X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 293.0
Details EhRho1-GTPgammaS at 5 mg/mL and and EhFormin1 at 10 mg/mL were mixed in crystallization buffer (50 mM Tris pH 8.0, 250 mM NaCl, 2.5% (v/v) glycerol, 5 mM DTT, 50 microM GTPgammaS, 1 mM magnesium chloride) and allowed to form a complex for 30 minutes at room temperature. The protein solution was then mixed 1:1 and equilibrated against crystallization solution (18% PEG 3350, 100 mM Tris pH 8.5, 200 mM magnesium chloride)., VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 138.56 α = 90
b = 138.56 β = 90
c = 57.76 γ = 120
Symmetry
Space Group P 61

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MAR scanner 300 mm plate -- 2011-11-22
Diffraction Radiation
Monochromator Protocol
double crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 23-ID-B 0.9795 APS 23-ID-B

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
2.6 40 98.4 0.085 -- -- 9.6 -- 19500 0.0 0.0 65.0
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)
2.6 2.63 -- 0.58 -- 2.1 -- --

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
SAD 2.604 35.673 -- 0.0 -- 19211 1938 97.85 -- 0.2188 0.2152 0.2512 RANDOM
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 2.604 2.6687 -- 121 1092 0.3343 0.3721 -- 86.0
X Ray Diffraction 2.6687 2.7408 -- 132 1164 0.3402 0.366 -- 94.0
X Ray Diffraction 2.7408 2.8215 -- 132 1186 0.3108 0.3578 -- 96.0
X Ray Diffraction 2.8215 2.9125 -- 142 1235 0.2911 0.3393 -- 98.0
X Ray Diffraction 2.9125 3.0165 -- 140 1232 0.269 0.3 -- 98.0
X Ray Diffraction 3.0165 3.1372 -- 137 1230 0.2473 0.2896 -- 99.0
X Ray Diffraction 3.1372 3.2799 -- 136 1254 0.2489 0.3144 -- 100.0
X Ray Diffraction 3.2799 3.4527 -- 142 1260 0.248 0.3285 -- 100.0
X Ray Diffraction 3.4527 3.6688 -- 137 1253 0.234 0.273 -- 100.0
X Ray Diffraction 3.6688 3.9518 -- 142 1261 0.2008 0.2232 -- 100.0
X Ray Diffraction 3.9518 4.3488 -- 142 1257 0.1745 0.2102 -- 100.0
X Ray Diffraction 4.3488 4.9767 -- 139 1275 0.1573 0.19 -- 100.0
X Ray Diffraction 4.9767 6.2645 -- 150 1278 0.2088 0.2112 -- 100.0
X Ray Diffraction 6.2645 35.6767 -- 146 1296 0.2027 0.244 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -3.0438
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -3.0438
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 6.0876
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.079
f_dihedral_angle_d 14.668
f_angle_d 1.233
f_bond_d 0.01
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3747
Nucleic Acid Atoms 0
Heterogen Atoms 33
Solvent Atoms 4

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHENIX AutoSol Structure Solution
PHENIX (phenix.refine: 1.7.1_743) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.1_743) refinement
PHENIX version: AutoSol model building
HKL-2000 data collection