X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 291.0
Details PEG 4000, isopropanol, Hepers, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 93.28 α = 90
b = 93.28 β = 90
c = 39.43 γ = 120
Symmetry
Space Group P 32

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2001-09-20
Diffraction Radiation
Monochromator Protocol
MIRROR SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL41XU 0.9 SPRING-8 BL41XU

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 20 100.0 0.081 0.074 -- 5.7 -- 25949 -- 3.0 42.5
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)
2.0 2.11 99.9 0.349 0.317 2.4 5.7 3842

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 2.0 10.0 0.0 0.0 25746 25949 2588 100.0 0.101 -- 0.185 0.236 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 2.0 2.07 2638 309 2329 0.201 0.272 -- 100.0
X Ray Diffraction 2.15 2.7 2551 234 -- 0.189 0.274 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic
Mean Isotropic B 28.8
Anisotropic B[1][1] 2.749
Anisotropic B[1][2] 0.133
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.749
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -5.498
RMS Deviations
Key Refinement Restraint Deviation
c_dihedral_angle_d 26.76
c_bond_d 0.009
c_mcangle_it 4.026
c_improper_angle_d 1.148
c_mcbond_it 3.101
c_angle_deg 1.628
c_scbond_it 4.906
c_scangle_it 6.581
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.21
Luzzati Sigma A (Observed) 0.108
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.28
Luzzati Sigma A (R-Free Set) 0.193
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3155
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 279

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
MOLREP Structure Solution
CNS 1.0 Structure Refinement
Software
Software Name Purpose
molrep model building
MOSFLM data collection
CNS version: 1.0 refinement
SCALA data reduction