5acc

A Novel Oral Selective Estrogen Receptor Down-regulator, AZD9496, drives Tumour Growth Inhibition in Estrogen Receptor positive and ESR1 Mutant Models

Method: X-RAY DIFFRACTION Dmax: 64.2 Å Quality: GOOD

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

ESTROGEN RECEPTOR

HOMO SAPIENS

UniProt P03372

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 homooligomer Homooligomer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain A; UniProt 307–554 Fragment:LIGAND-BINDING DOMAIN, UNP RESIDUES 307-554 Mutation:YES KE9 (E)-3-(3,5-DIFLUORO-4-((1R,3R)-2-(2-FLUORO-2- METHYLPROPYL)-3-METHYL-2,3,4,9-TETRAHYDRO-1H-PYRIDO(3,4-B)INDOL-1-YL)PHENYL)ACRYLIC ACID × 2 X-RAY DIFFRACTION X-ray crystallization conditions:pH 6.5;0.1 M PCTP, PH 6.5 (0.04 M SODIUM PROPIONATE, 0.02 M SODIUM CACODYLATE, 0.04 M BIS-TRIS PROPANE), 22% PEG3350, 0.2M MGCL2 Resolution 1.88 Å R-free 0.266

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.

434 other PDB entries and 522 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name ESR1_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–248; UniProt 307–554

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 5acc

P(r) Distance Distribution P(r) Distribution

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

Entry ID entry_id5acc
Deposition date deposition_date2015-08-15
Structure title titleA Novel Oral Selective Estrogen Receptor Down-regulator, AZD9496, drives Tumour Growth Inhibition in Estrogen Receptor positive and ESR1 Mutant Models
Keywords keywordsSIGNALING PROTEIN, SERD, METASTATIC BREAST CANCER, ER MUTATION, ESR1 MUTATION, COMBINATION THERAPY; SIGNALING PROTEIN
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier19.10
Radius of gyration Rg (electron density) rg_electron17.81
Forward intensity I(0) i011414200.00
Molecular weight molecular_weight26125.0 kDa
Excluded volume excluded_volume33134 ų
Envelope volume envelope_volume37483 ų
Hydration-shell volume shell_volume17722 ų
Envelope diameter envelope_diameter65.3
Shell Rg shell_rg23.93
Envelope Rg envelope_rg18.20
Shape Rg shape_rg17.82
Total Rg total_rg18.75
Total atoms total_atoms1832
Residues n_residues228
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 dmax64.2
Rg (real space) rg_real19.01
Rg uncertainty (real space) rg_real_error0.54
I(0) (real space) i0_real1.1410e+07
I(0) uncertainty (real space) i0_real_error1.5040e+05
Rg (reciprocal space) rg_reciprocal19.03
I(0) (reciprocal space) i0_reciprocal11410000.0000
Solution quality estimate total_estimate0.8705
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary24.1
Skewness Skewness skewness0.203
Kurtosis Kurtosis kurtosis-0.363
Angular range angular_range— – 0.4150 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha2174000.0000
Real-space data points n_real_points73
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.780; Stabil: 0.992; Sysdev: 1.000; Positv: 1.000; Valcen: 0.999; Smooth: 0.998

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (3)

7. Fold Classification (SCOP + CATH) 2 domains

SCOP 2.08 (1 domains)

Domain ID domain_idd5acca_
Class classa — All alpha proteins
Fold Fold folda.123 — Nuclear receptor ligand-binding domain
Superfamily Superfamily superfamilya.123.1 — Nuclear receptor ligand-binding domain
Family Family familya.123.1.1 — Nuclear receptor ligand-binding domain

CATH v4.4 (1 domains)

Domain ID domain_id5accA00
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology565 — Retinoid X Receptor
Homologous superfamily homologous superfamily10 — Retinoid X Receptor

8. Citations (1)

9. Files and Curves (10)