Biological Assembly 1  

 3D View: Structure | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 24.53 kDa 
• Atom Count: 1883 
• Modelled Residue Count: 223 
• Deposited Residue Count: 229 
• Unique protein chains: 1

1BTW

Episelection: novel KI ~nanomolar inhibitors of serine proteases selected by binding or chemistry on an enzyme surface

• DOI: 10.2210/pdb1BTW/pdb

• Classification: HYDROLASE/HYDROLASE INHIBITOR
• Organism(s): Bos taurus
• Mutation(s): No 


• Deposited: 1995-05-17 Released: 1995-10-15 
• Deposition Author(s): Stroud, R.M., Katz, B.A., Finer-Moore, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Work: 0.164 
• R-Value Observed: 0.164 

Literature

Episelection: novel Ki approximately nanomolar inhibitors of serine proteases selected by binding or chemistry on an enzyme surface.

Katz, B.A., Finer-Moore, J., Mortezaei, R., Rich, D.H., Stroud, R.M.

(1995) Biochemistry 34: 8264-8280

• PubMed: 7599119 
• DOI: 10.1021/bi00026a008
• Primary Citation of Related Structures:  
  1BTZ, 1BTY, 1BTX, 1BTW


• PubMed Abstract: 
  

A novel class of mechanism-based inhibitors of the serine proteases is developed using epitaxial selection. Tripeptide boronates esterified by an alcohol or alcohols at the boron retain the tight binding to trypsin-like enzymes associated with transition-state analogs and incorporate additional groups that can be utilized for selectivity between proteases. Formed by reaction of a series of alcohols with the inhibitor boronate oxygen(s), the most structurally compatible alcohol-derivatized inhibitors are either selected by binding to the enzyme (epitaxial selection) or assembled by epitaxial reaction on the enzyme surface. Mass spectrometry of the derivatized boronates and X-ray crystallography of the complexes identify the chemical structures and the three-dimensional interactions of inhibitors generated. This scheme also engineers novel, potent (Ki approximately 7 nM), and more specific inhibitors of individual serine proteases, by derivitizations of compounds obtained by epitaxial selection.

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Related Citations: 

• Solvent Structure in Crystals of Trypsin Determined by X-Ray and Neutron Diffraction
  Finer-Moore, J.S., Kossiakoff, A., Hurley, J.H., Earnest, T., Stroud, R.M.
  (1992) Proteins 12: 203

• 1.59 Angstrom Structure of Trypsin at 120K: Comparison of Low Temperature and Room Temperature Structures
  Earnest, T., Fauman, E., Craik, C.S., Stroud, R.M.
  (1991) Proteins 10: 171

• Difference Fourier Refinement of the Structure of Dip-Trypsin at 1.5 Angstroms Using a Minicomputer Technique
  Chambers, J.L., Stroud, R.M.
  (1977) Acta Crystallogr B 33: 1824

• Structure and Specific Binding of Trypsin, Comparison of Inhibited Derivatives and a Model for Substrate Binding
  Krieger, M., Kay, L.M., Stroud, R.M.
  (1974) J Mol Biol 83: 209

• The Crystal and Molecular Structure of Dip-Inhibited Bovine Trypsin at 2.7 Angstroms Resolution
  Stroud, R.M., Kay, L.M., Dickerson, R.E.
  (1972) Cold Spring Harb Symp Quant Biol 36: 125

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Organizational Affiliation: 

Arris Pharmaceutical Corporation, South San Francisco, California 94080, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
BETA-TRYPSIN	A	229	Bos taurus	Mutation(s): 0  EC: 3.4.21.4
Find proteins for P00760 (Bos taurus) Explore P00760  Go to UniProtKB:  P00760

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
0ZW	B [auth A]	N-(tert-butoxycarbonyl)-L-alanyl-N-{(1S)-5-ammonio-1-[hydroxy(3-hydroxypropoxy)boranyl]pentyl}-L-valinamide C21 H44 B N4 O7 JPOFXBAJTXFLAJ-ULQDDVLXSA-O
CA	C [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Biologically Interesting Molecules (External Reference) 1 Unique

Entity ID: 2
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_000388 (0ZW)	B [auth A]	T-BUTOXY-ALA-VAL-BORO-LYS 1,3-PROPANEDIOL MONOESTER	Peptide-like /  Inhibitor		--

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Work: 0.164 
• R-Value Observed: 0.164 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 63.74	α = 90
b = 63.54	β = 90
c = 68.93	γ = 90

Software Package:

Software Name	Purpose
RAXIS	data collection
X-PLOR	model building
X-PLOR	refinement
R-AXIS	data reduction
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1995-05-17 
• Released Date: 1995-10-15 
Deposition Author(s): Stroud, R.M., Katz, B.A., Finer-Moore, J.

Revision History  

• Version 1.0: 1995-10-15
  Type: Initial release
  
• Version 1.1: 2008-05-22
  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: 2012-12-12
  Changes: Other