X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 291.0
Details MPD, sodium chloride, HEPES, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 291.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 48.71 α = 90
b = 38 β = 99.35
c = 69.9 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 291
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH -- 2000-01-01
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU 1.5418 -- --

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 30 99.8 0.122 -- -- 9.0 8966 8966 0.0 0.0 30.5
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 2.59 100.0 0.403 -- 3.3 4.3 898

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 2.6 8.0 0.0 0.0 7706 7703 816 99.96 -- -- 0.184 0.225 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 2.6 2.69 780 71 -- 0.23 0.317 -- 100.0
X Ray Diffraction 2.69 2.79 750 77 -- 0.234 0.257 -- 100.0
X Ray Diffraction 2.79 2.91 782 91 -- 0.217 0.259 -- 99.9
X Ray Diffraction 2.91 3.06 756 89 -- 0.194 0.211 -- 100.0
X Ray Diffraction 3.06 3.24 756 80 -- 0.188 0.225 -- 100.0
X Ray Diffraction 3.24 3.47 773 72 -- 0.181 0.229 -- 99.7
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic
Mean Isotropic B 36.6
Anisotropic B[1][1] -1.7
Anisotropic B[1][2] 0.0
Anisotropic B[2][2] 1.7
Anisotropic B[2][3] 0.0
RMS Deviations
Key Refinement Restraint Deviation
c_angle_deg 1.247
c_dihedral_angle_d 23.924
c_bond_d 0.07
c_improper_angle_d 0.80594
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.26
Luzzati Sigma A (Observed) 0.26
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.32
Luzzati Sigma A (R-Free Set) 0.29
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1923
Nucleic Acid Atoms 0
Heterogen Atoms 3
Solvent Atoms 94

Software

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