X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
Temperature 298.0
Details 15 % PEG 3350, 0.1 M Magnesium formate dihydrate, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 160.61 α = 90
b = 57.8 β = 127.23
c = 119.44 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2008-04-05
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 24-ID-C 0.9793 APS 24-ID-C

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
1.95 50 98.0 0.068 0.061 -- 2.5 -- 62921 -- -- --
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)
1.95 2.02 86.3 0.294 0.331 2.64 2.2 5484

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
SAD 1.95 40.0 -- 0.0 -- 62920 3177 97.82 -- 0.211 0.209 0.247 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 1.95 2.0 -- 183 3647 0.251 0.298 -- 81.25
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 42.882
Anisotropic B[1][1] -1.95
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -1.74
Anisotropic B[2][2] 1.78
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.94
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_4_deg 14.76
r_dihedral_angle_2_deg 33.638
r_nbtor_refined 0.313
r_scbond_it 3.932
r_nbd_refined 0.206
r_bond_refined_d 0.011
r_dihedral_angle_3_deg 15.907
r_dihedral_angle_1_deg 5.336
r_symmetry_hbond_refined 0.193
r_symmetry_vdw_refined 0.153
r_mcangle_it 2.593
r_mcbond_it 1.748
r_chiral_restr 0.089
r_gen_planes_refined 0.005
r_xyhbond_nbd_refined 0.195
r_angle_refined_deg 1.29
r_scangle_it 5.806
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5105
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 345

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
REFMAC refinement
PDB_EXTRACT data extraction version: 3.005
ADSC data collection version: Quantum
HKL-2000 data reduction
HKL2Map phasing