2bg9

REFINED STRUCTURE OF THE NICOTINIC ACETYLCHOLINE RECEPTOR AT 4A RESOLUTION.

Method: ELECTRON MICROSCOPY Dmax: 153.1 Å Quality: REASONABLE

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

ACETYLCHOLINE RECEPTOR PROTEIN, ALPHA CHAIN

OrganismNot specified

UniProt P02711

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 5 PDB declaration: pentameric(5) Consistent with protein copy count Chain A; UniProt 25–330 Chain A; UniProt 398–461 Chain D; UniProt 25–330 Chain D; UniProt 398–461 Not recorded ACETYLCHOLINE RECEPTOR PROTEIN, BETA CHAIN × 1 (Q6S3I0) ACETYLCHOLINE RECEPTOR PROTEIN, DELTA CHAIN × 1 (Q6S3H8) ACETYLCHOLINE RECEPTOR PROTEIN, GAMMA CHAIN × 1 (Q6S3H9) ELECTRON MICROSCOPY cryo-EM buffer:100MM SODIUM CACODYLATE;pH 6.8;100MM SODIUM CACODYLATE cryo-EM vitrification conditions:LIQUID ETHANE Resolution 4.00 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

11 other PDB entries and 11 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name ACHA_TORMA
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–306; UniProt 25–330 Author chain A; PDBConstruct 307–370; UniProt 398–461 Author chain D; PDBConstruct 1–306; UniProt 25–330 Author chain D; PDBConstruct 307–370; UniProt 398–461

ACETYLCHOLINE RECEPTOR PROTEIN, BETA CHAIN

OrganismNot specified

UniProt Q6S3I0

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 5 PDB declaration: pentameric(5) Consistent with protein copy count Chain B; UniProt 25–188 Chain B; UniProt 198–336 Chain B; UniProt 427–493 Not recorded ACETYLCHOLINE RECEPTOR PROTEIN, ALPHA CHAIN × 2 (P02711) ACETYLCHOLINE RECEPTOR PROTEIN, DELTA CHAIN × 1 (Q6S3H8) ACETYLCHOLINE RECEPTOR PROTEIN, GAMMA CHAIN × 1 (Q6S3H9) ELECTRON MICROSCOPY cryo-EM buffer:100MM SODIUM CACODYLATE;pH 6.8;100MM SODIUM CACODYLATE cryo-EM vitrification conditions:LIQUID ETHANE Resolution 4.00 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

9 other PDB entries and 9 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name Q6S3I0
Isoform
PDB entities 2
Chains and sequence ranges Author chain B; PDBConstruct 1–164; UniProt 25–188 Author chain B; PDBConstruct 165–303; UniProt 198–336 Author chain B; PDBConstruct 304–370; UniProt 427–493

ACETYLCHOLINE RECEPTOR PROTEIN, DELTA CHAIN

OrganismNot specified

UniProt Q6S3H8

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 5 PDB declaration: pentameric(5) Consistent with protein copy count Chain C; UniProt 22–183 Chain C; UniProt 199–341 Chain C; UniProt 442–505 Not recorded ACETYLCHOLINE RECEPTOR PROTEIN, ALPHA CHAIN × 2 (P02711) ACETYLCHOLINE RECEPTOR PROTEIN, BETA CHAIN × 1 (Q6S3I0) ACETYLCHOLINE RECEPTOR PROTEIN, GAMMA CHAIN × 1 (Q6S3H9) ELECTRON MICROSCOPY cryo-EM buffer:100MM SODIUM CACODYLATE;pH 6.8;100MM SODIUM CACODYLATE cryo-EM vitrification conditions:LIQUID ETHANE Resolution 4.00 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

9 other PDB entries and 9 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name Q6S3H8
Isoform
PDB entities 3
Chains and sequence ranges Author chain C; PDBConstruct 1–162; UniProt 22–183 Author chain C; PDBConstruct 163–305; UniProt 199–341 Author chain C; PDBConstruct 306–369; UniProt 442–505

ACETYLCHOLINE RECEPTOR PROTEIN, GAMMA CHAIN

OrganismNot specified

UniProt Q6S3H9

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 5 PDB declaration: pentameric(5) Consistent with protein copy count Chain E; UniProt 18–181 Chain E; UniProt 189–332 Chain E; UniProt 432–493 Not recorded ACETYLCHOLINE RECEPTOR PROTEIN, ALPHA CHAIN × 2 (P02711) ACETYLCHOLINE RECEPTOR PROTEIN, BETA CHAIN × 1 (Q6S3I0) ACETYLCHOLINE RECEPTOR PROTEIN, DELTA CHAIN × 1 (Q6S3H8) ELECTRON MICROSCOPY cryo-EM buffer:100MM SODIUM CACODYLATE;pH 6.8;100MM SODIUM CACODYLATE cryo-EM vitrification conditions:LIQUID ETHANE Resolution 4.00 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

9 other PDB entries and 9 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name Q6S3H9
Isoform
PDB entities 4
Chains and sequence ranges Author chain E; PDBConstruct 1–164; UniProt 18–181 Author chain E; PDBConstruct 165–307; UniProt 189–332 Author chain E; PDBConstruct 308–370; UniProt 432–493

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.

