Protein design on computers. Five new proteins: Shpilka, grendel, fingerclasp, leather, and aida

Chris Sander, Gerrit Vriend, Fernando Bazan, Amnon Horovitz, Haruki Nakamura, Luis Ribas, Alexei V. Finkelstein, Andrew Lockhart, Rainer Merkl, L. Jeanne Perry, Stephen C. Emery, Christine Gaboriaud, Cara Marks, John Moult, Christophe Verlinde, Marc Eberhard, Arne Elofsson, Tim J.P. Hubbard, Lynne Regan, Jay BanksRoberto Jappelli, Arthur M. Lesk, Anna Tramontano

Research output: Contribution to journalArticlepeer-review

25 Scopus citations

Abstract

What is the current state of the art in protein design? This question was approached in a recent two‐week protein design workshop sponsored by EMBO and held at the EMBL in Heidelberg. The goals were to test available design tools and to explore new design strategies. Five novel proteins were designed: Shpilka, a sandwich of two four‐stranded β‐sheets, a scaffold on which to explore variations in loop topology; Grendel, a four‐helical membrane anchor, ready for fusion to water‐soluble functional domains; Fingerclasp, a dimer of interdigitating β–β–α units, the simplest variant of the “handshake” structural class; Aida, an antibody binding surface intended to be specific for flavodoxin; Leather—a minimal NAD binding domain, extracted from a larger protein. Each design is available as a set of three‐dimensional coordinates, the corresponding amino acid sequence and a set of analytical results. The designs are placed in the public domain for scrutiny, improvement, and possible experimental verification.

Original languageEnglish (US)
Pages (from-to)105-110
Number of pages6
JournalProteins: Structure, Function, and Bioinformatics
Volume12
Issue number2
DOIs
StatePublished - Feb 1992

All Science Journal Classification (ASJC) codes

  • Structural Biology
  • Biochemistry
  • Molecular Biology

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