X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.7
Temperature 293.0
Details 0.1M Na-Cacodylate pH 6.7, 0.87M Na-Citrate , VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 132.07 α = 90
b = 132.07 β = 90
c = 42.44 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 110
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r mirrors 2009-10-25
Diffraction Radiation
Monochromator Protocol
SI (311) MONOCHROMATOR SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID23-1 0.979400 ESRF ID23-1

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
2.22 66.04 99.0 0.084 0.084 -- 6.3 18993 18993 3.1 3.1 42.1
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)
2.22 2.34 95.5 0.539 0.539 3.1 4.3 2611

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 2.22 41.76 3.1 3.1 17976 17976 940 98.75 -- 0.21428 0.21234 0.25183 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 2.22 2.278 1246 64 1246 0.381 0.452 -- 93.71
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 39.413
Anisotropic B[1][1] 0.37
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.37
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.73
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_3_deg 16.398
r_scangle_it 3.068
r_dihedral_angle_2_deg 32.867
r_chiral_restr 0.071
r_dihedral_angle_1_deg 5.562
r_mcangle_it 1.201
r_scbond_it 1.752
r_gen_planes_refined 0.005
r_angle_refined_deg 1.174
r_bond_refined_d 0.01
r_dihedral_angle_4_deg 16.468
r_mcbond_it 0.625
Coordinate Error
Parameter Value
Luzzati ESD (R-Free Set) 0.191
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1905
Nucleic Acid Atoms 0
Heterogen Atoms 2
Solvent Atoms 98

Software

Software
Software Name Purpose
ADSC data collection version: Quantum
SHELXS phasing
REFMAC refinement version: 5.5.0110
MOSFLM data reduction
SCALA data scaling