X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.4
Temperature 278.0
Details 22% PEG1500, 0.1M PCB, pH 6.4, VAPOR DIFFUSION, HANGING DROP, temperature 278K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 43.95 α = 90
b = 95.89 β = 90
c = 119.92 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 ADSC QUANTUM 315r -- 2012-10-31
Diffraction Radiation
Monochromator Protocol
DOUBLE FLAT CRYSTAL, SI(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.3.1 1.11587 ALS 8.3.1

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
1.81 119.92 99.8 -- 0.119 -- 3.8 47043 47043 0.0 0.0 --
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)
1.81 1.91 99.6 0.665 0.665 1.1 3.8 --

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 1.81 74.891 -- 1.33 46969 46968 2418 99.69 -- 0.1633 0.1613 0.2023 --
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 1.81 1.847 -- 159 2555 0.2593 0.2958 -- 99.0
X Ray Diffraction 1.847 1.8871 -- 136 2577 0.2445 0.2826 -- 100.0
X Ray Diffraction 1.8871 1.931 -- 146 2563 0.214 0.2747 -- 99.0
X Ray Diffraction 1.931 1.9793 -- 140 2577 0.2062 0.2451 -- 100.0
X Ray Diffraction 1.9793 2.0328 -- 146 2583 0.1872 0.2119 -- 99.0
X Ray Diffraction 2.0328 2.0927 -- 116 2625 0.1793 0.2495 -- 99.0
X Ray Diffraction 2.0927 2.1602 -- 126 2591 0.1674 0.2052 -- 100.0
X Ray Diffraction 2.1602 2.2374 -- 159 2578 0.1578 0.1919 -- 100.0
X Ray Diffraction 2.2374 2.327 -- 171 2591 0.1585 0.1886 -- 100.0
X Ray Diffraction 2.327 2.4329 -- 126 2591 0.1581 0.2081 -- 100.0
X Ray Diffraction 2.4329 2.5612 -- 145 2632 0.1624 0.2137 -- 100.0
X Ray Diffraction 2.5612 2.7217 -- 139 2616 0.1652 0.2168 -- 100.0
X Ray Diffraction 2.7217 2.9318 -- 147 2631 0.1602 0.1946 -- 100.0
X Ray Diffraction 2.9318 3.2269 -- 141 2636 0.1605 0.2035 -- 100.0
X Ray Diffraction 3.2269 3.6938 -- 145 2672 0.1414 0.1938 -- 100.0
X Ray Diffraction 3.6938 4.6537 -- 126 2693 0.1249 0.1637 -- 99.0
X Ray Diffraction 4.6537 74.9547 -- 150 2839 0.1494 0.1682 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 26.6574
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.053
f_angle_d 0.901
f_dihedral_angle_d 12.56
f_plane_restr 0.004
f_bond_d 0.003
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3373
Nucleic Acid Atoms 0
Heterogen Atoms 5
Solvent Atoms 607

Software

Software
Software Name Purpose
MOSFLM data reduction
SCALA data scaling version: 3.3.20
PHENIX refinement version: 1.8_1069
PDB_EXTRACT data extraction version: 3.11
ELVES refinement
PHENIX phasing