Short chain alcohol dehydrogenase from Ralstonia sp. DSM 6428 in complex with NADPH
X-RAY DIFFRACTION
Crystallization
Crystalization Experiments | ||||
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ID | Method | pH | Temperature | Details |
1 | 7 | 0.1M BIS-TRIS PROPANE PH 8.0, CONTAINING 16% (W/V) PEG 3350, 0.2M KSCN AND 5% (W/V) ETHYLENE GLYCOL. PROTEIN AT 20 MG ML-1. CRYSTALS WERE SOAKED IN 10 MM NADPH FOR 5 MIN. |
Crystal Properties | |
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Matthews coefficient | Solvent content |
3.3 | 35 |
Crystal Data
Unit Cell | |
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Length ( ? ) | Angle ( ? ) |
a = 192.26 | ¦Á = 90 |
b = 135.62 | ¦Â = 100.12 |
c = 93.58 | ¦Ã = 90 |
Symmetry | |
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Space Group | C 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 | 120 | CCD | ADSC CCD | 2013-02-02 | M | SINGLE WAVELENGTH |
Radiation Source | |||||
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ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | SYNCHROTRON | DIAMOND BEAMLINE I02 | Diamond | I02 |
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 | 2.89 | 74.54 | 99.2 | 0.18 | 7.4 | 4.2 | 52465 | 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 | 2.89 | 2.93 | 98.8 | 0.73 | 2 | 4.2 |
Refinement
Statistics | |||||||||||||||||||
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Diffraction ID | Structure Solution Method | Cross Validation method | Resolution (High) | Resolution (Low) | 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 | MOLECULAR REPLACEMENT | THROUGHOUT | 2.89 | 74.54 | 49788 | 2675 | 99.06 | 0.26942 | 0.26818 | 0.27 | 0.29254 | 0.3 | RANDOM | 34.207 |
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] | |
-2.94 | 2.97 | -0.3 | 2.56 |
RMS Deviations | |
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Key | Refinement Restraint Deviation |
r_dihedral_angle_2_deg | 37.291 |
r_dihedral_angle_3_deg | 17.353 |
r_dihedral_angle_4_deg | 15.847 |
r_dihedral_angle_1_deg | 6.367 |
r_mcangle_it | 3.333 |
r_mcbond_it | 1.991 |
r_mcbond_other | 1.99 |
r_scbond_it | 1.815 |
r_angle_refined_deg | 1.597 |
r_angle_other_deg | 0.99 |
Non-Hydrogen Atoms Used in Refinement | |
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Non-Hydrogen Atoms | Number |
Protein Atoms | 10987 |
Nucleic Acid Atoms | |
Solvent Atoms | 38 |
Heterogen Atoms | 288 |
Software
Software | |
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Software Name | Purpose |
REFMAC | refinement |
XDS | data reduction |
SCALA | data scaling |
MOLREP | phasing |