SAXS scattering curve SAXS Profile

SAXS profile for 2bg9

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 2bg9
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2. Structure Basics 2. Structure Basics

Entry ID entry_id2bg9
Deposition date deposition_date2004-12-17
Structure title titleREFINED STRUCTURE OF THE NICOTINIC ACETYLCHOLINE RECEPTOR AT 4A RESOLUTION.
Keywords keywordsION CHANNEL/RECEPTOR, ACETYLCHOLINE RECEPTOR, ION CHANNEL, ION TRANSPORT, POSTSYNAPTIC MEMBRANE, ION CHANNEL-RECEPTOR complex; ION CHANNEL/RECEPTOR
Experimental Method methodELECTRON MICROSCOPY

3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier43.92
Radius of gyration Rg (electron density) rg_electron43.21
Forward intensity I(0) i0586036000.00
Molecular weight molecular_weight211510.0 kDa
Excluded volume excluded_volume269820 ų
Envelope volume envelope_volume375020 ų
Hydration-shell volume shell_volume73383 ų
Envelope diameter envelope_diameter162.5
Shell Rg shell_rg47.52
Envelope Rg envelope_rg43.05
Shape Rg shape_rg43.22
Total Rg total_rg43.42
Total atoms total_atoms14924
Residues n_residues1849
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 −1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax153.1
Rg (real space) rg_real44.13
Rg uncertainty (real space) rg_real_error1.73
I(0) (real space) i0_real5.8600e+08
I(0) uncertainty (real space) i0_real_error1.1940e+07
Rg (reciprocal space) rg_reciprocal43.93
I(0) (reciprocal space) i0_reciprocal585900000.0000
Solution quality estimate total_estimate0.6012
Solution quality rating solution_quality REASONABLE a REASONABLE solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary51.0
Skewness Skewness skewness0.591
Kurtosis Kurtosis kurtosis0.152
Angular range angular_range— – 0.1800 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha77330000.0000
Real-space data points n_real_points37
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.660; Stabil: 1.000; Sysdev: 0.032; Positv: 1.000; Valcen: 0.994; Smooth: 0.739

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (4)

7. Fold Classification (SCOP + CATH) 10 domains

CATH v4.4 (10 domains)

Domain ID domain_id2bg9A01
Class class2 — Mainly Beta
Architecture architecture70 — Distorted Sandwich
Topology topology170 — Acetylcholine Binding Protein; Chain: A,
Homologous superfamily homologous superfamily10 — Neurotransmitter-gated ion-channel ligand-binding domain
Domain ID domain_id2bg9A02
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology58 — Methane Monooxygenase Hydroxylase; Chain G, domain 1
Homologous superfamily homologous superfamily390 — Neurotransmitter-gated ion-channel transmembrane domain
Domain ID domain_id2bg9B01
Class class2 — Mainly Beta
Architecture architecture70 — Distorted Sandwich
Topology topology170 — Acetylcholine Binding Protein; Chain: A,
Homologous superfamily homologous superfamily10 — Neurotransmitter-gated ion-channel ligand-binding domain
Domain ID domain_id2bg9B02
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology58 — Methane Monooxygenase Hydroxylase; Chain G, domain 1
Homologous superfamily homologous superfamily390 — Neurotransmitter-gated ion-channel transmembrane domain
Domain ID domain_id2bg9C01
Class class2 — Mainly Beta
Architecture architecture70 — Distorted Sandwich
Topology topology170 — Acetylcholine Binding Protein; Chain: A,
Homologous superfamily homologous superfamily10 — Neurotransmitter-gated ion-channel ligand-binding domain
Domain ID domain_id2bg9C02
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology58 — Methane Monooxygenase Hydroxylase; Chain G, domain 1
Homologous superfamily homologous superfamily390 — Neurotransmitter-gated ion-channel transmembrane domain
Domain ID domain_id2bg9D01
Class class2 — Mainly Beta
Architecture architecture70 — Distorted Sandwich
Topology topology170 — Acetylcholine Binding Protein; Chain: A,
Homologous superfamily homologous superfamily10 — Neurotransmitter-gated ion-channel ligand-binding domain
Domain ID domain_id2bg9D02
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology58 — Methane Monooxygenase Hydroxylase; Chain G, domain 1
Homologous superfamily homologous superfamily390 — Neurotransmitter-gated ion-channel transmembrane domain
Domain ID domain_id2bg9E01
Class class2 — Mainly Beta
Architecture architecture70 — Distorted Sandwich
Topology topology170 — Acetylcholine Binding Protein; Chain: A,
Homologous superfamily homologous superfamily10 — Neurotransmitter-gated ion-channel ligand-binding domain
Domain ID domain_id2bg9E02
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology58 — Methane Monooxygenase Hydroxylase; Chain G, domain 1
Homologous superfamily homologous superfamily390 — Neurotransmitter-gated ion-channel transmembrane domain

8. Citations (2)

9. Files and Curves (10)