X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.5
Details PROTEIN WAS CRYSTALLIZED FROM 1.8M NA FORMATE, 100MM TRIS, PH 7.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 88.14 α = 90
b = 88.14 β = 90
c = 48.05 γ = 120
Symmetry
Space Group P 63

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU MIRRORS 1996-09
Diffraction Radiation
Monochromator Protocol
NI FILTER --
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
2.4 15 99.2 0.052 0.054 -- 5.4 -- 8404 -- 1.0 --
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)
2.4 2.44 99.5 0.221 0.263 8.5 4.5 --

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
MIR 2.4 8.0 -- 0.0 -- 8253 877 99.0 -- 0.185 0.185 0.283 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 2.4 2.51 -- 97 873 0.322 0.342 0.035 90.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 39.3
Anisotropic B[1][1] 1.27
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 5.74
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.81
RMS Deviations
Key Refinement Restraint Deviation
x_bond_d 0.009
x_dihedral_angle_d 20.38
x_improper_angle_d 1.38
x_angle_deg 1.77
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.25
Luzzati Resolution Cutoff (Low) 8.0
Luzzati ESD (R-Free Set) 0.32
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1003
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 71

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
MLPHARE phasing
X-PLOR refinement version: 3.1