SAXSdb — 3mya

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

Villin-1

Gallus gallus

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	VILI_CHICK
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–67； UniProt 760–826 Author chain B； PDBConstruct 1–67； UniProt 760–826

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	3mya
Deposition date deposition_date	2010-05-10
Structure title title	Crystal Structure of HP67 H41F - P61
Keywords keywords	villin headpiece, alpha helix, protein, STRUCTURAL PROTEIN; STRUCTURAL 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.

3mya__assembly_1__model_1

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

Download this curve (.dat)

3mya__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

3mya__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	13.11 Å
Rg (electron density)	11.67 Å
Total Rg	13.15 Å
Atom count	538
Residues	67
Excluded volume	9650 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`3mya__assembly_1__model_1`	monomeric （1）	Success	4.1.3-1-20251215 (887e7ef)	View Download
2	1	`3mya__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) 4 domains

SCOP 2.08 (2 domains)

Domain ID domain_id	d3myaa_
Class class	a — All alpha proteins
Fold Fold fold	a.14 — VHP, Villin headpiece domain
Superfamily Superfamily superfamily	a.14.1 — VHP, Villin headpiece domain
Family Family family	a.14.1.1 — VHP, Villin headpiece domain

Domain ID domain_id	d3myab_
Class class	a — All alpha proteins
Fold Fold fold	a.14 — VHP, Villin headpiece domain
Superfamily Superfamily superfamily	a.14.1 — VHP, Villin headpiece domain
Family Family family	a.14.1.1 — VHP, Villin headpiece domain

CATH v4.4 (2 domains)

Domain ID domain_id	3myaA00
Class class	1 — Mainly Alpha
Architecture architecture	10 — Orthogonal Bundle
Topology topology	950 — Villin Headpiece Domain; Chain A
Homologous superfamily homologous superfamily	10 — Villin headpiece domain

Domain ID domain_id	3myaB00
Class class	1 — Mainly Alpha
Architecture architecture	10 — Orthogonal Bundle
Topology topology	950 — Villin Headpiece Domain; Chain A
Homologous superfamily homologous superfamily	10 — Villin headpiece domain

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Unit-cell length a length_a	65.409 Å
Unit-cell length b length_b	65.409 Å
Unit-cell length c length_c	68.283 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	90.00 °
Unit-cell angle γ angle_gamma	120.00 °
Molecules per unit cell Z z_pdb	12

Space group space_group	P 61
Space-group number int_tables_number	169
Crystal system crystal_system	—

Resolution resolution	2.500 Å
Low-resolution limit resolution_low	18.900 Å
R factor r_factor	0.2175
R_work r_work	0.2147
R_free r_free	0.2765

Description description	Villin-1
Molecular weight formula_weight	7620.7 kDa
Mutation mutation	H41F
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	1081

Crystal Structure of HP67 H41F - P61

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

Villin-1

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

3mya__assembly_1__model_1

3mya__assembly_1__model_1 | I(q)

3mya__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) 4 domains

SCOP 2.08 (2 domains)

CATH v4.4 (2 domains)

7. Citations (1)

Source organism organism	Gallus gallus
Common name common_name	chicken
NCBI taxonomy ID ncbi_taxonomy_id	9031
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	28

Crystal Structure of HP67 H41F - P61

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

Villin-1

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

3mya__assembly_1__model_1

3mya__assembly_1__model_1 | I(q)

3mya__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) 4 domains

SCOP 2.08 (2 domains)

CATH v4.4 (2 domains)

7. Citations (1)