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- EMDB-66143: Complex of FMDV O/18074 and porcine-derived neutralizing monoclon... -

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Basic information

Entry
Database: EMDB / ID: EMD-66143
TitleComplex of FMDV O/18074 and porcine-derived neutralizing monoclonal antibody pO18-10
Map data
Sample
  • Complex: Complex of FMDV O/18074 and porcine-derived neutralizing monoclonal antibody pO18-10
    • Complex: FMDV O/18074
      • Protein or peptide: VP1 of capsid protein
      • Protein or peptide: VP2 of capsid protein
      • Protein or peptide: VP3 of capsid protein
      • Protein or peptide: VP4 of capsid protein
    • Complex: porcine-derived neutralizing monoclonal antibody pO18-10
      • Protein or peptide: pO18-10 VH
      • Protein or peptide: pO18-10 VL
KeywordsFoot-and-mouth disease virus O / Sus scrofa / VIRUS/IMMUNE SYSTEM / VIRUS / VIRUS-IMMUNE SYSTEM complex
Function / homology
Function and homology information


T=pseudo3 icosahedral viral capsid / viral capsid / ribonucleoside triphosphate phosphatase activity / host cell / host cell cytoplasm / viral protein processing / cysteine-type endopeptidase activity / symbiont entry into host cell / virion attachment to host cell / structural molecule activity
Similarity search - Function
Peptidase C28, foot-and-mouth virus L-proteinase / Foot-and-mouth virus L-proteinase / Aphthovirus leader protease (L(pro)) domain profile. / Foot-and-mouth disease virus VP1 coat / Capsid protein VP4 superfamily, Picornavirus / Papain-like cysteine peptidase superfamily / Picornavirus capsid / picornavirus capsid protein / Picornavirus/Calicivirus coat protein / Viral coat protein subunit
Similarity search - Domain/homology
Genome polyprotein / Genome polyprotein / Genome polyprotein
Similarity search - Component
Biological speciesFoot-and-mouth disease virus O / Sus scrofa (pig)
Methodsingle particle reconstruction / cryo EM / Resolution: 2.27 Å
AuthorsWu S / Zhu Z / Lei D
Funding support China, 5 items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC)32171300 China
Other governmentR2405
Other government2021YFD1800300
National Natural Science Foundation of China (NSFC)32373028 China
Other governmentCAAS-CSLPDCP-202402
CitationJournal: To Be Published
Title: Structural basis of a conserved, broad antigen region surrounding the five-fold axis of foot-and-mouth disease virus revealed by swine neutralizing antibodies
Authors: Zhao Q / Wu S / Li F / Huang S / Yang J / Sun Y / Li P / Cao Y / Bao H / Sun P / Bai X / Zhao Z / Zhang J / Yuan H / Fu Y / Ma X / Li D / Zhang Q / Qian P / Zhu Z / Li X / Lu Z / Lei D / Li K
History
DepositionSep 9, 2025-
Header (metadata) releaseApr 22, 2026-
Map releaseApr 22, 2026-
UpdateApr 22, 2026-
Current statusApr 22, 2026Processing site: PDBc / Status: Released

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Structure visualization

Supplemental images

emd_66143.png

Downloads & links

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Map

FileDownload / File: emd_66143.map.gz / Format: CCP4 / Size: 421.9 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.97 Å/pix.
x 480 pix.
= 465.36 Å		0.97 Å/pix.
x 480 pix.
= 465.36 Å		0.97 Å/pix.
x 480 pix.
= 465.36 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.9695 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.281
Minimum - Maximum-0.119961604 - 2.9963508
Average (Standard dev.)0.024291353 (±0.15366906)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions480480480
Spacing480480480
CellA=B=C: 465.36002 Å
α=β=γ: 90.0 °

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Supplemental data

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Mask #1

Fileemd_66143_msk_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #1

Fileemd_66143_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_66143_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 : Complex of FMDV O/18074 and porcine-derived neutralizing monoclon...

EntireName: Complex of FMDV O/18074 and porcine-derived neutralizing monoclonal antibody pO18-10
Components
  • Complex: Complex of FMDV O/18074 and porcine-derived neutralizing monoclonal antibody pO18-10
    • Complex: FMDV O/18074
      • Protein or peptide: VP1 of capsid protein
      • Protein or peptide: VP2 of capsid protein
      • Protein or peptide: VP3 of capsid protein
      • Protein or peptide: VP4 of capsid protein
    • Complex: porcine-derived neutralizing monoclonal antibody pO18-10
      • Protein or peptide: pO18-10 VH
      • Protein or peptide: pO18-10 VL

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Supramolecule #1: Complex of FMDV O/18074 and porcine-derived neutralizing monoclon...

