1BIM

CRYSTALLOGRAPHIC STUDIES ON THE BINDING MODES OF P2-P3 BUTANEDIAMIDE RENIN INHIBITORS

• PDB DOI: https://doi.org/10.2210/pdb1BIM/pdb

• Classification: HYDROLASE/HYDROLASE INHIBITOR
• Organism(s): Homo sapiens
• Expression System: Canis lupus familiaris
• Mutation(s): No 


• Deposited: 1995-09-27 Released: 1996-01-29 
• Deposition Author(s): Tong, L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Work: 0.178 
• R-Value Observed: 0.178 

Literature

Crystallographic studies on the binding modes of P2-P3 butanediamide renin inhibitors.

Tong, L., Pav, S., Lamarre, D., Simoneau, B., Lavallee, P., Jung, G.

(1995) J Biol Chem 270: 29520-29524

• PubMed: 7493993 
• DOI: https://doi.org/10.1074/jbc.270.49.29520
• Primary Citation of Related Structures:  
  1BIL, 1BIM


• PubMed Abstract: 
  

  The binding modes of three peptidomimetic P2-P3 butanediamide renin inhibitors have been determined by x-ray crystallography. The inhibitors are bound with their backbones in an extended conformation, and their side chains occupying the S5 to S1' pockets. A (2-amino-4-thiazolyl)methyl side chain at the P2 position shows stronger hydrogen-bonding and van der Waals interactions with renin than the His side chain, which is present in the natural substrate. The ACHPA-gamma-lactam transition state analog has similar interactions with renin as the dihydroxyethylene transition state analog.

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Organizational Affiliation: 

Department of Inflammatory Diseases, Boehringer Ingelheim Pharmaceuticals, Inc., Ridgefield, Connecticut 06877, USA.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 75.25 kDa 
• Atom Count: 5,221 
• Modelled Residue Count: 667 
• Deposited Residue Count: 674 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Renin	A, B	337	Homo sapiens	Mutation(s): 0  Gene Names: CMV IE-HUMAN PREPRORENIN CDNA, REN EC: 3.4.23.15
UniProt & NIH Common Fund Data Resources
Find proteins for P00797 (Homo sapiens) Explore P00797  Go to UniProtKB:  P00797
PHAROS:  P00797 GTEx:  ENSG00000143839

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
0QB	C [auth A], D [auth B]	(2S)-2-[(2-amino-1,3-thiazol-4-yl)methyl]-N~1~-{(1S,2S)-1-(cyclohexylmethyl)-2-hydroxy-2-[(3R)-1,5,5-trimethyl-2-oxopyrrolidin-3-yl]ethyl}-N~4~-[2-(dimethylamino)-2-oxoethyl]-N~4~-[(1S)-1-phenylethyl]butanediamide C36 H54 N6 O5 S IFJSAOFSWZWPQF-SQMKVVGDSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Work: 0.178 
• R-Value Observed: 0.178 
• Space Group: P 2₁ 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 142.9	α = 90
b = 142.9	β = 90
c = 142.9	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	model building
TNT	refinement
X-PLOR	refinement
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1996-01-29 
Deposition Author(s): Tong, L.

Revision History  

• Version 1.0: 1996-01-29
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Atomic model, Database references, Derived calculations, Non-polymer description, Structure summary, Version format compliance
• Version 1.3: 2012-01-18
  Changes: Non-polymer description
• Version 1.4: 2012-12-12
  Changes: Other
• Version 1.5: 2019-07-17
  Changes: Data collection, Other, Refinement description
• Version 1.6: 2019-08-14
  Changes: Data collection, Refinement description
• Version 1.7: 2022-03-09
  Changes: Database references, Derived calculations, Structure summary