X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.75
Temperature 303.0
Details 6% PEG6000, 0.5M NACL, 25MM CACL2, 5% METHANOL, 50MM HEPES, 50 MM TRIS-HCL, pH 7.75, VAPOR DIFFUSION, HANGING DROP, temperature 303K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 59.63 α = 81.38
b = 59.69 β = 87.82
c = 101.54 γ = 88.82
Symmetry
Space Group P 1

Diffraction

Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 21-ID-G -- 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
2.39 50 89.7 -- -- -- -- 54876 49244 2.0 2.0 --

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 2.39 34.645 -- 1.98 54966 49224 1997 89.59 -- 0.1699 0.1676 0.2225 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 2.39 2.4459 -- 131 3083 0.1905 0.2744 -- 83.0
X Ray Diffraction 2.4459 2.512 -- 159 3573 0.1793 0.2529 -- 96.0
X Ray Diffraction 2.512 2.5859 -- 152 3652 0.1865 0.2893 -- 96.0
X Ray Diffraction 2.5859 2.6694 -- 151 3642 0.1897 0.2528 -- 97.0
X Ray Diffraction 2.6694 2.7647 -- 147 3660 0.18 0.2832 -- 97.0
X Ray Diffraction 2.7647 2.8754 -- 156 3707 0.1784 0.238 -- 98.0
X Ray Diffraction 2.8754 3.0062 -- 166 3722 0.1877 0.2471 -- 98.0
X Ray Diffraction 3.0062 3.1646 -- 156 3704 0.1761 0.2516 -- 99.0
X Ray Diffraction 3.1646 3.3627 -- 158 3714 0.1905 0.2517 -- 99.0
X Ray Diffraction 3.3627 3.6221 -- 97 2446 0.1823 0.2356 -- 68.0
X Ray Diffraction 3.6221 3.9861 -- 52 1282 0.1664 0.2217 -- 49.0
X Ray Diffraction 3.9861 4.5618 -- 156 3636 0.1438 0.1789 -- 97.0
X Ray Diffraction 4.5618 5.7431 -- 158 3715 0.1401 0.1788 -- 99.0
X Ray Diffraction 5.7431 34.6485 -- 158 3711 0.1572 0.1899 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -8.074
Anisotropic B[1][2] -4.3808
Anisotropic B[1][3] 3.1162
Anisotropic B[2][2] -3.1498
Anisotropic B[2][3] -5.7785
Anisotropic B[3][3] 11.2238
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.074
f_dihedral_angle_d 14.399
f_angle_d 1.082
f_bond_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 10054
Nucleic Acid Atoms 0
Heterogen Atoms 46
Solvent Atoms 430

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
Phenix Structure Solution
PHENIX (phenix.refine: 1.7.3_928) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.3_928) refinement
Phenix model building
ADSC version: Quantum data collection