SAXSdb — 1qyn

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

Protein-export protein secB

Escherichia coli

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein homooligomer	Homooligomer	Protein 4	water × 4	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	SECB_ECOLI
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–153； UniProt 1–153 Author chain B； PDBConstruct 1–153； UniProt 1–153 Author chain C； PDBConstruct 1–153； UniProt 1–153 Author chain D； PDBConstruct 1–153； UniProt 1–153

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	1qyn
Deposition date deposition_date	2003-09-11
Structure title title	Crystal Structure of SecB from Escherichia coli
Keywords keywords	tetramer, Greek key beta sheet, CHAPERONE; CHAPERONE
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.

1qyn__assembly_1__model_1

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

Download this curve (.dat)

1qyn__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

1qyn__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	25.41 Å
Rg (electron density)	24.12 Å
Total Rg	25.08 Å
Atom count	4192
Residues	535
Excluded volume	74848 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`1qyn__assembly_1__model_1`	tetrameric （4）	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) 8 domains

SCOP 2.08 (4 domains)

Domain ID domain_id	d1qyna_
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.33 — SecB-like
Superfamily Superfamily superfamily	d.33.1 — SecB-like
Family Family family	d.33.1.1 — Bacterial protein-export protein SecB

Domain ID domain_id	d1qynb_
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.33 — SecB-like
Superfamily Superfamily superfamily	d.33.1 — SecB-like
Family Family family	d.33.1.1 — Bacterial protein-export protein SecB

Domain ID domain_id	d1qync_
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.33 — SecB-like
Superfamily Superfamily superfamily	d.33.1 — SecB-like
Family Family family	d.33.1.1 — Bacterial protein-export protein SecB

Domain ID domain_id	d1qynd_
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.33 — SecB-like
Superfamily Superfamily superfamily	d.33.1 — SecB-like
Family Family family	d.33.1.1 — Bacterial protein-export protein SecB

CATH v4.4 (4 domains)

Domain ID domain_id	1qynA00
Class class	3 — Alpha Beta
Architecture architecture	10 — Roll
Topology topology	420 — Bacterial Protein-export protein SecB
Homologous superfamily homologous superfamily	10 — SecB-like

Domain ID domain_id	1qynB00
Class class	3 — Alpha Beta
Architecture architecture	10 — Roll
Topology topology	420 — Bacterial Protein-export protein SecB
Homologous superfamily homologous superfamily	10 — SecB-like

Domain ID domain_id	1qynC00
Class class	3 — Alpha Beta
Architecture architecture	10 — Roll
Topology topology	420 — Bacterial Protein-export protein SecB
Homologous superfamily homologous superfamily	10 — SecB-like

Domain ID domain_id	1qynD00
Class class	3 — Alpha Beta
Architecture architecture	10 — Roll
Topology topology	420 — Bacterial Protein-export protein SecB
Homologous superfamily homologous superfamily	10 — SecB-like

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Unit-cell length a length_a	84.005 Å
Unit-cell length b length_b	84.005 Å
Unit-cell length c length_c	204.900 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	32

Space group space_group	P 43 21 2
Space-group number int_tables_number	96
Crystal system crystal_system	—

Resolution resolution	2.350 Å
Low-resolution limit resolution_low	29.610 Å
R factor r_factor	0.2340
R_work r_work	0.2340
R_free r_free	0.2710

Description description	Protein-export protein secB
Molecular weight formula_weight	17101.1 kDa
Source method src_method	man
Copy count entity_count	4

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B,C,D
Atom count atom_count	4305

Crystal Structure of SecB from Escherichia coli

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

Protein-export protein secB

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

1qyn__assembly_1__model_1

1qyn__assembly_1__model_1 | I(q)

1qyn__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) 8 domains

SCOP 2.08 (4 domains)

CATH v4.4 (4 domains)

7. Citations (1)

Source organism organism	Escherichia coli
NCBI taxonomy ID ncbi_taxonomy_id	562
Host organism host_organism	Escherichia coli BL21(DE3)

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	113

Crystal Structure of SecB from Escherichia coli

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

Protein-export protein secB

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

1qyn__assembly_1__model_1

1qyn__assembly_1__model_1 | I(q)

1qyn__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) 8 domains

SCOP 2.08 (4 domains)

CATH v4.4 (4 domains)

7. Citations (1)