X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5.3
Details PROTEIN WAS CRYSTALLISED AT PH 5.3 IN SITTING DROPS OF 0.05ML WITH 6-7MG/ML OF PROTEIN, 0.3MM EDTA, 15MM DITHIOTHREITOL, 10%(W/V) PEG6000 AND 0.01% NAN3 IN 0.1M NAAC., vapor diffusion - sitting drop

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 88.47 α = 90
b = 76.15 β = 90
c = 50.79 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 293
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH TOROIDAL MIRROR 1993-07
Diffraction Radiation
Monochromator Protocol
SI(111) --
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SRS BEAMLINE PX9.5 -- SRS PX9.5

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 8 99.0 0.054 -- -- 4.0 -- 13486 -- -- --
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 2.46 98.0 0.134 -- 5.4 3.5 --

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
MAD 2.4 8.0 -- 0.0 -- 13486 1374 99.63 -- 0.168 0.168 0.235 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 2.44 -- 56 560 0.2027 0.2964 -- 98.4
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 19.6
RMS Deviations
Key Refinement Restraint Deviation
x_improper_angle_d 1.428
x_bond_d 0.009
x_angle_deg 1.751
x_dihedral_angle_d 23.46
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.2
Luzzati ESD (R-Free Set) 0.35
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2268
Nucleic Acid Atoms 0
Heterogen Atoms 30
Solvent Atoms 177

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
CCP4 (AGROVATA, ROTAVATA) Data Reduction (data scaling)
MLPHARE Structure Solution
X-PLOR 3.1 Structure Refinement
Software
Software Name Purpose
X-PLOR version: 3.1 refinement
MLPHARE model building