SAXSdb — 1zjc

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

aminopeptidase ampS

Staphylococcus aureus subsp. aureus

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein homooligomer	Homooligomer	Protein 2	COBALT (II) ION × 6 water × 2	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	Q8NVU1_STAAW
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 4–418； UniProt 1–415

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	1zjc
Deposition date deposition_date	2005-04-28
Structure title title	Aminopeptidase S from S. aureus
Keywords keywords	aminopeptidase, metallopeptidase, HYDROLASE; HYDROLASE
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.

1zjc__assembly_1__model_1

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

Download this curve (.dat)

1zjc__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

1zjc__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	32.06 Å
Rg (electron density)	31.52 Å
Total Rg	31.96 Å
Atom count	6598
Residues	826
Excluded volume	116730 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`1zjc__assembly_1__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 (3)

Entity 1 Entity 1 polymer

Description description	aminopeptidase ampS
Molecular weight formula_weight	47237.6 kDa
EC 编号 ec_number	3.4.11.-
Source method src_method	man
Copy count entity_count	1

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A
Atom count atom_count	3679

GSHMTNYKEKLQQYAELLVKVGMNVQPKQPVFIRSSVETLELTHLIVEEAYHCGASDVRVVYSDPTLKRLKFENESVEHFANHEIKSYDVEARMDYVKRGAANLALISEDPDLMDGIDSQKLQAFQQQNARAFKGYMESVQKNQFPWVVAAFPSKAWAKRVYPELSVEEAYIKFIDEVFDIVRIDGNDPVENWRQHIANLSVYAQKLQQKNYHALHYVSEGTDLTVGLAKNHIWEDATSYVNGKEQAFIANIPTEEVFTAPDRNRVDGYVTNKLPLSYNGTIIDQFKLMFKDGEIIDFSAEKGEAVLKDLINTDEGSRRLGEVALVPDDSPISNRNTIFYNTLFDENAACHLAIGSAYAFNIQGGTEMTVEEKIASGLNDSNVHVDFMIGSSDLTIYGIFEDGSKELVFENGNWASTF

Source Source

Source organism organism	Staphylococcus aureus subsp. aureus
NCBI taxonomy ID ncbi_taxonomy_id	196620
Host organism host_organism	Escherichia coli BL21(DE3)

Entity 2 Entity 2 non-polymer

Description description	COBALT (II) ION
Molecular weight formula_weight	58.9 kDa
Source method src_method	syn
Copy count entity_count	3

Entity 3 Entity 3 water

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	380

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6. Fold Classification (SCOP + CATH) 2 domains

SCOP 2.08 (1 domains)

Domain ID domain_id	d1zjca1
Class class	e — Multi-domain proteins (alpha and beta)
Fold Fold fold	e.60 — Thermophilic metalloprotease-like
Superfamily Superfamily superfamily	e.60.1 — Thermophilic metalloprotease-like
Family Family family	e.60.1.1 — Thermophilic metalloprotease (M29)

CATH v4.4 (1 domains)

Domain ID domain_id	1zjcA01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	1830 — Thermophilic metalloprotease-like
Homologous superfamily homologous superfamily	10 — Thermophilic metalloprotease (M29)

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Unit-cell length a length_a	70.181 Å
Unit-cell length b length_b	81.858 Å
Unit-cell length c length_c	152.885 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	8

Space group space_group	C 2 2 21
Space-group number int_tables_number	20
Crystal system crystal_system	—

Resolution resolution	1.800 Å
Low-resolution limit resolution_low	20.000 Å
R factor r_factor	0.1720
R_work r_work	0.1700
R_free r_free	0.2115

Aminopeptidase S from S. aureus

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

aminopeptidase ampS

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

1zjc__assembly_1__model_1

1zjc__assembly_1__model_1 | I(q)

1zjc__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 (3)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 non-polymer

Entity 3 Entity 3 water

6. Fold Classification (SCOP + CATH) 2 domains

SCOP 2.08 (1 domains)

CATH v4.4 (1 domains)

7. Citations (1)

Aminopeptidase S from S. aureus

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

aminopeptidase ampS

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

1zjc__assembly_1__model_1

1zjc__assembly_1__model_1 | I(q)

1zjc__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 (3)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 non-polymer

Entity 3 Entity 3 water

6. Fold Classification (SCOP + CATH) 2 domains

SCOP 2.08 (1 domains)

CATH v4.4 (1 domains)

7. Citations (1)