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8yvi

Cryo-EM structure of carboxysomal midi-shell: icosahedral assembly from CsoS4A/4B/1A/1B/1C/1D and CsoS2 C-terminal co-expression (T = 13)

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

Major carboxysome shell protein CsoS1A

Halothiobacillus neapolitanus

UniProt P45689

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 900 Carboxysome shell vertex protein CsoS4A × 60 （O85043） Carboxysome assembly protein CsoS2B × 120 （O85041） Consistent with protein count
2 Protein heterocomplex Heteromer Protein 15 Carboxysome shell vertex protein CsoS4A × 1 （O85043） Carboxysome assembly protein CsoS2B × 2 （O85041） Consistent with protein count
3 Protein heterocomplex Heteromer Protein 75 Carboxysome shell vertex protein CsoS4A × 5 （O85043） Carboxysome assembly protein CsoS2B × 10 （O85041） Consistent with protein count
4 Protein heterocomplex Heteromer Protein 90 Carboxysome shell vertex protein CsoS4A × 6 （O85043） Carboxysome assembly protein CsoS2B × 12 （O85041） Consistent with protein count
5 Protein heterocomplex Heteromer Protein 15 Carboxysome shell vertex protein CsoS4A × 1 （O85043） Carboxysome assembly protein CsoS2B × 2 （O85041） Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers
2ewh 2g13 8yxu

3 assemblies

Heteromeric or nucleic-acid complex
7ckb 7ckc 8b0y 8b11 8b12 8yvc 8yvc 8yvc 8yvc 8yvc 8yvd 8yvd

32 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name CSOSA_HALNC
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–98； UniProt 1–98 Author chain B； PDBConstruct 1–98； UniProt 1–98 Author chain C； PDBConstruct 1–98； UniProt 1–98 Author chain D； PDBConstruct 1–98； UniProt 1–98 Author chain E； PDBConstruct 1–98； UniProt 1–98 Author chain F； PDBConstruct 1–98； UniProt 1–98 Author chain G； PDBConstruct 1–98； UniProt 1–98 Author chain I； PDBConstruct 1–98； UniProt 1–98 Author chain J； PDBConstruct 1–98； UniProt 1–98 Author chain K； PDBConstruct 1–98； UniProt 1–98 Author chain L； PDBConstruct 1–98； UniProt 1–98 Author chain M； PDBConstruct 1–98； UniProt 1–98

Carboxysome shell vertex protein CsoS4A

Halothiobacillus neapolitanus

UniProt O85043

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 900 Major carboxysome shell protein CsoS1A × 720 （P45689） Carboxysome assembly protein CsoS2B × 120 （O85041） Consistent with protein count
2 Protein heterocomplex Heteromer Protein 15 Major carboxysome shell protein CsoS1A × 12 （P45689） Carboxysome assembly protein CsoS2B × 2 （O85041） Consistent with protein count
3 Protein heterocomplex Heteromer Protein 75 Major carboxysome shell protein CsoS1A × 60 （P45689） Carboxysome assembly protein CsoS2B × 10 （O85041） Consistent with protein count
4 Protein heterocomplex Heteromer Protein 90 Major carboxysome shell protein CsoS1A × 72 （P45689） Carboxysome assembly protein CsoS2B × 12 （O85041） Consistent with protein count
5 Protein heterocomplex Heteromer Protein 15 Major carboxysome shell protein CsoS1A × 12 （P45689） Carboxysome assembly protein CsoS2B × 2 （O85041） Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers
2rcf

1 assemblies

Heteromeric or nucleic-acid complex
7ckb 7ckc 8b0y 8b11 8b12 8yvc 8yvc 8yvc 8yvc 8yvc 8yvd 8yvd

33 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name CSS4A_HALNC
Isoform —
PDB entities 2
Chains and sequence ranges Author chain H； PDBConstruct 1–83； UniProt 1–83

Carboxysome assembly protein CsoS2B

Halothiobacillus neapolitanus

UniProt O85041

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 900 Major carboxysome shell protein CsoS1A × 720 （P45689） Carboxysome shell vertex protein CsoS4A × 60 （O85043） Consistent with protein count
2 Protein heterocomplex Heteromer Protein 15 Major carboxysome shell protein CsoS1A × 12 （P45689） Carboxysome shell vertex protein CsoS4A × 1 （O85043） Consistent with protein count
3 Protein heterocomplex Heteromer Protein 75 Major carboxysome shell protein CsoS1A × 60 （P45689） Carboxysome shell vertex protein CsoS4A × 5 （O85043） Consistent with protein count
4 Protein heterocomplex Heteromer Protein 90 Major carboxysome shell protein CsoS1A × 72 （P45689） Carboxysome shell vertex protein CsoS4A × 6 （O85043） Consistent with protein count
5 Protein heterocomplex Heteromer Protein 15 Major carboxysome shell protein CsoS1A × 12 （P45689） Carboxysome shell vertex protein CsoS4A × 1 （O85043） 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
8b12 8yvc 8yvc 8yvc 8yvc 8yvc 8yvd 8yvd 8yvd 8yvd 8yvd 8yve

27 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name CSOS2_HALNC
Isoform —
PDB entities 3
Chains and sequence ranges Author chain X； PDBConstruct 2–279； UniProt 592–869 Author chain Y； PDBConstruct 2–279； UniProt 592–869

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_id8yvi
Deposition date deposition_date2024-03-28
Last revision last_revision2024-12-11
Structure title titleCryo-EM structure of carboxysomal midi-shell: icosahedral assembly from CsoS4A/4B/1A/1B/1C/1D and CsoS2 C-terminal co-expression (T = 13)
Keywords keywordsCarboxysome, shell, Icosahedron, STRUCTURAL PROTEIN; STRUCTURAL PROTEIN
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.

8yvi__assembly_1__model_1

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

Download this curve (.dat)

8yvi__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.

8yvi__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)193.60 Å
Total Rg193.60 Å
Atom count574200
Residues80040
Excluded volume10220000 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 8yvi__assembly_1__model_1 900-meric （900） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 8yvi__assembly_2__model_1 pentadecameric （15） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
3 1 8yvi__assembly_3__model_1 75-meric （75） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
4 1 8yvi__assembly_4__model_1 90-meric （90） Excluded — —
Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
5 1 8yvi__assembly_5__model_1 pentadecameric （15） 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 (3)

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7. Citations (1)