X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.6
Temperature 295.0
Details 1.6M AmSO4, 0.1M Na Citrate pH 5.6, 50mM CdCl2, VAPOR DIFFUSION, HANGING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 60.28 α = 90
b = 61.66 β = 90
c = 82.02 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210r Mirror 2007-09-26
Diffraction Radiation
Monochromator Protocol
Double mirror SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX1 0.95363 Australian Synchrotron MX1

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
1.6 34.15 99.57 0.08 0.09 -- 7.2 38588 38422 2.0 2.0 --
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)
1.634 1.692 95.74 -- -- -- -- --

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 1.63 34.15 -- -- 38588 36498 1924 99.46 0.199 0.20042 0.199 0.22677 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 1.633 1.675 -- 125 2490 0.29 0.331 -- 92.86
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 20.482
Anisotropic B[1][1] -0.33
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.43
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.1
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.014
r_mcbond_other 0.241
r_gen_planes_refined 0.006
r_scangle_it 3.293
r_bond_other_d 0.002
r_dihedral_angle_4_deg 13.073
r_scbond_it 2.293
r_dihedral_angle_3_deg 14.657
r_dihedral_angle_1_deg 5.987
r_nbd_refined 0.219
r_symmetry_vdw_refined 0.177
r_symmetry_vdw_other 0.29
r_dihedral_angle_2_deg 30.937
r_nbd_other 0.199
r_nbtor_refined 0.176
r_symmetry_hbond_refined 0.181
r_chiral_restr 0.086
r_metal_ion_refined 0.19
r_nbtor_other 0.083
r_mcangle_it 1.715
r_angle_refined_deg 1.749
r_angle_other_deg 0.959
r_xyhbond_nbd_refined 0.2
r_mcbond_it 1.202
r_gen_planes_other 0.001
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2190
Nucleic Acid Atoms 0
Heterogen Atoms 61
Solvent Atoms 118

Software

Software
Software Name Purpose
Blu-Ice data collection
AMoRE phasing
REFMAC refinement version: 5.2.0019
MOSFLM data reduction
SCALA data scaling