Three-dimensional molecular modeling of bovine caseins: a refined, energy-minimized kappa-casein structure.
A refined three-dimensional molecular model of kappa-casein has been produced using energy minimization techniques and a Kollman force field on a previously reported predicted three-dimensional structure. This initial model was constructed via molecular modeling techniques from sequence-based secondary structural prediction algorithms. Both the initial and refined structures agreed with global secondary structure analysis from vibration spectroscopy. The refined structure contained many of the features of the initial model, including two sets of antiparallel beta-sheet structures containing predominantly hydrophobic side chains, which could form interaction sites with alpha s1-casein. Two types of energy-minimized dimer and tetramer models are presented: 1) using Cys as potential intermolecular disulfide binding sites and 2) using the two sheets as possible hydrophobic self-association sites, without Cys interactions. All structures yielded good stabilization energies and are in agreement with chemical, biochemical, and physical chemical results obtained for kappa-casein.
Kumosinski
T F
TF
US Department of Agriculture, Eastern Regional Research Center, Philadelphia, PA.
Brown
E M
EM
Farrell
H M
HM
D000595:Amino Acid Sequence; D000818:Animals; D002364:Caseins / Q000737:chemistry*; D002417:Cattle; D055598:Chemical Phenomena; D002627:Chemistry, Physical; D012085:Chymosin / Q000378:metabolism; D003198:Computer Simulation; D046911:Macromolecular Substances; D008958:Models, Molecular; D008969:Molecular Sequence Data; D017433:Protein Structure, Secondary; D017386:Sequence Homology, Amino Acid; D017550:Spectroscopy, Fourier Transform Infrared
D002364:Caseins; D046911:Macromolecular Substances; D012085:Chymosin