X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 293.0
Details PEG8000, cystin

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 91.99 α = 90
b = 52.97 β = 113.54
c = 92.9 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
PIXEL DECTRIS PILATUS 2M-F -- 2014-01-22
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PHOTON FACTORY BEAMLINE BL-1A 1.10 Photon Factory BL-1A

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
2.25 46.14 99.4 -- 0.098 -- 3.4 -- 39380 -- -- --
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)
2.25 2.3 94.16 -- -- 1.3 -- --

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
MIR 2.25 19.951 -- 1.36 -- 39315 1977 99.4 -- 0.216 0.2145 0.2432 --
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 2.2454 2.3015 -- 124 2570 0.3174 0.3396 -- 95.0
X Ray Diffraction 2.3015 2.3636 -- 137 2609 0.2979 0.3109 -- 100.0
X Ray Diffraction 2.3636 2.433 -- 145 2667 0.2835 0.3386 -- 100.0
X Ray Diffraction 2.433 2.5114 -- 140 2657 0.2824 0.3313 -- 100.0
X Ray Diffraction 2.5114 2.601 -- 151 2642 0.2711 0.291 -- 100.0
X Ray Diffraction 2.601 2.7049 -- 144 2644 0.2648 0.2919 -- 100.0
X Ray Diffraction 2.7049 2.8277 -- 150 2658 0.2527 0.2903 -- 100.0
X Ray Diffraction 2.8277 2.9763 -- 147 2676 0.2476 0.2772 -- 100.0
X Ray Diffraction 2.9763 3.1621 -- 115 2681 0.2378 0.2592 -- 100.0
X Ray Diffraction 3.1621 3.4051 -- 137 2689 0.2145 0.253 -- 100.0
X Ray Diffraction 3.4051 3.7457 -- 144 2688 0.1892 0.2003 -- 100.0
X Ray Diffraction 3.7457 4.2831 -- 150 2672 0.176 0.224 -- 100.0
X Ray Diffraction 4.2831 5.3787 -- 141 2719 0.174 0.208 -- 100.0
X Ray Diffraction 5.3787 19.9517 -- 152 2766 0.1898 0.2033 -- 100.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_angle_d 0.837
f_chiral_restr 0.032
f_bond_d 0.005
f_dihedral_angle_d 16.384
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5870
Nucleic Acid Atoms 0
Heterogen Atoms 14
Solvent Atoms 119

Software

Software
Software Name Purpose
PHENIX refinement version: (phenix.refine: 1.9_1692)
XDS data reduction
XDS data scaling
MOLREP phasing