4p5h

Structure of Clostridium perfringens Enterotoxin with a peptide derived from a modified version of ECL-2 of Claudin 2

Method: X-RAY DIFFRACTION

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

Claudin-2

OrganismNot specified

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 6	Heat-labile enterotoxin B chain × 3 （P01558）	Consistent with protein count
2	Protein heterocomplex	Heteromer	Protein 6	Heat-labile enterotoxin B chain × 3 （P01558）	Consistent with protein count
3	Protein heterocomplex	Heteromer	Protein 6	Heat-labile enterotoxin B chain × 3 （P01558）	Consistent with protein count
4	Protein heterocomplex	Heteromer	Protein 6	Heat-labile enterotoxin B chain × 3 （P01558）	Consistent with protein count
5	Protein heterocomplex	Heteromer	Protein 6	Heat-labile enterotoxin B chain × 3 （P01558）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	CLD2_MOUSE
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain 1； PDBConstruct 1–20； UniProt 141–160 Author chain 2； PDBConstruct 1–20； UniProt 141–160 Author chain 3； PDBConstruct 1–20； UniProt 141–160 Author chain 4； PDBConstruct 1–20； UniProt 141–160 Author chain P； PDBConstruct 1–20； UniProt 141–160 Author chain Q； PDBConstruct 1–20； UniProt 141–160 Author chain R； PDBConstruct 1–20； UniProt 141–160 Author chain S； PDBConstruct 1–20； UniProt 141–160 Author chain T； PDBConstruct 1–20； UniProt 141–160 Author chain U； PDBConstruct 1–20； UniProt 141–160 Author chain V； PDBConstruct 1–20； UniProt 141–160 Author chain W； PDBConstruct 1–20； UniProt 141–160 Author chain X； PDBConstruct 1–20； UniProt 141–160 Author chain Y； PDBConstruct 1–20； UniProt 141–160 Author chain Z； PDBConstruct 1–20； UniProt 141–160

Heat-labile enterotoxin B chain

Clostridium perfringens

UniProt P01558

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 6	Claudin-2 × 3 （O88552）	Consistent with protein count
2	Protein heterocomplex	Heteromer	Protein 6	Claudin-2 × 3 （O88552）	Consistent with protein count
3	Protein heterocomplex	Heteromer	Protein 6	Claudin-2 × 3 （O88552）	Consistent with protein count
4	Protein heterocomplex	Heteromer	Protein 6	Claudin-2 × 3 （O88552）	Consistent with protein count
5	Protein heterocomplex	Heteromer	Protein 6	Claudin-2 × 3 （O88552）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	ELTB_CLOPF
Isoform	—
PDB entities	2
Chains and sequence ranges	Author chain A； PDBConstruct 5–286； UniProt 38–319 Author chain B； PDBConstruct 5–286； UniProt 38–319 Author chain C； PDBConstruct 5–286； UniProt 38–319 Author chain D； PDBConstruct 5–286； UniProt 38–319 Author chain E； PDBConstruct 5–286； UniProt 38–319 Author chain F； PDBConstruct 5–286； UniProt 38–319 Author chain G； PDBConstruct 5–286； UniProt 38–319 Author chain H； PDBConstruct 5–286； UniProt 38–319 Author chain I； PDBConstruct 5–286； UniProt 38–319 Author chain J； PDBConstruct 5–286； UniProt 38–319 Author chain K； PDBConstruct 5–286； UniProt 38–319 Author chain L； PDBConstruct 5–286； UniProt 38–319 Author chain M； PDBConstruct 5–286； UniProt 38–319 Author chain N； PDBConstruct 5–286； UniProt 38–319 Author chain O； PDBConstruct 5–286； UniProt 38–319

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	4p5h
Deposition date deposition_date	2014-03-17
Structure title title	Structure of Clostridium perfringens Enterotoxin with a peptide derived from a modified version of ECL-2 of Claudin 2
Keywords keywords	TOXIN-CELL ADHESION COMPLEX, BETA PORE-FORMING TOXIN, RECEPTOR BINDING; Toxin/CELL Adhesion
Experimental Method method	X-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.

