X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 295.0
Details PEG 8000, sodium citrate, HEPES, 2-propanol, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 295.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 54.81 α = 89.65
b = 57.44 β = 69.34
c = 67.52 γ = 68.39
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS -- 1997-07-15
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU200 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
1.9 30 87.1 0.064 -- -- 3.5 48675 48672 0.0 0.0 12.8
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)
1.9 1.97 47.3 0.215 -- 4.2 2.8 2643

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
MR + MIR + MAD 1.9 30.0 -- 0.0 55885 48672 4922 87.1 -- -- 0.154 0.189 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 1.9 2.02 4542 494 -- 0.23 0.248 -- --
X Ray Diffraction 2.02 2.17 7437 820 -- 0.189 0.235 -- --
X Ray Diffraction 2.17 2.39 7690 869 -- 0.16 0.211 -- --
X Ray Diffraction 2.39 2.74 7844 893 -- 0.157 0.194 -- --
X Ray Diffraction 2.74 3.45 7996 936 -- 0.149 0.191 -- --
X Ray Diffraction 3.45 30.0 8241 910 -- 0.133 0.157 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic
Mean Isotropic B 21.6
RMS Deviations
Key Refinement Restraint Deviation
c_improper_angle_d 0.83
c_dihedral_angle_d 24.2
c_angle_deg 1.4
c_bond_d 0.006
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.17
Luzzati Sigma A (Observed) 0.18
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.21
Luzzati Sigma A (R-Free Set) 0.21
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5103
Nucleic Acid Atoms 0
Heterogen Atoms 93
Solvent Atoms 732

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE, SHARP Structure Solution
CNS Structure Refinement
Software
Software Name Purpose
CNS refinement
AMoRE version: + SHARP model building
SCALEPACK data reduction
DENZO data collection