The Fritz Haber Research Center, Institute of Chemistry, The Hebrew University of Jerusalem, Jerusalem 9190401, Israel.
Biomolecules. 2023 Dec 4;13(12):1744. doi: 10.3390/biom13121744.
Collagen is a triple-helical protein unique to the extracellular matrix, conferring rigidity and stability to tissues such as bone and tendon. For the [(PPG)10]3 collagen-mimetic peptide at room temperature, our molecular dynamics simulations show that these properties result in a remarkably ordered first hydration layer of water molecules hydrogen bonded to the backbone carbonyl (bb-CO) oxygen atoms. This originates from the following observations. The radius of gyration attests that the PPG triplets are organized along a straight line, so that all triplets (excepting the ends) are equivalent. The solvent-accessible surface area (SASA) for the bb-CO oxygens shows a repetitive regularity for every triplet. This leads to water occupancy of the bb-CO sites following a similar regularity. In the crystal-phase X-ray data, as well as in our 100 K simulations, we observe a 0-2-1 water occupancy in the P-P-G triplet. Surprisingly, a similar (0-1.7-1) regularity is maintained in the liquid phase, in spite of the sub-nsec water exchange rates, because the bb-CO sites rarely remain vacant. The manifested ordered first-shell water molecules are expected to produce a cylindrical electrostatic potential around the peptide, to be investigated in future work.
胶原蛋白是细胞外基质中特有的三螺旋蛋白,赋予骨骼和肌腱等组织刚性和稳定性。对于室温下的[(PPG)10]3 胶原模拟肽,我们的分子动力学模拟表明,这些特性导致水分子的第一水合层非常有序,这些水分子通过氢键与骨架羰基(bb-CO)氧原子结合。这源于以下观察结果。转动半径证明 PPG 三聚物沿直线排列,因此所有三聚物(除了两端)都是等效的。bb-CO 氧的溶剂可及表面积(SASA)对于每个三聚物都具有重复性规律。这导致 bb-CO 位点的水分子占据遵循类似的规律。在晶体相 X 射线数据以及我们的 100 K 模拟中,我们观察到 P-P-G 三聚物中存在 0-2-1 的水分子占据。令人惊讶的是,尽管水交换率在纳秒以下,但在液相中仍保持类似的(0-1.7-1)规律,因为 bb-CO 位点很少有空位。预计表现出的有序第一层水分子将在肽周围产生圆柱形静电势,这将在未来的工作中进行研究。