X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 293.0
Details 26% PEG 4000, 0.2M magnesium acetate, 6% butyrolactone, 0.1M MES , pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 93.84 α = 90
b = 93.84 β = 90
c = 99.87 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2008-08-04
Diffraction Radiation
Monochromator Protocol
Si 111 CHANNEL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 0.977 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
2.5 100 99.3 0.078 -- -- 5.2 18214 18047 2.0 1.0 36.7
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)
2.5 2.64 100.0 0.3 -- 5.7 -- --

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 2.5 29.36 -- 1.0 18214 16981 913 99.27 0.2253 0.22341 0.22176 0.25389 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 2.5 2.565 -- 71 1216 0.288 0.306 -- 99.92
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 48.178
Anisotropic B[1][1] -0.02
Anisotropic B[1][2] -0.01
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.02
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.03
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_3_deg 14.73
r_symmetry_hbond_refined 0.119
r_dihedral_angle_1_deg 4.281
r_dihedral_angle_2_deg 32.565
r_nbtor_refined 0.292
r_scbond_it 0.398
r_mcangle_it 0.374
r_dihedral_angle_4_deg 13.775
r_mcbond_it 0.214
r_bond_refined_d 0.006
r_symmetry_vdw_refined 0.125
r_nbd_refined 0.173
r_xyhbond_nbd_refined 0.114
r_scangle_it 0.641
r_angle_refined_deg 0.855
r_chiral_restr 0.056
r_gen_planes_refined 0.002
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3677
Nucleic Acid Atoms 251
Heterogen Atoms 0
Solvent Atoms 41

Software

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