X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Details HANGING DROP VAPOR DIFFUSION, 0.2 M MGCL2, 0.1 M BIS-TRIS AT PH 5.5, 25% V/V PEG 3350

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 41.96 α = 90
b = 58.66 β = 90
c = 96.43 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 120
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2008-04-25
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID23-1 -- ESRF ID23-1

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
1.95 48.22 99.9 0.1 -- -- 7.48 -- 18022 -- 2.0 21.2
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)
1.95 2.06 99.6 0.57 -- 1.32 7.55 --

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 1.95 50.125 -- 0.0 -- 17963 910 99.872 -- 0.169 0.1662 0.2185 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 1.95 2.001 -- 68 1226 0.199 0.294 -- 99.005
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 23.84
Anisotropic B[1][1] -2.174
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.521
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.652
RMS Deviations
Key Refinement Restraint Deviation
r_chiral_restr 0.102
r_xyhbond_nbd_refined 0.132
r_mcangle_it 1.37
r_dihedral_angle_2_deg 41.771
r_dihedral_angle_4_deg 17.287
r_nbtor_refined 0.314
r_dihedral_angle_3_deg 13.157
r_scbond_it 1.902
r_scangle_it 2.976
r_symmetry_hbond_refined 0.185
r_angle_refined_deg 1.428
r_metal_ion_refined 0.179
r_dihedral_angle_1_deg 6.647
r_symmetry_vdw_refined 0.191
r_bond_refined_d 0.013
r_mcbond_it 0.756
r_gen_planes_refined 0.006
r_nbd_refined 0.207
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2065
Nucleic Acid Atoms 0
Heterogen Atoms 64
Solvent Atoms 208

Software

Software
Software Name Purpose
REFMAC refinement version: 5.5.0109
XDS data reduction
SCALEPACK data scaling
MOLREP phasing