Models for protein binding to calcium oxalate surfaces

Asiya Gul, Peter Rez

Research output: Contribution to journalArticle

14 Citations (Scopus)

Abstract

It is widely believed that proteins rich in Asp, Glu or Gla (γ carboxyglutamic acid) interact strongly with calcium oxalate surfaces and inhibit calcium oxalate crystal growth. An alternative hypothesis would be that the interaction of Asp, Glu and Gla residues with surfaces could facilitate nucleation and crystal aggregation. Prothrombin fragment 1 and bikunin have been studied extensively as inhibitors, β-microglobulin, transferrin and antitrypsin have been found in stone matrix and tubulin has been observed in the attachment of crystals to cell surfaces. The aim of this study is to examine how well carboxylate groups in proteins found either in stone matrix, or proposed as inhibitors, could fit with the calcium ion sub-lattice of both calcium oxalate monohydrate and dihydrate surfaces. The carboxylate groups in the acidic Asp, Glu and Gla residues were marked in the Protein Data Bank structures and matched to calcium oxalate surfaces using the Cerius 3D molecular modeling program. A contact was defined if a carboxylate oxygen atom approached a surface calcium atom in such a way that the separation was less than 6 Å but greater than 2.4 Å, the sum of the ionic radii. If the proteins maintain their 3D structure, the number of contacts was no more than 3 or 4 for all the proteins studied, irrespective of the calcium oxalate surface.

Original languageEnglish (US)
Pages (from-to)63-71
Number of pages9
JournalUrological Research
Volume35
Issue number2
DOIs
StatePublished - Apr 2007

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Calcium Oxalate
Protein Binding
Proteins
Calcium
Tubulin
Transferrin
Viperidae
Crystallization
Databases
Ions
Oxygen
Acids

Keywords

  • Calcium oxalate
  • Modeling
  • Phospholipid
  • Protein
  • Wedellite
  • Whewellite

ASJC Scopus subject areas

  • Urology

Cite this

Models for protein binding to calcium oxalate surfaces. / Gul, Asiya; Rez, Peter.

In: Urological Research, Vol. 35, No. 2, 04.2007, p. 63-71.

Research output: Contribution to journalArticle

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