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9vel

The composite cryo-EM structure of bacteriophage SPO1 capsid

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

Gp6.1

OrganismNot specified

UniProt B6V2N7

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 1320 Gp29.2 × 240 （B6V2J1） Gp2.7 × 60 （B6V2M7） Gp36.3 × 60 （B6V2H5） Consistent with protein count
2 Protein heterocomplex Heteromer Protein 22 Gp29.2 × 4 （B6V2J1） Gp2.7 × 1 （B6V2M7） Gp36.3 × 1 （B6V2H5） Consistent with protein count
3 Protein heterocomplex Heteromer Protein 110 Gp29.2 × 20 （B6V2J1） Gp2.7 × 5 （B6V2M7） Gp36.3 × 5 （B6V2H5） Consistent with protein count
4 Protein heterocomplex Heteromer Protein 132 Gp29.2 × 24 （B6V2J1） Gp2.7 × 6 （B6V2M7） Gp36.3 × 6 （B6V2H5） Consistent with protein count
5 Protein heterocomplex Heteromer Protein 22 Gp29.2 × 4 （B6V2J1） Gp2.7 × 1 （B6V2M7） Gp36.3 × 1 （B6V2H5） 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
9vel 9vel 9vel 9vel 9vel

5 assemblies

View Construct and Data Evidence
UniProt name B6V2N7_BPSP1
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–468； UniProt 1–468 Author chain B； PDBConstruct 1–468； UniProt 1–468 Author chain C； PDBConstruct 1–468； UniProt 1–468 Author chain D； PDBConstruct 1–468； UniProt 1–468 Author chain E； PDBConstruct 1–468； UniProt 1–468 Author chain F； PDBConstruct 1–468； UniProt 1–468 Author chain G； PDBConstruct 1–468； UniProt 1–468 Author chain H； PDBConstruct 1–468； UniProt 1–468 Author chain I； PDBConstruct 1–468； UniProt 1–468 Author chain J； PDBConstruct 1–468； UniProt 1–468 Author chain K； PDBConstruct 1–468； UniProt 1–468 Author chain L； PDBConstruct 1–468； UniProt 1–468 Author chain M； PDBConstruct 1–468； UniProt 1–468 Author chain N； PDBConstruct 1–468； UniProt 1–468 Author chain O； PDBConstruct 1–468； UniProt 1–468 Author chain P； PDBConstruct 1–468； UniProt 1–468

Gp29.2

OrganismNot specified

UniProt B6V2J1

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 1320 Gp6.1 × 960 （B6V2N7） Gp2.7 × 60 （B6V2M7） Gp36.3 × 60 （B6V2H5） Consistent with protein count
2 Protein heterocomplex Heteromer Protein 22 Gp6.1 × 16 （B6V2N7） Gp2.7 × 1 （B6V2M7） Gp36.3 × 1 （B6V2H5） Consistent with protein count
3 Protein heterocomplex Heteromer Protein 110 Gp6.1 × 80 （B6V2N7） Gp2.7 × 5 （B6V2M7） Gp36.3 × 5 （B6V2H5） Consistent with protein count
4 Protein heterocomplex Heteromer Protein 132 Gp6.1 × 96 （B6V2N7） Gp2.7 × 6 （B6V2M7） Gp36.3 × 6 （B6V2H5） Consistent with protein count
5 Protein heterocomplex Heteromer Protein 22 Gp6.1 × 16 （B6V2N7） Gp2.7 × 1 （B6V2M7） Gp36.3 × 1 （B6V2H5） 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
9vel 9vel 9vel 9vel 9vel

5 assemblies

View Construct and Data Evidence
UniProt name B6V2J1_BPSP1
Isoform —
PDB entities 2
Chains and sequence ranges Author chain q； PDBConstruct 1–171； UniProt 1–171 Author chain r； PDBConstruct 1–171； UniProt 1–171 Author chain s； PDBConstruct 1–171； UniProt 1–171 Author chain v； PDBConstruct 1–171； UniProt 1–171

Gp2.7

OrganismNot specified

UniProt B6V2M7

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 1320 Gp6.1 × 960 （B6V2N7） Gp29.2 × 240 （B6V2J1） Gp36.3 × 60 （B6V2H5） Consistent with protein count
2 Protein heterocomplex Heteromer Protein 22 Gp6.1 × 16 （B6V2N7） Gp29.2 × 4 （B6V2J1） Gp36.3 × 1 （B6V2H5） Consistent with protein count
3 Protein heterocomplex Heteromer Protein 110 Gp6.1 × 80 （B6V2N7） Gp29.2 × 20 （B6V2J1） Gp36.3 × 5 （B6V2H5） Consistent with protein count
4 Protein heterocomplex Heteromer Protein 132 Gp6.1 × 96 （B6V2N7） Gp29.2 × 24 （B6V2J1） Gp36.3 × 6 （B6V2H5） Consistent with protein count
5 Protein heterocomplex Heteromer Protein 22 Gp6.1 × 16 （B6V2N7） Gp29.2 × 4 （B6V2J1） Gp36.3 × 1 （B6V2H5） 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
9vel 9vel 9vel 9vel 9vel

5 assemblies

View Construct and Data Evidence
UniProt name B6V2M7_BPSP1
Isoform —
PDB entities 3
Chains and sequence ranges Author chain t； PDBConstruct 1–57； UniProt 1–57

Gp36.3

OrganismNot specified

UniProt B6V2H5

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 1320 Gp6.1 × 960 （B6V2N7） Gp29.2 × 240 （B6V2J1） Gp2.7 × 60 （B6V2M7） Consistent with protein count
2 Protein heterocomplex Heteromer Protein 22 Gp6.1 × 16 （B6V2N7） Gp29.2 × 4 （B6V2J1） Gp2.7 × 1 （B6V2M7） Consistent with protein count
3 Protein heterocomplex Heteromer Protein 110 Gp6.1 × 80 （B6V2N7） Gp29.2 × 20 （B6V2J1） Gp2.7 × 5 （B6V2M7） Consistent with protein count
4 Protein heterocomplex Heteromer Protein 132 Gp6.1 × 96 （B6V2N7） Gp29.2 × 24 （B6V2J1） Gp2.7 × 6 （B6V2M7） Consistent with protein count
5 Protein heterocomplex Heteromer Protein 22 Gp6.1 × 16 （B6V2N7） Gp29.2 × 4 （B6V2J1） Gp2.7 × 1 （B6V2M7） 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
9vel 9vel 9vel 9vel 9vel

5 assemblies

View Construct and Data Evidence
UniProt name B6V2H5_BPSP1
Isoform —
PDB entities 4
Chains and sequence ranges Author chain w； PDBConstruct 1–96； UniProt 1–96

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_id9vel
Deposition date deposition_date2025-06-09
Structure title titleThe composite cryo-EM structure of bacteriophage SPO1 capsid
Keywords keywordsSPO1, Phage, Capsid, VIRUS; 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.

9vel__assembly_1__model_1

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

Download this curve (.dat)

9vel__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.

9vel__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)449.30 Å
Total Rg449.30 Å
Atom count3689880
Residues472980
Excluded volume65745000 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 9vel__assembly_1__model_1 1320-meric （1320） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 9vel__assembly_2__model_1 22-meric （22） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
3 1 9vel__assembly_3__model_1 110-meric （110） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
4 1 9vel__assembly_4__model_1 132-meric （132） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
5 1 9vel__assembly_5__model_1 22-meric （22） 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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7. Citations (1)