X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.8
Details pH 6.8

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 189.1 α = 90
b = 210.5 β = 90
c = 178.6 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 283
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE FUJI MIRROR 1996-05-19
Diffraction Radiation
Monochromator Protocol
SI(111) --
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PHOTON FACTORY BEAMLINE BL-6A -- PHOTON FACTORY BL-6A

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
2.35 100 89.2 0.062 -- -- 4.4 -- 270061 -- 1.0 36.56
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)
2.35 2.46 72.0 0.32 -- 2.0 1.9 --

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
MULTIPLE ISOMORPHOUS REPLACEMENT 2.35 15.0 -- 2.0 -- 263548 13086 89.832 -- 0.203 0.203 0.247 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 2.35 2.46 -- 1316 25165 0.288 0.302 0.008 72.83
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model GAUSS
Mean Isotropic B 40.1
Anisotropic B[1][1] 1.1672
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 3.1426
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -4.3098
RMS Deviations
Key Refinement Restraint Deviation
x_improper_angle_d 1.716
x_bond_d 0.015
x_angle_deg 2.158
x_dihedral_angle_d 25.2
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.3
Luzzati Resolution Cutoff (Low) 15.0
Luzzati ESD (R-Free Set) 0.35
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 28578
Nucleic Acid Atoms 0
Heterogen Atoms 252
Solvent Atoms 0

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK AND TSUKI SCALE (LOCAL) Data Reduction (data scaling)
X-PLOR 3.84 Structure Solution
X-PLOR 3.84 Structure Refinement
Software
Software Name Purpose
X-PLOR version: 3.84 refinement
X-PLOR version: 3.84 model building
TSUKI version: SCALE (LOCAL) data reduction
SCALEPACK data reduction
DENZO data collection