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 1996-07-21
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
2.8 100 97.5 0.114 -- -- 9.5 -- 173384 -- 1.0 33.06
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)
2.8 2.9 85.0 0.375 -- 3.5 3.3 --

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 2.8 7.0 -- 1.0 -- 159061 7149 97.35 -- 0.213 0.213 0.256 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 2.8 2.92 -- 630 16871 0.35 0.367 0.014 86.16
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 31.09
RMS Deviations
Key Refinement Restraint Deviation
x_scbond_it 2.0
x_mcbond_it 1.5
x_improper_angle_d 1.705
x_bond_d 0.014
x_angle_deg 2.084
x_dihedral_angle_d 26.14
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.32
Luzzati Resolution Cutoff (Low) 7.0
Luzzati ESD (R-Free Set) 0.4
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 28472
Nucleic Acid Atoms 0
Heterogen Atoms 256
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