X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6
Temperature 291.0
Details PEG 2000, bis-tris, lithium sulfate, glycerol, pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 39.11 α = 101.07
b = 51.93 β = 96.96
c = 79.35 γ = 100.7
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2000-04-14
Diffraction Radiation
Monochromator Protocol
-- MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL1-5 0.97949, 0.97940, 0.97526 SSRL BL1-5

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 30 91.8 0.079 0.079 -- 5.6 22737 20867 0.0 2.0 31.8
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 2.44 75.1 0.171 0.2 6.2 3.6 873

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 30.0 0.0 0.0 20931 20931 1061 90.3 0.256 0.256 0.254 0.295 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 2210 113 2097 0.313 0.341 0.029 76.5
X Ray Diffraction 2.51 2.64 2387 109 2278 0.292 0.293 0.028 82.1
X Ray Diffraction 2.64 2.81 2522 133 2389 0.289 0.291 0.025 85.6
X Ray Diffraction 2.81 3.02 2580 129 2451 0.288 0.289 0.025 89.6
X Ray Diffraction 3.02 3.33 2720 133 2587 0.251 0.25 0.022 94.0
X Ray Diffraction 3.33 3.81 2827 136 2691 0.24 0.237 0.02 97.2
X Ray Diffraction 3.81 4.79 2850 173 2677 0.215 0.214 0.016 98.0
X Ray Diffraction 4.79 28.07 2860 137 2723 0.248 0.251 0.021 98.6
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic
Mean Isotropic B 43.04
Anisotropic B[1][1] 6.0
Anisotropic B[1][2] 10.0
Anisotropic B[1][3] 7.16
Anisotropic B[2][2] -9.37
Anisotropic B[2][3] -4.68
Anisotropic B[3][3] 3.37
RMS Deviations
Key Refinement Restraint Deviation
x_improper_angle_d 0.73
x_dihedral_angle_d 14.8
x_angle_deg 1.25
x_bond_d 0.007
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.33
Luzzati Sigma A (Observed) 0.37
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.4
Luzzati Sigma A (R-Free Set) 0.43
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4006
Nucleic Acid Atoms 0
Heterogen Atoms 5
Solvent Atoms 143

Software

Computing
Computing Package Purpose
SCALEPACK Data Reduction (data scaling)
MLPHARE Structure Solution
CNS 0.3 Structure Refinement
Software
Software Name Purpose
Crystallography & NMR System version: 1.0 refinement