X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 294.0
Details 12% PEG 3000, 150 mM Li2SO4, 0.1 M imidazole, 2% ethanol, 10% ethylene glycol, 20 mM MgCl2, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 294K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 48.19 α = 90
b = 70.71 β = 99.14
c = 81.69 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210 -- 2008-02-16
Diffraction Radiation
Monochromator Protocol
Diamond (111), Ge(220) Sagitally focusing Ge(220) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-1 0.93 ESRF ID14-1

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
1.75 26.85 91.5 0.077 0.077 -- 2.9 142967 49952 -- -- 16.39
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)
1.75 1.84 89.6 0.422 -- 2.8 2.8 7129

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 1.75 26.854 -- -- 54277 47415 2526 91.28 -- 0.18711 0.18419 0.24111 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 1.75 1.795 -- 173 3446 0.271 0.32 -- 89.49
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 20.653
Anisotropic B[1][1] 0.55
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.3
Anisotropic B[2][2] 0.52
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.16
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.017
r_dihedral_angle_4_deg 16.84
r_scbond_it 2.436
r_mcangle_it 1.559
r_gen_planes_refined 0.007
r_xyhbond_nbd_refined 0.172
r_dihedral_angle_2_deg 37.151
r_symmetry_hbond_refined 0.217
r_nbd_refined 0.212
r_mcbond_it 1.021
r_chiral_restr 0.105
r_symmetry_vdw_refined 0.195
r_angle_refined_deg 1.642
r_nbtor_refined 0.306
r_dihedral_angle_1_deg 6.033
r_dihedral_angle_3_deg 15.328
r_scangle_it 3.763
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4205
Nucleic Acid Atoms 0
Heterogen Atoms 70
Solvent Atoms 565

Software

Software
Software Name Purpose
ADSC data collection version: Quantum
AMoRE phasing
REFMAC refinement version: 5.2.0019
MOSFLM data reduction
SCALA data scaling