SAXSdb — 2r1a

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

Protein yhbN

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
2	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	YHBN_ECOLI
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–159； UniProt 27–185 Author chain B； PDBConstruct 1–159； UniProt 27–185 Author chain C； PDBConstruct 1–159； UniProt 27–185 Author chain D； PDBConstruct 1–159； UniProt 27–185 Author chain E； PDBConstruct 1–159； UniProt 27–185 Author chain F； PDBConstruct 1–159； UniProt 27–185 Author chain G； PDBConstruct 1–159； UniProt 27–185 Author chain H； PDBConstruct 1–159； UniProt 27–185

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	2r1a
Deposition date deposition_date	2007-08-22
Structure title title	Crystal structure of the periplasmic lipopolysaccharide transport protein LptA (YhbN), trigonal form
Keywords keywords	;mainly beta, beta-jellyroll, beta-taco, Structural Genomics, Bacterial Structural Genomics Initiative, Montreal-Kingston Bacterial Structural Genomics Initiative, BSGI, TRANSPORT PROTEIN ;; TRANSPORT 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.

2r1a__assembly_1__model_1

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

Download this curve (.dat)

2r1a__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

2r1a__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	41.55 Å
Rg (electron density)	42.89 Å
Total Rg	42.30 Å
Atom count	3795
Residues	536
Excluded volume	65879 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`2r1a__assembly_1__model_1`	tetrameric （4）	Success	4.1.3-1-20251215 (887e7ef)	View Download
2	1	`2r1a__assembly_2__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

CATH v4.4 (8 domains)

Domain ID domain_id	2r1aA00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	450 — lipopolysaccharide transport protein A fold
Homologous superfamily homologous superfamily	10 — Lipopolysaccharide (LPS) transport protein A like domain

Domain ID domain_id	2r1aB00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	450 — lipopolysaccharide transport protein A fold
Homologous superfamily homologous superfamily	10 — Lipopolysaccharide (LPS) transport protein A like domain

Domain ID domain_id	2r1aC00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	450 — lipopolysaccharide transport protein A fold
Homologous superfamily homologous superfamily	10 — Lipopolysaccharide (LPS) transport protein A like domain

Domain ID domain_id	2r1aD00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	450 — lipopolysaccharide transport protein A fold
Homologous superfamily homologous superfamily	10 — Lipopolysaccharide (LPS) transport protein A like domain

Domain ID domain_id	2r1aE00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	450 — lipopolysaccharide transport protein A fold
Homologous superfamily homologous superfamily	10 — Lipopolysaccharide (LPS) transport protein A like domain

Domain ID domain_id	2r1aF00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	450 — lipopolysaccharide transport protein A fold
Homologous superfamily homologous superfamily	10 — Lipopolysaccharide (LPS) transport protein A like domain

Domain ID domain_id	2r1aG00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	450 — lipopolysaccharide transport protein A fold
Homologous superfamily homologous superfamily	10 — Lipopolysaccharide (LPS) transport protein A like domain

Domain ID domain_id	2r1aH00
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	450 — lipopolysaccharide transport protein A fold
Homologous superfamily homologous superfamily	10 — Lipopolysaccharide (LPS) transport protein A like domain

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Unit-cell length a length_a	146.210 Å
Unit-cell length b length_b	146.210 Å
Unit-cell length c length_c	186.810 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	48

Space group space_group	P 32 2 1
Space-group number int_tables_number	154
Crystal system crystal_system	—

Resolution resolution	3.260 Å
Low-resolution limit resolution_low	29.980 Å
R factor r_factor	0.3011
R_work r_work	0.2980
R_free r_free	0.3609

Description description	Protein yhbN
Molecular weight formula_weight	17387.5 kDa
Source method src_method	man
Copy count entity_count	8

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B,C,D,E,F,G,H
Atom count atom_count	7620

Crystal structure of the periplasmic lipopolysaccharide transport protein LptA (YhbN), trigonal form

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

Protein yhbN

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

2r1a__assembly_1__model_1

2r1a__assembly_1__model_1 | I(q)

2r1a__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

CATH v4.4 (8 domains)

7. Citations (1)

Source organism organism	Escherichia coli
NCBI taxonomy ID ncbi_taxonomy_id	83333
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	68

Crystal structure of the periplasmic lipopolysaccharide transport protein LptA (YhbN), trigonal form

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

Protein yhbN

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

2r1a__assembly_1__model_1

2r1a__assembly_1__model_1 | I(q)

2r1a__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

CATH v4.4 (8 domains)

7. Citations (1)