X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Details 0.9 M SODIUM/POTASSIUM TARTRATE, 0.1 M HEPES, PH 7.3, 15 % GLYCEROL

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 57.78 α = 90
b = 57.78 β = 90
c = 150.09 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC CCD BENT MIRROR 2004-12-18
Diffraction Radiation
Monochromator Protocol
SI(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 -- ESRF ID14-4

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
1.4 50 98.2 0.04 -- -- 2.5 -- 93941 -- -3.0 --
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)
1.4 1.49 97.2 0.3 -- 3.35 2.5 --

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
OTHER 1.4 45.0 -- -- -- 47378 2538 97.9 -- 0.127 0.125 0.155 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 1.4 1.48 -- 370 6647 0.151 0.196 -- 96.19
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 9.96
Anisotropic B[1][1] 0.19
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.19
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.38
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_refined 0.209
r_bond_refined_d 0.017
r_mcangle_it 2.379
r_bond_other_d 0.001
r_angle_other_deg 0.856
r_dihedral_angle_3_deg 10.909
r_nbtor_other 0.085
r_symmetry_vdw_refined 0.13
r_symmetry_vdw_other 0.284
r_dihedral_angle_1_deg 6.827
r_symmetry_hbond_refined 0.145
r_nbd_other 0.192
r_nbtor_refined 0.184
r_scbond_it 3.503
r_mcbond_other 0.79
r_sphericity_bonded 3.703
r_xyhbond_nbd_refined 0.211
r_gen_planes_other 0.002
r_rigid_bond_restr 1.689
r_sphericity_free 10.816
r_dihedral_angle_2_deg 37.349
r_mcbond_it 1.937
r_scangle_it 4.395
r_gen_planes_refined 0.009
r_dihedral_angle_4_deg 14.524
r_angle_refined_deg 1.652
r_chiral_restr 0.107
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1546
Nucleic Acid Atoms 0
Heterogen Atoms 10
Solvent Atoms 276

Software

Software
Software Name Purpose
XDS data reduction
XSCALE data scaling
SHELXD phasing
SHELXE phasing
REFMAC refinement version: 5.2.0005