X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.5
Temperature 293.0
Details 0.2M ammonium acetate, 0.1M BISTRIS, 25% PEG 3350, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 54.33 α = 90
b = 37.4 β = 98.51
c = 65.48 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
AREA DETECTOR MAR scanner 345 mm plate -- 2011-09-12
Diffraction Radiation
Monochromator Protocol
CONFOCAL MAXFLUX MIRRORS SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418 -- --

Data Collection

Overall
Resolution (High) Resolution (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
1.98 15 99.5 0.049 -- -- 3.5 18281 18281 0.0 0.0 53.2
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
1.98 2.01 99.9 0.58 -- -- 3.4 893

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MOLECULAR REPLACEMENT 1.98 14.9 -- 0.0 18203 18203 887 98.83 -- 0.2196 0.2182 0.2468 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 1.979 2.03 -- 58 1200 0.376 0.4 -- 95.74
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 55.616
Anisotropic B[1][1] -2.91
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -3.22
Anisotropic B[2][2] 0.27
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.69
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 2.844
r_scbond_it 2.029
r_mcangle_it 1.655
r_mcbond_other 0.179
r_bond_refined_d 0.005
r_bond_other_d 0.001
r_angle_refined_deg 1.08
r_angle_other_deg 0.935
r_dihedral_angle_1_deg 3.986
r_dihedral_angle_2_deg 31.671
r_dihedral_angle_3_deg 10.097
r_dihedral_angle_4_deg 9.388
r_chiral_restr 0.044
r_gen_planes_refined 0.003
r_gen_planes_other 0.001
r_mcbond_it 0.917
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 756
Nucleic Acid Atoms 814
Heterogen Atoms 7
Solvent Atoms 93

Software

Computing
Computing Package Purpose
MAR345dtb Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.5.0109 Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.10 data extraction
REFMAC5 refinement
Phaser version: 2.1.4 molecular replacement
SCALEPACK data reduction
DENZO data collection