2c9t

Crystal Structure Of Acetylcholine Binding Protein (AChBP) From Aplysia Californica In Complex With alpha-Conotoxin ImI

Method: X-RAY DIFFRACTION Dmax: 141.2 Å Quality: GOOD

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

SOLUBLE ACETYLCHOLINE RECEPTOR

OrganismNot specified

UniProt Q8WSF8

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 × 18 PDB declaration: octadecameric(18) Consistent with protein copy count Chain A; UniProt 20–236 Chain B; UniProt 20–236 Chain C; UniProt 20–236 Chain D; UniProt 20–236 Chain E; UniProt 20–236 Chain F; UniProt 20–236 Chain G; UniProt 20–236 Chain H; UniProt 20–236 Chain I; UniProt 20–236 Chain J; UniProt 20–236 Not recorded ALPHA-CONOTOXIN IMI × 8 (P50983) X-RAY DIFFRACTION X-ray crystallization conditions:100 MM SODIUM ACETATE PH 5.5, 12.5% PEG5000 MME Resolution 2.25 Å R-free 0.227

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.

85 other PDB entries and 120 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name Q8WSF8_APLCA
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–217; UniProt 20–236 Author chain B; PDBConstruct 1–217; UniProt 20–236 Author chain C; PDBConstruct 1–217; UniProt 20–236 Author chain D; PDBConstruct 1–217; UniProt 20–236 Author chain E; PDBConstruct 1–217; UniProt 20–236 Author chain F; PDBConstruct 1–217; UniProt 20–236 Author chain G; PDBConstruct 1–217; UniProt 20–236 Author chain H; PDBConstruct 1–217; UniProt 20–236 Author chain I; PDBConstruct 1–217; UniProt 20–236 Author chain J; PDBConstruct 1–217; UniProt 20–236

ALPHA-CONOTOXIN IMI

OrganismNot specified

UniProt P50983

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 × 18 PDB declaration: octadecameric(18) Consistent with protein copy count Chain K; UniProt 5–16 Chain M; UniProt 5–16 Chain O; UniProt 5–16 Chain P; UniProt 5–16 Chain Q; UniProt 5–16 Chain R; UniProt 5–16 Chain S; UniProt 5–16 Chain T; UniProt 5–16 Fragment:RESIDUES 5-16 Non-standard monomer:Yes (specific site not provided by mmCIF) SOLUBLE ACETYLCHOLINE RECEPTOR × 10 (Q8WSF8) X-RAY DIFFRACTION X-ray crystallization conditions:100 MM SODIUM ACETATE PH 5.5, 12.5% PEG5000 MME Resolution 2.25 Å R-free 0.227

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.

12 other PDB entries and 12 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name CXA1_CONIM
Isoform
PDB entities 2
Chains and sequence ranges Author chain K; PDBConstruct 1–12; UniProt 5–16 Author chain M; PDBConstruct 1–12; UniProt 5–16 Author chain O; PDBConstruct 1–12; UniProt 5–16 Author chain P; PDBConstruct 1–12; UniProt 5–16 Author chain Q; PDBConstruct 1–12; UniProt 5–16 Author chain R; PDBConstruct 1–12; UniProt 5–16 Author chain S; PDBConstruct 1–12; UniProt 5–16 Author chain T; PDBConstruct 1–12; UniProt 5–16

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 2c9t

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 2c9t
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2. Structure Basics 2. Structure Basics

Entry ID entry_id2c9t
Deposition date deposition_date2005-12-14
Structure title titleCrystal Structure Of Acetylcholine Binding Protein (AChBP) From Aplysia Californica In Complex With alpha-Conotoxin ImI
Keywords keywords;RECEPTOR/TOXIN, RECEPTOR-TOXIN COMPLEX, ACETYLCHOLINE BINDING PROTEIN, NICOTINIC ACETYLCHOLINE RECEPTOR-TOXIN COMPLEX, CONFORMATIONAL FLEXIBILITY, CONOTOXIN, ACETYLCHOLINE RECEPTOR INHIBITOR, AMIDATION, NEUROTOXIN, POSTSYNAPTIC NEUROTOXIN, TOXIN ;; RECEPTOR/TOXIN
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier43.43
Radius of gyration Rg (electron density) rg_electron42.65
Forward intensity I(0) i0906322000.00
Molecular weight molecular_weight243300.0 kDa
Excluded volume excluded_volume302150 ų
Envelope volume envelope_volume405540 ų
Hydration-shell volume shell_volume79051 ų
Envelope diameter envelope_diameter143.6
Shell Rg shell_rg48.50
Envelope Rg envelope_rg40.94
Shape Rg shape_rg42.61
Total Rg total_rg43.06
Total atoms total_atoms17088
Residues n_residues2146
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 dmax141.2
Rg (real space) rg_real43.31
Rg uncertainty (real space) rg_real_error1.21
I(0) (real space) i0_real9.0630e+08
I(0) uncertainty (real space) i0_real_error1.4930e+07
Rg (reciprocal space) rg_reciprocal43.43
I(0) (reciprocal space) i0_reciprocal906400000.0000
Solution quality estimate total_estimate0.8791
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary51.0
Skewness Skewness skewness0.259
Kurtosis Kurtosis kurtosis-0.429
Angular range angular_range— – 0.1800 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha68240000.0000
Real-space data points n_real_points37
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.842; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.991; Smooth: 0.906

