X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.5
Details PROTEIN WAS CRYSTALLIZED FROM 3% POLYETHYLENEGLYCOL-MONOMETHYLETHER (PMME) 5000, 17.5% ETHYLENEGLYCOL, 2.5% MPD, 30 MM MES, PH 6.5; THEN SOAKED IN 10% PMME 5000, 20% ETHYLENEGLYCOL, 10% PEG 200, 200 MM AMMONIUM SULFATE, 30 MM MES, PH 6.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 59.14 α = 90
b = 59.14 β = 90
c = 58.11 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE FUJI MONOCHROMATOR 1996-06
Diffraction Radiation
Monochromator Protocol
-- --
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X4A 0.9686, 0.9876 NSLS X4A

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
1.95 10 97.1 -- 0.046 -- 7.1 -- 8604 -- -3.0 16.78
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)
1.95 2.0 98.7 -- 0.086 6.9 5.6 --

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 1.95 5.0 -- 0.0 8195 7807 388 97.1 -- -- 0.228 0.269 RANDOM
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 20.7
RMS Deviations
Key Refinement Restraint Deviation
p_special_tor 31.6
p_transverse_tor 22.6
p_staggered_tor 20.0
p_planar_tor 7.9
p_xyhbond_nbd 0.159
p_multtor_nbd 0.268
p_bond_d 0.017
p_angle_d 0.036
p_planar_d 0.037
p_mcbond_it 1.933
p_mcangle_it 2.605
p_scbond_it 1.696
p_scangle_it 2.943
p_plane_restr 0.016
p_chiral_restr 0.137
p_singtor_nbd 0.195
Coordinate Error
Parameter Value
Luzzati Sigma A (Observed) 0.31
Luzzati Resolution Cutoff (Low) 5.0
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 805
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 85

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
MADSYS Structure Solution
PROLSQ Structure Refinement
Software
Software Name Purpose
PROLSQ refinement
MADSYS model building