X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 291.0
Details 100mM MES 6.5, 25% PEG600, 20mM CaCl2, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 66.67 α = 93.14
b = 67.83 β = 108.21
c = 98.24 γ = 116.3
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r mirrors 2012-01-11
Diffraction Radiation
Monochromator Protocol
Si 111 CHANNEL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL17U 0.9795 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
2.95 40 98.5 -- -- -- -- -- n/a 1.0 1.0 --
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)
2.95 3.06 98.2 -- -- -- -- --

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 2.95 38.66 -- 0.89 60091 58102 2954 96.7 -- 0.267 0.266 0.291 --
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 2.95 2.9984 -- 111 2600 0.4012 0.454 -- 95.0
X Ray Diffraction 2.9984 3.0501 -- 155 2642 0.3727 0.3384 -- 97.0
X Ray Diffraction 3.0501 3.1055 -- 142 2643 0.359 0.4703 -- 98.0
X Ray Diffraction 3.1055 3.1652 -- 145 2692 0.3673 0.3508 -- 98.0
X Ray Diffraction 3.1652 3.2298 -- 137 2687 0.3665 0.4604 -- 98.0
X Ray Diffraction 3.2298 3.3 -- 98 2629 0.3405 0.3565 -- 97.0
X Ray Diffraction 3.3 3.3767 -- 156 2697 0.32 0.4151 -- 98.0
X Ray Diffraction 3.3767 3.4611 -- 140 2617 0.2938 0.2863 -- 98.0
X Ray Diffraction 3.4611 3.5546 -- 152 2721 0.2743 0.3283 -- 98.0
X Ray Diffraction 3.5546 3.6591 -- 154 2586 0.2742 0.2406 -- 98.0
X Ray Diffraction 3.6591 3.7772 -- 147 2690 0.2774 0.2744 -- 98.0
X Ray Diffraction 3.7772 3.912 -- 137 2637 0.2649 0.2704 -- 98.0
X Ray Diffraction 3.912 4.0685 -- 161 2621 0.2554 0.2912 -- 98.0
X Ray Diffraction 4.0685 4.2534 -- 163 2628 0.2447 0.2928 -- 97.0
X Ray Diffraction 4.2534 4.4774 -- 146 2642 0.21 0.2043 -- 96.0
X Ray Diffraction 4.4774 4.7574 -- 122 2609 0.185 0.2378 -- 95.0
X Ray Diffraction 4.7574 5.124 -- 122 2631 0.2061 0.2261 -- 96.0
X Ray Diffraction 5.124 5.6382 -- 153 2560 0.2833 0.2869 -- 96.0
X Ray Diffraction 5.6382 6.4508 -- 123 2646 0.3068 0.3717 -- 96.0
X Ray Diffraction 6.4508 8.115 -- 158 2497 0.2726 0.2776 -- 93.0
X Ray Diffraction 8.115 38.6609 -- 132 2473 0.2451 0.2735 -- 91.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 7.3686
Anisotropic B[1][2] 9.7927
Anisotropic B[1][3] 2.5732
Anisotropic B[2][2] 3.7437
Anisotropic B[2][3] 3.2479
Anisotropic B[3][3] 15.6374
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.01
f_chiral_restr 0.09
f_dihedral_angle_d 22.49
f_angle_d 1.665
f_bond_d 0.019
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 9317
Nucleic Acid Atoms 0
Heterogen Atoms 2
Solvent Atoms 0

Software

Computing
Computing Package Purpose
CBASS Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (PHENIX.REFINE: 1.7.3_928) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.3_928) refinement
PHASER model building
CBASS data collection