6os2

Structure of synthetic nanobody-stabilized angiotensin II type 1 receptor bound to TRV026

Method: X-RAY DIFFRACTION Dmax: 106.8 Å Quality: GOOD

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

Type-1 angiotensin II receptor,Soluble cytochrome b562 BRIL fusion protein

Homo sapiens

UniProt P0ABE7

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 Heteromer Protein × 3 PDB declaration: trimeric(3) Consistent with protein copy count Chain A; UniProt 24–122 Not recorded Nanobody Nb.AT110i1_le × 1 TRV026 peptide × 1 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 OLC (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate × 6 CLR CHOLESTEROL × 1 X-RAY DIFFRACTION X-ray crystallization conditions:LIPIDIC CUBIC PHASE;pH 8;293 K;Protein complex was reconstituted with a 10:1 (w/w) mixture of monoolein and cholesterol. Crystals were grown in 100 mM Tris pH 8, 65 mM MgCl2, 26-28% PEG 300, 4.5% 1,3-butanediol Resolution 2.70 Å R-free 0.285

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.

714 other PDB entries and 822 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name C562_ECOLX
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 234–332; UniProt 24–122

Type-1 angiotensin II receptor,Soluble cytochrome b562 BRIL fusion protein

Homo sapiens

UniProt P30556

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 Heteromer Protein × 3 PDB declaration: trimeric(3) Consistent with protein copy count Chain A; UniProt 2–226 Chain A; UniProt 227–319 Not recorded Nanobody Nb.AT110i1_le × 1 TRV026 peptide × 1 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 OLC (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate × 6 CLR CHOLESTEROL × 1 X-RAY DIFFRACTION X-ray crystallization conditions:LIPIDIC CUBIC PHASE;pH 8;293 K;Protein complex was reconstituted with a 10:1 (w/w) mixture of monoolein and cholesterol. Crystals were grown in 100 mM Tris pH 8, 65 mM MgCl2, 26-28% PEG 300, 4.5% 1,3-butanediol Resolution 2.70 Å R-free 0.285

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.

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

View Construct and Data Evidence
UniProt name AGTR1_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 9–233; UniProt 2–226 Author chain A; PDBConstruct 333–425; UniProt 227–319

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 6os2

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 6os2
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2. Structure Basics 2. Structure Basics

Entry ID entry_id6os2
Deposition date deposition_date2019-05-01
Structure title titleStructure of synthetic nanobody-stabilized angiotensin II type 1 receptor bound to TRV026
Keywords keywordsGPCR, MEMBRANE PROTEIN; MEMBRANE PROTEIN
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier30.76
Radius of gyration Rg (electron density) rg_electron29.67
Forward intensity I(0) i045722400.00
Molecular weight molecular_weight57302.0 kDa
Excluded volume excluded_volume73524 ų
Envelope volume envelope_volume91249 ų
Hydration-shell volume shell_volume27881 ų
Envelope diameter envelope_diameter109.2
Shell Rg shell_rg34.04
Envelope Rg envelope_rg30.09
Shape Rg shape_rg29.66
Total Rg total_rg30.16
Total atoms total_atoms4048
Residues n_residues512
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 dmax106.8
Rg (real space) rg_real31.03
Rg uncertainty (real space) rg_real_error0.97
I(0) (real space) i0_real4.5720e+07
I(0) uncertainty (real space) i0_real_error7.1610e+05
Rg (reciprocal space) rg_reciprocal30.92
I(0) (reciprocal space) i0_reciprocal45720000.0000
Solution quality estimate total_estimate0.8211
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary24.6
Skewness Skewness skewness0.448
Kurtosis Kurtosis kurtosis-0.546
Angular range angular_range— – 0.2600 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha11710000.0000
Real-space data points n_real_points53
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.727; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.550; Smooth: 0.939

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (7)

7. Fold Classification (SCOP + CATH) 1 domains

CATH v4.4 (1 domains)

Domain ID domain_id6os2A01
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology120 — Four Helix Bundle (Hemerythrin (Met), subunit A)
Homologous superfamily homologous superfamily10 — Cytochrome c/b562

8. Citations (1)

9. Files and Curves (10)