X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7
Details R82C GVP WAS CRYSTALLIZED FROM SOLUTIONS CONTAINING 10 MG/ML PROTEIN, 35 MM TRIS (PH7.0), AND 4.7% PEG 4000 (W/V), EQUILIBRATED AGAINST 6% PEG 4000.

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 77.14 α = 90
b = 27.94 β = 102.5
c = 42.19 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 285
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU COLLIMATORS 1996-01
Diffraction Radiation
Monochromator Protocol
GRAPHITE(002) --
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RUH2R -- -- --

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 15 79.2 0.088 -- -- -- -- 4758 -- 2.0 20.8
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)
2.0 2.09 58.8 -- -- -- -- --

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
DIFFERENCE FOURIERS 2.0 8.0 -- 2.0 -- 4758 498 58.8 -- 0.181 0.181 0.284 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 2.0 2.09 -- 46 387 0.226 0.292 0.043 58.8
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 26.1
Anisotropic B[1][1] 1.6133
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.5283
Anisotropic B[2][2] -1.4416
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.1717
RMS Deviations
Key Refinement Restraint Deviation
x_scangle_it 6.78
x_scbond_it 5.03
x_mcangle_it 4.76
x_mcbond_it 3.38
x_improper_angle_d 1.54
x_bond_d 0.018
x_angle_deg 3.45
x_dihedral_angle_d 28.6
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.23
Luzzati Resolution Cutoff (Low) 8.0
Luzzati ESD (R-Free Set) 0.25
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 668
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 47

Software

Computing
Computing Package Purpose
R-AXIS IIC Data Reduction (intensity integration)
R-AXIS II Data Reduction (data scaling)
X-PLOR 3.1 Structure Solution
X-PLOR 3.1 Structure Refinement
Software
Software Name Purpose
X-PLOR version: 3.1 refinement
X-PLOR version: 3.1 model building