X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 298.0
Details PEG5K MME, CdCl2, CaCl2, MES, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 68.03 α = 90
b = 68.03 β = 90
c = 191.73 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 4 -- 2003-06-27
Diffraction Radiation
Monochromator Protocol
Si(III) crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X12B 0.97960 NSLS X12B

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
1.7 64.55 -- -- -- -- -- 57817 54348 0.0 0.0 --
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)
1.7 1.76 0.94 -- -- -- -- --

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 1.702 37.2 -- 0.0 57817 51554 2771 94.6 -- 0.24088 0.23824 0.28935 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 1.702 1.746 -- 129 2450 0.292 0.355 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 26.669
Anisotropic B[1][1] 0.35
Anisotropic B[1][2] 0.17
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.35
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.52
RMS Deviations
Key Refinement Restraint Deviation
r_mcbond_it 1.618
r_dihedral_angle_1_deg 7.748
r_scbond_it 4.009
r_bond_other_d 0.003
r_gen_planes_refined 0.011
r_scangle_it 5.922
r_nbd_other 0.271
r_bond_refined_d 0.031
r_angle_other_deg 1.147
r_xyhbond_nbd_refined 0.315
r_mcangle_it 2.708
r_symmetry_vdw_other 0.27
r_nbd_refined 0.331
r_symmetry_vdw_refined 0.363
r_chiral_restr 0.162
r_gen_planes_other 0.002
r_metal_ion_refined 0.515
r_nbtor_other 0.096
r_angle_refined_deg 2.388
r_symmetry_hbond_refined 0.506
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2721
Nucleic Acid Atoms 0
Heterogen Atoms 19
Solvent Atoms 388

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.24
DENZO data reduction
SCALEPACK data scaling
SOLVE phasing