X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 298.0
Details PEG 4000, isopropanol calcium chloride, Tris, NADPH , pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 69.83 α = 90
b = 78.39 β = 90
c = 81.6 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2003-04-01
Diffraction Radiation
Monochromator Protocol
SI MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X4A 0.97917, 0.97942, 0.96864 NSLS X4A

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
2.66 17.97 98.9 0.076 0.076 -- 6.0 24404 n/a 0.0 -3.0 27.7
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)
2.65 2.74 99.7 0.16 0.16 15.0 6.0 --

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
MAD 2.66 17.97 -- 0.0 -- 24404 1204 97.9 -- -- 0.197 0.228 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 2.66 2.78 3084 140 2944 0.222 0.253 0.021 98.4
X Ray Diffraction 2.78 2.92 3088 170 2918 0.232 0.312 0.024 98.6
X Ray Diffraction 2.92 3.1 3044 153 2891 0.226 0.313 0.025 98.5
X Ray Diffraction 3.1 3.34 3072 147 2925 0.214 0.268 0.022 98.1
X Ray Diffraction 3.34 3.68 3061 129 2932 0.197 0.183 0.016 98.0
X Ray Diffraction 3.68 4.2 3040 166 2874 0.172 0.189 0.015 97.8
X Ray Diffraction 4.2 5.27 3030 161 2869 0.166 0.193 0.015 97.3
X Ray Diffraction 5.27 17.97 2985 138 2847 0.203 0.227 0.019 95.8
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 27.68
Anisotropic B[1][1] 3.8
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.57
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.23
RMS Deviations
Key Refinement Restraint Deviation
x_torsion_impr_deg 0.81
x_torsion_deg 22.7
x_angle_deg 1.4
x_bond_d 0.007
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.27
Luzzati Sigma A (Observed) 0.25
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.34
Luzzati Sigma A (R-Free Set) 0.34
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2633
Nucleic Acid Atoms 0
Heterogen Atoms 1
Solvent Atoms 141

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
SOLVE/RESOLVE Structure Solution
CNS 1.1 Structure Refinement
Software
Software Name Purpose
Crystallography & NMR System version: 1.1 refinement