Structural Achievability of an NH-π Interaction between Gln and Phe in a Crystal Structure of a Collagen-like Peptide

• Published in: Biomolecules (Basel, Switzerland) Switzerland), 2022-10, Vol.12 (10), p.1433
• Main Authors: Zhang, Ruixue, Xu, You, Lan, Jun, Fan, Shilong, Huang, Jing, Xu, Fei
• Format: Article
• Language: English
• Subjects: Bioinformatics; Collagen; Crystal structure; Crystals; Data collection; Energy; Glutamine; Hydrophobic and Hydrophilic Interactions; Hydrophobicity; Interfaces; Molecular dynamics; NH–π interactions; Peptides; Peptides - chemistry; Phenylalanine; Physiological aspects; Protein engineering; Proteins; quantum chemistry; side chain interactions; Software; Solvents; Structure; X-ray crystallography
• ISSN: 2218-273X; 2218-273X
• DOI: 10.3390/biom12101433

NH-π interactions between polar and aromatic residues are well distributed in proteins whose stabilizing effects have been investigated in globular and fibrous proteins. In order to gain structural insights into side chain NH-π interactions, we solved a crystal structure of a collagen-like peptide containing Gln-Phe pairs. The Gln-Phe NH-π interactions were further characterized by quantum calculations, molecular simulations, and structural bioinformatics. The analyses indicated that the NH-π interactions are robust under various solvent conditions, can be distributed either on the protein surface or in its hydrophobic core and can form at a wide range of distances between residues. This study suggested that NH-π interactions can play a versatile role in protein design, including engineering hydrophobic cores, solvent accessible surfaces, and protein-protein interfaces.