2WPU
Chaperoned ruthenium metallodrugs that recognize telomeric DNA
X-RAY DIFFRACTION
Starting Model(s)
Initial Refinement Model(s) | |||
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Type | Source | Accession Code | Details |
experimental model | PDB | 2QCB | PDB ENTRY 2QCB |
Crystallization
Crystalization Experiments | ||||
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ID | Method | pH | Temperature | Details |
1 | VAPOR DIFFUSION, HANGING DROP | 4 | 298 | PROTEIN, 26 MG/ML IN WATER. RESERVOIR, 2.0 M AMMONIUM SULFATE, 0.1 M SODIUM ACETATE BUFFER, PH 4.0 , VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K. LIGAND SOAKING CONDITIONS: LIGAND, 10 MM K2OSO2(OH)4 IN 3.0 M AMMONIUM SULFATE, 0.1 SODIUM ACETATE BUFFER, PH 4.0, CRYO, 1.5 M AMMONIUM SULFATE, 0.1 SODIUM ACETATE BUFFER, PH 4.0 |
Crystal Properties | |
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Matthews coefficient | Solvent content |
2.37 | 48 |
Crystal Data
Unit Cell | |
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Length ( Å ) | Angle ( ˚ ) |
a = 57.68 | α = 90 |
b = 57.68 | β = 90 |
c = 183.694 | γ = 90 |
Symmetry | |
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Space Group | I 41 2 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 | 100 | CCD | MARRESEARCH | 2009-06-06 | M | SINGLE WAVELENGTH |
Radiation Source | |||||
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ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | SYNCHROTRON | SLS BEAMLINE X06DA | SLS | X06DA |
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 | 1.91 | 28.84 | 97.9 | 0.08 | 6.93 | 10.13 | 12284 | 2 |
Highest Resolution Shell | |||||||||||||||||||
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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 | 2 | 2.11 | 86.3 | 0.28 | 2.49 | 3.43 |
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 | THROUGHOUT | PDB ENTRY 2QCB | 1.92 | 30 | 12277 | 534 | 93.14 | 0.1735 | 0.17234 | 0.19818 | RANDOM | 18.107 |
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] | |
-0.66 | -0.66 | 1.31 |
RMS Deviations | |
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Key | Refinement Restraint Deviation |
r_dihedral_angle_2_deg | 27.768 |
r_dihedral_angle_3_deg | 11.144 |
r_dihedral_angle_4_deg | 10.323 |
r_dihedral_angle_1_deg | 5.729 |
r_scangle_it | 2.852 |
r_scbond_it | 1.814 |
r_mcangle_it | 1.576 |
r_angle_other_deg | 1.435 |
r_angle_refined_deg | 1.25 |
r_mcbond_it | 0.852 |
Non-Hydrogen Atoms Used in Refinement | |
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Non-Hydrogen Atoms | Number |
Protein Atoms | 913 |
Nucleic Acid Atoms | |
Solvent Atoms | 116 |
Heterogen Atoms | 45 |
Software
Software | |
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Software Name | Purpose |
REFMAC | refinement |
MOSFLM | data reduction |
SCALA | data scaling |
MOLREP | phasing |