X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 277.15
Details 15% PEG 8000, 20mM sodium phosphate, 175mM sodium chloride, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 277.15K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 70.3 α = 90
b = 71.2 β = 100.7
c = 72.4 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RAYONIX MX-225 Collimating Mirror 2010-06-25
Diffraction Radiation
Monochromator Protocol
Double Crystal Monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON BESSY BEAMLINE 14.2 0.91841 BESSY 14.2

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
1.5 50 97.3 -- 0.053 -- 2.7 55148 55148 -- -- 13.66
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)
1.5 1.53 98.5 -- 0.468 1.9 2.6 2816

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 1.5 22.496 -- 0.0 54651 52016 2635 92.72 0.1613 0.1613 0.1601 0.1828 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 1.5 1.5273 -- 114 2355 0.2629 0.2778 -- 84.0
X Ray Diffraction 1.5273 1.5566 -- 128 2429 0.2286 0.2548 -- 87.0
X Ray Diffraction 1.5566 1.5884 -- 115 2474 0.2095 0.2103 -- 89.0
X Ray Diffraction 1.5884 1.6229 -- 171 2511 0.1987 0.213 -- 91.0
X Ray Diffraction 1.6229 1.6607 -- 120 2548 0.1839 0.185 -- 91.0
X Ray Diffraction 1.6607 1.7022 -- 155 2508 0.1789 0.2128 -- 91.0
X Ray Diffraction 1.7022 1.7482 -- 133 2594 0.1734 0.1984 -- 92.0
X Ray Diffraction 1.7482 1.7996 -- 148 2625 0.1601 0.228 -- 94.0
X Ray Diffraction 1.7996 1.8577 -- 135 2662 0.1569 0.1956 -- 94.0
X Ray Diffraction 1.8577 1.924 -- 130 2624 0.1594 0.1984 -- 94.0
X Ray Diffraction 1.924 2.001 -- 143 2647 0.1535 0.1779 -- 95.0
X Ray Diffraction 2.001 2.092 -- 132 2685 0.152 0.1867 -- 96.0
X Ray Diffraction 2.092 2.2022 -- 134 2688 0.1486 0.1655 -- 96.0
X Ray Diffraction 2.2022 2.3401 -- 145 2674 0.1587 0.1817 -- 95.0
X Ray Diffraction 2.3401 2.5206 -- 148 2704 0.1542 0.1771 -- 96.0
X Ray Diffraction 2.5206 2.7738 -- 155 2671 0.1691 0.1946 -- 95.0
X Ray Diffraction 2.7738 3.1742 -- 157 2672 0.1614 0.1935 -- 95.0
X Ray Diffraction 3.1742 3.9955 -- 123 2672 0.1393 0.164 -- 94.0
X Ray Diffraction 3.9955 22.4984 -- 149 2638 0.1491 0.1488 -- 92.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 22.1079
Anisotropic B[1][1] 1.3047
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -3.2169
Anisotropic B[2][2] -1.9783
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.6735
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_chiral_restr 0.074
f_dihedral_angle_d 16.885
f_angle_d 1.095
f_bond_d 0.018
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2341
Nucleic Acid Atoms 0
Heterogen Atoms 68
Solvent Atoms 349

Software

Computing
Computing Package Purpose
MAR345dtb Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.7_650) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7_650) refinement
PHASER model building
MAR345dtb data collection