X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4
Temperature 290.0
Details 0.1M citric acid, 1.6M ammonium sulphate, pH 4.0, VAPOR DIFFUSION, HANGING DROP, temperature 290K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 70.91 α = 90
b = 70.91 β = 90
c = 218.66 γ = 120
Symmetry
Space Group P 61 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 vertical focusing mirror 2002-04-14
Diffraction Radiation
Monochromator Protocol
Si 111, bent, triangular, liquid gallium cooled SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SRS BEAMLINE PX14.1 1.488 SRS PX14.1

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 25 99.6 -- 0.051 -- 11.32 26521 25960 2.0 2.0 33.3
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 1.949 100.0 -- 0.298 9.65 -- 1815

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 25.0 -- 2.0 26521 25184 1337 99.5 -- 0.16697 0.16633 0.17891 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 1815 94 1815 0.196 0.256 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model TLS refinement
Mean Isotropic B 13.809
Anisotropic B[1][1] 0.22
Anisotropic B[1][2] 0.11
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.22
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.34
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.584
r_scbond_it 2.207
r_mcangle_it 1.292
r_mcbond_it 0.733
r_symmetry_hbond_refined 0.207
r_symmetry_vdw_other 0.337
r_symmetry_vdw_refined 0.217
r_bond_refined_d 0.016
r_bond_other_d 0.004
r_angle_refined_deg 1.531
r_angle_other_deg 0.825
r_dihedral_angle_1_deg 7.946
r_chiral_restr 0.098
r_gen_planes_refined 0.006
r_gen_planes_other 0.003
r_nbd_refined 0.207
r_nbd_other 0.253
r_nbtor_other 0.083
r_xyhbond_nbd_refined 0.222
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.207
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1771
Nucleic Acid Atoms 0
Heterogen Atoms 20
Solvent Atoms 172

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
CNS Structure Solution
REFMAC 5.1.24 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.24 refinement