X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6
Temperature 293.0
Details potassium cacodylate, potassium chloride, manganese chloride, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 105.84 α = 90
b = 109.51 β = 90
c = 180.92 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 ADSC QUANTUM 315 -- 2009-11-23
Diffraction Radiation
Monochromator Protocol
Double-crystal monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL41XU 1.000 SPRING-8 BL41XU

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
2.5 50 99.8 -- 0.089 -- 7.1 73682 73546 0.0 0.0 52.4
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)
2.5 2.54 99.7 -- 0.918 2.8 6.5 3623

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
MOLECULAR REPLACEMENT 2.5 50.0 -- 0.0 73400 73269 3693 -- 0.271 0.241 0.24 0.27 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 2.5 2.59 6852 371 -- 0.325 0.39 -- --
X Ray Diffraction 2.59 2.69 6852 362 -- 0.295 0.336 -- --
X Ray Diffraction 2.69 2.82 6888 382 -- 0.293 0.361 -- --
X Ray Diffraction 2.82 2.96 6905 345 -- 0.274 0.324 -- --
X Ray Diffraction 2.96 3.15 6958 330 -- 0.265 0.288 -- --
X Ray Diffraction 3.15 3.39 6924 361 -- 0.261 0.306 -- --
X Ray Diffraction 3.39 3.73 6973 355 -- 0.234 0.26 -- --
X Ray Diffraction 3.73 4.27 6952 402 -- 0.219 0.244 -- --
X Ray Diffraction 4.27 5.38 7056 374 -- 0.207 0.233 -- --
X Ray Diffraction 5.38 50.0 7216 411 -- 0.217 0.237 -- --
RMS Deviations
Key Refinement Restraint Deviation
c_improper_angle_d 1.03
c_dihedral_angle_d 20.2
c_bond_d 0.006
c_angle_deg 1.11
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.35
Luzzati Sigma A (Observed) 0.35
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.42
Luzzati Sigma A (R-Free Set) 0.47
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6023
Nucleic Acid Atoms 5980
Heterogen Atoms 12
Solvent Atoms 183

Software

Computing
Computing Package Purpose
BSS Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
Molrep Structure Solution
CNS 1.2.1 Structure Refinement
Software
Software Name Purpose
CNS version: 1.2.1 refinement
Molrep model building
BSS data collection