X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 295.0
Details sodium-potassium Phospate buffer, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 295.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 41.3 α = 90
b = 61.69 β = 90
c = 89.14 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 MARRESEARCH mirrors 2001-08-06
Diffraction Radiation
Monochromator Protocol
graphite SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 5ID-B 1.00000 APS 5ID-B

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
1.73 15 95.3 0.05 -- -- 5.4 23324 23324 0.0 -3.0 23.2
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)
1.73 1.79 98.0 0.25 -- 6.1 4.9 2342

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 1.73 15.0 0.0 0.0 23324 22431 2152 91.9 -- -- 0.162 0.193 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 1.73 1.79 1972 186 1972 0.2199 0.2276 -- 90.26
X Ray Diffraction 1.79 1.86 1982 200 -- 0.1909 0.2336 -- 91.0
X Ray Diffraction 1.86 1.95 1930 196 -- 0.2084 0.2491 -- 89.0
X Ray Diffraction 1.95 2.05 2015 227 -- 0.1547 0.1894 -- 93.0
X Ray Diffraction 2.05 2.18 2066 234 -- 0.1628 0.2112 -- 95.0
X Ray Diffraction 2.18 2.35 2057 223 -- 0.1565 0.1936 -- 94.0
X Ray Diffraction 2.35 2.58 2069 235 -- 0.152 0.1969 -- 94.0
X Ray Diffraction 2.58 2.95 2068 216 -- 0.1571 0.1949 -- 93.0
X Ray Diffraction 2.95 3.71 2070 206 -- 0.1413 0.1816 -- 92.0
X Ray Diffraction 3.71 15.0 2050 229 -- 0.1535 0.1636 -- 88.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 15.7
Anisotropic B[1][1] 1.57
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -3.418
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.848
RMS Deviations
Key Refinement Restraint Deviation
c_dihedral_angle_d 21.9
c_angle_deg 1.52
c_improper_angle_d 1.0
c_bond_d 0.009
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.16
Luzzati Sigma A (Observed) 0.19
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.11
Luzzati Sigma A (R-Free Set) 0.13
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2024
Nucleic Acid Atoms 0
Heterogen Atoms 25
Solvent Atoms 418

Software

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