7wc8

Crystal structure of serotonin 2A receptor in complex with lumateperone

Method: X-RAY DIFFRACTION Dmax: 102.5 Å Quality: GOOD

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

5-hydroxytryptamine receptor 2A,5-hydroxytryptamine receptor 2A,Soluble cytochrome b562

Homo sapiens

UniProt P28223

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 monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain A; UniProt 67–265 Chain A; UniProt 313–403 Mutation:S162K,M164W,M1007W,R1098I,H1102I,R1106G,S372N MG MAGNESIUM ION × 1 CLR CHOLESTEROL × 4 1PE PENTAETHYLENE GLYCOL × 1 OLC (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate × 11 92S 1-(4-fluorophenyl)-4-[(10~{R},15~{S})-4-methyl-1,4,12-triazatetracyclo[7.6.1.0^{5,16}.0^{10,15}]hexadeca-5,7,9(16)-trien-12-yl]butan-1-one × 1 PEG DI(HYDROXYETHYL)ETHER × 1 X-RAY DIFFRACTION X-ray crystallization conditions:LIPIDIC CUBIC PHASE;pH 8;293.15 K;100 mM Tris-HCl, 160 mM Potassium fluoride, 30% (v/v) PEG400 Resolution 2.45 Å R-free 0.244

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.

38 other PDB entries and 45 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name 5HT2A_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–199; UniProt 67–265 Author chain A; PDBConstruct 286–376; UniProt 313–403

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 7wc8

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 7wc8
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2. Structure Basics 2. Structure Basics

Entry ID entry_id7wc8
Deposition date deposition_date2021-12-18
Structure title titleCrystal structure of serotonin 2A receptor in complex with lumateperone
Keywords keywordsserotonin 2A receptor, serotonin, 5-HT, MEMBRANE PROTEIN, Lumateperone; MEMBRANE PROTEIN
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier28.47
Radius of gyration Rg (electron density) rg_electron27.66
Forward intensity I(0) i024311800.00
Molecular weight molecular_weight44666.0 kDa
Excluded volume excluded_volume58873 ų
Envelope volume envelope_volume69775 ų
Hydration-shell volume shell_volume23855 ų
Envelope diameter envelope_diameter100.8
Shell Rg shell_rg31.21
Envelope Rg envelope_rg28.16
Shape Rg shape_rg27.64
Total Rg total_rg28.19
Total atoms total_atoms3144
Residues n_residues360
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 dmax102.5
Rg (real space) rg_real29.06
Rg uncertainty (real space) rg_real_error1.37
I(0) (real space) i0_real2.4310e+07
I(0) uncertainty (real space) i0_real_error4.5930e+05
Rg (reciprocal space) rg_reciprocal28.88
I(0) (reciprocal space) i0_reciprocal24310000.0000
Solution quality estimate total_estimate0.7572
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary23.8
Skewness Skewness skewness0.684
Kurtosis Kurtosis kurtosis-0.113
Angular range angular_range— – 0.2800 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha4583000.0000
Real-space data points n_real_points57
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.569; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 0.334; Smooth: 0.801

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (8)

7. Fold Classification (SCOP + CATH) 1 domains

CATH v4.4 (1 domains)

Domain ID domain_id7wc8A01
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)