SAXSdb — 1vju

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

Coproporphyrinogen III oxidase

Leishmania major

State in the Current Structure

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

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	HEM6_LEIMA
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 9–309； UniProt 1–301 Author chain B； PDBConstruct 9–309； UniProt 1–301

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	1vju
Deposition date deposition_date	2004-03-29
Structure title title	Coproporphyrinogen III oxidase from Leishmania major
Keywords keywords	structural genomics, PSI, Protein Structure Initiative, Structural Genomics of Pathogenic Protozoa Consortium, SGPP, OXIDOREDUCTASE; OXIDOREDUCTASE
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.

1vju__assembly_1__model_1

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

Download this curve (.dat)

1vju__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

1vju__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	20.17 Å
Rg (electron density)	19.06 Å
Total Rg	20.03 Å
Atom count	2327
Residues	287
Excluded volume	41088 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`1vju__assembly_1__model_1`	monomeric （1）	Success	4.1.3-1-20251215 (887e7ef)	View Download
2	1	`1vju__assembly_2__model_1`	monomeric （1）	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) 6 domains

SCOP 2.08 (4 domains)

Domain ID domain_id	d1vjua1
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.248 — Coproporphyrinogen III oxidase
Superfamily Superfamily superfamily	d.248.1 — Coproporphyrinogen III oxidase
Family Family family	d.248.1.1 — Coproporphyrinogen III oxidase

Domain ID domain_id	d1vjua2
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	d1vjub1
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.248 — Coproporphyrinogen III oxidase
Superfamily Superfamily superfamily	d.248.1 — Coproporphyrinogen III oxidase
Family Family family	d.248.1.1 — Coproporphyrinogen III oxidase

Domain ID domain_id	d1vjub2
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

CATH v4.4 (2 domains)

Domain ID domain_id	1vjuA00
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	1500 — oxygen-dependent coproporphyrinogen oxidase
Homologous superfamily homologous superfamily	10 — Coproporphyrinogen III oxidase, aerobic

Domain ID domain_id	1vjuB00
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	1500 — oxygen-dependent coproporphyrinogen oxidase
Homologous superfamily homologous superfamily	10 — Coproporphyrinogen III oxidase, aerobic

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Unit-cell length a length_a	52.649 Å
Unit-cell length b length_b	53.734 Å
Unit-cell length c length_c	66.627 Å
Unit-cell angle α angle_alpha	86.46 °
Unit-cell angle β angle_beta	77.13 °
Unit-cell angle γ angle_gamma	61.50 °
Molecules per unit cell Z z_pdb	2

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

Resolution resolution	1.401 Å
Low-resolution limit resolution_low	40.000 Å
R factor r_factor	—
R_work r_work	0.1514
R_free r_free	0.1804

Description description	Coproporphyrinogen III oxidase
Molecular weight formula_weight	35723.2 kDa
EC 编号 ec_number	1.3.3.3
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	5338

Coproporphyrinogen III oxidase from Leishmania major

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

Coproporphyrinogen III oxidase

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

1vju__assembly_1__model_1

1vju__assembly_1__model_1 | I(q)

1vju__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

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) 6 domains

SCOP 2.08 (4 domains)

CATH v4.4 (2 domains)

7. Citations (1)

Source organism organism	Leishmania major
NCBI taxonomy ID ncbi_taxonomy_id	5664
Host organism host_organism	Escherichia coli

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	644

Coproporphyrinogen III oxidase from Leishmania major

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

Coproporphyrinogen III oxidase

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

1vju__assembly_1__model_1

1vju__assembly_1__model_1 | I(q)

1vju__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

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) 6 domains

SCOP 2.08 (4 domains)

CATH v4.4 (2 domains)

7. Citations (1)