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 = 42.3 α = 90
b = 41.63 β = 104.52
c = 72.3 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
1.65 69.99 -- -- -- -- -- -- 29587 -- -- --

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 1.65 39.98 -- 0.0 -- 27249 1395 92.13 -- 0.1503 0.1475 0.2016 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 1.65 1.693 -- 55 1287 0.344 0.487 -- 61.56
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 15.3245
Anisotropic B[1][1] -0.1
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.09
Anisotropic B[2][2] 0.05
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.09
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.807
r_scangle_it 6.814
r_dihedral_angle_4_deg 23.393
r_dihedral_angle_3_deg 13.31
r_chiral_restr 0.143
r_mcbond_it 2.058
r_gen_planes_refined 0.012
r_bond_refined_d 0.024
r_scbond_it 4.868
r_dihedral_angle_1_deg 6.963
r_mcangle_it 3.108
r_dihedral_angle_2_deg 36.789
r_rigid_bond_restr 2.477
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2044
Nucleic Acid Atoms 0
Heterogen Atoms 23
Solvent Atoms 190

Software

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