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Simulation report

Technical information

General information

Name: D2 receptor in complex with dopamine (apoform)

PDB id: HOMO

Submitted by: GPCRmd community

System setup

Solvent type: TIP3P

Membrane type: Homogeneous

Membrane composition: POP

Ionic composition: Chloride (217 mM), Sodium ion (142 mM)

Number of molecules:

Water: 8195

POPC: 130

Chloride: 32

Sodium ion: 21

Dopamine hydrochloride: 1

D(2) dopamine receptor: 1

Total number of atoms: 46483

Simulation details

Software and version: ACEMD, 2

Forcefield and version: CHARMM, 36

Time step : 4.0 fs

Delta : 1.0 ns

Replicates: 1

Accumulated simulation time: 0.001 µs

References

Tomasz Maciej Stepniewski; Arturo Mancini; Richard Ågren; Mariona Torrens-Fontanals; Meriem Semache; Michel Bouvier; Kristoffer Sahlholm; Billy Breton; Jana Selent. 2021. Mechanistic insights into dopaminergic and serotonergic neurotransmission - concerted interactions with helices 5 and 6 drive the functional outcome. Chemical Science. doi: .



GPCRmd publication page: 1474

Simulation components

Receptor

Visualization and trajectory sharing powered by NGL viewer and MDSrv

Open with GPCRmd Workbench

Mutations

Table of simulated mutations

Residue ID Residue seq. position Generic num. From To


Other molecules



Dopamine hydrochloride

Specific State ID: 5171

(1 molecule)


Chloride

Specific State ID: 5017

(32 molecules)

Cl-


Sodium ion

Specific State ID: 5016

(21 molecules)

Na+


POPC

Specific State ID: 5018

(130 molecules)


Water

Specific State ID: 5019

(8195 molecules)

H2O


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