5T37

crystal structure of mPGES-1 bound to inhibitor

• PDB DOI: https://doi.org/10.2210/pdb5T37/pdb

• Classification: MEMBRANE PROTEIN
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): No 
• Membrane Protein: Yes  PDBTMMemProtMD


• Deposited: 2016-08-24 Released: 2017-03-01 
• Deposition Author(s): Luz, J.G., Antonysamy, S., Partridge, K., Fisher, M.
• Funding Organization(s): Department of Energy (DOE, United States)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.76 Å
• R-Value Free: 0.185 
• R-Value Work: 0.167 
• R-Value Observed: 0.168 

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 19.12 kDa 
• Atom Count: 1,438 
• Modelled Residue Count: 148 
• Deposited Residue Count: 154 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Prostaglandin E synthase	A	154	Homo sapiens	Mutation(s): 0  Gene Names: PTGES, MGST1L1, MPGES1, PGES, PIG12 EC: 5.3.99.3 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for O14684 (Homo sapiens) Explore O14684  Go to UniProtKB:  O14684
PHAROS:  O14684 GTEx:  ENSG00000148344

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
758	B [auth A]	2-chloro-5-{[(2,2-dimethylpropanoyl)amino]methyl}-N-(1H-imidazol-2-yl)benzamide C16 H19 Cl N4 O2 MBAHGUNQNAJTLD-UHFFFAOYSA-N
GSH	C [auth A]	GLUTATHIONE C10 H17 N3 O6 S RWSXRVCMGQZWBV-WDSKDSINSA-N
BOG	D [auth A], E [auth A]	octyl beta-D-glucopyranoside C14 H28 O6 HEGSGKPQLMEBJL-RKQHYHRCSA-N
PG4	F [auth A], G [auth A], H [auth A]	TETRAETHYLENE GLYCOL C8 H18 O5 UWHCKJMYHZGTIT-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
758	BindingDB:  5T37	IC50: min: 0.24, max: 870 (nM) from 7 assay(s)
	Binding MOAD:  5T37	IC50: 241 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.76 Å
• R-Value Free: 0.185 
• R-Value Work: 0.167 
• R-Value Observed: 0.168 
• Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 76.24	α = 90
b = 76.24	β = 90
c = 124.098	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2017-03-01 
Deposition Author(s): Luz, J.G., Antonysamy, S., Partridge, K., Fisher, M.

---

Funding Organization	Location	Grant Number
Department of Energy (DOE, United States)	United States	DE-AC02-06CH11357

Revision History  

• Version 1.0: 2017-03-01
  Type: Initial release
  
• Version 1.1: 2017-03-15
  Changes: Database references
• Version 1.2: 2017-09-06
  Changes: Author supporting evidence
• Version 1.3: 2019-12-04
  Changes: Author supporting evidence
• Version 1.4: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Structure summary
• Version 1.5: 2024-03-06
  Changes: Data collection, Database references, Structure summary