X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.8
Temperature 298.0
Details MPD, Magnesium Acetate, Sodium Cacodylate, pH 6.8, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 73.63 α = 90
b = 73.63 β = 90
c = 341.06 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
-- -- -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X25 1.1000 NSLS X25

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 19.94 -- -- -- -- -- 62729 62729 -- -- --

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 2.0 20.0 -- -- -- 56389 6340 96.79 -- 0.17947 0.17742 0.19759 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 2.0 2.051 -- 452 3840 0.186 0.218 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 16.519
Anisotropic B[1][1] -1.01
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.01
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.02
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_refined 0.235
r_gen_planes_refined 0.006
r_chiral_restr 0.102
r_dihedral_angle_1_deg 1.266
r_angle_refined_deg 1.434
r_bond_refined_d 0.005
r_xyhbond_nbd_refined 0.125
r_symmetry_vdw_refined 0.31
r_symmetry_hbond_refined 0.183
r_mcbond_it 1.114
r_mcangle_it 1.908
r_scbond_it 3.656
r_scangle_it 5.65
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4565
Nucleic Acid Atoms 0
Heterogen Atoms 3
Solvent Atoms 468

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
SOLVE Structure Solution
REFMAC 5.1.19 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.19 refinement