X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 8
Temperature 298.0
Details 1.0M Na/K Tartrate, 0.2M NaCl, 0.1 Imidazole, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K, pH 8.00

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 118.66 α = 90
b = 118.66 β = 90
c = 176.04 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD ADJUSTABLE FOCUSING MIRRORS IN K-B GEOMETRY 2006-10-12
Diffraction Radiation
Monochromator Protocol
DOUBLE CRYSTAL CRYO-COOLED SI(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 23-ID-D -- APS 23-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
3.18 50 88.6 -- 0.096 -- 2.2 -- 19140 -- 0.0 77.3
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)
3.18 3.25 95.0 -- 0.508 2.0 2.1 --

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 3.18 44.02 -- 0.0 18770 18458 992 89.1 -- 0.213 0.21 0.265 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 3.18 3.26 -- 89 1425 0.302 0.379 -- 95.52
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 63.65
Anisotropic B[1][1] 1.27
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.27
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.54
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.005
r_nbtor_refined 0.199
r_mcbond_other 0.135
r_symmetry_vdw_other 0.414
r_dihedral_angle_3_deg 18.045
r_angle_refined_deg 1.549
r_symmetry_vdw_refined 0.305
r_gen_planes_other 0.002
r_symmetry_hbond_refined 0.331
r_scbond_it 1.662
r_dihedral_angle_2_deg 29.955
r_chiral_restr 0.077
r_nbd_refined 0.23
r_scangle_it 2.296
r_dihedral_angle_1_deg 8.267
r_bond_other_d 0.004
r_bond_refined_d 0.014
r_dihedral_angle_4_deg 16.975
r_mcbond_it 0.927
r_angle_other_deg 0.894
r_mcangle_it 1.107
r_nbd_other 0.21
r_nbtor_other 0.096
r_xyhbond_nbd_refined 0.15
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6610
Nucleic Acid Atoms 0
Heterogen Atoms 42
Solvent Atoms 0

Software

Software
Software Name Purpose
REFMAC refinement version: 5.3.0011
HKL-2000 data reduction
HKL-2000 data scaling
PHASER phasing