2H3R
Crystal structure of ORF52 from Murid herpesvirus 4 (MuHV-4) (Murine gammaherpesvirus 68). Northeast Structural Genomics Consortium target MhR28B.
X-RAY DIFFRACTION
Crystallization
Crystalization Experiments | ||||
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ID | Method | pH | Temperature | Details |
1 | VAPOR DIFFUSION, HANGING DROP | 7 | 293 | 80% PEG 400, 100mM MOPS, 100mM NaNO3, VAPOR DIFFUSION, HANGING DROP, temperature 293K, pH 7.00 |
Crystal Properties | |
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Matthews coefficient | Solvent content |
2.31 | 46.81 |
Crystal Data
Unit Cell | |
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Length ( Å ) | Angle ( ˚ ) |
a = 54.926 | α = 90 |
b = 49.24 | β = 105.61 |
c = 88.915 | γ = 90 |
Symmetry | |
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Space Group | P 1 2 1 |
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 | 100 | CCD | ADSC QUANTUM 4 | 2006-04-24 | M | MAD | ||||||
2 | 1 | x-ray | 100 | CCD | ADSC QUANTUM 4 | 2006-05-09 | M | SINGLE WAVELENGTH | ||||||
3 | 1 |
Radiation Source | |||||
---|---|---|---|---|---|
ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | SYNCHROTRON | NSLS BEAMLINE X4A | 0.97912,0.97947,0.96790,0.97930 | NSLS | X4A |
2 | SYNCHROTRON | NSLS BEAMLINE X4A | 0.97930 | NSLS | X4A |
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 | ||||||||
1,2 | 2.7 | 50 | 93.9 | 0.086 | 13.8 | 1.8 | 23521 | -3 |
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) | |||||||||||
2.7 | 2.8 | 93.2 | 0.394 | 1.8 |
Refinement
Statistics | |||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Diffraction ID | Structure Solution Method | Cross Validation method | Resolution (High) | Resolution (Low) | Cut-off Sigma (F) | Number Reflections (All) | Number Reflections (Observed) | Number Reflections (R-Free) | Percent Reflections (Observed) | R-Factor (Observed) | R-Work (Depositor) | R-Work (DCC) | R-Free (Depositor) | R-Free (DCC) | R-Free Selection Details | Mean Isotropic B | |||
X-RAY DIFFRACTION | MAD | THROUGHOUT | 2.7 | 20 | 2 | 24620 | 20535 | 1862 | 83.4 | 0.275 | 0.275 | 0.2922 | 0.295 | 0.3161 | RANDOM | 40.81 |
Temperature Factor Modeling | ||||||
---|---|---|---|---|---|---|
Anisotropic B[1][1] | Anisotropic B[1][3] | Anisotropic B[2][2] | Anisotropic B[3][3] | |||
-3.874 | -8.638 | -8.554 | 12.428 |
RMS Deviations | |
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Key | Refinement Restraint Deviation |
c_scangle_it | 3.051 |
c_scbond_it | 2.077 |
c_mcangle_it | 1.813 |
c_mcbond_it | 1.054 |
c_bond_d | |
c_bond_d_na | |
c_bond_d_prot | |
c_angle_d | |
c_angle_d_na | |
c_angle_d_prot |
Non-Hydrogen Atoms Used in Refinement | |
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Non-Hydrogen Atoms | Number |
Protein Atoms | 2769 |
Nucleic Acid Atoms | |
Solvent Atoms | 10 |
Heterogen Atoms |
Software
Software | |
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Software Name | Purpose |
DENZO | data reduction |
SCALEPACK | data scaling |
SnB | phasing |
RESOLVE | phasing |
CNS | refinement |
PDB_EXTRACT | data extraction |
ADSC | data collection |