7NPL

ALPHA-1 ANTITRYPSIN (C232S) COMPLEXED WITH cmpd 11


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.82 Å
  • R-Value Free: 0.218 
  • R-Value Work: 0.192 
  • R-Value Observed: 0.194 

Starting Model: other
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Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history


Literature

The development of highly potent and selective small molecule correctors of Z alpha 1 -antitrypsin misfolding.

Liddle, J.Pearce, A.C.Arico-Muendel, C.Belyanskaya, S.Brewster, A.Brown, M.Chung, C.W.Denis, A.Dodic, N.Dossang, A.Eddershaw, P.Klimaszewska, D.Haq, I.Holmes, D.S.Jagger, A.Jakhria, T.Jigorel, E.Lind, K.Messer, J.Neu, M.Olszewski, A.Ronzoni, R.Rowedder, J.Rudiger, M.Skinner, S.Smith, K.J.Trottet, L.Uings, I.Zhu, Z.Irving, J.A.Lomas, D.A.

(2021) Bioorg Med Chem Lett 41: 127973-127973

  • DOI: https://doi.org/10.1016/j.bmcl.2021.127973
  • Primary Citation of Related Structures:  
    7NPK, 7NPL

  • PubMed Abstract: 

    α1-antitrypsin deficiency is characterised by the misfolding and intracellular polymerisation of mutant α1-antitrypsin protein within the endoplasmic reticulum (ER) of hepatocytes. Small molecules that bind and stabilise Z α 1 -antitrypsin were identified via a DNA-encoded library screen. A subsequent structure based optimisation led to a series of highly potent, selective and cellular active α1-antitrypsin correctors.


  • Organizational Affiliation

    GlaxoSmithKline, Gunnels Wood Road, Stevenage, Herts SG1 2NY, United Kingdom.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Alpha-1-antitrypsin404Homo sapiensMutation(s): 0 
Gene Names: SERPINA1AATPIPRO0684PRO2209
UniProt & NIH Common Fund Data Resources
Find proteins for P01009 (Homo sapiens)
Explore P01009 
Go to UniProtKB:  P01009
PHAROS:  P01009
GTEx:  ENSG00000197249 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP01009
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
UKZ (Subject of Investigation/LOI)
Query on UKZ

Download Ideal Coordinates CCD File 
B [auth A]N-((1S,2R)-1-(3-chloro-2-methylphenyl)-1-hydroxypentan-2-yl)-2-oxoindoline-4-carboxamide
C21 H23 Cl N2 O3
MQQHOEONXLJMLA-QUCCMNQESA-N
GOL
Query on GOL

Download Ideal Coordinates CCD File 
C [auth A]GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.82 Å
  • R-Value Free: 0.218 
  • R-Value Work: 0.192 
  • R-Value Observed: 0.194 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 114.12α = 90
b = 39.2β = 105.38
c = 90.45γ = 90
Software Package:
Software NamePurpose
BUSTERrefinement
Aimlessdata scaling
XDSdata reduction

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Deposition Data

  • Released Date: 2021-04-07 
  • Deposition Author(s): Chung, C.

Revision History  (Full details and data files)

  • Version 1.0: 2021-04-07
    Type: Initial release
  • Version 1.1: 2021-04-14
    Changes: Database references
  • Version 1.2: 2024-05-01
    Changes: Data collection, Database references, Refinement description