SAXSdb — 9rsm

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1. Protein Identity and Related Structures Protein Identity & Related Structures

Leukocidin/Hemolysin toxin family

Clostridium perfringens

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein homooligomer	Homooligomer	Protein 9	No other associated polymer	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	A0A0D3QGV4_CLOPF
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 9–289； UniProt 25–305 Author chain B； PDBConstruct 9–289； UniProt 25–305 Author chain C； PDBConstruct 9–289； UniProt 25–305 Author chain D； PDBConstruct 9–289； UniProt 25–305 Author chain E； PDBConstruct 9–289； UniProt 25–305 Author chain F； PDBConstruct 9–289； UniProt 25–305 Author chain G； PDBConstruct 9–289； UniProt 25–305 Author chain H； PDBConstruct 9–289； UniProt 25–305 Author chain I； PDBConstruct 9–289； UniProt 25–305

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_id	9rsm
Deposition date deposition_date	2025-07-01
Structure title title	NetF 9mer pre-pore structure on 2N2 nanodiscs.
Keywords keywords	pore forming toxin, hemolysin, clostridium perfringens, pre-pore., TOXIN; TOXIN
Experimental Method method	ELECTRON 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.

9rsm__assembly_1__model_1

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

Download this curve (.dat)

9rsm__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

9rsm__assembly_1__model_1 | P(r) · Pending

P(r) will be calculated and displayed separately for the same assembly/model.

Rg（Guinier）	44.84 Å
Rg (electron density)	44.25 Å
Total Rg	44.51 Å
Atom count	37881
Residues	2394
Excluded volume	340830 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`9rsm__assembly_1__model_1`	nonameric （9）	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 (1)

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Unit-cell length a length_a	1.000 Å
Unit-cell length b length_b	1.000 Å
Unit-cell length c length_c	1.000 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	90.00 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	—

Space group space_group	P 1
Space-group number int_tables_number	1
Crystal system crystal_system	—

Resolution resolution	2.130 Å
Low-resolution limit resolution_low	— Å
R factor r_factor	—
R_work r_work	—
R_free r_free	—

Resolution resolution	2.13 Å
Resolution测定Method resolution_method	—
颗粒数 num_particles	1088311

Description description	Leukocidin/Hemolysin toxin family
Molecular weight formula_weight	32874.6 kDa
Source method src_method	man
Copy count entity_count	9

NetF 9mer pre-pore structure on 2N2 nanodiscs.

1. Protein Identity and Related Structures Protein Identity & Related Structures

Leukocidin/Hemolysin toxin family

State in the Current Structure

Other States of the Same Protein in the Database

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

9rsm__assembly_1__model_1

9rsm__assembly_1__model_1 | I(q)

9rsm__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

冷冻电镜 EM 3D

5. Entities and Polymers Entities & Polymers (1)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

7. Citations (1)

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B,C,D,E,F,G,H,I
Atom count atom_count	37881

Source organism organism	Clostridium perfringens
NCBI taxonomy ID ncbi_taxonomy_id	1502
Host organism host_organism	Escherichia coli

NetF 9mer pre-pore structure on 2N2 nanodiscs.

1. Protein Identity and Related Structures Protein Identity & Related Structures

Leukocidin/Hemolysin toxin family

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

9rsm__assembly_1__model_1

9rsm__assembly_1__model_1 | I(q)

9rsm__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

冷冻电镜 EM 3D

5. Entities and Polymers Entities & Polymers (1)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

7. Citations (1)