X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Microseeding
pH 8.5
Details CRYSTALS FROM MICROSEEDING USING 24% PEG 8000, 5MM MNCL2, 100MM TRIS/HCL, PH 8.5, microseeding

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 59.2 α = 90
b = 127 β = 90
c = 139.6 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 290
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MAR scanner 300 mm plate TOROIDAL MIRROR 1994-09
Diffraction Radiation
Monochromator Protocol
SI(111) --
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID2 -- ESRF ID2

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
2.5 24.5 98.6 0.125 -- -- 2.3 -- 36775 -- -- 53.3
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)
2.5 2.59 96.7 0.379 -- 6.8 2.3 --

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
MIR 2.5 8.0 -- 2.0 -- 36720 1449 98.1 -- 0.22 0.22 0.265 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 2.5 2.54 -- 50 1452 0.359 0.488 0.07 85.8
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 38.5
RMS Deviations
Key Refinement Restraint Deviation
x_scangle_it 2.5
x_scbond_it 2.0
x_mcangle_it 2.0
x_mcbond_it 1.5
x_improper_angle_d 1.3
x_bond_d 0.01
x_angle_deg 1.4
x_dihedral_angle_d 24.5
Coordinate Error
Parameter Value
Luzzati Sigma A (Observed) 0.45
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5278
Nucleic Acid Atoms 0
Heterogen Atoms 4
Solvent Atoms 194

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
DM, MLPHARE Structure Solution
X-PLOR 3.1 Structure Refinement
Software
Software Name Purpose
X-PLOR version: 3.1 refinement
MLPHARE model building
DM model building