SupramoleculeName: Complex of FMDV O/18074 and porcine-derived neutralizing monoclonal antibody pO18-10
type: complex / ID: 1 / Parent: 0 / Macromolecule list: all

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Supramolecule #2: FMDV O/18074

SupramoleculeName: FMDV O/18074 / type: complex / ID: 2 / Parent: 1 / Macromolecule list: #1-#4
Source (natural)Organism: Foot-and-mouth disease virus O

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Supramolecule #3: porcine-derived neutralizing monoclonal antibody pO18-10

SupramoleculeName: porcine-derived neutralizing monoclonal antibody pO18-10
type: complex / ID: 3 / Parent: 1 / Macromolecule list: #5-#6
Source (natural)Organism: Sus scrofa (pig)

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Macromolecule #1: VP1 of capsid protein

MacromoleculeName: VP1 of capsid protein / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Foot-and-mouth disease virus O
Molecular weightTheoretical: 23.686809 KDa
SequenceString: TTSAGESADP VTTTVENYGG ETQAQRRQHT DVTFILDRFV KVKPQEEINV LDLMQIPAHT LVGALLRTAT YYFSDLELAV KHEGDLTWV PNGAPEAALD NTTNPTAYHK EPLTRLALPY TAPHRVLATV YNGSNKYGDT STNNVRGDLH VLAKNAERTL P TSFNYGAI ...String:
TTSAGESADP VTTTVENYGG ETQAQRRQHT DVTFILDRFV KVKPQEEINV LDLMQIPAHT LVGALLRTAT YYFSDLELAV KHEGDLTWV PNGAPEAALD NTTNPTAYHK EPLTRLALPY TAPHRVLATV YNGSNKYGDT STNNVRGDLH VLAKNAERTL P TSFNYGAI KATRVTELLY RMKRAETYCP RPLLAIQPST ARHKQKIVAP VKQLL

UniProtKB: Genome polyprotein

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Macromolecule #2: VP2 of capsid protein

MacromoleculeName: VP2 of capsid protein / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Foot-and-mouth disease virus O
Molecular weightTheoretical: 24.350398 KDa
SequenceString: DKKTEETTLL EDRILTTRNG HTTSTTQSSV GVTYGYATAE DFVSGPNTSG LETRVVQAER FFKTHLFDWG TNDSFGRCHL LELPTDHKG VYGSLTDSYA YMRNGWDVEV TAVGNQFNGG CLLVAMVPEL CSITKRELYQ LTLFPHQFIN PRTNMTAHIT V PYLGVNRY ...String:
DKKTEETTLL EDRILTTRNG HTTSTTQSSV GVTYGYATAE DFVSGPNTSG LETRVVQAER FFKTHLFDWG TNDSFGRCHL LELPTDHKG VYGSLTDSYA YMRNGWDVEV TAVGNQFNGG CLLVAMVPEL CSITKRELYQ LTLFPHQFIN PRTNMTAHIT V PYLGVNRY DQYKVHKPWT LVVTVVAPLT VKNEGAPQIK VYANIAPTNV YVAGELPSKE

UniProtKB: Genome polyprotein

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Macromolecule #3: VP3 of capsid protein

MacromoleculeName: VP3 of capsid protein / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Foot-and-mouth disease virus O
Molecular weightTheoretical: 23.886848 KDa
SequenceString: GIFPVACSDG YGGLVTTDPK TADPVYGKVF NPPRNLLPGR FTNLLDVAEA CPTFLRFDSD VPYVTTKTDS DRKLVQFDLS LAAKHMSNT FLAGLAQYYT QYSGTINLHF MFTGPTDAKA RYMVAYAPPG MEPPTTPEAA AHCIHAEWDT GLNSKFTFSI P YLSAADYA ...String:
GIFPVACSDG YGGLVTTDPK TADPVYGKVF NPPRNLLPGR FTNLLDVAEA CPTFLRFDSD VPYVTTKTDS DRKLVQFDLS LAAKHMSNT FLAGLAQYYT QYSGTINLHF MFTGPTDAKA RYMVAYAPPG MEPPTTPEAA AHCIHAEWDT GLNSKFTFSI P YLSAADYA YTASDVAETT NVQGWVCLFQ ITHGKADGDA LVVLASAGKD FDLRLPVDAR AQ

UniProtKB: Genome polyprotein

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Macromolecule #4: VP4 of capsid protein

MacromoleculeName: VP4 of capsid protein / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Foot-and-mouth disease virus O
Molecular weightTheoretical: 8.862206 KDa
SequenceString:
GAGQSSPTTG SQNQSGNTGS IINNYYMQQY QNSMDTQLGD NAISGGSNEG STDTTSTHTN NTQNNDWFSK LANTAFSGLF GALLA

UniProtKB: Genome polyprotein

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Macromolecule #5: pO18-10 VH

MacromoleculeName: pO18-10 VH / type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Sus scrofa (pig)
Molecular weightTheoretical: 14.042535 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString:
EEKLLVESGG GLVQPGGSLR LSCVGSGFLF SRSEISWVRQ APGKGLEWLA VIYSSGEITY YADSVKGRFT ISRDDSQNTA YLQMNSLRT EDTARYYCAR DYTYGTECSD KWDGMDLWGP GVEVVVSS

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Macromolecule #6: pO18-10 VL

MacromoleculeName: pO18-10 VL / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Sus scrofa (pig)
Molecular weightTheoretical: 11.446674 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString:
QTVIQEPAMS VSPGGTVTLT CAFSSGSVTT SNYPSWYQQT PGQPPRQLIY QTNRRPTGVP SRFSGAISGN KATLTITGAQ AEDEADYFC GLYKSCTNIF GGGTHLTVL

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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: 7.2
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 BIOQUANTUM (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: BRIGHT FIELD / Nominal defocus max: 2.0 µm / Nominal defocus min: 1.0 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

CTF correctionSoftware - Name: CTFFIND (ver. 4) / Type: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: NONE
Final reconstructionApplied symmetry - Point group: I (icosahedral) / Resolution.type: BY AUTHOR / Resolution: 2.27 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC (ver. 4.2) / Number images used: 29102
Initial angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: cryoSPARC (ver. 4.2)
Final angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: cryoSPARC (ver. 4.2)
FSC plot (resolution estimation)

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