Functional evaluation of tumour-specific variants of p16INK4a/CDKN2A: correlation with protein structure information

Oncogene. 1999 Sep 23;18(39):5423-34. doi: 10.1038/sj.onc.1202918.

Abstract

Inherited mutations in the CDKN2A/INK4a/MTS1 tumour suppressor gene on chromosome 9p21 are associated with familial predisposition to melanoma and other tumour types. Nonsense and missense mutations are also found in a variety of sporadic cancers, and over 140 sequence variants have already been recorded in the literature. In assessing the relevance of these variants and for counselling members of affected families, it is important to distinguish inactivating mutations from harmless polymorphisms. Existing functional assays have frequently reached conflicting conclusions and no single test appears adequate. Here we evaluate a number of alternatives including a novel assay based on retroviral delivery of p16INK4a cDNAs into human diploid fibroblasts. Among the 17 sequence variants analysed, three distinct categories can be distinguished: those that abrogate the binding of p16INK4a to CDK4 and CDK6, those that alter the properties of the protein without preventing it from interacting with CDKs, and those that have no discernible effect on protein function. These distinctions can be rationalized by considering the impact of the amino acid changes on the three-dimensional structure of the protein.

Publication types

  • Comparative Study
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Alleles
  • Animals
  • Biological Assay / methods
  • COS Cells
  • Cell Division
  • Cells, Cultured
  • Cyclin-Dependent Kinase 4
  • Cyclin-Dependent Kinase 6
  • Cyclin-Dependent Kinase Inhibitor p16 / biosynthesis
  • Cyclin-Dependent Kinase Inhibitor p16 / chemistry
  • Cyclin-Dependent Kinase Inhibitor p16 / genetics*
  • Cyclin-Dependent Kinase Inhibitor p16 / physiology*
  • Cyclin-Dependent Kinases / metabolism
  • Evaluation Studies as Topic
  • Humans
  • Mice
  • Models, Molecular
  • Mutation*
  • Neoplasms / genetics
  • Protein Binding
  • Protein Conformation
  • Protein-Serine-Threonine Kinases / metabolism
  • Proto-Oncogene Proteins*
  • Recombinant Proteins / genetics
  • Retroviridae / genetics
  • Structure-Activity Relationship

Substances

  • Cyclin-Dependent Kinase Inhibitor p16
  • Proto-Oncogene Proteins
  • Recombinant Proteins
  • Protein-Serine-Threonine Kinases
  • CDK4 protein, human
  • CDK6 protein, human
  • Cdk4 protein, mouse
  • Cdk6 protein, mouse
  • Cyclin-Dependent Kinase 4
  • Cyclin-Dependent Kinase 6
  • Cyclin-Dependent Kinases