5I6X

X-ray structure of the ts3 human serotonin transporter complexed with paroxetine at the central site

Structural Biology Knowledgebase: 5I6X SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.14 Å
  • R-Value Free: 0.270
  • R-Value Work: 0.238

Literature

Macromolecules
Sequence Display for 5I6X

Classification: MEMBRANE PROTEIN

Total Structure Weight: 110823.84

Macromolecule Entities
Molecule Chains Length Organism Details
Sodium-dependent serotonin transporter A 549 Homo sapiens Gene Name(s): SLC6A4 Gene View HTT Gene View SERT
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
8B6 antibody, heavy chain B 221 Mus musculus
8B6 antibody, light chain C 214 Mus musculus

Membrane Protein

Source: mpstruc | Group: ALPHA-HELICAL

Subgroup Name: Solute Carrier (SLC) Transporter Superfamily

Protein Name: Serotonin transporter (SERT) ts3 construct with bound paroxetine at central site


Small Molecules
Ligands 6 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
LMT
Query on LMT

A DODECYL-BETA-D-MALTOSIDE
C24 H46 O11
NLEBIOOXCVAHBD-QKMCSOCLSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CLR
Query on CLR

A CHOLESTEROL
C27 H46 O
HVYWMOMLDIMFJA-DPAQBDIFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
8PR
Query on 8PR

A Paroxetine
(3S,4R)-3-[(1,3-benzodioxol-5-yloxy)methyl]- 4-(4-fluorophenyl)piperidine (Synonym)
C19 H20 F N O3
AHOUBRCZNHFOSL-YOEHRIQHSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NAG
Query on NAG

A N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

A SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.14 Å
  • R-Value Free: 0.270
  • R-Value Work: 0.238
  • Space Group: C 2 2 21

Unit Cell:

Length (Å) Angle (°)
a = 129.15 α = 90.00
b = 162.83 β = 90.00
c = 140.41 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2016-02-16
  • Released Date: 2016-04-13
  • Deposition author(s): Coleman, J.A., Green, E.M., Gouaux, E.

Revision History

  • 2016-05-04
    Type: Citation | Details: Citation
  • 2016-04-20
    Type: Citation | Details: Citation