unique Reflections (All) | |||||||||||
1.12 | 1.14 | 53.3 | 0.227 |
Refinement
Statistics | |||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Diffraction ID | Structure Solution Method | Cross Validation method | Starting model | Resolution (High) | Resolution (Low) | Number Reflections (All) | Number Reflections (R-Free) | Percent Reflections (Observed) | R-Factor (All) | R-Factor (Observed) | R-Work | R-Free | Mean Isotropic B | ||||||
X-RAY DIFFRACTION | MOLECULAR REPLACEMENT | FREE R | PDB ENTRY 1LZ3 | 1.12 | 22.3 | 36302 | 86.1 | 0.104 | 0.103 | 0.14 |
Temperature Factor Modeling | ||||||
---|---|---|---|---|---|---|
Anisotropic B[1][1] | Anisotropic B[1][2] | Anisotropic B[1][3] | Anisotropic B[2][2] | Anisotropic B[2][3] | Anisotropic B[3][3] | |
Coordinate Error | ||
---|---|---|
Structure Solution Method | Refinement High Resolution | Refinement Low Resolution |
5 |
RMS Deviations | |
---|---|
Key | Refinement Restraint Deviation |
s_from_restr_planes | 0.216 |
s_zero_chiral_vol | 0.08 |
s_bond_d | 0.013 |
s_angle_d | |
s_similar_dist | |
s_non_zero_chiral_vol | |
s_anti_bump_dis_restr | |
s_rigid_bond_adp_cmpnt | |
s_similar_adp_cmpnt | |
s_approx_iso_adps |
Non-Hydrogen Atoms Used in Refinement | |
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Non-Hydrogen Atoms | Number |
Protein Atoms | 1016 |
Nucleic Acid Atoms | |
Solvent Atoms | 157 |
Heterogen Atoms | 8 |
Software
Software | |
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Software Name | Purpose |
MADNES | data collection |
MERGEF | data reduction |
SHELXL-93 | model building |
X-PLOR | model building |
SHELXL-93 | refinement |
X-PLOR | refinement |
MADNES | data reduction |
MERGEF | data scaling |
SHELXL-93 | phasing |
X-PLOR | phasing |