X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 6.2
Temperature 295.0
Details 0.1 M Na citrate, 25% PEG 4000, 17% isopropanol

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 45.31 α = 90
b = 45.31 β = 90
c = 247.42 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RAYONIX MX-225 -- 2011-02-23
Diffraction Radiation
Monochromator Protocol
DCM MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CLSI BEAMLINE 08ID-1 0.9793 CLSI 08ID-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
1.2 39.24 95.7 0.038 -- -- 4.1 -- 90023 -- -3.0 --
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)
1.2 1.23 71.6 0.243 -- 2.95 -- --

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
FOURIER SYNTHESIS 1.2 39.24 -- 1.99 -- 90019 4515 95.65 -- 0.1609 0.1608 0.1628 --
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 1.2 1.2136 -- 109 1971 0.2184 0.1936 -- 68.0
X Ray Diffraction 1.2136 1.2279 -- 106 2231 0.2126 0.2097 -- 74.0
X Ray Diffraction 1.2279 1.2429 -- 126 2234 0.2073 0.2326 -- 78.0
X Ray Diffraction 1.2429 1.2586 -- 136 2498 0.2246 0.2113 -- 84.0
X Ray Diffraction 1.2586 1.2752 -- 135 2538 0.2442 0.2555 -- 88.0
X Ray Diffraction 1.2752 1.2926 -- 147 2757 0.227 0.2612 -- 93.0
X Ray Diffraction 1.2926 1.3111 -- 145 2813 0.2101 0.217 -- 96.0
X Ray Diffraction 1.3111 1.3307 -- 157 2940 0.1858 0.2046 -- 99.0
X Ray Diffraction 1.3307 1.3515 -- 148 2911 0.1771 0.2051 -- 100.0
X Ray Diffraction 1.3515 1.3736 -- 161 2964 0.1767 0.1709 -- 100.0
X Ray Diffraction 1.3736 1.3973 -- 153 2894 0.1769 0.1849 -- 100.0
X Ray Diffraction 1.3973 1.4227 -- 155 2975 0.174 0.1975 -- 100.0
X Ray Diffraction 1.4227 1.4501 -- 154 2920 0.1778 0.228 -- 100.0
X Ray Diffraction 1.4501 1.4797 -- 152 2956 0.1702 0.1913 -- 100.0
X Ray Diffraction 1.4797 1.5119 -- 159 2983 0.1711 0.208 -- 100.0
X Ray Diffraction 1.5119 1.547 -- 151 2905 0.1598 0.18 -- 100.0
X Ray Diffraction 1.547 1.5857 -- 157 2945 0.1529 0.1636 -- 100.0
X Ray Diffraction 1.5857 1.6286 -- 159 2985 0.1525 0.1705 -- 100.0
X Ray Diffraction 1.6286 1.6765 -- 155 2974 0.1538 0.1647 -- 100.0
X Ray Diffraction 1.6765 1.7306 -- 155 2945 0.1583 0.1582 -- 100.0
X Ray Diffraction 1.7306 1.7925 -- 160 2973 0.1619 0.1645 -- 100.0
X Ray Diffraction 1.7925 1.8642 -- 157 2951 0.1593 0.1603 -- 99.0
X Ray Diffraction 1.8642 1.9491 -- 160 2976 0.1542 0.1783 -- 100.0
X Ray Diffraction 1.9491 2.0518 -- 157 2994 0.1515 0.1653 -- 99.0
X Ray Diffraction 2.0518 2.1804 -- 163 3018 0.1434 0.1342 -- 99.0
X Ray Diffraction 2.1804 2.3487 -- 155 2955 0.1474 0.1768 -- 99.0
X Ray Diffraction 2.3487 2.585 -- 159 2988 0.1521 0.1537 -- 99.0
X Ray Diffraction 2.585 2.959 -- 155 3056 0.1609 0.1659 -- 99.0
X Ray Diffraction 2.959 3.7276 -- 159 3082 0.1529 0.1345 -- 98.0
X Ray Diffraction 3.7276 39.2606 -- 170 3172 0.1685 0.1588 -- 96.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 18.88
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.007
f_chiral_restr 0.088
f_dihedral_angle_d 11.932
f_angle_d 1.401
f_bond_d 0.01
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2334
Nucleic Acid Atoms 0
Heterogen Atoms 172
Solvent Atoms 506

Software

Software
Software Name Purpose
XDS data reduction version: March 5, 2012
XSCALE data scaling
PHENIX phasing version: 1.8_1069
PHENIX refinement version: 1.8_1069
PDB_EXTRACT data extraction version: 3.20