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1w8x

Structural analysis of PRD1

Method: X-RAY DIFFRACTION
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1. Protein Identity and Related Structures Protein Identity & Related Structures

MAJOR CAPSID PROTEIN (PROTEIN P3)

OrganismNot specified

UniProt P22535

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 900 PROTEIN P30 × 60 （P27391） PROTEIN P31 × 60 （P27384） PROTEIN P16 × 60 （P27392） Consistent with protein count
2 Protein heterocomplex Heteromer Protein 15 PROTEIN P30 × 1 （P27391） PROTEIN P31 × 1 （P27384） PROTEIN P16 × 1 （P27392） Consistent with protein count
3 Protein heterocomplex Heteromer Protein 75 PROTEIN P30 × 5 （P27391） PROTEIN P31 × 5 （P27384） PROTEIN P16 × 5 （P27392） Consistent with protein count
4 Protein heterocomplex Heteromer Protein 90 PROTEIN P30 × 6 （P27391） PROTEIN P31 × 6 （P27384） PROTEIN P16 × 6 （P27392） Consistent with protein count
5 Protein heterocomplex Heteromer Protein 15 PROTEIN P30 × 1 （P27391） PROTEIN P31 × 1 （P27384） PROTEIN P16 × 1 （P27392） Consistent with protein count
6 Protein heterocomplex Heteromer Protein 900 PROTEIN P30 × 60 （P27391） PROTEIN P31 × 60 （P27384） PROTEIN P16 × 60 （P27392） Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers
1cjd 1gw7 1gw7 1gw7 1gw7 1gw7 1gw8 1gw8 1gw8 1gw8 1gw8 1hb5

29 assemblies; showing the first 12

Heteromeric or nucleic-acid complex
1w8x 1w8x 1w8x 1w8x 1w8x 1w8x

6 assemblies

View Construct and Data Evidence
UniProt name COA3_BPPRD
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–395； UniProt 1–395 Author chain B； PDBConstruct 1–395； UniProt 1–395 Author chain C； PDBConstruct 1–395； UniProt 1–395 Author chain D； PDBConstruct 1–395； UniProt 1–395 Author chain E； PDBConstruct 1–395； UniProt 1–395 Author chain F； PDBConstruct 1–395； UniProt 1–395 Author chain G； PDBConstruct 1–395； UniProt 1–395 Author chain H； PDBConstruct 1–395； UniProt 1–395 Author chain I； PDBConstruct 1–395； UniProt 1–395 Author chain J； PDBConstruct 1–395； UniProt 1–395 Author chain K； PDBConstruct 1–395； UniProt 1–395 Author chain L； PDBConstruct 1–395； UniProt 1–395

PROTEIN P30

OrganismNot specified

UniProt P27391

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 900 MAJOR CAPSID PROTEIN (PROTEIN P3) × 720 （P22535） PROTEIN P31 × 60 （P27384） PROTEIN P16 × 60 （P27392） Consistent with protein count
2 Protein heterocomplex Heteromer Protein 15 MAJOR CAPSID PROTEIN (PROTEIN P3) × 12 （P22535） PROTEIN P31 × 1 （P27384） PROTEIN P16 × 1 （P27392） Consistent with protein count
3 Protein heterocomplex Heteromer Protein 75 MAJOR CAPSID PROTEIN (PROTEIN P3) × 60 （P22535） PROTEIN P31 × 5 （P27384） PROTEIN P16 × 5 （P27392） Consistent with protein count
4 Protein heterocomplex Heteromer Protein 90 MAJOR CAPSID PROTEIN (PROTEIN P3) × 72 （P22535） PROTEIN P31 × 6 （P27384） PROTEIN P16 × 6 （P27392） Consistent with protein count
5 Protein heterocomplex Heteromer Protein 15 MAJOR CAPSID PROTEIN (PROTEIN P3) × 12 （P22535） PROTEIN P31 × 1 （P27384） PROTEIN P16 × 1 （P27392） Consistent with protein count
6 Protein heterocomplex Heteromer Protein 900 MAJOR CAPSID PROTEIN (PROTEIN P3) × 720 （P22535） PROTEIN P31 × 60 （P27384） PROTEIN P16 × 60 （P27392） 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
1w8x 1w8x 1w8x 1w8x 1w8x 1w8x

6 assemblies

View Construct and Data Evidence
UniProt name VPP_BPPRD
Isoform —
PDB entities 2
Chains and sequence ranges Author chain M； PDBConstruct 1–83； UniProt 1–83

