白细胞介素-8的构象可塑性介导其与强效抑制剂苏拉明的动态分子相互作用。
Conformational Plasticity of Interleukin-8 Mediates Its Dynamic Molecular Interaction with Potent Inhibitor Suramin.
作者信息
Nagar Nupur, Gangele Krishnakant, Daripa Purba, Tripathi Deepak Kumar, Kumar Dinesh, Poluri Krishna Mohan
机构信息
Department of Biosciences and Bioengineering, Indian Institute of Technology Roorkee, Roorkee, Uttarakhand 247667, India.
Centre of Biomedical Research, SGPGIMS Campus, Lucknow, Uttar Pradesh 226014, India.
出版信息
J Chem Inf Model. 2025 Jun 23;65(12):6114-6128. doi: 10.1021/acs.jcim.5c00260. Epub 2025 May 30.
Structural plasticity of proteins is a crucial and regulatory factor that mediates protein-protein/ligand interactions. It signifies the specificity of protein interactions and is one of the most essential rate-limiting steps in the field of drug discovery. Chemokines are small cationic inflammatory proteins, well-known for their plasticity-governed promiscuous features. They specifically interact with chemokine receptors (GPCRs) and glycosaminoglycans (GAGs). Particularly, interleukin-8 (IL8/CXCL8) is a proinflammatory chemokine associated with leukocyte/neutrophil trafficking via IL8-GPCR (CXCR1/CXCR2) and GAG signaling axis. It is involved in various acute and chronic diseases and is a critical target for the development of anti-inflammatory therapeutics. Studies of synthetic molecules such as sulfonamides have shown their potency to mimic GAG interactions for viral proteins. Hence, the current study investigates a sulfonamide derivative, suramin, as a potential interactor of IL8 utilizing a combination of computational and biophysical techniques. The binding energetics revealed that suramin interacts with IL8 with a dissociation constant of 3.02 ± 0.4 μM. Structural data established the overlapping binding site of suramin on IL8 in the receptor/GAG binding pocket. Further, structural and biophysical analyses indicate that the stability, dynamics, and conformity of IL8-suramin interactions are influenced by structural plasticity and heterogeneity. Overall, this study elucidated the role of protein plasticity in protein-ligand/inhibitor interactions, and the data obtained propose the potential application of suramin as a potential inhibitor, which could be useful in targeting chemokine-GAG/receptor interactions in regulating IL8-mediated inflammatory conditions.
蛋白质的结构可塑性是介导蛋白质-蛋白质/配体相互作用的关键调控因子。它体现了蛋白质相互作用的特异性,是药物发现领域中最基本的限速步骤之一。趋化因子是一类小的阳离子炎症蛋白,以其受可塑性调控的混杂特性而闻名。它们特异性地与趋化因子受体(GPCRs)和糖胺聚糖(GAGs)相互作用。特别是,白细胞介素-8(IL8/CXCL8)是一种促炎趋化因子,通过IL8-GPCR(CXCR1/CXCR2)和GAG信号轴参与白细胞/中性粒细胞的转运。它涉及多种急性和慢性疾病,是抗炎治疗药物开发的关键靶点。对磺胺类等合成分子的研究表明,它们具有模拟GAG与病毒蛋白相互作用的能力。因此,本研究利用计算和生物物理技术相结合的方法,研究了一种磺胺类衍生物苏拉明作为IL8潜在相互作用分子的情况。结合能分析表明,苏拉明与IL8相互作用的解离常数为3.02±0.4μM。结构数据确定了苏拉明在IL8上位于受体/GAG结合口袋中的重叠结合位点。此外,结构和生物物理分析表明,IL8-苏拉明相互作用的稳定性、动力学和构象受结构可塑性和异质性的影响。总体而言,本研究阐明了蛋白质可塑性在蛋白质-配体/抑制剂相互作用中的作用,所获得的数据表明苏拉明作为潜在抑制剂的潜在应用,这可能有助于靶向趋化因子-GAG/受体相互作用,以调节IL8介导的炎症状态。