SAXSdb — 2vf9

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

COAT PROTEIN

BACTERIOPHAGE PRR1

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein homooligomer	Homooligomer	Protein 180	CALCIUM ION × 60	Consistent with protein count
2	Protein homooligomer	Homooligomer	Protein 3	CALCIUM ION × 1	Consistent with protein count
3	Protein homooligomer	Homooligomer	Protein 15	CALCIUM ION × 5	Consistent with protein count
4	Protein homooligomer	Homooligomer	Protein 18	CALCIUM ION × 6	Consistent with protein count
5	Protein homooligomer	Homooligomer	Protein 3	CALCIUM ION × 1	Consistent with protein count
6	Protein homooligomer	Homooligomer	Protein 360	CALCIUM ION × 120	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	COAT_BPPRR
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–131； UniProt 1–131 Author chain B； PDBConstruct 1–131； UniProt 1–131 Author chain C； PDBConstruct 1–131； UniProt 1–131

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	2vf9
Deposition date deposition_date	2007-11-01
Structure title title	Crystal structure of bacteriophage PRR1
Keywords keywords	VIRION, RNA-BINDING, CAPSID PROTEIN, STRUCTURAL PROTEIN, VIRUS; VIRUS
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.

2vf9__assembly_1__model_1

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

Download this curve (.dat)

2vf9__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

2vf9__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	0.00 Å
Rg (electron density)	128.50 Å
Total Rg	128.60 Å
Atom count	184380
Residues	23580
Excluded volume	3284500 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`2vf9__assembly_1__model_1`	180-MERIC （180）	Success	4.1.3-1-20251215 (887e7ef)	View Download
2	1	`2vf9__assembly_2__model_1`	trimeric （3）	Excluded	—	—
	Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
3	1	`2vf9__assembly_3__model_1`	pentadecameric （15）	Excluded	—	—
	Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
4	1	`2vf9__assembly_4__model_1`	octadecameric （18）	Excluded	—	—
	Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
5	1	`2vf9__assembly_5__model_1`	trimeric （3）	Excluded	—	—
	Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
6	1	`2vf9__assembly_6__model_1`	360-meric （360）	Excluded	—	—
	Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.

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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) 3 domains

CATH v4.4 (3 domains)

Domain ID domain_id	2vf9A00
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	380 — MS2 Viral Coat Protein
Homologous superfamily homologous superfamily	10 — MS2 Viral Coat Protein

Domain ID domain_id	2vf9B00
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	380 — MS2 Viral Coat Protein
Homologous superfamily homologous superfamily	10 — MS2 Viral Coat Protein

Domain ID domain_id	2vf9C00
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	380 — MS2 Viral Coat Protein
Homologous superfamily homologous superfamily	10 — MS2 Viral Coat Protein

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Unit-cell length a length_a	281.400 Å
Unit-cell length b length_b	285.400 Å
Unit-cell length c length_c	472.500 Å
Unit-cell angle α angle_alpha	93.27 °
Unit-cell angle β angle_beta	90.00 °
Unit-cell angle γ angle_gamma	119.44 °
Molecules per unit cell Z z_pdb	360

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

Resolution resolution	3.500 Å
Low-resolution limit resolution_low	29.120 Å
R factor r_factor	0.3110
R_work r_work	0.3110
R_free r_free	0.3130

Description description	COAT PROTEIN
Molecular weight formula_weight	14568.5 kDa
Source method src_method	man
Copy count entity_count	3

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B,C
Atom count atom_count	3073

Crystal structure of bacteriophage PRR1

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

COAT PROTEIN

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

2vf9__assembly_1__model_1

2vf9__assembly_1__model_1 | I(q)

2vf9__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 non-polymer

6. Fold Classification (SCOP + CATH) 3 domains

CATH v4.4 (3 domains)

7. Citations (1)

Source organism organism	BACTERIOPHAGE PRR1
NCBI taxonomy ID ncbi_taxonomy_id	12024
Host organism host_organism	ESCHERICHIA COLI

Description description	CALCIUM ION
Molecular weight formula_weight	40.1 kDa
Source method src_method	syn
Copy count entity_count	1

Crystal structure of bacteriophage PRR1

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

COAT PROTEIN

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

2vf9__assembly_1__model_1

2vf9__assembly_1__model_1 | I(q)

2vf9__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 non-polymer

6. Fold Classification (SCOP + CATH) 3 domains

CATH v4.4 (3 domains)

7. Citations (1)