PROTEIN P31

OrganismNot specified

UniProt P27384

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 900 MAJOR CAPSID PROTEIN (PROTEIN P3) × 720 （P22535） PROTEIN P30 × 60 （P27391） PROTEIN P16 × 60 （P27392） Consistent with protein count
2 Protein heterocomplex Heteromer Protein 15 MAJOR CAPSID PROTEIN (PROTEIN P3) × 12 （P22535） PROTEIN P30 × 1 （P27391） PROTEIN P16 × 1 （P27392） Consistent with protein count
3 Protein heterocomplex Heteromer Protein 75 MAJOR CAPSID PROTEIN (PROTEIN P3) × 60 （P22535） PROTEIN P30 × 5 （P27391） PROTEIN P16 × 5 （P27392） Consistent with protein count
4 Protein heterocomplex Heteromer Protein 90 MAJOR CAPSID PROTEIN (PROTEIN P3) × 72 （P22535） PROTEIN P30 × 6 （P27391） PROTEIN P16 × 6 （P27392） Consistent with protein count
5 Protein heterocomplex Heteromer Protein 15 MAJOR CAPSID PROTEIN (PROTEIN P3) × 12 （P22535） PROTEIN P30 × 1 （P27391） PROTEIN P16 × 1 （P27392） Consistent with protein count
6 Protein heterocomplex Heteromer Protein 900 MAJOR CAPSID PROTEIN (PROTEIN P3) × 720 （P22535） PROTEIN P30 × 60 （P27391） PROTEIN P16 × 60 （P27392） 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
1w8x 1w8x 1w8x 1w8x 1w8x 1w8x

6 assemblies

View Construct and Data Evidence
UniProt name VPC_BPPRD
Isoform —
PDB entities 3
Chains and sequence ranges Author chain N； PDBConstruct 1–126； UniProt 1–126

PROTEIN P16

OrganismNot specified

UniProt P27392

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 900 MAJOR CAPSID PROTEIN (PROTEIN P3) × 720 （P22535） PROTEIN P30 × 60 （P27391） PROTEIN P31 × 60 （P27384） Consistent with protein count
2 Protein heterocomplex Heteromer Protein 15 MAJOR CAPSID PROTEIN (PROTEIN P3) × 12 （P22535） PROTEIN P30 × 1 （P27391） PROTEIN P31 × 1 （P27384） Consistent with protein count
3 Protein heterocomplex Heteromer Protein 75 MAJOR CAPSID PROTEIN (PROTEIN P3) × 60 （P22535） PROTEIN P30 × 5 （P27391） PROTEIN P31 × 5 （P27384） Consistent with protein count
4 Protein heterocomplex Heteromer Protein 90 MAJOR CAPSID PROTEIN (PROTEIN P3) × 72 （P22535） PROTEIN P30 × 6 （P27391） PROTEIN P31 × 6 （P27384） Consistent with protein count
5 Protein heterocomplex Heteromer Protein 15 MAJOR CAPSID PROTEIN (PROTEIN P3) × 12 （P22535） PROTEIN P30 × 1 （P27391） PROTEIN P31 × 1 （P27384） Consistent with protein count
6 Protein heterocomplex Heteromer Protein 900 MAJOR CAPSID PROTEIN (PROTEIN P3) × 720 （P22535） PROTEIN P30 × 60 （P27391） PROTEIN P31 × 60 （P27384） 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
1w8x 1w8x 1w8x 1w8x 1w8x 1w8x

6 assemblies

View Construct and Data Evidence
UniProt name VPS_BPPRD
Isoform —
PDB entities 4
Chains and sequence ranges Author chain P； PDBConstruct 1–117； UniProt 1–117

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_id1w8x
Deposition date deposition_date2004-10-01
Structure title titleStructural analysis of PRD1
Keywords keywordsVIRUS, P3 MAJOR CAPSID PROTEIN, P30 TAPE MEASURE, P31 PENTON PROTEIN, P16 MEMBRANE PROTEIN, VIRUS/VIRAL PROTEIN, ICOSAHEDRAL VIRUS; VIRUS
Experimental Method methodX-RAY DIFFRACTION
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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.

1w8x__assembly_1__model_1

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

Download this curve (.dat)

1w8x__assembly_1__model_1 | I(q)

10-2 10-1 106 107 108 109 1010 1011 1012 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

1w8x__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)295.80 Å
Total Rg295.70 Å
Atom count2286960
Residues294240
Excluded volume40460000 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1w8x__assembly_1__model_1 900-MERIC （900） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 1w8x__assembly_2__model_1 pentadecameric （15） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
3 1 1w8x__assembly_3__model_1 75-meric （75） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
4 1 1w8x__assembly_4__model_1 90-meric （90） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
5 1 1w8x__assembly_5__model_1 pentadecameric （15） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
6 1 1w8x__assembly_6__model_1 900-meric （900） 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) 15 domains

SCOP 2.08 (15 domains)

