X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 6
Temperature 291.0
Details MnCl2, KCl, K-Cacodylate, pH 6.0, vapor diffusion, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 106.3 α = 90
b = 109.65 β = 90
c = 181.81 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 98
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD -- 2007-02-10
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06SA 1.072 SLS X06SA

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
3.45 94.07 98.9 0.071 0.071 -- 7.3 -- 28350 -- 1.0 --
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)
3.45 3.64 100.0 0.485 0.485 1.5 7.5 4118

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
-- 3.45 94.07 -- 0.0 -- 28295 593 98.73 -- 0.341 0.339 0.435 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 3.45 3.54 -- 42 2053 0.47 0.459 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 190.681
Anisotropic B[1][1] 1.44
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -18.23
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 16.79
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_3_deg 20.885
r_scbond_it 0.653
r_xyhbond_nbd_refined 0.208
r_nbd_refined 0.225
r_angle_refined_deg 1.276
r_gen_planes_refined 0.003
r_scangle_it 1.201
r_symmetry_hbond_refined 0.237
r_nbtor_refined 0.303
r_mcangle_it 1.27
r_dihedral_angle_1_deg 6.642
r_bond_refined_d 0.008
r_dihedral_angle_2_deg 35.924
r_symmetry_vdw_refined 0.25
r_chiral_restr 0.069
r_mcbond_it 0.698
r_dihedral_angle_4_deg 17.233
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6269
Nucleic Acid Atoms 6021
Heterogen Atoms 1
Solvent Atoms 0

Software

Software
Software Name Purpose
SCALA data scaling
REFMAC refinement version: 5.2.0019
PDB_EXTRACT data extraction version: 3.000
MOSFLM data reduction