X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.8
Temperature 298.0
Details Tri-HCl, 20% Ethanol, pH 7.8, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 60.87 α = 90
b = 66.42 β = 90
c = 105.69 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
IMAGE PLATE MAR scanner 345 mm plate MIRROR 2007-03-10
Diffraction Radiation
Monochromator Protocol
Graphite SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X13 0.81 EMBL/DESY, Hamburg X13

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
1.65 55.9 99.9 -- 0.035 -- 20.0 -- 52135 -- -- --
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)
1.65 1.68 99.7 -- -- -- -- --

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 1.65 27.711 -- -- -- 50989 1075 99.88 -- 0.1385 0.13756 0.1876 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 1.652 1.695 -- 96 3688 0.178 0.209 -- 99.4
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 23.707
Anisotropic B[1][1] 0.13
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.41
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.28
RMS Deviations
Key Refinement Restraint Deviation
r_mcangle_it 2.399
r_scbond_other 2.431
r_mcangle_other 2.401
r_long_range_B_refined 7.299
r_mcbond_other 1.541
r_chiral_restr 0.204
r_dihedral_angle_1_deg 6.637
r_angle_refined_deg 2.892
r_gen_planes_other 0.002
r_bond_refined_d 0.035
r_bond_other_d 0.005
r_dihedral_angle_3_deg 12.785
r_scbond_it 2.432
r_angle_other_deg 1.763
r_dihedral_angle_4_deg 21.857
r_mcbond_it 1.556
r_gen_planes_refined 0.018
r_dihedral_angle_2_deg 33.048
r_scangle_other 3.633
r_long_range_B_other 7.301
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2876
Nucleic Acid Atoms 0
Heterogen Atoms 30
Solvent Atoms 599

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0189
DENZO data reduction
SCALEPACK data scaling
AMoRE phasing