X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 7.8
Temperature 277.0
Details 100 mM Tris-Cl, 1.15 M sodium citrate, pH 7.8, vapor diffusion, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 42.28 α = 90
b = 41.68 β = 104.66
c = 72.33 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X25 -- 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
1.51 69.98 -- -- -- -- -- -- 38523 -- -- --

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
MOLECULAR REPLACEMENT 1.51 35.81 -- 0.0 -- 38089 1908 98.91 -- 0.1294 0.1269 0.1765 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 1.51 1.549 -- 141 2588 0.177 0.265 -- 96.5
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 13.549
Anisotropic B[1][1] -0.02
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.05
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.03
RMS Deviations
Key Refinement Restraint Deviation
r_mcangle_it 3.666
r_scbond_it 5.171
r_scangle_it 7.285
r_gen_planes_refined 0.014
r_rigid_bond_restr 2.72
r_dihedral_angle_1_deg 6.708
r_dihedral_angle_4_deg 24.438
r_bond_refined_d 0.025
r_dihedral_angle_3_deg 12.567
r_mcbond_it 2.498
r_angle_refined_deg 2.089
r_dihedral_angle_2_deg 35.316
r_chiral_restr 0.207
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2039
Nucleic Acid Atoms 0
Heterogen Atoms 32
Solvent Atoms 272

Software

Software
Software Name Purpose
REFMAC refinement version: 5.5.0109
PDB_EXTRACT data extraction version: 3.10