4p5h__assembly_1__model_1

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

Download this curve (.dat)

4p5h__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

4p5h__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	33.24 Å
Rg (electron density)	32.43 Å
Total Rg	32.92 Å
Atom count	6804
Residues	885
Excluded volume	120470 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`4p5h__assembly_1__model_1`	hexameric （6）	Success	4.1.3-1-20251215 (887e7ef)	View Download
2	1	`4p5h__assembly_2__model_1`	hexameric （6）	Success	4.1.3-1-20251215 (887e7ef)	View Download
3	1	`4p5h__assembly_3__model_1`	hexameric （6）	Success	4.1.3-1-20251215 (887e7ef)	View Download
4	1	`4p5h__assembly_4__model_1`	hexameric （6）	Success	4.1.3-1-20251215 (887e7ef)	View Download
5	1	`4p5h__assembly_5__model_1`	hexameric （6）	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 (2)

Entity 1 Entity 1 polymer

Description description	Claudin-2
Molecular weight formula_weight	2378.8 kDa
Mutation mutation	S149N, S155A
Source method src_method	syn
Copy count entity_count	15

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	1,2,3,4,P,Q,R,S,T,U,V,W,X,Y,Z
Atom count atom_count	34251

HGILRDFYNPLVPDAMKFEI

Entity 2 Entity 2 polymer

Description description	Heat-labile enterotoxin B chain
Molecular weight formula_weight	31524.0 kDa
Source method src_method	man
Copy count entity_count	15

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B,C,D,E,F,G,H,I,J,K,L,M,N,O

GAMGSDGLYVIDKGDGWILGEPSVVSSQILNPNETGTFSQSLTKSKEVSINVNFSVGFTSEFIQASVEYGFGITIGEQNTIERSVSTTAGPNEYVYYKVYATYRKYQAIRISHGNISDDGSIYKLTGIWLSKTSADSLGNIDQGSLIETGERCVLTVPSTDIEKEILDLAAATERLNLTDALNSNPAGNLYDWRSSNSYPWTQKLNLHLTITATGQKYRILASKIVDFNIYSNNFNNLVKLEQSLGDGVKDHYVDISLDAGQYVLVMKANSSYSGNYPYSILFQKF

Source Source

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

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6. Fold Classification (SCOP + CATH) 30 domains

CATH v4.4 (30 domains)

Domain ID domain_id	4p5hA01
Class class	2 — Mainly Beta
Architecture architecture	170 — Beta Complex
Topology topology	15 — Proaerolysin; Chain A, domain 3
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4p5hA02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	1050 —

Domain ID domain_id	4p5hB01
Class class	2 — Mainly Beta
Architecture architecture	170 — Beta Complex
Topology topology	15 — Proaerolysin; Chain A, domain 3
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4p5hB02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	1050 —

Domain ID domain_id	4p5hC01
Class class	2 — Mainly Beta
Architecture architecture	170 — Beta Complex
Topology topology	15 — Proaerolysin; Chain A, domain 3
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4p5hC02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	1050 —

Domain ID domain_id	4p5hD01
Class class	2 — Mainly Beta
Architecture architecture	170 — Beta Complex
Topology topology	15 — Proaerolysin; Chain A, domain 3
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4p5hD02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	1050 —

Domain ID domain_id	4p5hE01
Class class	2 — Mainly Beta
Architecture architecture	170 — Beta Complex
Topology topology	15 — Proaerolysin; Chain A, domain 3
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4p5hE02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	1050 —

Domain ID domain_id	4p5hF01
Class class	2 — Mainly Beta
Architecture architecture	170 — Beta Complex
Topology topology	15 — Proaerolysin; Chain A, domain 3
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4p5hF02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	1050 —

