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 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_sphericity_bonded 3.703
r_sphericity_free 10.816
r_rigid_bond_restr 1.689
r_scangle_it 4.395
r_scbond_it 3.503
r_mcangle_it 2.379
r_mcbond_other 0.79
r_mcbond_it 1.937
r_nbd_refined 0.209
r_gen_planes_other 0.002
r_gen_planes_refined 0.009
r_chiral_restr 0.107
r_dihedral_angle_4_deg 14.524
r_dihedral_angle_3_deg 10.909
r_dihedral_angle_2_deg 37.349
r_dihedral_angle_1_deg 6.827
r_angle_other_deg 0.856
r_angle_refined_deg 1.652
r_bond_other_d 0.001
r_bond_refined_d 0.017
r_nbd_other 0.192
r_nbtor_refined 0.184
r_nbtor_other 0.085
r_xyhbond_nbd_refined 0.211
r_symmetry_vdw_refined 0.13
r_symmetry_vdw_other 0.284
r_symmetry_hbond_refined 0.145
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

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
XSCALE Data Reduction (data scaling)
SHELXD, SHELXE Structure Solution
REFMAC 5.2.0005 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0005 refinement
SHELXE model building
SHELXD model building