X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.4
Temperature 277.0
Details ammonium sulfate 1.6M, MES 100mM; Crystals were obtained by mixing 1 microl (1.2mg.ml-1) of protein solution with an equal volume of reservoir solution; Crystal Size (300x200x100 microM3), pH 6.4, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 65.96 α = 90
b = 93.44 β = 90
c = 95.14 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 MARRESEARCH -- 2000-08-21
Diffraction Radiation
Monochromator Protocol
DOUBLE CRYSTAL FOCUSSING MONOCHROMATOR MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7A 0.97856, 0.95370, 0.97872 EMBL/DESY, HAMBURG BW7A

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 54.2 98.7 0.033 -- -- 3.7 23325 23239 0.0 0.0 41.5
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)
2.4 2.53 98.9 0.177 -- 3.6 3.7 3365

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 19.96 -- 0.0 -- 23149 1119 98.1 -- 0.224 0.224 0.255 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 2.55 -- 178 3646 0.29 0.304 0.023 99.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 43.8
Anisotropic B[1][1] 10.14
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.81
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -8.32
RMS Deviations
Key Refinement Restraint Deviation
c_bond_d 0.007
c_scbond_it 2.76
c_dihedral_angle_d 19.7
c_mcbond_it 0.99
c_improper_angle_d 0.87
c_angle_deg 1.2
c_scangle_it 3.98
c_mcangle_it 1.77
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.31
Luzzati Sigma A (Observed) 0.28
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.35
Luzzati Sigma A (R-Free Set) 0.32
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3076
Nucleic Acid Atoms 0
Heterogen Atoms 16
Solvent Atoms 144

Software

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