X-RAY DIFFRACTION

Crystallization Details
Method pH Temprature Details
X-RAY DIFFRACTION 7.0 298 HalA crystals were obtained by the hanging drop vapor diffusion method by combining equal volumes of protein solution (HalA (5 mg/ml), lysine (50 mM, pH 7), and aKG (20 mM, pH 7)) and reservoir solution (potassium phosphate monobasic (40 mM), 20% (w/v) PEG 8000, 15% (v/v) glycerol). Crystals grew in three days and were transferred to an Eppendorf tube containing 250 uL of reservoir solution and vortexed for 30 seconds with 10 x 1 uM diameter zirconia/silica beads to produce a micro-seed solution. The seed solution was stored at -80C for future use. Subsequent crystals were prepared by micro-seeding equal volumes of protein solution (HalA (5 mg/ml), lysine (50 mM, pH 7), and aKG (20 mM, pH 7)) and reservoir solution (potassium phosphate monobasic (40 mM), 20% (w/v) PEG 8000, 15% (v/v) glycerol). Crystals grew after two weeks inside a Coy anaerobic chamber. Crystals were soaked with (NH4)2Fe(SO4)2 6H2O (1.42 mM) while NO accumulated in the well. To introduce NO, diethylamine NONOate was prepared by dissolving solid in 10 mM NaOH. The stock concentration was determined based on the published extinction coefficient of e250 = 6,500 M-1 cm-1 using a Nanodrop. NONOate was added to a final concentration of 26 mM in each well along with 150 mM HEPES pH 7.5 to trigger NONOate decomposition. The wells were quickly re-sealed and NO was allowed to accumulate for approximately 1 hour, after which the crystals were flash frozen in liquid nitrogen
Unit Cell:
a: 147.300 Å b: 147.300 Å c: 287.870 Å α: 90.00° β: 90.00° γ: 120.00°
Symmetry:
Space Group: H 3
Crystal Properties:
Matthew's Coefficient: 2.52 Solvent Content: 51.19
Refinement Statistics
Diffraction ID Structure Solution Method Cross Validation Method Resolution Limit (High) Resolution Limit (Low) Number of Reflections (Observed) Number of Reflections (R-free) Percent Reflections (Observed) R-Work R-Free Mean Isotropic
X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.72 95.96 246749 12540 99.71 0.1784 0.2012 ?
Data Collection
Overall
Resolution Limit (High) Resolution Limit (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
1.72 95.96 99.7 0.181 ? 19.5 38.94 ? 246753 ? ? ?
Highest Resolution Shell
# Resolution Limits (Low) Resolution Limits (High) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
1 1.72 1.781 99.13 ? ? 1.84 26.67 ?
Diffraction
Diffraction experiment
Crystal ID Scattering Type Data Collection Temprature Detector Detector Type Details Collection Date Monochromator Protocol
1 90 K ?
Radiation Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.3.1 1.11583 ALS 8.3.1
Software
Software Name Purpose Version
PHENIX refinement 1.21.2_5419
XDS data reduction June 1, 2017
Aimless data scaling 0.7.7
PHASER phasing 2.8.3
PDB_EXTRACT data extraction 4.3
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