X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.5
Details RESERVOIR: 1.5 M NACL, 100 MM NAH2PO4, PH 5.5. SAMPLE: 30 MG/ML PROTEIN IN 50 MM NAH2PO4, PH 6.0.

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 71.61 α = 90
b = 79.17 β = 90
c = 113.17 γ = 90
Symmetry
Space Group I 2 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH MAR165 MULTILAYER MIRROR, CURVED TO FOCUS IN THE VERTICAL (R 400 M). 2009-02-19
Diffraction Radiation
Monochromator Protocol
BENT SI (111) CRYSTAL, HORIZONTALLY FOCUSING. SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON MAX II BEAMLINE I911-2 -- MAX_II I911-2

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
1.8 30 99.7 0.08 -- -- 8.1 -- 30113 -- 4.8 17.86
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)
1.8 1.9 99.0 0.5 -- 4.8 8.0 --

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 1.801 26.554 -- 1.99 -- 30027 1520 99.66 -- 0.1789 0.177 0.2147 --
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 1.8011 1.8592 -- 136 2533 0.2296 0.2694 -- 99.0
X Ray Diffraction 1.8592 1.9257 -- 129 2550 0.2114 0.2491 -- 100.0
X Ray Diffraction 1.9257 2.0027 -- 145 2567 0.1817 0.2449 -- 100.0
X Ray Diffraction 2.0027 2.0938 -- 131 2594 0.1832 0.2128 -- 100.0
X Ray Diffraction 2.0938 2.2042 -- 142 2520 0.1744 0.2349 -- 99.0
X Ray Diffraction 2.2042 2.3422 -- 139 2587 0.1757 0.2287 -- 100.0
X Ray Diffraction 2.3422 2.5229 -- 143 2579 0.1856 0.2328 -- 100.0
X Ray Diffraction 2.5229 2.7766 -- 133 2609 0.191 0.2618 -- 100.0
X Ray Diffraction 2.7766 3.1778 -- 137 2598 0.1821 0.2426 -- 100.0
X Ray Diffraction 3.1778 4.0015 -- 146 2629 0.157 0.1646 -- 100.0
X Ray Diffraction 4.0015 26.5569 -- 139 2741 0.165 0.1819 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 12.5055
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -4.2078
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -8.2976
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 14.043
f_angle_d 1.032
f_plane_restr 0.005
f_bond_d 0.008
f_chiral_restr 0.076
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2511
Nucleic Acid Atoms 0
Heterogen Atoms 8
Solvent Atoms 370

Software

Software
Software Name Purpose
PHENIX refinement version: (PHENIX.REFINE)
XDS data reduction
XSCALE data scaling
PHENIX phasing