The ST Pinch: A side chain-to-side chain hydrogen-bonded motif |
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Authors: | Bomar Martha G Raghavender Upadhyayula S Spindel Alexander W I Kodukula Krishna Galande Amit K |
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Affiliation: | Center for Advanced Drug Research, SRI International, Harrisonburg, Virginia 22802, USA. |
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Abstract: | The ST Pinch is a 12-membered hydrogen-bonded motif (Ser/Thr-Xaa-Ser/Thr) involving the side chain oxygen atoms of two Ser/Thr residues. We identified the ST Pinch in 104 proteins in a database containing high-resolution crystal structures. Conformational analysis of the ST Pinch in these proteins points to specific preferences for the Xaa residue and a high propensity of this residue to adopt positive φ angles. Our results suggest that this motif serves as a linker of secondary structural elements within proteins and is a new addition to the existing list of short hydrogen bond-stabilized motifs in proteins. |
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Keywords: | protein structure peptide design hydrogen bond short motif protein loops |
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