X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.5
Details 50 MM NA ACETATE 50 MM NA CITRATE PH 5.5, 10 % PEG 4000 30 % GLYCEROL

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 72.45 α = 90
b = 144.88 β = 90
c = 160.69 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 PREMIRROR, TRIANGULAR MONOCHROMATOR, BENT MIRROR --
Diffraction Radiation
Monochromator Protocol
MIRROR SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 -- EMBL/DESY, Hamburg X11

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
2.07 38.92 98.8 0.1042 -- -- 4.65 -- 102501 -- -- --
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)
2.07 2.2 94.6 0.4099 -- 3.06 3.2 --

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 2.1 38.92 -- -- -- 94338 4763 100.0 -- 0.192 0.191 0.215 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 2.1 2.15 -- 40 7208 0.238 0.337 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 35.43
Anisotropic B[1][1] -1.97
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.51
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.54
RMS Deviations
Key Refinement Restraint Deviation
r_symmetry_vdw_refined 0.311
r_nbd_refined 0.219
r_gen_planes_refined 0.008
r_symmetry_hbond_refined 0.245
r_mcangle_it 2.822
r_scangle_it 5.989
r_xyhbond_nbd_refined 0.143
r_dihedral_angle_1_deg 6.294
r_chiral_restr 0.116
r_bond_refined_d 0.018
r_metal_ion_refined 0.204
r_scbond_it 3.745
r_angle_refined_deg 1.601
r_mcbond_it 1.461
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7708
Nucleic Acid Atoms 0
Heterogen Atoms 44
Solvent Atoms 691

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.19
DENZO data reduction
SCALEPACK data scaling