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5nej

CryoEM Structure of Foot and Mouth Disease Virus O1 Manisa

Method: ELECTRON MICROSCOPY
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1. Protein Identity and Related Structures Protein Identity & Related Structures

O1 Manisa VP1

Foot-and-mouth disease virus

UniProt Q6PMW3

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 240 O1 Manisa VP3 × 60 （Q80B23） O1 Manisa VP1 × 60 （E1ACS1） Consistent with protein count
2 Protein heterocomplex Heteromer Protein 4 O1 Manisa VP3 × 1 （Q80B23） O1 Manisa VP1 × 1 （E1ACS1） Consistent with protein count
3 Protein heterocomplex Heteromer Protein 20 O1 Manisa VP3 × 5 （Q80B23） O1 Manisa VP1 × 5 （E1ACS1） Consistent with protein count
4 Protein heterocomplex Heteromer Protein 24 O1 Manisa VP3 × 6 （Q80B23） O1 Manisa VP1 × 6 （E1ACS1） Consistent with protein count
5 Protein heterocomplex Heteromer Protein 4 O1 Manisa VP3 × 1 （Q80B23） O1 Manisa VP1 × 1 （E1ACS1） Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer
5ac9 5ac9 5ddj 5ddj

4 assemblies

Other homooligomers
5ac9 5ac9 5ac9 5ddj 5ddj 5ddj

6 assemblies

Heteromeric or nucleic-acid complex
5nej 5nej 5nej 5nej 5nej 5net 5neu 5neu 5neu 5neu 5neu

11 assemblies

View Construct and Data Evidence
UniProt name Q6PMW3_9PICO
Isoform —
PDB entities 1, 2
Chains and sequence ranges Author chain 1； PDBConstruct 1–211； UniProt 725–935 Author chain 2； PDBConstruct 1–218； UniProt 287–504

O1 Manisa VP3

Foot-and-mouth disease virus

UniProt Q80B23

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 240 O1 Manisa VP1 × 60 （Q6PMW3） O1 Manisa VP2 × 60 （Q6PMW3） O1 Manisa VP1 × 60 （E1ACS1） Consistent with protein count
2 Protein heterocomplex Heteromer Protein 4 O1 Manisa VP1 × 1 （Q6PMW3） O1 Manisa VP2 × 1 （Q6PMW3） O1 Manisa VP1 × 1 （E1ACS1） Consistent with protein count
3 Protein heterocomplex Heteromer Protein 20 O1 Manisa VP1 × 5 （Q6PMW3） O1 Manisa VP2 × 5 （Q6PMW3） O1 Manisa VP1 × 5 （E1ACS1） Consistent with protein count
4 Protein heterocomplex Heteromer Protein 24 O1 Manisa VP1 × 6 （Q6PMW3） O1 Manisa VP2 × 6 （Q6PMW3） O1 Manisa VP1 × 6 （E1ACS1） Consistent with protein count
5 Protein heterocomplex Heteromer Protein 4 O1 Manisa VP1 × 1 （Q6PMW3） O1 Manisa VP2 × 1 （Q6PMW3） O1 Manisa VP1 × 1 （E1ACS1） Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
5nej 5nej 5nej 5nej 5nej 5net

6 assemblies

View Construct and Data Evidence
UniProt name Q80B23_9PICO
Isoform —
PDB entities 3
Chains and sequence ranges Author chain 3； PDBConstruct 1–220； UniProt 505–724

O1 Manisa VP1

Foot-and-mouth disease virus

UniProt E1ACS1

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 240 O1 Manisa VP1 × 60 （Q6PMW3） O1 Manisa VP2 × 60 （Q6PMW3） O1 Manisa VP3 × 60 （Q80B23） Consistent with protein count
2 Protein heterocomplex Heteromer Protein 4 O1 Manisa VP1 × 1 （Q6PMW3） O1 Manisa VP2 × 1 （Q6PMW3） O1 Manisa VP3 × 1 （Q80B23） Consistent with protein count
3 Protein heterocomplex Heteromer Protein 20 O1 Manisa VP1 × 5 （Q6PMW3） O1 Manisa VP2 × 5 （Q6PMW3） O1 Manisa VP3 × 5 （Q80B23） Consistent with protein count
4 Protein heterocomplex Heteromer Protein 24 O1 Manisa VP1 × 6 （Q6PMW3） O1 Manisa VP2 × 6 （Q6PMW3） O1 Manisa VP3 × 6 （Q80B23） Consistent with protein count
5 Protein heterocomplex Heteromer Protein 4 O1 Manisa VP1 × 1 （Q6PMW3） O1 Manisa VP2 × 1 （Q6PMW3） O1 Manisa VP3 × 1 （Q80B23） Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
5nej 5nej 5nej 5nej 5nej 5net 5neu 5neu 5neu 5neu 5neu

11 assemblies

View Construct and Data Evidence
UniProt name E1ACS1_9PICO
Isoform —
PDB entities 4
Chains and sequence ranges Author chain 4； PDBConstruct 1–85； UniProt 202–286

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id5nej
Deposition date deposition_date2017-03-10
Structure title titleCryoEM Structure of Foot and Mouth Disease Virus O1 Manisa
Keywords keywordsFoot and Mouth Disease Virus, FMDV, virus, OpanAsia; VIRUS
Experimental Method methodELECTRON MICROSCOPY
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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

5nej__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

5nej__assembly_1__model_1 | I(q)

10-2 10-1 105 106 107 108 109 1010 1011 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

5nej__assembly_1__model_1 | P(r) · Pending

The new assembly/model P(r) has not been calculated yet This placeholder does not display legacy data r (Angstrom) P(r)
P(r) will be calculated and displayed separately for the same assembly/model.
Rg（Guinier）0.00 Å
Rg (electron density)131.30 Å
Total Rg131.40 Å
Atom count306840
Residues39480
Excluded volume5440300 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 5nej__assembly_1__model_1 240-meric （240） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 5nej__assembly_2__model_1 tetrameric （4） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
3 1 5nej__assembly_3__model_1 eicosameric （20） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
4 1 5nej__assembly_4__model_1 24-meric （24） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
5 1 5nej__assembly_5__model_1 tetrameric （4） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (4)

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6. Fold Classification (SCOP + CATH) 6 domains

SCOP 2.08 (2 domains)

Domain ID domain_idd5nej1_
Class classb — All beta proteins
Fold Fold foldb.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamilyb.121.4 — Positive stranded ssRNA viruses
Family Family familyb.121.4.1 — Picornaviridae-like VP (VP1, VP2, VP3 and VP4)
Domain ID domain_idd5nej3_
Class classb — All beta proteins
Fold Fold foldb.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamilyb.121.4 — Positive stranded ssRNA viruses
Family Family familyb.121.4.1 — Picornaviridae-like VP (VP1, VP2, VP3 and VP4)

CATH v4.4 (4 domains)

Domain ID domain_id5nej100
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20 —
Domain ID domain_id5nej200
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20 —
Domain ID domain_id5nej300
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20 —
Domain ID domain_id5nej400
Class class4 — Few Secondary Structures
Architecture architecture10 — Irregular
Topology topology90 — Foot-And-Mouth Disease Virus, subunit 4
Homologous superfamily homologous superfamily10 — Capsid protein VP4 superfamily, Picornavirus
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7. Citations (1)