7vod

Crystal structure of 5-HT2AR in complex with cariprazine

Method: X-RAY DIFFRACTION Dmax: 103.5 Å Quality: REASONABLE

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

5-hydroxytryptamine receptor 2A,Soluble cytochrome b562

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 Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain A; UniProt 23–62 Chain A; UniProt 88–128 Mutation:S162K,N164W,M1007W,R1098I,H1102I,R1106G,S372N MG MAGNESIUM ION × 1 CLR CHOLESTEROL × 3 OLC (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate × 3 7RU 3-[4-[2-[4-[2,3-bis(chloranyl)phenyl]piperazin-1-yl]ethyl]cyclohexyl]-1,1-dimethyl-urea × 1 X-RAY DIFFRACTION X-ray crystallization conditions:LIPIDIC CUBIC PHASE;293.15 K;100 mM Tris/HCl, 100 mM Potassium formate, 30% PEG Resolution 3.30 Å R-free 0.239

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 200–239; UniProt 23–62 Author chain A; PDBConstruct 245–285; UniProt 88–128

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 Insufficient information Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain A; UniProt 70–265 Chain A; UniProt 313–403 Mutation:S162K,N164W,M1007W,R1098I,H1102I,R1106G,S372N MG MAGNESIUM ION × 1 CLR CHOLESTEROL × 3 OLC (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate × 3 7RU 3-[4-[2-[4-[2,3-bis(chloranyl)phenyl]piperazin-1-yl]ethyl]cyclohexyl]-1,1-dimethyl-urea × 1 X-RAY DIFFRACTION X-ray crystallization conditions:LIPIDIC CUBIC PHASE;293.15 K;100 mM Tris/HCl, 100 mM Potassium formate, 30% PEG Resolution 3.30 Å R-free 0.239

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 4–199; UniProt 70–265 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 7vod

P(r) Distance Distribution P(r) Distribution

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

Entry ID entry_id7vod
Deposition date deposition_date2021-10-13
Structure title titleCrystal structure of 5-HT2AR in complex with cariprazine
Keywords keywordsGPCR, Dopamine Receptor, serotonin receptor, cariprazine, antipsychotic, 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_guinier28.37
Radius of gyration Rg (electron density) rg_electron27.85
Forward intensity I(0) i022038500.00
Molecular weight molecular_weight40736.0 kDa
Excluded volume excluded_volume53053 ų
Envelope volume envelope_volume64374 ų
Hydration-shell volume shell_volume22193 ų
Envelope diameter envelope_diameter102.7
Shell Rg shell_rg30.67
Envelope Rg envelope_rg28.43
Shape Rg shape_rg27.82
Total Rg total_rg28.29
Total atoms total_atoms2866
Residues n_residues355
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 dmax103.5
Rg (real space) rg_real28.99
Rg uncertainty (real space) rg_real_error1.58
I(0) (real space) i0_real2.2040e+07
I(0) uncertainty (real space) i0_real_error3.9780e+05
Rg (reciprocal space) rg_reciprocal28.80
I(0) (reciprocal space) i0_reciprocal22040000.0000
Solution quality estimate total_estimate0.7388
Solution quality rating solution_quality REASONABLE a REASONABLE solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary22.2
Skewness Skewness skewness0.692
Kurtosis Kurtosis kurtosis-0.147
Angular range angular_range— – 0.2800 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha4376000.0000
Real-space data points n_real_points57
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.489; Stabil: 0.996; Sysdev: 1.000; Positv: 1.000; Valcen: 0.245; Smooth: 0.898

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (5)

7. Fold Classification (SCOP + CATH) 1 domains

CATH v4.4 (1 domains)

Domain ID domain_id7vodA01
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)