X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6
Temperature 298.0
Details pH 6, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 80.28 α = 90
b = 168.9 β = 90.65
c = 85.48 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-2 0.933 ESRF ID14-2

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
2.2 50 93.7 0.089 -- -- 2.7 289573 107590 2.5 2.5 22.213
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)
2.2 2.32 93.7 -- -- -- -- --

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 2.2 18.0 -- 1.0 107534 98588 8946 93.61 0.18663 0.18663 0.18195 0.23853 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 2.2 2.256 -- 604 6457 0.182 0.242 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 13.718
Anisotropic B[1][1] 2.49
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.46
Anisotropic B[2][2] -1.61
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.89
RMS Deviations
Key Refinement Restraint Deviation
r_chiral_restr 0.121
r_nbd_refined 0.231
r_angle_refined_deg 1.906
r_symmetry_vdw_refined 0.436
r_scangle_it 3.422
r_symmetry_hbond_refined 0.466
r_bond_refined_d 0.022
r_xyhbond_nbd_refined 0.216
r_mcangle_it 1.265
r_dihedral_angle_1_deg 6.829
r_scbond_it 2.397
r_gen_planes_refined 0.008
r_mcbond_it 0.765
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 14300
Nucleic Acid Atoms 0
Heterogen Atoms 183
Solvent Atoms 831

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.19
DENZO data reduction
CCP4 data scaling version: (SCALA)
AMoRE phasing