X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.7
Temperature 293.0
Details 1.5M Ammonium sulfate, 0.1M sodium acetate, pH 4.7, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 158.63 α = 90
b = 158.63 β = 90
c = 135.82 γ = 120
Symmetry
Space Group P 62

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r mirrors 2012-09-28
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE BM30A 0.9798 ESRF BM30A

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
2.5 48.5 98.0 -- 0.053 -- 2.58 -- 66527 -- 2.0 --
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)
2.5 2.6 96.4 -- 0.401 2.34 2.58 --

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 2.503 48.5 -- 1.06 -- 66526 3324 98.29 -- 0.1907 0.1885 0.2339 --
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 2.503 2.5314 -- 219 4121 0.2584 0.3065 -- 98.0
X Ray Diffraction 2.5314 2.5612 -- 221 4205 0.2553 0.2876 -- 99.0
X Ray Diffraction 2.5612 2.5925 -- 219 4118 0.2571 0.3333 -- 99.0
X Ray Diffraction 2.5925 2.6253 -- 215 4121 0.2604 0.3465 -- 99.0
X Ray Diffraction 2.6253 2.6598 -- 215 4186 0.2449 0.2903 -- 99.0
X Ray Diffraction 2.6598 2.6962 -- 217 4039 0.2496 0.2997 -- 98.0
X Ray Diffraction 2.6962 2.7348 -- 221 4177 0.2536 0.299 -- 99.0
X Ray Diffraction 2.7348 2.7756 -- 221 4173 0.2588 0.3517 -- 99.0
X Ray Diffraction 2.7756 2.8189 -- 217 4109 0.2454 0.3117 -- 99.0
X Ray Diffraction 2.8189 2.8652 -- 218 4137 0.2453 0.3216 -- 99.0
X Ray Diffraction 2.8652 2.9145 -- 216 4129 0.2373 0.2716 -- 100.0
X Ray Diffraction 2.9145 2.9675 -- 218 4147 0.2306 0.2971 -- 99.0
X Ray Diffraction 2.9675 3.0246 -- 221 4163 0.2451 0.282 -- 99.0
X Ray Diffraction 3.0246 3.0863 -- 218 4152 0.2344 0.3399 -- 99.0
X Ray Diffraction 3.0863 3.1534 -- 218 4111 0.2221 0.3161 -- 99.0
X Ray Diffraction 3.1534 3.2268 -- 217 4126 0.2323 0.2995 -- 99.0
X Ray Diffraction 3.2268 3.3075 -- 216 4117 0.2283 0.2659 -- 99.0
X Ray Diffraction 3.3075 3.3969 -- 215 4088 0.2149 0.3053 -- 99.0
X Ray Diffraction 3.3969 3.4968 -- 213 4044 0.2054 0.2339 -- 97.0
X Ray Diffraction 3.4968 3.6096 -- 216 4140 0.2078 0.2652 -- 98.0
X Ray Diffraction 3.6096 3.7386 -- 210 4011 0.1943 0.2809 -- 97.0
X Ray Diffraction 3.7386 3.8882 -- 216 4053 0.1848 0.2352 -- 97.0
X Ray Diffraction 3.8882 4.0651 -- 211 4067 0.1712 0.2003 -- 97.0
X Ray Diffraction 4.0651 4.2793 -- 213 4079 0.1576 0.2099 -- 98.0
X Ray Diffraction 4.2793 4.5472 -- 215 4103 0.1455 0.182 -- 98.0
X Ray Diffraction 4.5472 4.898 -- 209 4052 0.1468 0.1747 -- 98.0
X Ray Diffraction 4.898 5.3903 -- 214 4136 0.1419 0.1608 -- 98.0
X Ray Diffraction 5.3903 6.169 -- 219 4114 0.1492 0.2015 -- 98.0
X Ray Diffraction 6.169 7.7671 -- 207 4057 0.141 0.1564 -- 98.0
X Ray Diffraction 7.7671 48.5095 -- 200 3840 0.1441 0.1476 -- 92.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_chiral_restr 0.072
f_dihedral_angle_d 13.676
f_angle_d 1.091
f_bond_d 0.009
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 11859
Nucleic Acid Atoms 0
Heterogen Atoms 192
Solvent Atoms 329

Software

Computing
Computing Package Purpose
MX CUBE Data Collection
XDS Data Reduction (intensity integration)
XDS Data Reduction (data scaling)
Phaser Structure Solution
PHENIX (phenix.refine: 1.8.1_1168) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.8.1_1168) refinement
Phaser model building
MX version: CUBE data collection