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_scangle_it 3.663
r_scbond_it 2.726
r_mcangle_it 2.106
r_mcbond_other 0.653
r_mcbond_it 1.501
r_nbd_refined 0.206
r_gen_planes_other 0.001
r_gen_planes_refined 0.008
r_chiral_restr 0.094
r_dihedral_angle_4_deg 18.613
r_dihedral_angle_3_deg 11.59
r_dihedral_angle_2_deg 39.812
r_dihedral_angle_1_deg 6.506
r_angle_other_deg 0.912
r_angle_refined_deg 1.556
r_bond_other_d 0.002
r_bond_refined_d 0.013
r_nbd_other 0.19
r_nbtor_refined 0.182
r_nbtor_other 0.091
r_xyhbond_nbd_refined 0.197
r_metal_ion_refined 0.262
r_symmetry_vdw_refined 0.18
r_symmetry_vdw_other 0.235
r_symmetry_hbond_refined 0.186
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

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.2.0019 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0019 refinement
PHASER model building