X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 6.2
Temperature 294.0
Details 24% 1,2-propanediol, 100 mM sodium potassium phosphate buffer. To incorporate Calcium, the crystals were transferred to 24% 1,2-propanediol and MES buffer and soaked for 1-2 days in 90 mM CaCl2, pH 6.2, VAPOR DIFFUSION, temperature 294K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 100.17 α = 90
b = 70.76 β = 106.11
c = 133.82 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH -- 1997-06-01
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL9-1 -- SSRL BL9-1

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 20.66 91.5 0.043 -- -- -- -- 111498 -- 2.0 23.3
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 2.03 76.0 0.669 -- -- -- --

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
-- 2.01 20.66 -- 0.0 -- 110289 5532 92.0 -- -- 0.208 0.266 Same as 1ggu
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 2.01 2.14 -- 865 16069 0.324 0.36 0.012 85.3
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 42.4
Anisotropic B[1][1] -8.16
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 3.11
Anisotropic B[2][2] 7.87
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.29
RMS Deviations
Key Refinement Restraint Deviation
p_scangle_it 3.72
p_mcbond_it 2.33
p_scbond_it 2.65
p_mcangle_it 3.26
p_bond_d 0.013
p_angle_d 2.7
c_improper_angle_d 2.7
c_dihedral_angle_d 27.7
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.25
Luzzati Sigma A (Observed) 0.33
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.34
Luzzati Sigma A (R-Free Set) 0.37
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 11427
Nucleic Acid Atoms 0
Heterogen Atoms 7
Solvent Atoms 1159

Software

Software
Software Name Purpose
X-PLOR model building
REFMAC refinement
DENZO data reduction
SCALEPACK data scaling
X-PLOR phasing