1PTS

CRYSTAL STRUCTURE AND LIGAND BINDING STUDIES OF A SCREENED PEPTIDE COMPLEXED WITH STREPTAVIDIN


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Work: 0.179 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Crystal structure and ligand-binding studies of a screened peptide complexed with streptavidin.

Weber, P.C.Pantoliano, M.W.Thompson, L.D.

(1992) Biochemistry 31: 9350-9354


  • PubMed Abstract: 
  • The thermodynamic binding parameters and crystal structure for streptavidin-peptide complexes where the peptide sequences were obtained by random screening methods are reported. The affinities between streptavidin and two heptapeptides were determine ...

    The thermodynamic binding parameters and crystal structure for streptavidin-peptide complexes where the peptide sequences were obtained by random screening methods are reported. The affinities between streptavidin and two heptapeptides were determined by titrating calorimetric methods [Phe-Ser-His-Pro-Gln-Asn-Thr, Ka = 7944 (+/- 224) M-1, delta G degrees = -5.32 (+/- 0.01) kcal/mol, and delta H degrees = -19.34 (+/- 0.48) kcal/mol; His-Asp-His-Pro-Gln-Asn-Leu, Ka = 3542 (+/- 146) M-1, delta G degrees = -4.84 (+/- 0.03) kcal/mol, and delta H degrees = -19.00 (+/- 0.64) kcal/mol]. The crystal structure of streptavidin complexed with one of these peptides has been determined at 2.0-A resolution. The peptide (Phe-Ser-His-Pro-Gln-Asn-Thr) binds in a turn conformation with the histidine, proline, and glutamine side chains oriented inward at the biotin-binding site. A water molecule is immobilized between the histidine and glutamine side chains of the peptide and an aspartic acid side chain of the protein. Although some of the residues that participate in binding biotin also interact with the screened peptide, the peptide adopts an alternate method of utilizing binding determinants in the biotin-binding site of streptavidin.


    Related Citations: 
    • Structural Origins of High-Affinity Biotin Binding to Streptavidin
      Weber, P.C.,Ohlendorf, D.H.,Wendoloski, J.J.,Salemme, F.R.
      (1989) Science 243: 85
    • Crystallographic and Thermodynamic Comparison of Natural and Synthetic Ligands Bound to Streptavidin
      Weber, P.C.,Wendoloski, J.J.,Pantoliano, M.W.,Salemme, F.R.
      (1992) J.Am.Chem.Soc. 114: 3197


    Organizational Affiliation

    Crystallography and Biophysical Chemistry Group, Du Pont Merck Pharmaceutical Company, Wilmington, Delaware 19880-0228.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
STREPTAVIDIN
A, B
121Streptomyces avidiniiN/A
Find proteins for P22629 (Streptomyces avidinii)
Go to UniProtKB:  P22629
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
PEPTIDE (FSHPQNT)
P
7N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Work: 0.179 
  • Space Group: I 2 2 2
Unit Cell:
Length (Å)Angle (°)
a = 95.200α = 90.00
b = 106.500β = 90.00
c = 47.940γ = 90.00
Software Package:
Software NamePurpose
X-PLORphasing
X-PLORrefinement
PROFFTrefinement
X-PLORmodel building

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1994-01-31
    Type: Initial release
  • Version 1.1: 2008-03-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Atomic model, Database references, Derived calculations, Non-polymer description, Structure summary, Version format compliance
  • Version 1.3: 2018-01-24
    Type: Other, Structure summary