Domain ID domain_id	4p5hG01
Class class	2 — Mainly Beta
Architecture architecture	170 — Beta Complex
Topology topology	15 — Proaerolysin; Chain A, domain 3
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4p5hG02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	1050 —

Domain ID domain_id	4p5hH01
Class class	2 — Mainly Beta
Architecture architecture	170 — Beta Complex
Topology topology	15 — Proaerolysin; Chain A, domain 3
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4p5hH02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	1050 —

Domain ID domain_id	4p5hI01
Class class	2 — Mainly Beta
Architecture architecture	170 — Beta Complex
Topology topology	15 — Proaerolysin; Chain A, domain 3
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4p5hI02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	1050 —

Domain ID domain_id	4p5hJ01
Class class	2 — Mainly Beta
Architecture architecture	170 — Beta Complex
Topology topology	15 — Proaerolysin; Chain A, domain 3
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4p5hJ02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	1050 —

Domain ID domain_id	4p5hK01
Class class	2 — Mainly Beta
Architecture architecture	170 — Beta Complex
Topology topology	15 — Proaerolysin; Chain A, domain 3
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4p5hK02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	1050 —

Domain ID domain_id	4p5hL01
Class class	2 — Mainly Beta
Architecture architecture	170 — Beta Complex
Topology topology	15 — Proaerolysin; Chain A, domain 3
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4p5hL02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	1050 —

Domain ID domain_id	4p5hM01
Class class	2 — Mainly Beta
Architecture architecture	170 — Beta Complex
Topology topology	15 — Proaerolysin; Chain A, domain 3
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4p5hM02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	1050 —

Domain ID domain_id	4p5hN01
Class class	2 — Mainly Beta
Architecture architecture	170 — Beta Complex
Topology topology	15 — Proaerolysin; Chain A, domain 3
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4p5hN02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	1050 —

Domain ID domain_id	4p5hO01
Class class	2 — Mainly Beta
Architecture architecture	170 — Beta Complex
Topology topology	15 — Proaerolysin; Chain A, domain 3
Homologous superfamily homologous superfamily	20 —

Domain ID domain_id	4p5hO02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	1050 —

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Unit-cell length a length_a	369.600 Å
Unit-cell length b length_b	100.260 Å
Unit-cell length c length_c	265.360 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	119.74 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	60

Space group space_group	C 1 2 1
Space-group number int_tables_number	5
Crystal system crystal_system	—

Resolution resolution	3.380 Å
Low-resolution limit resolution_low	48.980 Å
R factor r_factor	0.2062
R_work r_work	0.2044
R_free r_free	0.2400

Structure of Clostridium perfringens Enterotoxin with a peptide derived from a modified version of ECL-2 of Claudin 2

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

Claudin-2

State in the Current Structure

Other States of the Same Protein in the Database

Heat-labile enterotoxin B chain

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

4p5h__assembly_1__model_1

4p5h__assembly_1__model_1 | I(q)

4p5h__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

5. Entities and Polymers Entities & Polymers (2)

Entity 1 Entity 1 polymer

Polymer Polymer

Entity 2 Entity 2 polymer

Polymer Polymer

Source Source

6. Fold Classification (SCOP + CATH) 30 domains

CATH v4.4 (30 domains)

7. Citations (2)

Structure of Clostridium perfringens Enterotoxin with a peptide derived from a modified version of ECL-2 of Claudin 2

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

Claudin-2

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

Heat-labile enterotoxin B chain

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

4p5h__assembly_1__model_1

4p5h__assembly_1__model_1 | I(q)

4p5h__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

5. Entities and Polymers Entities & Polymers (2)

Entity 1 Entity 1 polymer

Polymer Polymer

Entity 2 Entity 2 polymer

Polymer Polymer

Source Source

6. Fold Classification (SCOP + CATH) 30 domains

CATH v4.4 (30 domains)

7. Citations (2)