X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 298.0
Details PEG 4000, TRIS, magnesium chloride, DTT, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 56.51 α = 90
b = 71.43 β = 90
c = 85.74 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 298
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH OSMIC MIRRORS 1999-12-06
Diffraction Radiation
Monochromator Protocol
OSMIC MIRRORS SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU200H 1.5418 -- --

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
2.3 26.84 97.9 0.079 -- -- 2.8 15682 15703 0.0 0.0 23.5
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)
2.3 2.35 99.4 0.511 -- 2.0 2.7 1057

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
MOLECULAR REPLACEMENT 2.3 26.84 1.0 1.0 15992 14872 724 93.0 -- -- 0.215 0.233 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 2.3 2.4 1711 77 1634 0.29 0.32 0.033 86.7
X Ray Diffraction 2.4 2.53 1786 80 1706 0.279 0.297 0.031 90.9
X Ray Diffraction 2.53 2.69 1823 94 1729 0.27 0.304 0.028 92.5
X Ray Diffraction 2.69 2.9 1865 104 1761 0.261 0.251 0.026 94.7
X Ray Diffraction 2.9 3.19 1893 91 1802 0.246 0.263 0.026 95.3
X Ray Diffraction 3.19 3.65 1928 90 1838 0.202 0.214 0.021 96.6
X Ray Diffraction 3.65 4.59 1939 97 1842 0.176 0.207 0.018 96.0
X Ray Diffraction 4.59 26.84 1927 91 1836 0.186 0.202 0.019 90.6
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 41.62
Anisotropic B[1][1] 4.62
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -5.0
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.38
RMS Deviations
Key Refinement Restraint Deviation
x_torsion_impr_deg 0.82
x_torsion_deg 19.7
x_angle_deg 1.0
x_bond_d 0.009
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.29
Luzzati Sigma A (Observed) 0.31
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.32
Luzzati Sigma A (R-Free Set) 0.35
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2286
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 77

Software

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