4CAK

Three-dimensional reconstruction of intact human integrin alphaIIbbeta3 in a phospholipid bilayer nanodisc


ELECTRON MICROSCOPY
Sample
INTEGRIN ALPHAIIBBETA3 IN LIPID BILAYER NANODISC
Specimen Preparation
Sample Aggregation StatePARTICLE
Vitrification Instrument
Cryogen Name
Sample Vitrification DetailsVITRIFICATION 1 -- CRYOGEN- NONE, INSTRUMENT- NONE,
Staining TypeNEGATIVE
Staining Materialuranyl acetate
Staining Details
3D Reconstruction
Reconstruction MethodSINGLE PARTICLE
Number of Particles25008
Reported Resolution (Å)20.5
Resolution Method
Other DetailsINITIAL MODEL FROM RANDOM CONICAL TILT FOLLOWED BY REFERENCE BASED REFINEMENT PDB FILE 3FCS WAS SPLIT INTO 20 SUBDOMAINS. THESE SUBDOMAINS WERE MANUAL ...INITIAL MODEL FROM RANDOM CONICAL TILT FOLLOWED BY REFERENCE BASED REFINEMENT PDB FILE 3FCS WAS SPLIT INTO 20 SUBDOMAINS. THESE SUBDOMAINS WERE MANUALLY FITTED INTO THE EM VOLUME SUBMISSION BASED ON EXPERIMENTAL DATA FROM EMDB EMD-2281. (DEPOSITION ID: 11378).
Refinement Type
Symmetry TypePOINT
Point SymmetryC1
Map-Model Fitting and Refinement
Id1 (3FCS)
Refinement SpaceREAL
Refinement ProtocolRIGID BODY FIT
Refinement TargetCross-correlation coefficient
Overall B Value
Fitting Procedure
DetailsMETHOD--RIGID BODY REFINEMENT PROTOCOL--X-RAY
Data Acquisition
Detector TypeGENERIC TVIPS (4k x 4k)
Electron Dose (electrons/Å**2)13
Imaging Experiment1
Date of Experiment2010-02-01
Temperature (Kelvin)
Microscope ModelFEI TECNAI F20
Minimum Defocus (nm)1200
Maximum Defocus (nm)1500
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)50
Nominal CS2
Imaging ModeBRIGHT FIELD
Specimen Holder Model
Nominal Magnification29000
Calibrated Magnification50592
SourceFIELD EMISSION GUN
Acceleration Voltage (kV)120
Imaging DetailsLOW DOSE PACKAGE USED. CCD MAGNIFICATION IS 1.76 TIMES FILM MAGNIFICATION
EM Software
TaskSoftware PackageVersion
MODEL FITTINGUCSF Chimera
RECONSTRUCTIONSPIDER