X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 295.0
Details Method: vapor diffusion-Hanging drop. Well Solution: PEG 4000 25%, MAGNESIUM CHLORIDE 0.2M, TRIS BUFFER 0.1M pH8.5. Drop composition: 15ul OF WELL SOLUTION, 15 ul OF PROTEIN (15mg/ml). Soaking medium: PEG 4000 (27.5%), magnesium chloride 0.2M, Tris buffer 0.1M pH 8.5, Mercury Acetate 0.5mM. Soaking time: 3.5 hrs. Cryo Protectant: Lithium Formate 15%. , VAPOR DIFFUSION, HANGING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 115.53 α = 90
b = 115.53 β = 90
c = 51.23 γ = 90
Symmetry
Space Group P 42

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH mirror 2000-07-08
Diffraction Radiation
Monochromator Protocol
cryogenitcally-cooled SI(111)double crystal system SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 17-ID 1.00 APS 17-ID

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
2.3 40 100.0 -- 0.0891 -- 3.67 30314 30314 0.0 0.0 --
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)
2.3 2.44 100.0 -- 0.499 1.68 3.7 --

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
SAD(HG) 2.4 10.0 0.0 0.0 26405 26405 1335 100.0 0.2099 0.2099 0.2053 0.2992 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 2.39 2.49 -- -- 2552 0.342 -- -- 100.0
RMS Deviations
Key Refinement Restraint Deviation
s_non_zero_chiral_vol 0.022
s_anti_bump_dis_restr 0.101
s_similar_dist 0.0
s_from_restr_planes 0.021
s_rigid_bond_adp_cmpnt 0.0
s_bond_d 0.004
s_zero_chiral_vol 0.019
s_similar_adp_cmpnt 0.095
s_angle_d 0.017
s_approx_iso_adps 0.0
Coordinate Error
Parameter Value
Number Disordered Residues 0.0
Occupancy Sum Hydrogen 0.0
Occupancy Sum Non Hydrogen 4722.5
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4580
Nucleic Acid Atoms 0
Heterogen Atoms 8
Solvent Atoms 134

Software

Software
Software Name Purpose
SHELXS phasing
MLPHARE phasing
DM model building
SHELXL-97 refinement
X-GEN data reduction
X-GEN data scaling
DM phasing