EMD-0433

Single-particle
5.2 Å
EMD-0433
3D View Gallery
Deposition: 10/12/2018
Map released: 19/06/2019
Last modified: 06/11/2024
Overview 3D View Sample Experiment Validation Additional data Links
Overview 3D View Sample Experiment Validation Additional data Links

EMD-0433
Download
3D volume (map.gz) Experimental metadata (xml) Experimental Metadata (cif.gz)
Map-only Validation report (pdf.gz) Map-only Validation report (cif.gz) Map-only Validation report (xml.gz)
Map and PDB model 6nc2 summary report (pdf.gz) Map and 6nc2 FULL report (pdf.gz)
EMICSS annotations (xml)

AMC011 v4.2 SOSIP Env trimer in complex with fusion peptide targeting antibody ACS202 fragment antigen binding

EMD-0433

Single-particle
5.2 Å
EMD-0433
3D View Gallery
Deposition: 10/12/2018
Map released: 19/06/2019
Last modified: 06/11/2024
Overview 3D View Sample Experiment Validation Additional data Links
Method: Single-particle
Aggregation State: Particle
Specimen preparation [1]
Concentration: 5 mg/mL
Details: SEC purified sample after overnight incubation of molar excess Fab to trimer
Buffer
pH: 7.4
Buffer components [3]:
Name Formula Concentration ChEBI
Tris - 50.0 mM -
Sodium chloride NaCl 150.0 mM
N-dodecyl beta-D-maltoside - 0.06 mM -
Details: Detergent (DDM) added immediately prior to grid preparation
Grid
Mesh: 400
Model: C-flat-2/2 4C
Material: COPPER
Details: Gatan Solarus 950 Plasma system
Pretreatment
Type: PLASMA CLEANING
Time: 10 s
Atmosphere: OTHER
Support Film [1]
Material Topology Thickness
CARBON HOLEY -
Vitrification
Cryogen name: ETHANE
Instrument: HOMEMADE PLUNGER
Microscopy [1]
Microscope: FEI TITAN KRIOS
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 300 kV
C2 aperture diameter: 70.0 µm
Nominal CS: 2.7 mm
Nominal defocus: 1.3 µm - 2.5 µm
Nominal magnification: 29000.0
Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER
Cooling holder cryogen: NITROGEN
Alignment procedure: COMA FREE
Image Recording [1]
Detector model: GATAN K2 SUMMIT (4k x 4k)
Detector mode: COUNTING
Dimensions: 3710 pixel x 3838 pixel
Number of real images: 1641
Average exposure time: 10.0 s
Average electron dose per image: 92.0 e/Å2
Image processing [1]
Final reconstruction
Resolution: 5.2 Å ( BY AUTHOR)
Resolution method: FSC 0.143 CUT-OFF
Number of images used: 49878
⌯ Applied Symmetry
Point group: D3
Software [1]
Name Version Details
RELION 2.1 -
Startup model [1]
Type: PDB ENTRY
PDB model: 4ZMJ
Details:PDB coordinates converted to low pass filtered map
⦨ Initial angle assignment
Type: PROJECTION MATCHING
Software [1]
Name Version Details
RELION 2.1 -
⦩ Final angle assignment
Type: PROJECTION MATCHING
Software [1]
Name Version Details
RELION 2.1 -
Final 3D classification
Software [1]
Name Version Details
RELION 2.1 -
Map
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: Sharpened map
⬡ Geometry
X Y Z
Origin 0 0 0
Dimensions (px) 288 288 288
Dimensions (Å) 296.63998 296.63998 296.63998
Voxel size (Å) 1.03 1.03 1.03
Contour list
Primary Level Source
True 0.04 AUTHOR