X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Microbatch
pH 4.5
Temperature 297.0
Details PEG 4000, NH4OAc, pH 4.5, Microbatch, temperature 297K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 58.5 α = 90
b = 156.2 β = 90
c = 164.59 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 Nonius Kappa CCD Mirrors 2008-09-01
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE Cu FINE FOCUS 1.54 -- --

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 19.9 96.5 0.047 -- -- -- 57640 57735 1.0 -- 45.8
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 2.49 86.7 0.248 -- -- -- 5107

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
FOURIER SYNTHESIS 2.4 19.9 -- 1.0 59702 57640 2903 96.5 -- -- 0.205 0.239 --
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 2.51 6475 309 6166 0.274 0.306 0.017 88.1
X Ray Diffraction 2.51 2.64 6761 349 6412 0.267 0.323 0.017 91.3
X Ray Diffraction 2.64 2.81 6975 312 6663 0.248 0.299 0.017 94.6
X Ray Diffraction 2.81 3.02 7258 381 6877 0.236 0.271 0.014 98.2
X Ray Diffraction 3.02 3.33 7395 386 7009 0.227 0.278 0.014 99.6
X Ray Diffraction 3.33 3.81 7457 389 7068 0.2 0.235 0.012 99.7
X Ray Diffraction 3.81 4.78 7522 382 7140 0.164 0.192 0.01 99.9
X Ray Diffraction 4.78 19.9 7797 395 7402 0.186 0.21 0.011 99.9
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 49.2
Anisotropic B[1][1] 13.88
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -3.28
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -10.6
RMS Deviations
Key Refinement Restraint Deviation
c_scangle_it 2.824
c_mcangle_it 2.665
c_scbond_it 1.878
c_mcbond_it 1.527
c_angle_d 1.34
c_bond_d 0.007
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.28
Luzzati Sigma A (Observed) 0.3
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.34
Luzzati Sigma A (R-Free Set) 0.35
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 9068
Nucleic Acid Atoms 0
Heterogen Atoms 158
Solvent Atoms 441

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
HKL Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
CNS Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.10 data extraction
CNS version: 1.3 refinement
SCALEPACK data reduction