X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 277.0
Details PEGMME 550, zinc sulfate, MES, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 277.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 59.6 α = 90
b = 30.45 β = 106.38
c = 47.38 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH flat cylindrically bent mirror 2001-10-18
Diffraction Radiation
Monochromator Protocol
Si (111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X9A 0.97899 NSLS X9A

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 22.73 99.8 0.045 0.045 -- 3.9 5657 5657 0.0 -3.0 11.0
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)
2.0 2.03 97.8 0.164 0.164 5.3 3.8 271

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 2.0 22.73 0.0 2.0 5672 5603 403 98.8 0.209 0.207 0.203 0.254 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 2.0 2.09 690 46 644 0.205 0.203 0.03 96.4
X Ray Diffraction 2.09 2.2 683 49 634 0.216 0.218 0.031 98.6
X Ray Diffraction 2.2 2.34 690 49 641 0.215 0.215 0.031 98.4
X Ray Diffraction 2.34 2.52 690 43 647 0.222 0.222 0.034 99.0
X Ray Diffraction 2.52 2.77 713 59 654 0.175 0.175 0.023 98.9
X Ray Diffraction 2.77 3.17 688 43 645 0.208 0.208 0.032 99.1
X Ray Diffraction 3.17 3.99 708 60 648 0.204 0.206 0.027 99.3
X Ray Diffraction 3.99 22.73 741 54 687 0.198 0.197 0.027 99.3
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic
Mean Isotropic B 25.29
Anisotropic B[1][1] 2.63
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 1.14
Anisotropic B[2][2] -0.11
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.52
RMS Deviations
Key Refinement Restraint Deviation
x_mcangle_it 3.061
x_mcbond_it 2.034
x_scangle_it 4.886
x_torsion_impr_deg 0.66
x_torsion_deg 18.4
x_angle_deg 1.0
x_bond_d 0.005
x_scbond_it 3.289
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.21
Luzzati Sigma A (Observed) 0.09
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.27
Luzzati Sigma A (R-Free Set) 0.22
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 707
Nucleic Acid Atoms 0
Heterogen Atoms 11
Solvent Atoms 56

Software

Software
Software Name Purpose
CNS refinement version: 1.0
DENZO data reduction
SCALEPACK data scaling
AMoRE phasing