X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6
Temperature 290.0
Details 100MM SODIUM CITRATE BUFFER, PH 5.6, CONTAINING 200MM AMMONIUM ACETATE AND 26% PEG 4000. MIXED IN EQUAL VOLUME WITH AHPD (4.5 MG/ML) IN 25MM MOPS BUFFER, PH 7.2, CONTAINING 50MM KCL, 10% GLYCEROL, 0.1MM EDTA, VAPOR DIFFUSION, HANGING DROP, temperature 290.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 96.6 α = 90
b = 62.18 β = 121.81
c = 89.48 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 110
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 mirrors 2002-04-16
Diffraction Radiation
Monochromator Protocol
Single crystal Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SRS BEAMLINE PX9.6 0.87 SRS PX9.6

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 50 92.5 0.11 -- -- 3.42 18648 18396 2.0 2.0 32.6
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 2.38 70.3 0.24 -- 2.94 3.0 --

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
MOLECULAR REPLACEMENT 2.3 50.0 -- 2.0 18396 16580 1816 92.5 0.196 0.19 0.1845 0.286 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 2.38 1411 142 -- 0.2747 0.3572 0.006 70.3
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model restrained
Mean Isotropic B 44.14
Anisotropic B[1][1] -17.05
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 1.52
Anisotropic B[2][2] 18.6
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.55
RMS Deviations
Key Refinement Restraint Deviation
c_bond_d 0.008
c_dihedral_angle_d 18.83
c_mcangle_it 4.588
c_improper_angle_d 0.84
c_scbond_it 4.489
c_mcbond_it 2.971
c_angle_deg 1.3
c_scangle_it 6.539
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.27
Luzzati Sigma A (Observed) 0.35
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.4
Luzzati Sigma A (R-Free Set) 0.44
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3887
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 364

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
CNS 1.1 Structure Solution
CNS 1.1 Structure Refinement
Software
Software Name Purpose
CNS version: 1.1 model building
CNS version: 1.1 refinement
DENZO data collection
SCALEPACK data reduction