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Nat Chem Biol. 2020 Apr;16(4):423-429. doi: 10.1038/s41589-019-0435-y. Epub 2020 Jan 6.
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MolProbity: More and better reference data for improved all-atom structure validation.MolProbity:用于改进全原子结构验证的更多更好的参考数据。
Protein Sci. 2018 Jan;27(1):293-315. doi: 10.1002/pro.3330. Epub 2017 Nov 27.
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Microstructure dependent binding of pigment epithelium derived factor (PEDF) to type I collagen fibrils.色素上皮衍生因子(PEDF)与I型胶原纤维的微观结构依赖性结合。
J Struct Biol. 2017 Aug;199(2):132-139. doi: 10.1016/j.jsb.2017.06.001. Epub 2017 Jun 12.
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Force interacts with macromolecular structure in activation of TGF-β.在转化生长因子-β(TGF-β)的激活过程中,力与大分子结构相互作用。
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Collagen structure: new tricks from a very old dog.胶原蛋白结构:老“狗”学新招
Biochem J. 2016 Apr 15;473(8):1001-25. doi: 10.1042/BJ20151169.
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Collagen interactions: Drug design and delivery.胶原相互作用:药物设计与递送。
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ff14SB: Improving the Accuracy of Protein Side Chain and Backbone Parameters from ff99SB.ff14SB:提高源自ff99SB的蛋白质侧链和主链参数的准确性。
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PEDF and 34-mer inhibit angiogenesis in the heart by inducing tip cells apoptosis via up-regulating PPAR-γ to increase surface FasL.色素上皮衍生因子(PEDF)和34肽通过上调过氧化物酶体增殖物激活受体γ(PPAR-γ)以增加表面Fas配体(FasL),诱导尖端细胞凋亡,从而抑制心脏血管生成。
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Pigment epithelium-derived factor as a multifunctional regulator of wound healing.色素上皮衍生因子作为伤口愈合的多功能调节剂。
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Ⅰ型胶原重塑调控 PEDF 信号的时空性。

Spatiotemporal regulation of PEDF signaling by type I collagen remodeling.

机构信息

Graduate School of Pharmaceutical Sciences, Osaka University, Suita, 565-0871 Osaka, Japan.

Graduate School of Engineering, Osaka University, Suita, 565-0871 Osaka, Japan.

出版信息

Proc Natl Acad Sci U S A. 2020 May 26;117(21):11450-11458. doi: 10.1073/pnas.2004034117. Epub 2020 May 8.

DOI:10.1073/pnas.2004034117
PMID:32385162
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC7260941/
Abstract

Dynamic remodeling of the extracellular matrix affects many cellular processes, either directly or indirectly, through the regulation of soluble ligands; however, the mechanistic details of this process remain largely unknown. Here we propose that type I collagen remodeling regulates the receptor-binding activity of pigment epithelium-derived factor (PEDF), a widely expressed secreted glycoprotein that has multiple important biological functions in tissue and organ homeostasis. We determined the crystal structure of PEDF in complex with a disulfide cross-linked heterotrimeric collagen peptide, in which the α(I) chain segments-each containing the respective PEDF-binding region (residues 930 to 938)-are assembled with an α2α1α1 staggered configuration. The complex structure revealed that PEDF specifically interacts with a unique amphiphilic sequence, KGHRGFSGL, of the type I collagen α1 chain, with its proposed receptor-binding sites buried extensively. Molecular docking demonstrated that the PEDF-binding surface of type I collagen contains the cross-link-susceptible Lys930 residue of the α1 chain and provides a good foothold for stable docking with the α1(I) N-telopeptide of an adjacent triple helix in the fibril. Therefore, the binding surface is completely inaccessible if intermolecular crosslinking between two crosslink-susceptible lysyl residues, Lys9 in the N-telopeptide and Lys930, is present. These structural analyses demonstrate that PEDF molecules, once sequestered around newly synthesized pericellular collagen fibrils, are gradually liberated as collagen crosslinking increases, making them accessible for interaction with their target cell surface receptors in a spatiotemporally regulated manner.

摘要

细胞外基质的动态重塑通过调节可溶性配体直接或间接地影响许多细胞过程,但这一过程的机制细节在很大程度上仍不清楚。在这里,我们提出Ⅰ型胶原重塑调节色素上皮衍生因子(PEDF)的受体结合活性,PEDF 是一种广泛表达的分泌糖蛋白,在组织和器官稳态中具有多种重要的生物学功能。我们确定了 PEDF 与二硫键交联的异三聚胶原肽复合物的晶体结构,其中 α(I)链片段 - 每个片段包含相应的 PEDF 结合区域(残基 930 至 938) - 以α2α1α1交错构型组装。复合物结构表明 PEDF 特异性地与Ⅰ型胶原的独特两亲性序列 KGHRGFSGL 相互作用,其推测的受体结合位点广泛埋藏。分子对接表明,Ⅰ型胶原的 PEDF 结合表面包含α1 链的交联敏感残基 Lys930,并且为与纤维中相邻三螺旋的α1(I)N-端肽稳定对接提供了良好的立足点。因此,如果存在两个交联敏感的赖氨酰残基(N-端肽中的 Lys9 和 Lys930)之间的分子内交联,则结合表面完全无法接近。这些结构分析表明,PEDF 分子一旦被隔离在新合成的细胞周围胶原纤维周围,随着胶原交联的增加逐渐释放,使其能够以时空调节的方式与靶细胞表面受体相互作用。