X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.5
Temperature 298.0
Details 0.1M Tris-Cl, pH 8.5, 30% PEG 4000, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 55.11 α = 90
b = 68.08 β = 108.41
c = 80.35 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2012-05-26
Diffraction Radiation
Monochromator Protocol
SAGITALLY FOCUSED Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL17U 0.97892 SSRF BL17U

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
1.71 50 97.9 -- -- -- -- -- 58226 0.0 -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)
1.71 1.8 96.5 -- -- -- -- --

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 1.705 41.469 -- 1.35 -- 58192 2949 94.55 -- 0.179 0.1773 0.2119 --
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 1.705 1.733 -- 96 1915 0.2448 0.3097 -- 69.0
X Ray Diffraction 1.733 1.7628 -- 123 2177 0.2587 0.3221 -- 80.0
X Ray Diffraction 1.7628 1.7949 -- 136 2657 0.2486 0.2492 -- 95.0
X Ray Diffraction 1.7949 1.8294 -- 145 2650 0.2384 0.2699 -- 96.0
X Ray Diffraction 1.8294 1.8668 -- 143 2652 0.2328 0.2807 -- 96.0
X Ray Diffraction 1.8668 1.9074 -- 129 2694 0.2217 0.2339 -- 96.0
X Ray Diffraction 1.9074 1.9517 -- 139 2665 0.2034 0.2382 -- 96.0
X Ray Diffraction 1.9517 2.0005 -- 141 2660 0.1944 0.2468 -- 96.0
X Ray Diffraction 2.0005 2.0546 -- 148 2670 0.1887 0.2336 -- 96.0
X Ray Diffraction 2.0546 2.1151 -- 150 2674 0.185 0.224 -- 97.0
X Ray Diffraction 2.1151 2.1833 -- 128 2690 0.176 0.2207 -- 97.0
X Ray Diffraction 2.1833 2.2614 -- 136 2682 0.169 0.2625 -- 97.0
X Ray Diffraction 2.2614 2.3519 -- 156 2706 0.1694 0.1971 -- 97.0
X Ray Diffraction 2.3519 2.4589 -- 127 2709 0.1783 0.203 -- 97.0
X Ray Diffraction 2.4589 2.5886 -- 155 2717 0.1745 0.2187 -- 97.0
X Ray Diffraction 2.5886 2.7507 -- 137 2728 0.1761 0.2105 -- 98.0
X Ray Diffraction 2.7507 2.963 -- 176 2682 0.1714 0.2161 -- 98.0
X Ray Diffraction 2.963 3.2611 -- 153 2739 0.1702 0.1948 -- 98.0
X Ray Diffraction 3.2611 3.7327 -- 149 2713 0.1527 0.1806 -- 97.0
X Ray Diffraction 3.7327 4.7018 -- 138 2677 0.1476 0.1739 -- 95.0
X Ray Diffraction 4.7018 41.4816 -- 144 2786 0.1786 0.1977 -- 97.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 39.528
Anisotropic B[1][1] -0.9
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.75
Anisotropic B[2][2] 1.53
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.71
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 14.498
f_plane_restr 0.007
f_bond_d 0.013
f_chiral_restr 0.091
f_angle_d 1.375
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4401
Nucleic Acid Atoms 0
Heterogen Atoms 39
Solvent Atoms 393

Software

Software
Software Name Purpose
ADSC data collection version: Quantum
MOLREP phasing
REFMAC refinement version: 5.7.0032
HKL-2000 data reduction
HKL-2000 data scaling
PHENIX refinement version: 1.8.2_1309