X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7
Temperature 293.0
Details 2.5 M DL-malic acid, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 61.44 α = 72.77
b = 63.71 β = 67.09
c = 71.82 γ = 89.79
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2009-06-25
Diffraction Radiation
Monochromator Protocol
DOUBLE FLAT CRYSTAL, SI(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.3.1 -- ALS 8.3.1

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
1.4 62.68 94.8 0.044 -- -- 2.0 -- 176916 -- 2.0 15.8
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)
1.4 1.42 91.7 0.45 -- 2.0 2.0 --

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 1.4 62.68 -- -- 88681 176916 8865 94.8 -- 0.2 0.199 0.226 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 1.4 1.44 -- 324 11817 0.31 0.355 -- 90.26
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 18.09
Anisotropic B[1][1] 0.35
Anisotropic B[1][2] 0.3
Anisotropic B[1][3] -0.22
Anisotropic B[2][2] -0.34
Anisotropic B[2][3] -0.68
Anisotropic B[3][3] 0.56
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 5.576
r_scbond_it 3.665
r_mcangle_it 2.427
r_mcbond_it 1.524
r_gen_planes_refined 0.016
r_chiral_restr 0.265
r_dihedral_angle_4_deg 18.954
r_dihedral_angle_3_deg 15.491
r_dihedral_angle_2_deg 34.699
r_dihedral_angle_1_deg 6.076
r_angle_refined_deg 2.669
r_bond_refined_d 0.031
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6924
Nucleic Acid Atoms 0
Heterogen Atoms 144
Solvent Atoms 504

Software

Computing
Computing Package Purpose
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHASES Structure Solution
REFMAC 5.5.0102 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.5.0102 refinement
PHASES model building
ADSC version: Quantum data collection