X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.25
Temperature 277.0
Details PEG 1000, ammonium sulfate, sodium citrate, glycerol, beta-mercaptoethanol, pH 5.25, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 50.24 α = 90
b = 57.06 β = 90
c = 99.01 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 -- 2000-06-27
Diffraction Radiation
Monochromator Protocol
-- MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL9-2 0.92537, 0.97929, 0.97945 SSRL BL9-2

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
2.4 50 98.6 0.036 -- -- 3.6 21501 21210 0.0 0.0 50.3
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)
2.4 2.49 90.9 0.219 -- 5.3 3.6 --

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 2.4 50.0 0.0 0.0 21501 20615 1906 95.9 -- -- 0.231 0.274 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 2.4 2.51 2442 225 2217 0.305 0.299 0.02 90.9
X Ray Diffraction 2.51 2.64 2508 224 2284 0.323 0.312 0.021 92.3
X Ray Diffraction 2.64 2.81 2506 227 2279 0.29 0.281 0.019 94.0
X Ray Diffraction 2.81 3.02 2603 247 2356 0.287 0.285 0.018 97.0
X Ray Diffraction 3.02 3.33 2645 227 2418 0.254 0.262 0.017 98.2
X Ray Diffraction 3.33 3.81 2663 245 2418 0.258 0.268 0.017 98.3
X Ray Diffraction 3.81 4.8 2655 233 2422 0.191 0.204 0.013 99.2
X Ray Diffraction 4.8 50.0 2593 278 2315 0.191 0.187 0.011 96.6
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model restrained
Mean Isotropic B 57.1
Anisotropic B[1][1] 16.45
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.83
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -19.28
RMS Deviations
Key Refinement Restraint Deviation
x_bond_d 0.007
x_torsion_deg 21.8
x_torsion_impr_deg 0.75
x_angle_deg 1.3
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.35
Luzzati Sigma A (Observed) 0.33
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.42
Luzzati Sigma A (R-Free Set) 0.42
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1953
Nucleic Acid Atoms 0
Heterogen Atoms 12
Solvent Atoms 64

Software

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