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5w3o

CryoEM structure of rhinovirus B14 in complex with C5 Fab (33 degrees Celsius, molar ratio 1:3, empty particle)

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

viral protein 1

OrganismNot specified

UniProt P03303

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 300 C5 antibody variable heavy domain × 60 C5 antibody variable light domain × 60 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 5 C5 antibody variable heavy domain × 1 C5 antibody variable light domain × 1 Consistent with protein count
3 Protein heterocomplex Heteromer Protein 25 C5 antibody variable heavy domain × 5 C5 antibody variable light domain × 5 Consistent with protein count
4 Protein heterocomplex Heteromer Protein 30 C5 antibody variable heavy domain × 6 C5 antibody variable light domain × 6 Consistent with protein count
5 Protein heterocomplex Heteromer Protein 5 C5 antibody variable heavy domain × 1 C5 antibody variable light domain × 1 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
1xr5 2in2 9lgp 9lgp 9lgp 9lgp

6 assemblies

Homodimer

None

Homotetramer
1hri 1hri 1hrv 1hrv 1na1 1na1 1ncq 1ncq 1r08 1r08 1r09 1r09

56 assemblies; showing the first 12

Other homooligomers
1hri 1hri 1hri 1hri 1hrv 1hrv 1hrv 1hrv 1na1 1na1 1na1 1na1

116 assemblies; showing the first 12

Heteromeric or nucleic-acid complex
1d3i 1d3i 1d3i 1d3i 1d3i 1k5m 1k5m 1k5m 1k5m 1k5m 1k5m 1rvf

63 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name POLG_HRV14
Isoform —
PDB entities 3, 4, 5
Chains and sequence ranges Author chain A； PDBConstruct 1–289； UniProt 568–856 Author chain B； PDBConstruct 1–236； UniProt 332–567 Author chain C； PDBConstruct 1–262； UniProt 70–331

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_id5w3o
Deposition date deposition_date2017-06-08
Structure title titleCryoEM structure of rhinovirus B14 in complex with C5 Fab (33 degrees Celsius, molar ratio 1:3, empty particle)
Keywords keywordsvirus, antibody, VIRUS LIKE PARTICLE-IMMUNE SYSTEM complex; VIRUS LIKE PARTICLE/IMMUNE SYSTEM
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.

5w3o__assembly_1__model_1

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

Download this curve (.dat)

5w3o__assembly_1__model_1 | I(q)

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

5w3o__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)145.20 Å
Total Rg145.20 Å
Atom count415500
Residues54060
Excluded volume7389200 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 5w3o__assembly_1__model_1 300-meric （300） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 5w3o__assembly_2__model_1 pentameric （5） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
3 1 5w3o__assembly_3__model_1 25-meric （25） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
4 1 5w3o__assembly_4__model_1 30-meric （30） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
5 1 5w3o__assembly_5__model_1 pentameric （5） 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 (5)

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6. Fold Classification (SCOP + CATH) 7 domains

SCOP 2.08 (3 domains)

Domain ID domain_idd5w3ob_
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_idd5w3od_
Class classb — All beta proteins
Fold Fold foldb.1 — Immunoglobulin-like beta-sandwich
Superfamily Superfamily superfamilyb.1.1 — Immunoglobulin
Family Family familyb.1.1.0 — automated matches
Domain ID domain_idd5w3oe_
Class classb — All beta proteins
Fold Fold foldb.1 — Immunoglobulin-like beta-sandwich
Superfamily Superfamily superfamilyb.1.1 — Immunoglobulin
Family Family familyb.1.1.1 — V set domains (antibody variable domain-like)

CATH v4.4 (4 domains)

Domain ID domain_id5w3oA00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20 —
Domain ID domain_id5w3oB00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20 —
Domain ID domain_id5w3oC00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20 —
Domain ID domain_id5w3oE00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
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7. Citations (1)