2fqm

Crystal structure of the oligomerization domain of the phosphoprotein of vesicular stomatitis virus

Method: X-RAY DIFFRACTION

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

Phosphoprotein

Vesicular stomatitis Indiana virus

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
2	Protein homooligomer	Homooligomer	Protein 2	water × 2	Consistent with protein count
3	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	RRPP_VSVIM
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 5–75； UniProt 107–177 Author chain B； PDBConstruct 5–75； UniProt 107–177 Author chain C； PDBConstruct 5–75； UniProt 107–177 Author chain D； PDBConstruct 5–75； UniProt 107–177 Author chain E； PDBConstruct 5–75； UniProt 107–177 Author chain F； PDBConstruct 5–75； UniProt 107–177

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	2fqm
Deposition date deposition_date	2006-01-18
Structure title title	Crystal structure of the oligomerization domain of the phosphoprotein of vesicular stomatitis virus
Keywords keywords	negative strand RNA virus, polymerase, replication, cofactor, viral protein; VIRAL PROTEIN
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.

2fqm__assembly_2__model_1

Assembly 2 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

2fqm__assembly_2__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

2fqm__assembly_2__model_1 | P(r) · Pending

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

Rg（Guinier）	17.26 Å
Rg (electron density)	15.79 Å
Total Rg	16.92 Å
Atom count	1104
Residues	139
Excluded volume	19699 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`2fqm__assembly_1__model_1`	dimeric （2）	Success	4.1.3-1-20251215 (887e7ef)	View Download
2	1	`2fqm__assembly_2__model_1`	dimeric （2）	Success	4.1.3-1-20251215 (887e7ef)	View Download
3	1	`2fqm__assembly_3__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) 14 domains

SCOP 2.08 (8 domains)

Domain ID domain_id	d2fqma1
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.378 — Phosphoprotein oligomerization domain-like
Superfamily Superfamily superfamily	d.378.1 — Phosphoprotein oligomerization domain-like
Family Family family	d.378.1.1 — Phosphoprotein oligomerization domain-like

Domain ID domain_id	d2fqmb_
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.378 — Phosphoprotein oligomerization domain-like
Superfamily Superfamily superfamily	d.378.1 — Phosphoprotein oligomerization domain-like
Family Family family	d.378.1.1 — Phosphoprotein oligomerization domain-like

Domain ID domain_id	d2fqmc_
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.378 — Phosphoprotein oligomerization domain-like
Superfamily Superfamily superfamily	d.378.1 — Phosphoprotein oligomerization domain-like
Family Family family	d.378.1.1 — Phosphoprotein oligomerization domain-like

Domain ID domain_id	d2fqmd2
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.378 — Phosphoprotein oligomerization domain-like
Superfamily Superfamily superfamily	d.378.1 — Phosphoprotein oligomerization domain-like
Family Family family	d.378.1.1 — Phosphoprotein oligomerization domain-like

Domain ID domain_id	d2fqmd3
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	d2fqme2
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.378 — Phosphoprotein oligomerization domain-like
Superfamily Superfamily superfamily	d.378.1 — Phosphoprotein oligomerization domain-like
Family Family family	d.378.1.1 — Phosphoprotein oligomerization domain-like

Domain ID domain_id	d2fqme3
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	d2fqmf_
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.378 — Phosphoprotein oligomerization domain-like
Superfamily Superfamily superfamily	d.378.1 — Phosphoprotein oligomerization domain-like
Family Family family	d.378.1.1 — Phosphoprotein oligomerization domain-like

CATH v4.4 (6 domains)

Domain ID domain_id	2fqmA01
Class class	6 — Special
Architecture architecture	10 — Helix non-globular
Topology topology	140 — Helix Hairpins
Homologous superfamily homologous superfamily	830 —

Domain ID domain_id	2fqmB01
Class class	6 — Special
Architecture architecture	10 — Helix non-globular
Topology topology	140 — Helix Hairpins
Homologous superfamily homologous superfamily	830 —

Domain ID domain_id	2fqmC01
Class class	6 — Special
Architecture architecture	10 — Helix non-globular
Topology topology	140 — Helix Hairpins
Homologous superfamily homologous superfamily	830 —

Domain ID domain_id	2fqmD01
Class class	6 — Special
Architecture architecture	10 — Helix non-globular
Topology topology	140 — Helix Hairpins
Homologous superfamily homologous superfamily	830 —

Domain ID domain_id	2fqmE01
Class class	6 — Special
Architecture architecture	10 — Helix non-globular
Topology topology	140 — Helix Hairpins
Homologous superfamily homologous superfamily	830 —

Domain ID domain_id	2fqmF01
Class class	6 — Special
Architecture architecture	10 — Helix non-globular
Topology topology	140 — Helix Hairpins
Homologous superfamily homologous superfamily	830 —

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Unit-cell length a length_a	74.380 Å
Unit-cell length b length_b	74.380 Å
Unit-cell length c length_c	157.300 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	48

Space group space_group	P 41 21 2
Space-group number int_tables_number	92
Crystal system crystal_system	—

Resolution resolution	2.300 Å
Low-resolution limit resolution_low	20.000 Å
R factor r_factor	0.2270
R_work r_work	0.2250
R_free r_free	0.2900

Description description	Phosphoprotein
Molecular weight formula_weight	8442.6 kDa
Mutation mutation	L139M
Source method src_method	man
Copy count entity_count	6

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B,C,D,E,F
Atom count atom_count	3277

Crystal structure of the oligomerization domain of the phosphoprotein of vesicular stomatitis virus

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

Phosphoprotein

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

2fqm__assembly_2__model_1

2fqm__assembly_2__model_1 | I(q)

2fqm__assembly_2__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) 14 domains

SCOP 2.08 (8 domains)

CATH v4.4 (6 domains)

7. Citations (1)

Source organism organism	Vesicular stomatitis Indiana virus
NCBI taxonomy ID ncbi_taxonomy_id	11277
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	84

Crystal structure of the oligomerization domain of the phosphoprotein of vesicular stomatitis virus

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

Phosphoprotein

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

2fqm__assembly_2__model_1

2fqm__assembly_2__model_1 | I(q)

2fqm__assembly_2__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) 14 domains

SCOP 2.08 (8 domains)

CATH v4.4 (6 domains)

7. Citations (1)