5ner

Localised reconstruction of alpha v beta 6 bound to Foot and Mouth Disease Virus O PanAsia - Pose A prime.

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

O PanAsia VP1

Foot-and-mouth disease virus

UniProt A0A1P8NWT0

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 6 其他Polymer 5 O PanAsia VP2 × 1 (A0A1B0SZV3) O PanAsia VP3 × 1 (J3T9N5) O PanAsia VP4 × 1 (A6Y878) Integrin alpha-V × 1 (P06756) Integrin beta-6 × 1 (P18564) alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose × 1 alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 ;alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 ;alpha-D-mannopyranose-(1-4)-alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 alpha-D-mannopyranose × 3 2-acetamido-2-deoxy-beta-D-glucopyranose × 4 CALCIUM ION × 4 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name A0A1P8NWT0_9PICO
Isoform —
PDB entities 1
Chains and sequence ranges Author chain 1; PDBConstruct 1–210; UniProt 1–210

O PanAsia VP2

Foot-and-mouth disease virus

UniProt A0A1B0SZV3

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 6 其他Polymer 5 O PanAsia VP1 × 1 (A0A1P8NWT0) O PanAsia VP3 × 1 (J3T9N5) O PanAsia VP4 × 1 (A6Y878) Integrin alpha-V × 1 (P06756) Integrin beta-6 × 1 (P18564) alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose × 1 alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 ;alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 ;alpha-D-mannopyranose-(1-4)-alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 alpha-D-mannopyranose × 3 2-acetamido-2-deoxy-beta-D-glucopyranose × 4 CALCIUM ION × 4 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name A0A1B0SZV3_9PICO
Isoform —
PDB entities 2
Chains and sequence ranges Author chain 2; PDBConstruct 1–214; UniProt 90–303

O PanAsia VP3

Foot-and-mouth disease virus

UniProt J3T9N5

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 6 其他Polymer 5 O PanAsia VP1 × 1 (A0A1P8NWT0) O PanAsia VP2 × 1 (A0A1B0SZV3) O PanAsia VP4 × 1 (A6Y878) Integrin alpha-V × 1 (P06756) Integrin beta-6 × 1 (P18564) alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose × 1 alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 ;alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 ;alpha-D-mannopyranose-(1-4)-alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 alpha-D-mannopyranose × 3 2-acetamido-2-deoxy-beta-D-glucopyranose × 4 CALCIUM ION × 4 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name J3T9N5_9PICO
Isoform —
PDB entities 3
Chains and sequence ranges Author chain 3; PDBConstruct 1–220; UniProt 305–524

O PanAsia VP4

Foot-and-mouth disease virus

UniProt A6Y878

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 6 其他Polymer 5 O PanAsia VP1 × 1 (A0A1P8NWT0) O PanAsia VP2 × 1 (A0A1B0SZV3) O PanAsia VP3 × 1 (J3T9N5) Integrin alpha-V × 1 (P06756) Integrin beta-6 × 1 (P18564) alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose × 1 alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 ;alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 ;alpha-D-mannopyranose-(1-4)-alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 alpha-D-mannopyranose × 3 2-acetamido-2-deoxy-beta-D-glucopyranose × 4 CALCIUM ION × 4 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name A6Y878_9PICO
Isoform —
PDB entities 4
Chains and sequence ranges Author chain 4; PDBConstruct 1–70; UniProt 218–287

Integrin alpha-V

Homo sapiens

UniProt P06756

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 6 其他Polymer 5 O PanAsia VP1 × 1 (A0A1P8NWT0) O PanAsia VP2 × 1 (A0A1B0SZV3) O PanAsia VP3 × 1 (J3T9N5) O PanAsia VP4 × 1 (A6Y878) Integrin beta-6 × 1 (P18564) alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose × 1 alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 ;alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 ;alpha-D-mannopyranose-(1-4)-alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 alpha-D-mannopyranose × 3 2-acetamido-2-deoxy-beta-D-glucopyranose × 4 CALCIUM ION × 4 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name ITAV_HUMAN
Isoform —
PDB entities 5
Chains and sequence ranges Author chain A; PDBConstruct 1–594; UniProt 31–624

Integrin beta-6

Homo sapiens

UniProt P18564

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 6 其他Polymer 5 O PanAsia VP1 × 1 (A0A1P8NWT0) O PanAsia VP2 × 1 (A0A1B0SZV3) O PanAsia VP3 × 1 (J3T9N5) O PanAsia VP4 × 1 (A6Y878) Integrin alpha-V × 1 (P06756) alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose × 1 alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 ;alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 ;alpha-D-mannopyranose-(1-4)-alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 alpha-D-mannopyranose × 3 2-acetamido-2-deoxy-beta-D-glucopyranose × 4 CALCIUM ION × 4 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name ITB6_HUMAN
Isoform —
PDB entities 6
Chains and sequence ranges Author chain B; PDBConstruct 1–470; UniProt 22–491

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_id5ner
Deposition date deposition_date2017-03-11
Structure title titleLocalised reconstruction of alpha v beta 6 bound to Foot and Mouth Disease Virus O PanAsia - Pose A prime.
Keywords keywordsFoot and Mouth Disease Virus, FMDV, virus, OpanAsia, virus-receptor, complex; 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.

5ner__assembly_1__model_1

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

Download this curve (.dat)

5ner__assembly_1__model_1 | I(q)

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

5ner__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)48.68 Å
Rg (electron density)48.60 Å
Total Rg48.96 Å
Atom count13639
Residues1728
Excluded volume242120 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 5ner__assembly_1__model_1 hexameric (6) Success 4.1.3-1-20251215 (887e7ef) View Download
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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (14)

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6. Fold Classification (SCOP + CATH) 4 domains

SCOP 2.08 (4 domains)

Domain ID domain_idd5ner1_
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_idd5ner3_
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_idd5nera1
Class classb — All beta proteins
Fold Fold foldb.69 — 7-bladed beta-propeller
Superfamily Superfamily superfamilyb.69.8 — Integrin alpha N-terminal domain
Family Family familyb.69.8.1 — Integrin alpha N-terminal domain
Domain ID domain_idd5nera2
Class classb — All beta proteins
Fold Fold foldb.1 — Immunoglobulin-like beta-sandwich
Superfamily Superfamily superfamilyb.1.15 — Integrin domains
Family Family familyb.1.15.0 — automated matches
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7. Citations (1)