X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 318.0
Details ammonium dihydrogen phosphate, TRIS, cadmium chloride, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 318K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 128.4 α = 90
b = 128.4 β = 90
c = 68.32 γ = 120
Symmetry
Space Group P 65

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH mirrors 2000-08-09
Diffraction Radiation
Monochromator Protocol
MaxFlux mirror SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU 1.54 -- --

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
2.25 46.79 98.4 -- -- -- -- 30101 30101 0.0 0.0 48.0
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)
2.25 2.33 96.5 -- -- -- -- --

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
SAS 2.3 46.79 -- 0.0 28119 28119 2794 98.2 0.227 0.227 0.223 0.264 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 2.3 2.4 3408 342 3066 0.318 0.324 0.017 95.7
X Ray Diffraction 2.4 2.53 3449 356 3093 0.296 0.293 0.016 96.3
X Ray Diffraction 2.53 2.69 3500 333 3167 0.25 0.251 0.014 98.0
X Ray Diffraction 2.69 2.9 3491 348 3143 0.233 0.236 0.013 98.0
X Ray Diffraction 2.9 3.19 3532 331 3201 0.228 0.235 0.013 98.8
X Ray Diffraction 3.19 3.65 3567 361 3206 0.238 0.243 0.013 99.2
X Ray Diffraction 3.65 4.6 3578 351 3227 0.197 0.202 0.011 99.3
X Ray Diffraction 4.6 46.79 3655 372 3283 0.209 0.206 0.011 99.4
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 42.64
Anisotropic B[1][1] 6.84
Anisotropic B[1][2] 0.65
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 6.84
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -13.69
RMS Deviations
Key Refinement Restraint Deviation
x_torsion_impr_deg 0.8
x_bond_d 0.007
x_torsion_deg 30.1
x_angle_deg 1.3
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.29
Luzzati Sigma A (Observed) 0.31
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.35
Luzzati Sigma A (R-Free Set) 0.41
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2460
Nucleic Acid Atoms 0
Heterogen Atoms 2
Solvent Atoms 181

Software

Software
Software Name Purpose
CNS refinement version: 1.0
XDS data reduction
SCALEPACK data scaling
SOLVE phasing