X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8
Temperature 298.0
Details HEPES, PEG 4000, magnesium chloride, pH 8.0, VAPOR DIFFUSION, SITTING DROP at 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 47.72 α = 90
b = 72.47 β = 90
c = 82.73 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2001-03-06
Diffraction Radiation
Monochromator Protocol
-- 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
2.6 39.84 99.1 0.066 -- -- 4.2 8506 8506 -- 1.6 70.0
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)
2.6 2.74 99.4 0.475 -- 1.6 4.2 --

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 2.6 81.65 -- 0.0 8721 8721 475 98.84 -- 0.173 0.169 0.251 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 2.6 2.67 686 42 -- 0.252 0.361 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic
Mean Isotropic B 36.35
Anisotropic B[1][1] 2.32
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -5.65
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 3.33
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.023
p_scbond_it 1.525
p_scangle_it 3.59
r_angle_refined_deg 2.093
p_mcangle_it 1.525
p_mcbond_it 0.871
Coordinate Error
Parameter Value
Luzzati ESD (R-Free Set) 0.354
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2287
Nucleic Acid Atoms 0
Heterogen Atoms 54
Solvent Atoms 80

Software

Software
Software Name Purpose
SOLVE phasing
REFMAC refinement version: 5.0
MOSFLM data reduction
CCP4 data scaling version: (SCALA)