X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 4.1
Details PROTEIN WAS CRYSTALLIZED FROM 12.5% PEGMME 550, 5 MM ZNSO4, 50 MM ACETIC ACID/SODIUM ACETATE BUFFER, PH 4.1

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 30.56 α = 90
b = 34.93 β = 90
c = 110.78 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 277
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IIC COLLIMATOR 1996-01
Diffraction Radiation
Monochromator Protocol
GRAPHITE(002) --
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RUH3R -- -- --

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
2.06 -- 87.0 0.045 -- -- 3.7 -- 6999 -- 1.0 20.9
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)
2.06 2.25 83.0 0.11 -- -- 3.4 --

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 2.06 10.0 -- 1.0 -- 6792 742 87.8 -- 0.181 0.181 0.271 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 2.06 2.15 -- 92 640 0.285 0.286 0.03 79.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 28.0
RMS Deviations
Key Refinement Restraint Deviation
x_angle_deg 1.4
x_mcangle_it 2.45
x_improper_angle_d 1.34
x_scangle_it 5.31
x_scbond_it 3.34
x_bond_d 0.01
x_dihedral_angle_d 19.4
x_mcbond_it 1.58
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.22
Luzzati Sigma A (Observed) 0.26
Luzzati Resolution Cutoff (Low) 8.0
Luzzati ESD (R-Free Set) 0.32
Luzzati Sigma A (R-Free Set) 0.23
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 920
Nucleic Acid Atoms 0
Heterogen Atoms 1
Solvent Atoms 121

Software

Software
Software Name Purpose
X-PLOR model building version: 3.1
XTALVIEW refinement
X-PLOR refinement version: 3.1
PROCESS data reduction
PROCESS data scaling
X-PLOR phasing version: 3.1