5osb

GLIC-GABAAR alpha1 chimera crystallized in complex with THDOC at pH4.5

Method: X-RAY DIFFRACTION Dmax: 122.4 Å Quality: GOOD

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

Proton-gated ion channel,Gamma-aminobutyric acid receptor subunit alpha-1,Gamma-aminobutyric acid receptor subunit alpha-1

Mus musculus

UniProt P62812

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Insufficient information Homooligomer Protein × 5 PDB declaration: pentameric(5) Consistent with protein copy count Chain A; UniProt 250–338 Chain A; UniProt 417–455 Chain B; UniProt 250–338 Chain B; UniProt 417–455 Chain C; UniProt 250–338 Chain C; UniProt 417–455 Chain D; UniProt 250–338 Chain D; UniProt 417–455 Chain E; UniProt 250–338 Chain E; UniProt 417–455 Not recorded A8Z Tetrahydrodeoxycorticosterone × 5 ACT ACETATE ION × 5 CL CHLORIDE ION × 2 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 4.5;289 K;12-16% PEG4000, 100mM NaCl, 100 mM Li2SO4, 100mM sodium acetate pH4-4.5 Resolution 3.80 Å R-free 0.290

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 GBRA1_MOUSE
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 194–282; UniProt 250–338 Author chain A; PDBConstruct 290–328; UniProt 417–455 Author chain B; PDBConstruct 194–282; UniProt 250–338 Author chain B; PDBConstruct 290–328; UniProt 417–455 Author chain C; PDBConstruct 194–282; UniProt 250–338 Author chain C; PDBConstruct 290–328; UniProt 417–455 Author chain D; PDBConstruct 194–282; UniProt 250–338 Author chain D; PDBConstruct 290–328; UniProt 417–455 Author chain E; PDBConstruct 194–282; UniProt 250–338 Author chain E; PDBConstruct 290–328; UniProt 417–455

Proton-gated ion channel,Gamma-aminobutyric acid receptor subunit alpha-1,Gamma-aminobutyric acid receptor subunit alpha-1

Mus musculus

UniProt Q7NDN8

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Insufficient information Homooligomer Protein × 5 PDB declaration: pentameric(5) Consistent with protein copy count Chain A; UniProt 44–236 Chain B; UniProt 44–236 Chain C; UniProt 44–236 Chain D; UniProt 44–236 Chain E; UniProt 44–236 Not recorded A8Z Tetrahydrodeoxycorticosterone × 5 ACT ACETATE ION × 5 CL CHLORIDE ION × 2 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 4.5;289 K;12-16% PEG4000, 100mM NaCl, 100 mM Li2SO4, 100mM sodium acetate pH4-4.5 Resolution 3.80 Å R-free 0.290

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.

129 other PDB entries and 135 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name GLIC_GLOVI
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–193; UniProt 44–236 Author chain B; PDBConstruct 1–193; UniProt 44–236 Author chain C; PDBConstruct 1–193; UniProt 44–236 Author chain D; PDBConstruct 1–193; UniProt 44–236 Author chain E; PDBConstruct 1–193; UniProt 44–236

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 5osb

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 5osb
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2. Structure Basics 2. Structure Basics

Entry ID entry_id5osb
Deposition date deposition_date2017-08-17
Structure title titleGLIC-GABAAR alpha1 chimera crystallized in complex with THDOC at pH4.5
Keywords keywordsGABAA-receptor ion channel Ion transport Extracellular ligand gated ion channel, TRANSPORT PROTEIN; TRANSPORT PROTEIN
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier37.94
Radius of gyration Rg (electron density) rg_electron37.43
Forward intensity I(0) i0409710000.00
Molecular weight molecular_weight177300.0 kDa
Excluded volume excluded_volume226670 ų
Envelope volume envelope_volume287580 ų
Hydration-shell volume shell_volume63266 ų
Envelope diameter envelope_diameter125.4
Shell Rg shell_rg44.51
Envelope Rg envelope_rg36.86
Shape Rg shape_rg37.44
Total Rg total_rg37.87
Total atoms total_atoms12746
Residues n_residues1562
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 dmax122.4
Rg (real space) rg_real37.84
Rg uncertainty (real space) rg_real_error1.13
I(0) (real space) i0_real4.0970e+08
I(0) uncertainty (real space) i0_real_error7.2990e+06
Rg (reciprocal space) rg_reciprocal37.90
I(0) (reciprocal space) i0_reciprocal409700000.0000
Solution quality estimate total_estimate0.8803
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary46.6
Skewness Skewness skewness0.303
Kurtosis Kurtosis kurtosis-0.314
Angular range angular_range— – 0.2100 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha59170000.0000
Real-space data points n_real_points43
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.861; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 0.989; Smooth: 0.868

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_id5osbA01
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_id5osbA02
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_id5osbB01
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_id5osbB02
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_id5osbC01
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_id5osbC02
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_id5osbD01
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_id5osbD02
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_id5osbE01
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_id5osbE02
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 (1)

9. Files and Curves (10)