4bog

The structure and super-organization of acetylcholine receptor-rapsyn complexes

Method: ELECTRON MICROSCOPY Dmax: 243.3 Å Quality: GOOD

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

Acetylcholine receptor beta subunit

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 × 30 PDB declaration: 30-meric(30) Consistent with protein copy count Chain 0; UniProt 1–493 Chain B; UniProt 1–493 Chain G; UniProt 1–493 Chain L; UniProt 1–493 Chain Q; UniProt 1–493 Chain V; UniProt 1–493 Not recorded Acetylcholine receptor delta subunit × 6 (Q6S3H8) Acetylcholine receptor subunit alpha × 12 (P02711) Acetylcholine receptor gamma subunit × 6 (Q6S3H9) ELECTRON MICROSCOPY cryo-EM buffer:400 MM NACL, 20 MM PHOSPHATE BUFFER, LEUPEPTIN 0.3 MG/L, PEPSTATIN 1 MG/L;pH 7.4;400 MM NACL, 20 MM PHOSPHATE BUFFER, LEUPEPTIN 0.3 MG/L, PEPSTATIN 1 MG/L cryo-EM vitrification conditions:Cryogen ETHANE;ETHANE Resolution 50.00 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_TORMA
Isoform
PDB entities 1
Chains and sequence ranges Author chain 0; PDBConstruct 1–493; UniProt 1–493 Author chain B; PDBConstruct 1–493; UniProt 1–493 Author chain G; PDBConstruct 1–493; UniProt 1–493 Author chain L; PDBConstruct 1–493; UniProt 1–493 Author chain Q; PDBConstruct 1–493; UniProt 1–493 Author chain V; PDBConstruct 1–493; UniProt 1–493

Acetylcholine receptor delta subunit

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 × 30 PDB declaration: 30-meric(30) Consistent with protein copy count Chain 1; UniProt 1–522 Chain C; UniProt 1–522 Chain H; UniProt 1–522 Chain M; UniProt 1–522 Chain R; UniProt 1–522 Chain W; UniProt 1–522 Not recorded Acetylcholine receptor beta subunit × 6 (Q6S3I0) Acetylcholine receptor subunit alpha × 12 (P02711) Acetylcholine receptor gamma subunit × 6 (Q6S3H9) ELECTRON MICROSCOPY cryo-EM buffer:400 MM NACL, 20 MM PHOSPHATE BUFFER, LEUPEPTIN 0.3 MG/L, PEPSTATIN 1 MG/L;pH 7.4;400 MM NACL, 20 MM PHOSPHATE BUFFER, LEUPEPTIN 0.3 MG/L, PEPSTATIN 1 MG/L cryo-EM vitrification conditions:Cryogen ETHANE;ETHANE Resolution 50.00 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_TORMA
Isoform
PDB entities 2
Chains and sequence ranges Author chain 1; PDBConstruct 1–522; UniProt 1–522 Author chain C; PDBConstruct 1–522; UniProt 1–522 Author chain H; PDBConstruct 1–522; UniProt 1–522 Author chain M; PDBConstruct 1–522; UniProt 1–522 Author chain R; PDBConstruct 1–522; UniProt 1–522 Author chain W; PDBConstruct 1–522; UniProt 1–522

Acetylcholine receptor subunit alpha

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 × 30 PDB declaration: 30-meric(30) Consistent with protein copy count Chain 2; UniProt 1–461 Chain A; UniProt 1–461 Chain D; UniProt 1–461 Chain F; UniProt 1–461 Chain I; UniProt 1–461 Chain K; UniProt 1–461 Chain N; UniProt 1–461 Chain P; UniProt 1–461 Chain S; UniProt 1–461 Chain U; UniProt 1–461 Chain X; UniProt 1–461 Chain Z; UniProt 1–461 Not recorded Acetylcholine receptor beta subunit × 6 (Q6S3I0) Acetylcholine receptor delta subunit × 6 (Q6S3H8) Acetylcholine receptor gamma subunit × 6 (Q6S3H9) ELECTRON MICROSCOPY cryo-EM buffer:400 MM NACL, 20 MM PHOSPHATE BUFFER, LEUPEPTIN 0.3 MG/L, PEPSTATIN 1 MG/L;pH 7.4;400 MM NACL, 20 MM PHOSPHATE BUFFER, LEUPEPTIN 0.3 MG/L, PEPSTATIN 1 MG/L cryo-EM vitrification conditions:Cryogen ETHANE;ETHANE Resolution 50.00 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 3
Chains and sequence ranges Author chain 2; PDBConstruct 1–461; UniProt 1–461 Author chain A; PDBConstruct 1–461; UniProt 1–461 Author chain D; PDBConstruct 1–461; UniProt 1–461 Author chain F; PDBConstruct 1–461; UniProt 1–461 Author chain I; PDBConstruct 1–461; UniProt 1–461 Author chain K; PDBConstruct 1–461; UniProt 1–461 Author chain N; PDBConstruct 1–461; UniProt 1–461 Author chain P; PDBConstruct 1–461; UniProt 1–461 Author chain S; PDBConstruct 1–461; UniProt 1–461 Author chain U; PDBConstruct 1–461; UniProt 1–461 Author chain X; PDBConstruct 1–461; UniProt 1–461 Author chain Z; PDBConstruct 1–461; UniProt 1–461

