2QZV

Draft Crystal Structure of the Vault Shell at 9 Angstroms Resolution


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelOthervault cryo-EM density

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.82930.5% PEG 8000, 3% GLYCEROL, 0.05M NA MOPS, 0.04M MGCL2, 0.2% N-OCTYL-BETA-D-GLUCOPYRANOSIDE, INITIALLY SATURATED WITH CYCLOHEXANE, PH 6.8, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K, PH 6.80
Crystal Properties
Matthews coefficientSolvent content
7.584

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 631.449α = 90
b = 464.724β = 123.84
c = 584.572γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray110CCDADSC QUANTUM 315MIRRORS FOCUSED AT 700 MM2004-01-16MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 8.2.21.08ALS8.2.2

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
1920098.10.2236.56.1101681
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
99.595.50.631.25.313869

Refinement

Statistics
Diffraction IDStructure Solution MethodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONAB INITIO PHASINGCRYO EM DENSITY9200101681980.615
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms7404
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms

Software

Software
Software NamePurpose
DMmodel building
ADSCdata collection
MOSFLMdata reduction
SCALAdata scaling
DMphasing
CNSrefinement