X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Sitting Drop
pH 5.8
Temperature 292.0
Details PEG6000, KCL, NH4CL, MGCl2, pH 5.80, sitting drop, temperature 292K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 212.33 α = 90
b = 299.62 β = 90
c = 575.24 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC 54-pole harmonic emission undulator, a vertically focusing mirror and a horizontally focusing monochromator 2005-07-28
Diffraction Radiation
Monochromator Protocol
Si(111) single wavelength
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X29A 1.1 NSLS X29A

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
2.9 50 99.5 0.168 -- -- 7.2 -- 396496 -- -- 122.3
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)
2.9 2.97 94.2 -- -- -- 5.0 --

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 2.9 30.0 -- 0.0 -- 392516 3843 98.1 -- 0.186 0.186 0.233 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 2.9 3.08 -- 584 57797 0.346 0.379 0.016 87.9
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 61.8
Anisotropic B[1][1] -1.68
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 3.33
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.65
RMS Deviations
Key Refinement Restraint Deviation
c_scangle_it 2.2
c_scbond_it 1.39
c_mcangle_it 2.08
c_mcbond_it 1.18
c_improper_angle_d 1.29
c_bond_d 0.007
c_angle_deg 1.0
c_dihedral_angle_d 15.9
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.31
Luzzati Sigma A (Observed) 0.58
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.4
Luzzati Sigma A (R-Free Set) 0.61
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 29375
Nucleic Acid Atoms 61617
Heterogen Atoms 305
Solvent Atoms 7823

Software

Computing
Computing Package Purpose
CBASS Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL Data Reduction (data scaling)
CNS Structure Solution
CNS 1.0 Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.004 data extraction
CNS refinement
CNS molecular replacement
HKL data processing