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_torsion_impr_deg 0.75
x_torsion_deg 21.8
x_angle_deg 1.3
x_bond_d 0.007
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

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
CNS Structure Solution
CNS 1.0 Structure Refinement
Software
Software Name Purpose
Crystallography & NMR System version: 1.0 refinement