Acetylcholine receptor gamma subunit

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 × 30 PDB declaration: 30-meric(30) Consistent with protein copy count Chain 3; UniProt 1–505 Chain E; UniProt 1–505 Chain J; UniProt 1–505 Chain O; UniProt 1–505 Chain T; UniProt 1–505 Chain Y; UniProt 1–505 Not recorded Acetylcholine receptor beta subunit × 6 (Q6S3I0) Acetylcholine receptor delta subunit × 6 (Q6S3H8) Acetylcholine receptor subunit alpha × 12 (P02711) ELECTRON MICROSCOPY cryo-EM buffer:400 MM NACL, 20 MM PHOSPHATE BUFFER, LEUPEPTIN 0.3 MG/L, PEPSTATIN 1 MG/L;pH 7.4;400 MM NACL, 20 MM PHOSPHATE BUFFER, LEUPEPTIN 0.3 MG/L, PEPSTATIN 1 MG/L cryo-EM vitrification conditions:Cryogen ETHANE;ETHANE Resolution 50.00 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_TORMA
Isoform
PDB entities 4
Chains and sequence ranges Author chain 3; PDBConstruct 1–505; UniProt 1–505 Author chain E; PDBConstruct 1–505; UniProt 1–505 Author chain J; PDBConstruct 1–505; UniProt 1–505 Author chain O; PDBConstruct 1–505; UniProt 1–505 Author chain T; PDBConstruct 1–505; UniProt 1–505 Author chain Y; PDBConstruct 1–505; UniProt 1–505

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 4bog

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 4bog
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2. Structure Basics 2. Structure Basics

Entry ID entry_id4bog
Deposition date deposition_date2013-05-20
Structure title titleThe structure and super-organization of acetylcholine receptor-rapsyn complexes
Keywords keywordsTRANSPORT PROTEIN, CLUSTERING, SYNAPSE, NEUROMUSCULAR JUNCTION, NICOTINIC, RAPSYN, 43K, ELECTRIC ORGAN; TRANSPORT PROTEIN
Experimental Method methodELECTRON MICROSCOPY

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

Radius of gyration Rg (Guinier) rg_guinier
Radius of gyration Rg (electron density) rg_electron100.40
Forward intensity I(0) i019372700000.00
Molecular weight molecular_weight1269000.0 kDa
Excluded volume excluded_volume1618800 ų
Envelope volume envelope_volume3210200 ų
Hydration-shell volume shell_volume271520 ų
Envelope diameter envelope_diameter289.5
Shell Rg shell_rg89.70
Envelope Rg envelope_rg93.64
Shape Rg shape_rg100.40
Total Rg total_rg100.20
Total atoms total_atoms89544
Residues n_residues11106
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 dmax243.3
Rg (real space) rg_real98.35
Rg uncertainty (real space) rg_real_error0.47
I(0) (real space) i0_real1.8640e+10
I(0) uncertainty (real space) i0_real_error3.8060e+08
Rg (reciprocal space) rg_reciprocal102.80
I(0) (reciprocal space) i0_reciprocal19470000000.0000
Solution quality estimate total_estimate0.8988
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary129.8
Skewness Skewness skewness-0.004
Kurtosis Kurtosis kurtosis-0.683
Angular range angular_range— – 0.0750 −1
Current regularization parameter α current_alpha0.6348
Highest regularization parameter α highest_alpha431400000.0000
Real-space data points n_real_points16
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.968; Stabil: 0.957; Sysdev: 1.000; Positv: 1.000; Valcen: 0.984; Smooth: 0.000

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (4)

8. Citations (1)

9. Files and Curves (10)