X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Details 0.1 M BIS-TRIS, PH 6.5 0.2 M MGCL2 25% PEG3350 (W/V)

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 46.95 α = 90
b = 67.69 β = 90
c = 69.07 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE BM14 -- ESRF BM14

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
1.15 30 98.4 0.07 -- -- 6.9 -- 77853 -- 0.0 --
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)
1.15 1.25 94.0 0.38 -- 2.4 2.8 --

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 1.15 48.34 -- -- -- 73793 3902 98.4 -- 0.132 0.13 0.163 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 1.15 1.18 -- 250 4683 0.269 0.314 -- 85.33
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 8.63
Anisotropic B[1][1] -0.45
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.34
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.11
RMS Deviations
Key Refinement Restraint Deviation
r_mcbond_it 1.501
r_bond_refined_d 0.013
r_symmetry_vdw_refined 0.18
r_chiral_restr 0.094
r_mcbond_other 0.653
r_nbtor_refined 0.182
r_xyhbond_nbd_refined 0.197
r_scangle_it 3.663
r_dihedral_angle_2_deg 39.812
r_nbd_other 0.19
r_dihedral_angle_1_deg 6.506
r_gen_planes_refined 0.008
r_angle_refined_deg 1.556
r_symmetry_vdw_other 0.235
r_scbond_it 2.726
r_nbd_refined 0.206
r_mcangle_it 2.106
r_dihedral_angle_4_deg 18.613
r_symmetry_hbond_refined 0.186
r_metal_ion_refined 0.262
r_dihedral_angle_3_deg 11.59
r_angle_other_deg 0.912
r_bond_other_d 0.002
r_gen_planes_other 0.001
r_nbtor_other 0.091
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2026
Nucleic Acid Atoms 0
Heterogen Atoms 2
Solvent Atoms 510

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0019
DENZO data reduction
SCALEPACK data scaling
PHASER phasing