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- EMDB-63667: ASFV p15 in complex with Fab 4E2 -

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Basic information

Entry
Database: EMDB / ID: EMD-63667
TitleASFV p15 in complex with Fab 4E2
Map data
Sample
  • Complex: ASFV p15 in complex with Fab 4E2
    • Protein or peptide: p15
    • Protein or peptide: Heavy chain of 4E2
    • Protein or peptide: Light chain of 4E2
KeywordsASFV / p15 / antibody / VIRAL PROTEIN
Function / homologyviral capsid assembly / virion component / host cell perinuclear region of cytoplasm / Polyprotein pp62
Function and homology information
Biological speciesSus scrofa (pig) / African swine fever virus (strain Badajoz 1971 Vero-adapted)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.75 Å
AuthorsWang X / Yu Q / Fu W
Funding support1 items
OrganizationGrant numberCountry
Not funded
CitationJournal: To Be Published
Title: ASFV p15 in complex with Fab 4E2
Authors: Wang X / Yu Q / Fu W
History
DepositionMar 9, 2025-
Header (metadata) releaseMar 18, 2026-
Map releaseMar 18, 2026-
UpdateMar 18, 2026-
Current statusMar 18, 2026Processing site: PDBc / Status: Released

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Structure visualization

Supplemental images

emd_63667.png

Downloads & links

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Map

FileDownload / File: emd_63667.map.gz / Format: CCP4 / Size: 103 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.07 Å/pix.
x 300 pix.
= 321. Å		1.07 Å/pix.
x 300 pix.
= 321. Å		1.07 Å/pix.
x 300 pix.
= 321. Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.07 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.8
Minimum - Maximum-4.8431106 - 7.307921
Average (Standard dev.)0.0025604155 (±0.11293091)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions300300300
Spacing300300300
CellA=B=C: 321.00003 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: #1

Fileemd_63667_half_map_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #2

Fileemd_63667_half_map_2.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : ASFV p15 in complex with Fab 4E2

EntireName: ASFV p15 in complex with Fab 4E2
Components
  • Complex: ASFV p15 in complex with Fab 4E2
    • Protein or peptide: p15
    • Protein or peptide: Heavy chain of 4E2
    • Protein or peptide: Light chain of 4E2

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Supramolecule #1: ASFV p15 in complex with Fab 4E2

SupramoleculeName: ASFV p15 in complex with Fab 4E2 / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Sus scrofa (pig)

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Macromolecule #1: p15

MacromoleculeName: p15 / type: protein_or_peptide / ID: 1 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: African swine fever virus (strain Badajoz 1971 Vero-adapted)
Molecular weightTheoretical: 16.84259 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString:
MKQFCKISVW LQQHDPDLLE IINNLCMLGN LSAAKYKHGV TFIYPKQAKI RDEIKKHAYS NDPSQAIKTL ESLILPFYIP TPAEFTGEI GSYTGVKLEV EKTEANKVIL KNGEAVLVPA ADFKPFPDRR LAVWIMESGS MPLEGPPYKR

UniProtKB: Polyprotein pp62

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Macromolecule #2: Heavy chain of 4E2

MacromoleculeName: Heavy chain of 4E2 / type: protein_or_peptide / ID: 2 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Sus scrofa (pig)
Molecular weightTheoretical: 12.983256 KDa
Recombinant expressionOrganism: Mus musculus (house mouse)
SequenceString:
QVQLHQPGSV LVRPGASVKL SCKASGYTFT SSWMHWAKQR PGQGLEWIGE IHPKSGNTNY NENFKGKATL TVDTSSSTAY VDLSSLASE DSAVYYCARS GGTYYYAMDS WGQGTSVTVS S

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Macromolecule #3: Light chain of 4E2

MacromoleculeName: Light chain of 4E2 / type: protein_or_peptide / ID: 3 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Sus scrofa (pig)
Molecular weightTheoretical: 11.935083 KDa
Recombinant expressionOrganism: Mus musculus (house mouse)
SequenceString:
DIQMTQTTSS LSASLGDRVT ISCRASQDTS NYLNWYQQKP DGTVKLLIYY TSRLHSGVPS RFSGSGSGTD FSLTINTLEQ EDFATYFCQ QGNTSPYTFG GGTKLEIKR

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

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Sample preparation

BufferpH: 8
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Average electron dose: 60.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: DARK FIELD / Nominal defocus max: 1.8 µm / Nominal defocus min: 1.2 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

CTF correctionType: NONE
Startup modelType of model: NONE
Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.75 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 266941
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD

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