4QE8 | pdb_00004qe8

FXR with DM175 and NCoA-2 peptide

• PDB DOI: https://doi.org/10.2210/pdb4QE8/pdb

• Classification: TRANSCRIPTION
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2014-05-15 Released: 2015-08-12 
• Deposition Author(s): Kudlinzki, D., Merk, D., Linhard, V.L., Saxena, K., Sreeramulu, S., Nilsson, E., Dekker, N., Wissler, L., Bamberg, K., Schubert-Zsilavecz, M., Schwalbe, H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.62 Å
• R-Value Free: 
  0.273 (Depositor), 0.291 (DCC) 
• R-Value Work: 
  0.249 (Depositor), 0.259 (DCC) 
• R-Value Observed: 
  0.252 (Depositor) 

Literature

FXR with DM175 and NCoA-2 peptide

Kudlinzki, D., Merk, D., Linhard, V.L., Saxena, K., Sreeramulu, S., Nilsson, E., Dekker, N., Wissler, L., Bamberg, K., Schubert-Zsilavecz, M., Schwalbe, H.

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 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 59.01 kDa 
• Atom Count: 4,101 
• Modeled Residue Count: 472 
• Deposited Residue Count: 492 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Bile acid receptor	A, B	233	Homo sapiens	Mutation(s): 0  Gene Names: NR1H4, BAR, FXR, HRR1, RIP14
UniProt & NIH Common Fund Data Resources
Find proteins for Q96RI1 (Homo sapiens) Explore Q96RI1  Go to UniProtKB:  Q96RI1
PHAROS:  Q96RI1 GTEx:  ENSG00000012504

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Nuclear receptor coactivator 2	C, D	13	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q15596 (Homo sapiens) Explore Q15596  Go to UniProtKB:  Q15596
PHAROS:  Q15596 GTEx:  ENSG00000140396

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
31D	E [auth A], J [auth B]	4-({2-[(4-tert-butylbenzoyl)amino]benzoyl}amino)benzoic acid C25 H24 N2 O4 JNIQPWWGQWIPLQ-UHFFFAOYSA-N
MRD	N [auth B]	(4R)-2-METHYLPENTANE-2,4-DIOL C6 H14 O2 SVTBMSDMJJWYQN-RXMQYKEDSA-N
EDO	F [auth A], G [auth A], H [auth A], I [auth A], K [auth B], L [auth B], M [auth B]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
31D	BindingDB:  4QE8	EC50: min: 280, max: 350 (nM) from 2 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.62 Å
• R-Value Free:  0.273 (Depositor), 0.291 (DCC) 
• R-Value Work:  0.249 (Depositor), 0.259 (DCC) 
• R-Value Observed: 0.252 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 34.483	α = 88.89
b = 48.683	β = 78.1
c = 82.201	γ = 85.07

Software Package:

Software Name	Purpose
PHASER	phasing
PHENIX	refinement
autoPROC	data scaling
ABSCALE	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-08-12 
Deposition Author(s): Kudlinzki, D., Merk, D., Linhard, V.L., Saxena, K., Sreeramulu, S., Nilsson, E., Dekker, N., Wissler, L., Bamberg, K., Schubert-Zsilavecz, M., Schwalbe, H.

Revision History  

• Version 1.0: 2015-08-12
  Type: Initial release
  
• Version 1.1: 2017-11-22
  Changes: Refinement description
• Version 1.2: 2024-02-28
  Changes: Data collection, Database references, Derived calculations, Refinement description