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 = 60.6 α = 90
b = 62.32 β = 90
c = 82.09 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 -- 2007-09-07
Diffraction Radiation
Monochromator Protocol
crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX1 0.95 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
1.9 49.63 99.98 0.108 0.117 -- -- 25133 25118 -- -- --
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)
1.9 2.0 99.98 -- -- -- -- --

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 1.9 49.63 -- -- 25113 23866 1267 99.98 0.2085 0.21068 0.20846 0.25118 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 1.9 1.949 -- 79 1732 0.311 0.369 -- 99.94
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 26.541
Anisotropic B[1][1] 0.42
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.74
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.16
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.997
r_scbond_it 3.0
r_mcangle_it 2.066
r_mcbond_other 0.351
r_mcbond_it 1.737
r_nbd_refined 0.214
r_gen_planes_other 0.001
r_gen_planes_refined 0.008
r_chiral_restr 0.255
r_dihedral_angle_4_deg 17.777
r_dihedral_angle_3_deg 17.807
r_dihedral_angle_2_deg 33.658
r_dihedral_angle_1_deg 6.601
r_angle_other_deg 1.124
r_angle_refined_deg 1.917
r_bond_other_d 0.001
r_bond_refined_d 0.024
r_nbd_other 0.202
r_nbtor_refined 0.177
r_nbtor_other 0.09
r_xyhbond_nbd_refined 0.221
r_metal_ion_refined 0.409
r_symmetry_vdw_refined 0.241
r_symmetry_vdw_other 0.308
r_symmetry_hbond_refined 0.286
r_symmetry_metal_ion_refined 0.977
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2175
Nucleic Acid Atoms 0
Heterogen Atoms 48
Solvent Atoms 83

Software

Computing
Computing Package Purpose
BlueIce Data Collection
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
AMoRE Structure Solution
REFMAC 5.2.0019 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0019 refinement
AMoRE model building
BlueIce data collection