X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 4.5
Temperature 298.0
Details 50% PEG400, 200mM LiSO4, 100mM Na acetate, 9.46mg/ml BuceA.18084.a.PW33863, direct cryoprotection, pH 4.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 96.02 α = 90
b = 96.02 β = 90
c = 96.02 γ = 90
Symmetry
Space Group P 43 3 2

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2012-10-18
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 5.0.1 0.97 ALS 5.0.1

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
1.9 42.98 100.0 0.111 -- -- -- -- 11700 -- -3.0 20.707
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)
1.9 2.0 100.0 0.437 -- 6.75 -- --

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 1.9 42.98 -- 0.0 -- 11700 584 98.41 -- 0.164 0.1624 0.1959 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 1.9 1.949 -- 36 805 0.186 0.228 -- 93.65
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 18.3399
Anisotropic B[1][1] 0.0
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.0
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.0
RMS Deviations
Key Refinement Restraint Deviation
r_mcangle_it 1.548
r_mcbond_other 0.869
r_bond_refined_d 0.011
r_bond_other_d 0.001
r_angle_refined_deg 1.349
r_angle_other_deg 0.775
r_dihedral_angle_1_deg 5.785
r_dihedral_angle_2_deg 37.008
r_dihedral_angle_3_deg 11.243
r_dihedral_angle_4_deg 13.889
r_chiral_restr 0.083
r_gen_planes_refined 0.006
r_gen_planes_other 0.001
r_mcbond_it 0.895
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 832
Nucleic Acid Atoms 0
Heterogen Atoms 14
Solvent Atoms 115

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
XSCALE Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.7.0032 Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.11 data extraction
REFMAC5 refinement
Phaser version: 2.5.2 molecular replacement
Xscale data reduction