X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.33
Temperature 277.0
Details 44.0% polyethylene glycol 600, 0.15M calcium acetate, 0.1M sodium cacodylate pH 6.33, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 148.47 α = 90
b = 148.47 β = 90
c = 79.57 γ = 120
Symmetry
Space Group P 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 325 mm CCD Flat mirror (vertical focusing); single crystal Si(111) bent monochromator (ho rizontal focusing) 2010-06-10
Diffraction Radiation
Monochromator Protocol
single crystal Si(111) bent SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL11-1 -- SSRL BL11-1

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
2.24 48.6 96.8 0.062 -- -- -- -- 93682 -- -3.0 37.127
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)
2.24 2.32 96.0 0.527 -- 1.8 -- --

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
SAD 2.24 48.598 -- 1.71 -- 93681 4707 99.28 -- 0.1532 0.1513 0.1737 RANDOM + TWIN LAW
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 2.2404 2.279 -- 214 4423 0.224 0.25 -- 93.0
X Ray Diffraction 2.279 2.3204 -- 251 4465 0.2155 0.2486 -- 94.0
X Ray Diffraction 2.3204 2.365 -- 211 4395 0.2025 0.2336 -- 94.0
X Ray Diffraction 2.365 2.4133 -- 257 4385 0.1977 0.2512 -- 93.0
X Ray Diffraction 2.4133 2.4657 -- 225 4473 0.1946 0.21 -- 95.0
X Ray Diffraction 2.4657 2.5231 -- 225 4455 0.1909 0.2129 -- 94.0
X Ray Diffraction 2.5231 2.5862 -- 199 4500 0.1897 0.2084 -- 95.0
X Ray Diffraction 2.5862 2.6561 -- 250 4412 0.1888 0.2207 -- 94.0
X Ray Diffraction 2.6561 2.7342 -- 212 4437 0.1791 0.1786 -- 95.0
X Ray Diffraction 2.7342 2.8224 -- 238 4477 0.1735 0.2115 -- 95.0
X Ray Diffraction 2.8224 2.9232 -- 258 4437 0.1776 0.2023 -- 94.0
X Ray Diffraction 2.9232 3.0402 -- 220 4425 0.1783 0.208 -- 95.0
X Ray Diffraction 3.0402 3.1784 -- 241 4486 0.1701 0.1921 -- 94.0
X Ray Diffraction 3.1784 3.3459 -- 237 4434 0.1575 0.1751 -- 94.0
X Ray Diffraction 3.3459 3.5553 -- 265 4418 0.1429 0.1728 -- 94.0
X Ray Diffraction 3.5553 3.8294 -- 236 4480 0.1328 0.1666 -- 94.0
X Ray Diffraction 3.8294 4.2142 -- 235 4452 0.1125 0.1345 -- 95.0
X Ray Diffraction 4.2142 4.8224 -- 244 4463 0.108 0.1253 -- 95.0
X Ray Diffraction 4.8224 6.0699 -- 242 4463 0.1231 0.1339 -- 95.0
X Ray Diffraction 6.0699 33.6411 -- 241 4453 0.1405 0.1659 -- 94.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 37.4499
Anisotropic B[1][1] 3.5924
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 3.5924
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -7.1847
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.064
f_angle_d 0.956
f_plane_restr 0.004
f_dihedral_angle_d 11.286
f_bond_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 14387
Nucleic Acid Atoms 0
Heterogen Atoms 26
Solvent Atoms 286

Software

Software
Software Name Purpose
MolProbity model building version: 3beta29
PDB_EXTRACT data extraction version: 3.10
SHELX phasing
SHARP phasing
XSCALE data scaling version: January 30, 2009
PHENIX refinement version: 1.6.4
XDS data reduction
SHELXD phasing