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (3)

7. Fold Classification (SCOP + CATH) 20 domains

SCOP 2.08 (10 domains)

Domain ID domain_idd2c9ta_
Class classb — All beta proteins
Fold Fold foldb.96 — Nicotinic receptor ligand binding domain-like
Superfamily Superfamily superfamilyb.96.1 — Nicotinic receptor ligand binding domain-like
Family Family familyb.96.1.0 — automated matches
Domain ID domain_idd2c9tb_
Class classb — All beta proteins
Fold Fold foldb.96 — Nicotinic receptor ligand binding domain-like
Superfamily Superfamily superfamilyb.96.1 — Nicotinic receptor ligand binding domain-like
Family Family familyb.96.1.0 — automated matches
Domain ID domain_idd2c9tc_
Class classb — All beta proteins
Fold Fold foldb.96 — Nicotinic receptor ligand binding domain-like
Superfamily Superfamily superfamilyb.96.1 — Nicotinic receptor ligand binding domain-like
Family Family familyb.96.1.0 — automated matches
Domain ID domain_idd2c9td_
Class classb — All beta proteins
Fold Fold foldb.96 — Nicotinic receptor ligand binding domain-like
Superfamily Superfamily superfamilyb.96.1 — Nicotinic receptor ligand binding domain-like
Family Family familyb.96.1.0 — automated matches
Domain ID domain_idd2c9te_
Class classb — All beta proteins
Fold Fold foldb.96 — Nicotinic receptor ligand binding domain-like
Superfamily Superfamily superfamilyb.96.1 — Nicotinic receptor ligand binding domain-like
Family Family familyb.96.1.0 — automated matches
Domain ID domain_idd2c9tf_
Class classb — All beta proteins
Fold Fold foldb.96 — Nicotinic receptor ligand binding domain-like
Superfamily Superfamily superfamilyb.96.1 — Nicotinic receptor ligand binding domain-like
Family Family familyb.96.1.0 — automated matches
Domain ID domain_idd2c9tg_
Class classb — All beta proteins
Fold Fold foldb.96 — Nicotinic receptor ligand binding domain-like
Superfamily Superfamily superfamilyb.96.1 — Nicotinic receptor ligand binding domain-like
Family Family familyb.96.1.0 — automated matches
Domain ID domain_idd2c9th_
Class classb — All beta proteins
Fold Fold foldb.96 — Nicotinic receptor ligand binding domain-like
Superfamily Superfamily superfamilyb.96.1 — Nicotinic receptor ligand binding domain-like
Family Family familyb.96.1.0 — automated matches
Domain ID domain_idd2c9ti_
Class classb — All beta proteins
Fold Fold foldb.96 — Nicotinic receptor ligand binding domain-like
Superfamily Superfamily superfamilyb.96.1 — Nicotinic receptor ligand binding domain-like
Family Family familyb.96.1.0 — automated matches
Domain ID domain_idd2c9tj_
Class classb — All beta proteins
Fold Fold foldb.96 — Nicotinic receptor ligand binding domain-like
Superfamily Superfamily superfamilyb.96.1 — Nicotinic receptor ligand binding domain-like
Family Family familyb.96.1.0 — automated matches

CATH v4.4 (10 domains)

Domain ID domain_id2c9tA00
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_id2c9tB00
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_id2c9tC00
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_id2c9tD00
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_id2c9tE00
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_id2c9tF00
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_id2c9tG00
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_id2c9tH00
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_id2c9tI00
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_id2c9tJ00
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

8. Citations (1)

9. Files and Curves (10)