Domain ID domain_idd1w8xa_
Class classi — Low resolution protein structures
Fold Fold foldi.6 — Viruses and virus-receptor complexes
Superfamily Superfamily superfamilyi.6.1 — Viruses and virus-receptor complexes
Family Family familyi.6.1.1 — Viruses and virus-receptor complexes
Domain ID domain_idd1w8xb_
Class classi — Low resolution protein structures
Fold Fold foldi.6 — Viruses and virus-receptor complexes
Superfamily Superfamily superfamilyi.6.1 — Viruses and virus-receptor complexes
Family Family familyi.6.1.1 — Viruses and virus-receptor complexes
Domain ID domain_idd1w8xc_
Class classi — Low resolution protein structures
Fold Fold foldi.6 — Viruses and virus-receptor complexes
Superfamily Superfamily superfamilyi.6.1 — Viruses and virus-receptor complexes
Family Family familyi.6.1.1 — Viruses and virus-receptor complexes
Domain ID domain_idd1w8xd_
Class classi — Low resolution protein structures
Fold Fold foldi.6 — Viruses and virus-receptor complexes
Superfamily Superfamily superfamilyi.6.1 — Viruses and virus-receptor complexes
Family Family familyi.6.1.1 — Viruses and virus-receptor complexes
Domain ID domain_idd1w8xe_
Class classi — Low resolution protein structures
Fold Fold foldi.6 — Viruses and virus-receptor complexes
Superfamily Superfamily superfamilyi.6.1 — Viruses and virus-receptor complexes
Family Family familyi.6.1.1 — Viruses and virus-receptor complexes
Domain ID domain_idd1w8xf_
Class classi — Low resolution protein structures
Fold Fold foldi.6 — Viruses and virus-receptor complexes
Superfamily Superfamily superfamilyi.6.1 — Viruses and virus-receptor complexes
Family Family familyi.6.1.1 — Viruses and virus-receptor complexes
Domain ID domain_idd1w8xg_
Class classi — Low resolution protein structures
Fold Fold foldi.6 — Viruses and virus-receptor complexes
Superfamily Superfamily superfamilyi.6.1 — Viruses and virus-receptor complexes
Family Family familyi.6.1.1 — Viruses and virus-receptor complexes
Domain ID domain_idd1w8xh_
Class classi — Low resolution protein structures
Fold Fold foldi.6 — Viruses and virus-receptor complexes
Superfamily Superfamily superfamilyi.6.1 — Viruses and virus-receptor complexes
Family Family familyi.6.1.1 — Viruses and virus-receptor complexes
Domain ID domain_idd1w8xi_
Class classi — Low resolution protein structures
Fold Fold foldi.6 — Viruses and virus-receptor complexes
Superfamily Superfamily superfamilyi.6.1 — Viruses and virus-receptor complexes
Family Family familyi.6.1.1 — Viruses and virus-receptor complexes
Domain ID domain_idd1w8xj_
Class classi — Low resolution protein structures
Fold Fold foldi.6 — Viruses and virus-receptor complexes
Superfamily Superfamily superfamilyi.6.1 — Viruses and virus-receptor complexes
Family Family familyi.6.1.1 — Viruses and virus-receptor complexes
Domain ID domain_idd1w8xk_
Class classi — Low resolution protein structures
Fold Fold foldi.6 — Viruses and virus-receptor complexes
Superfamily Superfamily superfamilyi.6.1 — Viruses and virus-receptor complexes
Family Family familyi.6.1.1 — Viruses and virus-receptor complexes
Domain ID domain_idd1w8xl_
Class classi — Low resolution protein structures
Fold Fold foldi.6 — Viruses and virus-receptor complexes
Superfamily Superfamily superfamilyi.6.1 — Viruses and virus-receptor complexes
Family Family familyi.6.1.1 — Viruses and virus-receptor complexes
Domain ID domain_idd1w8xm_
Class classi — Low resolution protein structures
Fold Fold foldi.6 — Viruses and virus-receptor complexes
Superfamily Superfamily superfamilyi.6.1 — Viruses and virus-receptor complexes
Family Family familyi.6.1.1 — Viruses and virus-receptor complexes
Domain ID domain_idd1w8xn_
Class classi — Low resolution protein structures
Fold Fold foldi.6 — Viruses and virus-receptor complexes
Superfamily Superfamily superfamilyi.6.1 — Viruses and virus-receptor complexes
Family Family familyi.6.1.1 — Viruses and virus-receptor complexes
Domain ID domain_idd1w8xp_
Class classi — Low resolution protein structures
Fold Fold foldi.6 — Viruses and virus-receptor complexes
Superfamily Superfamily superfamilyi.6.1 — Viruses and virus-receptor complexes
Family Family familyi.6.1.1 — Viruses and virus-receptor complexes
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7. Citations (1)