9CWN | pdb_00009cwn

NRIP1_133 / RIP140 SxxLxxLL motif coregulator peptide with agonist GW1929 and PPARg LBD

• PDB DOI: https://doi.org/10.2210/pdb9CWN/pdb

• Classification: DNA BINDING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-07-29 Released: 2024-08-14 
• Deposition Author(s): Nemetchek, M.D., Voss, A.H., McClelland, L.J., Hughes, T.S.
• Funding Organization(s): National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK), National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 
  0.242 (Depositor), 0.239 (DCC) 
• R-Value Work: 
  0.198 (Depositor), 0.200 (DCC) 
• R-Value Observed: 
  0.200 (Depositor) 

Starting Model: experimental

Literature

NRIP1_133 / RIP140 SxxLxxLL motif coregulator peptide with agonist GW1929 and PPARg LBD

Nemetchek, M.D., Voss, A.H., Hughes, T.S.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Biological Assembly Evidence: fluorescence resonance energy transfer

Macromolecule Content 

• Total Structure Weight: 34.53 kDa 
• Atom Count: 2,301 
• Modeled Residue Count: 277 
• Deposited Residue Count: 299 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Peroxisome proliferator-activated receptor gamma	A	276	Homo sapiens	Mutation(s): 0  Gene Names: PPARG, NR1C3
UniProt & NIH Common Fund Data Resources
Find proteins for P37231 (Homo sapiens) Explore P37231  Go to UniProtKB:  P37231
PHAROS:  P37231 GTEx:  ENSG00000132170

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Nuclear receptor-interacting protein 1	B	23	Homo sapiens	Mutation(s): 0  Gene Names: NRIP1
UniProt & NIH Common Fund Data Resources
Find proteins for P48552 (Homo sapiens) Explore P48552  Go to UniProtKB:  P48552
PHAROS:  P48552 GTEx:  ENSG00000180530

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDK (Subject of Investigation/LOI)	C [auth A]	(2~{S})-3-[4-[2-[methyl(pyridin-2-yl)amino]ethoxy]phenyl]-2-[[2-(phenylcarbonyl)phenyl]amino]propanoic acid C30 H29 N3 O4 QTQMRBZOBKYXCG-MHZLTWQESA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
EDK	BindingDB:  9CWN	Ki: min: 0.05, max: 104 (nM) from 6 assay(s)
		EC50: min: 1.5, max: 389 (nM) from 16 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free:  0.242 (Depositor), 0.239 (DCC) 
• R-Value Work:  0.198 (Depositor), 0.200 (DCC) 
• R-Value Observed: 0.200 (Depositor) 

Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 57.236	α = 90
b = 118.815	β = 90
c = 151.922	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PHENIX	phasing
XDS	data reduction
STARANISO	data scaling
autoPROC	data processing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2024-08-14 
Deposition Author(s): Nemetchek, M.D., Voss, A.H., McClelland, L.J., Hughes, T.S.

---

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK)	United States	R01DK129646
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	P30GM140963

Revision History  

• Version 1.0: 2024-08-14
  Type: Initial release