X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Evaporation
pH 6.4
Temperature 291.0
Details 8% PEG3350, 100 mM ammonium citrate, pH 6.4, EVAPORATION, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 98.8 α = 90
b = 98.8 β = 90
c = 90.11 γ = 120
Symmetry
Space Group P 3 1 2

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MAR scanner 300 mm plate -- 2008-03-19
Diffraction Radiation
Monochromator Protocol
Si 111 CHANNEL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 21-ID-D 1.0 APS 21-ID-D

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
2.21 90.17 96.5 0.07 -- -- 10.1 25434 24544 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)
2.21 2.29 72.9 0.734 -- 1.3 4.6 1836

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 2.21 20.0 0.0 0.0 24090 23293 1247 96.69 -- 0.23108 0.22856 0.2803 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 2.21 2.268 1836 60 1296 0.314 0.36 -- 72.13
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 45.175
Anisotropic B[1][1] -0.38
Anisotropic B[1][2] -0.19
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.38
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.57
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.788
r_scbond_it 2.446
r_mcangle_it 1.469
r_mcbond_it 0.89
r_symmetry_hbond_refined 0.164
r_bond_refined_d 0.02
r_angle_refined_deg 1.789
r_dihedral_angle_1_deg 6.077
r_dihedral_angle_2_deg 38.238
r_dihedral_angle_3_deg 19.727
r_dihedral_angle_4_deg 21.493
r_chiral_restr 0.117
r_gen_planes_refined 0.007
r_nbd_refined 0.244
r_nbtor_refined 0.303
r_xyhbond_nbd_refined 0.163
r_symmetry_vdw_refined 0.264
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3227
Nucleic Acid Atoms 0
Heterogen Atoms 58
Solvent Atoms 81

Software

Computing
Computing Package Purpose
CBASS Data Collection
HKL-2000 Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
CNS Structure Solution
REFMAC 5.2.0005 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0005 refinement