X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.3
Temperature 281.0
Details the reservoir condition consisted of 2.9 M ammonium sulfate with 0.1 M Tris buffer at pH 8.3; concentrated CA II at ~10 mg mL-1 was set up with seeding; dry compound was added to crystals several days before harvesting and data collection

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 42.51 α = 90
b = 41.54 β = 104.46
c = 71.98 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210 -- 2015-04-08
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX1 0.953700 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 41.5 97.9 -- -- -- 7.3 -- 31652 -- -- --
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)
1.6 1.63 80.1 0.385 -- 4.5 6.1 --

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 1.6 41.5 -- -- -- 30075 1569 97.71 -- 0.13968 0.13726 0.18733 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 1.6 1.641 -- 99 1766 0.174 0.216 -- 78.99
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 13.386
Anisotropic B[1][1] -0.05
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.06
Anisotropic B[2][2] 0.16
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.12
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.943
r_scbond_it 2.078
r_dihedral_angle_1_deg 6.589
r_scbond_other 2.077
r_dihedral_angle_3_deg 12.748
r_long_range_B_other 4.478
r_mcangle_other 2.212
r_mcbond_it 1.464
r_long_range_B_refined 4.478
r_dihedral_angle_4_deg 22.0
r_chiral_restr 0.125
r_bond_other_d 0.003
r_dihedral_angle_2_deg 37.251
r_bond_refined_d 0.019
r_mcbond_other 1.465
r_angle_other_deg 1.04
r_gen_planes_refined 0.012
r_scangle_other 3.223
r_gen_planes_other 0.002
r_mcangle_it 2.212
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2059
Nucleic Acid Atoms 0
Heterogen Atoms 19
Solvent Atoms 310

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0155
XDS data reduction
Aimless data scaling
PHASER phasing