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 = 101.97 α = 90
b = 101.97 β = 90
c = 122.3 γ = 120
Symmetry
Space Group P 31 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IV -- 2000-04-01
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE BM1A 1.5418 ESRF BM1A

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
1.59 14.98 99.8 0.04 -- -- -- 98323 577315 0.0 0.0 19.4
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)
1.59 1.62 99.7 0.212 -- 6.9 -- --

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
FOURIER SYNTHESIS 1.59 14.98 0.0 0.0 98730 98323 2024 99.6 0.199 0.199 0.197 0.204 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 1.59 1.63 6478 141 6337 0.229 0.253 0.021 98.7
X Ray Diffraction 1.63 1.67 6483 149 6334 0.227 0.231 0.019 99.3
X Ray Diffraction 1.67 1.71 6493 153 6340 0.229 0.253 0.02 99.1
X Ray Diffraction 1.71 1.76 6527 119 6408 0.22 0.265 0.024 99.3
X Ray Diffraction 1.76 1.82 6478 125 6353 0.226 0.263 0.024 99.1
X Ray Diffraction 1.82 1.89 6523 128 6395 0.221 0.234 0.021 99.3
X Ray Diffraction 1.89 1.96 6510 126 6384 0.213 0.218 0.019 99.1
X Ray Diffraction 1.96 2.05 6485 137 6348 0.208 0.215 0.018 99.3
X Ray Diffraction 2.05 2.16 6533 138 6395 0.204 0.218 0.019 99.1
X Ray Diffraction 2.16 2.29 6530 121 6409 0.197 0.218 0.02 99.4
X Ray Diffraction 2.29 2.47 6549 150 6399 0.206 0.217 0.018 99.4
X Ray Diffraction 2.47 2.72 6579 129 6450 0.214 0.227 0.02 99.5
X Ray Diffraction 2.72 3.11 6616 127 6489 0.21 0.223 0.02 99.6
X Ray Diffraction 3.11 3.9 6683 137 6546 0.174 0.161 0.014 99.8
X Ray Diffraction 3.9 14.98 6856 144 6712 0.167 0.175 0.015 99.8
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 23.39
Anisotropic B[1][1] 0.95
Anisotropic B[1][2] 0.51
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.95
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.9
RMS Deviations
Key Refinement Restraint Deviation
x_torsion_impr_deg 0.65
x_angle_deg 1.2
x_torsion_deg 25.5
x_bond_d 0.005
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.18
Luzzati Sigma A (Observed) 0.11
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.2
Luzzati Sigma A (R-Free Set) 0.15
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3519
Nucleic Acid Atoms 0
Heterogen Atoms 8
Solvent Atoms 521

Software

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