X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5.5
Temperature 293.0
Details ammonium sulfate, sodium acetate, pH 5.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 225.3 α = 90
b = 225.3 β = 90
c = 225.3 γ = 90
Symmetry
Space Group P 21 3

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 toroidal mirrors 2000-02-02
CCD MARRESEARCH collimating and focusing mirrors 1999-09-15
Diffraction Radiation
Monochromator Protocol
diamond (111) SINGLE WAVELENGTH
Si(111) channel cut MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-2 0.933 ESRF ID14-2
SYNCHROTRON ESRF BEAMLINE BM14 0.992, 1.7387, 1.74 ESRF BM14

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
1.95 30 98.9 0.066 -- -- 3.3 271259 271259 0.0 0.0 28.0
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)
1.95 2.02 97.6 0.343 -- 2.1 3.1 --

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
MAD 1.95 30.0 0.0 0.0 265820 265820 5260 98.9 -- 0.214 0.214 0.254 thin resolution shells
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 1.95 2.02 26867 -- -- 0.237 -- -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model anisotropic
Mean Isotropic B 31.6
RMS Deviations
Key Refinement Restraint Deviation
s_zero_chiral_vol 0.025
s_anti_bump_dis_restr 0.071
s_from_restr_planes 0.019
s_non_zero_chiral_vol 0.031
s_bond_d 0.011
s_angle_d 0.025
Coordinate Error
Parameter Value
Occupancy Sum Non Hydrogen 24247.9
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 21300
Nucleic Acid Atoms 0
Heterogen Atoms 829
Solvent Atoms 1890

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
SHAKE-N-BAKE, MLPHARE, DM Structure Solution
SHELXL-97 Structure Refinement
Software
Software Name Purpose
SHELXL-97 refinement
SnB/MLPHARE/DM model building
SCALA data reduction
DENZO data collection