SAXSdb — 9yf8

▼

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

Probable portal protein

OrganismNot specified

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein homooligomer	Homooligomer	Protein 12	No other associated polymer	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	PORTL_BPN4
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain PA； PDBConstruct 1–763； UniProt 1–763 Author chain PB； PDBConstruct 1–763； UniProt 1–763 Author chain PC； PDBConstruct 1–763； UniProt 1–763 Author chain PD； PDBConstruct 1–763； UniProt 1–763 Author chain PE； PDBConstruct 1–763； UniProt 1–763 Author chain PF； PDBConstruct 1–763； UniProt 1–763 Author chain PG； PDBConstruct 1–763； UniProt 1–763 Author chain PH； PDBConstruct 1–763； UniProt 1–763 Author chain PI； PDBConstruct 1–763； UniProt 1–763 Author chain PJ； PDBConstruct 1–763； UniProt 1–763 Author chain PK； PDBConstruct 1–763； UniProt 1–763 Author chain PL； PDBConstruct 1–763； UniProt 1–763

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.

▼

2. Structure Basics 2. Structure Basics

Entry ID entry_id	9yf8
Deposition date deposition_date	2025-09-25
Structure title title	N4 Full Virion Portal
Keywords keywords	dodecamer, bacteriophage portal, VIRAL PROTEIN; VIRAL PROTEIN
Experimental Method method	ELECTRON MICROSCOPY

▼

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.

9yf8__assembly_1__model_1

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

Download this curve (.dat)

9yf8__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

9yf8__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	68.86 Å
Rg (electron density)	68.18 Å
Total Rg	68.31 Å
Atom count	64332
Residues	8100
Excluded volume	1140900 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`9yf8__assembly_1__model_1`	12-meric （12）	Success	4.1.3-1-20251215 (887e7ef)	View Download

▶

4. Crystallography and Experiment 4. Crystallography & Experiment

▶

5. Entities and Polymers Entities & Polymers (1)

▶

Unit-cell length a length_a	1.000 Å
Unit-cell length b length_b	1.000 Å
Unit-cell length c length_c	1.000 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	—

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

Resolution resolution	2.90 Å
Resolution测定Method resolution_method	—
颗粒数 num_particles	16320

Description description	Probable portal protein
Molecular weight formula_weight	85642.5 kDa
Source method src_method	nat
Copy count entity_count	12

Polymer type type	polypeptide(L)
Chain IDs strand_id	PA,PB,PC,PD,PE,PF,PG,PH,PI,PJ,PK,PL
Atom count atom_count	64332

N4 Full Virion Portal

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

Probable portal 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

9yf8__assembly_1__model_1

9yf8__assembly_1__model_1 | I(q)

9yf8__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

冷冻电镜 EM 3D

5. Entities and Polymers Entities & Polymers (1)

Entity 1 Entity 1 polymer

Polymer Polymer

7. Citations (1)

N4 Full Virion Portal

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

Probable portal 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

9yf8__assembly_1__model_1

9yf8__assembly_1__model_1 | I(q)

9yf8__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

冷冻电镜 EM 3D

5. Entities and Polymers Entities & Polymers (1)

Entity 1 Entity 1 polymer

Polymer Polymer

7. Citations (1)