SAXSdb — 2oez

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

UPF0289 protein VP2528

Vibrio parahaemolyticus

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein homooligomer	Homooligomer	Protein 2	water × 2	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	Y2528_VIBPA
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 4–247； UniProt 2–245 Author chain B； PDBConstruct 4–247； UniProt 2–245

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	2oez
Deposition date deposition_date	2007-01-02
Structure title title	Protein of Unknown Function (DUF1342) from Vibrio parahaemolyticus
Keywords keywords	;immunoglobulin fold, alpha-structure, Structural Genomics, PSI-2, Protein Structure Initiative, Midwest Center for Structural Genomics, MCSG, UNKNOWN FUNCTION ;; STRUCTURAL GENOMICS, UNKNOWN FUNCTION
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.

2oez__assembly_1__model_1

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

Download this curve (.dat)

2oez__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

2oez__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	28.28 Å
Rg (electron density)	27.47 Å
Total Rg	28.14 Å
Atom count	3988
Residues	474
Excluded volume	71009 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`2oez__assembly_1__model_1`	dimeric （2）	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)

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6. Fold Classification (SCOP + CATH) 7 domains

SCOP 2.08 (3 domains)

Domain ID domain_id	d2oeza1
Class class	e — Multi-domain proteins (alpha and beta)
Fold Fold fold	e.68 — YacF-like
Superfamily Superfamily superfamily	e.68.1 — YacF-like
Family Family family	e.68.1.1 — YacF-like

Domain ID domain_id	d2oeza2
Class class	l — Artifacts
Fold Fold fold	l.1 — Tags
Superfamily Superfamily superfamily	l.1.1 — Tags
Family Family family	l.1.1.1 — Tags

Domain ID domain_id	d2oezb_
Class class	e — Multi-domain proteins (alpha and beta)
Fold Fold fold	e.68 — YacF-like
Superfamily Superfamily superfamily	e.68.1 — YacF-like
Family Family family	e.68.1.1 — YacF-like

CATH v4.4 (4 domains)

Domain ID domain_id	2oezA01
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	440 — YacF-like
Homologous superfamily homologous superfamily	10 — YacF-like domains

Domain ID domain_id	2oezA02
Class class	1 — Mainly Alpha
Architecture architecture	10 — Orthogonal Bundle
Topology topology	3900 — YacF-like
Homologous superfamily homologous superfamily	10 — YacF-like

Domain ID domain_id	2oezB01
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	440 — YacF-like
Homologous superfamily homologous superfamily	10 — YacF-like domains

Domain ID domain_id	2oezB02
Class class	1 — Mainly Alpha
Architecture architecture	10 — Orthogonal Bundle
Topology topology	3900 — YacF-like
Homologous superfamily homologous superfamily	10 — YacF-like

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Unit-cell length a length_a	63.759 Å
Unit-cell length b length_b	77.567 Å
Unit-cell length c length_c	146.167 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	8

Space group space_group	P 21 21 21
Space-group number int_tables_number	19
Crystal system crystal_system	—

Resolution resolution	1.970 Å
Low-resolution limit resolution_low	49.250 Å
R factor r_factor	0.2157
R_work r_work	0.2100
R_free r_free	0.2673

Description description	UPF0289 protein VP2528
Molecular weight formula_weight	28951.3 kDa
Source method src_method	man
Copy count entity_count	2

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B
Atom count atom_count	4932

Protein of Unknown Function (DUF1342) from Vibrio parahaemolyticus

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

UPF0289 protein VP2528

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

2oez__assembly_1__model_1

2oez__assembly_1__model_1 | I(q)

2oez__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

Source Source

Entity 2 Entity 2 water

6. Fold Classification (SCOP + CATH) 7 domains

SCOP 2.08 (3 domains)

CATH v4.4 (4 domains)

7. Citations (1)

Source organism organism	Vibrio parahaemolyticus
NCBI taxonomy ID ncbi_taxonomy_id	223926
Host organism host_organism	Escherichia coli BL21(DE3)

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	424

Protein of Unknown Function (DUF1342) from Vibrio parahaemolyticus

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

UPF0289 protein VP2528

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

2oez__assembly_1__model_1

2oez__assembly_1__model_1 | I(q)

2oez__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

Source Source

Entity 2 Entity 2 water

6. Fold Classification (SCOP + CATH) 7 domains

SCOP 2.08 (3 domains)

CATH v4.4 (4 domains)

7. Citations (1)