X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7
Details 0.1 M NA ACETATE PH 4.5, 0.4 M K2HPO4, 1.2 M NAH2PO4

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 64.53 α = 90
b = 87.66 β = 90
c = 108.24 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 (QUANTUM 315R) ADSC -- 2009-03-18
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 -- SOLEIL PROXIMA 1

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
2.3 46.05 99.0 0.04 -- -- 3.6 -- 27564 -- 2.0 52.3
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)
2.3 2.44 98.2 0.43 -- 3.13 2.7 --

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 2.304 40.626 -- 2.0 -- 27552 1357 99.09 -- 0.2127 0.2091 0.2842 --
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 2.3041 2.3865 -- 133 2532 0.3007 0.3973 -- 98.0
X Ray Diffraction 2.3865 2.482 -- 146 2602 0.2564 0.2786 -- 100.0
X Ray Diffraction 2.482 2.595 -- 122 2602 0.2543 0.3696 -- 100.0
X Ray Diffraction 2.595 2.7318 -- 126 2611 0.2376 0.3236 -- 100.0
X Ray Diffraction 2.7318 2.9029 -- 139 2615 0.2203 0.3039 -- 100.0
X Ray Diffraction 2.9029 3.1269 -- 148 2606 0.2407 0.2926 -- 100.0
X Ray Diffraction 3.1269 3.4414 -- 145 2612 0.2118 0.3019 -- 100.0
X Ray Diffraction 3.4414 3.9391 -- 149 2637 0.2083 0.2942 -- 100.0
X Ray Diffraction 3.9391 4.9614 -- 130 2676 0.1743 0.2539 -- 99.0
X Ray Diffraction 4.9614 40.632 -- 119 2702 0.1923 0.2415 -- 96.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 57.09
Anisotropic B[1][1] 15.1824
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -15.329
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.1465
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.008
f_chiral_restr 0.076
f_dihedral_angle_d 17.35
f_angle_d 1.551
f_bond_d 0.015
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3897
Nucleic Acid Atoms 0
Heterogen Atoms 19
Solvent Atoms 115

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
XDS Data Reduction (data scaling)
BALBES Structure Solution
PHENIX (PHENIX.REFINE) Structure Refinement
Software
Software Name Purpose
PHENIX version: (PHENIX.REFINE) refinement
BALBES model building