X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 6.5
Temperature 293.0
Details NaCl, pH 6.5, VAPOR DIFFUSION, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 101.89 α = 90
b = 101.89 β = 90
c = 122.01 γ = 120
Symmetry
Space Group P 31 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 110
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IV Yale mirrors 1999-03-01
Diffraction Radiation
Monochromator Protocol
yale mirrors, Ni/filter SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU300 1.5418 -- --

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 39.1 99.5 0.084 0.084 -- -- 49161 292821 0.0 0.0 17.0
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)
2.0 2.03 99.8 0.49 -- 3.0 -- --

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 2.0 40.0 0.0 0.0 49962 49123 3917 98.3 0.199 0.199 0.195 0.214 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 2.0 2.06 3511 281 3230 0.236 0.244 0.015 85.6
X Ray Diffraction 2.06 2.13 4144 318 3826 0.217 0.249 0.014 99.7
X Ray Diffraction 2.13 2.2 4080 320 3760 0.207 0.226 0.013 99.8
X Ray Diffraction 2.2 2.29 4111 311 3800 0.203 0.22 0.012 99.8
X Ray Diffraction 2.29 2.39 4135 315 3820 0.208 0.233 0.013 99.7
X Ray Diffraction 2.39 2.52 4139 350 3789 0.205 0.231 0.012 100.0
X Ray Diffraction 2.52 2.68 4134 349 3785 0.204 0.224 0.012 99.7
X Ray Diffraction 2.68 2.88 4140 329 3811 0.199 0.228 0.013 100.0
X Ray Diffraction 2.88 3.17 4185 323 3862 0.201 0.22 0.012 99.9
X Ray Diffraction 3.17 3.63 4177 361 3816 0.178 0.198 0.01 99.9
X Ray Diffraction 3.63 4.58 4178 313 3865 0.164 0.186 0.011 98.9
X Ray Diffraction 4.58 39.1 4189 347 3842 0.205 0.208 0.011 95.6
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic
Mean Isotropic B 24.68
Anisotropic B[1][1] 1.69
Anisotropic B[1][2] 1.82
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.69
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.39
RMS Deviations
Key Refinement Restraint Deviation
x_torsion_deg 25.4
x_torsion_impr_deg 0.59
c_angle_d 1.2
c_bond_d 0.005
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.21
Luzzati Sigma A (Observed) 0.15
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.24
Luzzati Sigma A (R-Free Set) 0.17
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3471
Nucleic Acid Atoms 0
Heterogen Atoms 13
Solvent Atoms 386

Software

Software
Software Name Purpose
CNS refinement version: 1.1
DENZO data reduction
SCALEPACK data scaling
CNS phasing