X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7
Temperature 298.0
Details NaFormate 4M, 0.3M 195 NDSB, pH 7, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 67.08 α = 90
b = 87.13 β = 90
c = 149.66 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 RAYONIX MX-300 Be-Lenes 2009-10-23
Diffraction Radiation
Monochromator Protocol
Diamond-111 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 21-ID-G 0.97857 APS 21-ID-G

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
1.97 30 99.9 0.124 -- -- 7.6 -- 117233 -3.0 -3.0 20.9
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)
1.97 2.0 99.9 0.49 -- 5.7 7.6 5848

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
SAD 1.978 28.51 -- 0.04 60374 60374 3066 97.42 0.1572 0.1553 0.1553 0.1933 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 1.978 2.049 -- 292 4974 0.1639 0.2417 -- 86.0
X Ray Diffraction 2.049 2.131 -- 290 5598 0.1482 0.1961 -- 96.0
X Ray Diffraction 2.131 2.228 -- 298 5654 0.1436 0.2027 -- 97.0
X Ray Diffraction 2.228 2.3454 -- 299 5724 0.141 0.1918 -- 98.0
X Ray Diffraction 2.3454 2.4923 -- 311 5750 0.1492 0.2026 -- 98.0
X Ray Diffraction 2.4923 2.6846 -- 313 5766 0.1615 0.2098 -- 99.0
X Ray Diffraction 2.6846 2.9545 -- 297 5852 0.1827 0.2175 -- 100.0
X Ray Diffraction 2.9545 3.3814 -- 317 5883 0.1721 0.2125 -- 100.0
X Ray Diffraction 3.3814 4.2579 -- 328 5937 0.1343 0.1647 -- 100.0
X Ray Diffraction 4.2579 28.5134 -- 321 6170 0.1533 0.169 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.007
f_angle_d 1.011
f_plane_restr 0.004
f_dihedral_angle_d 16.764
f_chiral_restr 0.071
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5923
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 656

Software

Software
Software Name Purpose
BLU-MAX data collection
PHENIX model building version: (phenix.AutoSol: 1.4_115)
PHENIX refinement version: (phenix.refine: 1.4_115)
HKL-2000 data reduction
HKL-2000 data scaling
PHENIX phasing version: 1.4_115