X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Microbatch Under Oil
pH 7
Temperature 291.0
Details 2.9 M Sodium malonate pH 7, Microbatch under oil, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 51.85 α = 90
b = 51.85 β = 90
c = 305.7 γ = 120
Symmetry
Space Group P 61

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
-- -- -- --
CCD ADSC QUANTUM 4r -- 2012-04-12
Diffraction Radiation
Monochromator Protocol
KOHZU double crystal monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
-- -- -- NSLS X6A
SYNCHROTRON NSLS BEAMLINE X4A 0.979 NSLS X4A

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
2.5 50 94.2 0.063 0.057 -- 6.0 21977 21977 0.0 0.0 --
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)
2.5 2.54 99.4 0.225 -- -- -- --

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
SAD 2.5 44.91 -- -- -- 15160 794 99.89 -- 0.24263 0.24063 0.28163 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 2.501 2.566 -- 44 1128 0.325 0.371 -- 99.15
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 53.644
Anisotropic B[1][1] 33.44
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 33.44
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -66.89
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_other 0.001
r_gen_planes_refined 0.008
r_chiral_restr 0.077
r_dihedral_angle_4_deg 18.868
r_dihedral_angle_3_deg 18.754
r_dihedral_angle_2_deg 37.438
r_dihedral_angle_1_deg 7.226
r_angle_other_deg 0.812
r_angle_refined_deg 1.453
r_bond_other_d 0.002
r_bond_refined_d 0.009
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2497
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 128

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
SHELXS Structure Solution
REFMAC 5.7.0029 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.6.0117 refinement
SHELXS model building
ADSC version: Quantum data collection