X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.4
Temperature 277.0
Details 4% PEG monomethyl ether 5000, 50 mM potassium chloride, 50 mM sodium chloride, 1 mM DTT, 50 mM bicine, pH 8.4, VAPOR DIFFUSION, HANGING DROP, temperature 277.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 60.82 α = 90
b = 98.7 β = 101.93
c = 50.89 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
CCD CUSTOM-MADE -- 1999-08-29
Diffraction Radiation
Monochromator Protocol
SI 111 MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 1.00599 APS 19-ID

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
1.74 28.79 99.7 0.066 -- -- 3.72 -- 60668 1.0 1.0 22.0
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)
1.74 1.77 99.4 0.339 -- 3.4 3.63 2974

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 1.74 29.75 0.0 0.0 -- 59974 2417 99.6 0.199 0.199 0.198 0.221 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 1.74 1.826 8029 306 -- 0.224 0.289 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 27.7
Anisotropic B[1][1] 0.95
Anisotropic B[1][2] 0.7
Anisotropic B[1][3] -1.66
Anisotropic B[2][2] 0.0
Anisotropic B[2][3] -0.19
Anisotropic B[3][3] 0.0
RMS Deviations
Key Refinement Restraint Deviation
p_bond_d 0.013
p_planar_d 0.031
p_angle_d 0.027
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.18
Luzzati Sigma A (Observed) 0.11
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.19
Luzzati Sigma A (R-Free Set) 0.13
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3805
Nucleic Acid Atoms 0
Heterogen Atoms 56
Solvent Atoms 361

Software

Computing
Computing Package Purpose
HKL-2000 Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
CNS Structure Solution
REFMAC Structure Refinement
Software
Software Name Purpose
REFMAC refinement
HKL2000 data collection
SCALEPACK data reduction
CNS model building