SAXSdb — 5nko

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

Ribosome hibernation promotion factor

Staphylococcus aureus (strain NCTC 8325)

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein homooligomer	Homooligomer	Protein 2	No other associated polymer	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	HPF_STAA8
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 2–61； UniProt 131–190 Author chain B； PDBConstruct 2–61； UniProt 131–190

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	5nko
Deposition date deposition_date	2017-03-31
Structure title title	Solution structure of the C-terminal domain of S. aureus Hibernating Promoting Factor (CTD-SaHPF)
Keywords keywords	Staphylococcus aureus, Hibernation, Pathogen, Ribosome, Hibernating Promoting Factor, HPF, ribosomal protein; RIBOSOMAL PROTEIN
Experimental Method method	SOLUTION NMR

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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.

5nko__assembly_1__model_6

Assembly 1 · Model 6 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

5nko__assembly_1__model_6 | I(q)

100 plotted points; both axes use logarithmic scales.

5nko__assembly_1__model_6 | P(r) · Pending

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

Rg（Guinier）	15.10 Å
Rg (electron density)	13.75 Å
Total Rg	15.20 Å
Atom count	1988
Residues	122
Excluded volume	17762 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`5nko__assembly_1__model_1`	dimeric （2）	Success	4.1.3-1-20251215 (887e7ef)	View Download
1	2	`5nko__assembly_1__model_2`	dimeric （2）	Success	4.1.3-1-20251215 (887e7ef)	View Download
1	3	`5nko__assembly_1__model_3`	dimeric （2）	Success	4.1.3-1-20251215 (887e7ef)	View Download
1	4	`5nko__assembly_1__model_4`	dimeric （2）	Success	4.1.3-1-20251215 (887e7ef)	View Download
1	5	`5nko__assembly_1__model_5`	dimeric （2）	Success	4.1.3-1-20251215 (887e7ef)	View Download
1	6	`5nko__assembly_1__model_6`	dimeric （2）	Success	4.1.3-1-20251215 (887e7ef)	View Download
1	7	`5nko__assembly_1__model_7`	dimeric （2）	Success	4.1.3-1-20251215 (887e7ef)	View Download
1	8	`5nko__assembly_1__model_8`	dimeric （2）	Success	4.1.3-1-20251215 (887e7ef)	View Download
1	9	`5nko__assembly_1__model_9`	dimeric （2）	Success	4.1.3-1-20251215 (887e7ef)	View Download
1	10	`5nko__assembly_1__model_10`	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 (1)

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6. Fold Classification (SCOP + CATH) 2 domains

CATH v4.4 (2 domains)

Domain ID domain_id	5nkoA01
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	505 — SHC Adaptor Protein
Homologous superfamily homologous superfamily	50 — Sigma 54 modulation/S30EA ribosomal protein, C-terminal domain

Domain ID domain_id	5nkoB01
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	505 — SHC Adaptor Protein
Homologous superfamily homologous superfamily	50 — Sigma 54 modulation/S30EA ribosomal protein, C-terminal domain

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Description description	Ribosome hibernation promotion factor
Molecular weight formula_weight	7124.1 kDa
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	19880

Source organism organism	Staphylococcus aureus (strain NCTC 8325)
NCBI taxonomy ID ncbi_taxonomy_id	93061
Host organism host_organism	Escherichia coli BL21(DE3)

Solution structure of the C-terminal domain of S. aureus Hibernating Promoting Factor (CTD-SaHPF)

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

Ribosome hibernation promotion factor

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

5nko__assembly_1__model_6

5nko__assembly_1__model_6 | I(q)

5nko__assembly_1__model_6 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

5. Entities and Polymers Entities & Polymers (1)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

6. Fold Classification (SCOP + CATH) 2 domains

CATH v4.4 (2 domains)

7. Citations (1)

Solution structure of the C-terminal domain of S. aureus Hibernating Promoting Factor (CTD-SaHPF)

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

Ribosome hibernation promotion factor

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

5nko__assembly_1__model_6

5nko__assembly_1__model_6 | I(q)

5nko__assembly_1__model_6 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

5. Entities and Polymers Entities & Polymers (1)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

6. Fold Classification (SCOP + CATH) 2 domains

CATH v4.4 (2 domains)

7. Citations (1)