Unravelling the Binding Mechanism of a Poly(cationic) Anthracenyl Fluorescent Probe with High Affinity toward Double-Stranded DNA

2016 ◽  
Vol 17 (11) ◽  
pp. 3609-3618 ◽  
Author(s):  
Marco Deiana ◽  
Bastien Mettra ◽  
Katarzyna Matczyszyn ◽  
Delphine Pitrat ◽  
Joanna Olesiak-Banska ◽  
...  
Author(s):  
Panpan Wang ◽  
Xiaonan Gao ◽  
Ke Zhang ◽  
Qinglan Pei ◽  
Xiaobo Xu ◽  
...  

Based on the binding mode and electrostatics, the features of high affinity PAMs were the reduced hydrophobicity with low electronegativity of R1, increased hydrophobicity with low electronegativity of R2 and with high electronegativity of linker.


The Analyst ◽  
2019 ◽  
Vol 144 (7) ◽  
pp. 2284-2290 ◽  
Author(s):  
Wei Zhou ◽  
Ze Yu ◽  
Ge Ma ◽  
Tian Jin ◽  
Yunchao Li ◽  
...  

Here, we found that Thioflavin T (ThT) could specifically bind with a G-GGG unit (named as “Guanine Island”) in double stranded DNA (ds-DNA).


2018 ◽  
Vol 272 ◽  
pp. 589-597 ◽  
Author(s):  
Lu Yang ◽  
Qiuyu Meng ◽  
Zhiye Hu ◽  
Wentao Ning ◽  
Jie Zheng ◽  
...  

2019 ◽  
Vol 10 (7) ◽  
pp. 1045-1050 ◽  
Author(s):  
Jordan C. LeSarge ◽  
Pierre Thibeault ◽  
Mark Milne ◽  
Rithwik Ramachandran ◽  
Leonard G. Luyt

1991 ◽  
Vol 173 (2) ◽  
pp. 287-296 ◽  
Author(s):  
R Shefner ◽  
G Kleiner ◽  
A Turken ◽  
L Papazian ◽  
B Diamond

We have characterized four IgG monoclonal antibodies (mAbs) derived from BALB/c mice that bind double-stranded DNA (dsDNA) with high affinity. The hydridomas were selected for expression of a member of the VHS107 family. Three of the four cell lines use the VH11 gene and one uses the VH1 gene. These antibodies exhibit many characteristics of pathogenic anti-DNA antibodies. They are high affinity and not broadly crossreactive. Unlike the anti-DNA antibodies in autoimmune mice, they exhibit no somatic mutation in their VH genes. These results demonstrate that somatic mutation of VHS107 genes is not necessary for generating high affinity dsDNA binding. The fact that such antibodies have not previously been reported suggests that they are rare and that their expression may be downregulated in both nonautoimmune and autoimmune individuals.


2019 ◽  
Vol 11 (28) ◽  
pp. 3584-3589 ◽  
Author(s):  
Yanqiong Lai ◽  
Xia Teng ◽  
Yanli Zhang ◽  
Hongbin Wang ◽  
Pengfei Pang ◽  
...  

In this study, we developed a simple, sensitive, low-cost and label-free method to detect rutin by using double-stranded DNA-templated copper nanoclusters (dsDNA-CuNCs) as a fluorescent probe.


2020 ◽  
Vol 208 ◽  
pp. 111090
Author(s):  
Romana Masnikosa ◽  
Milan M. Milutinović ◽  
Ivo Crnolatac ◽  
Aleksandar Tot ◽  
Suzana Veličković ◽  
...  

mBio ◽  
2017 ◽  
Vol 8 (6) ◽  
Author(s):  
Pauline Vitry ◽  
Claire Valotteau ◽  
Cécile Feuillie ◽  
Simon Bernard ◽  
David Alsteens ◽  
...  

ABSTRACT Bacterial pathogens that colonize host surfaces are subjected to physical stresses such as fluid flow and cell surface contacts. How bacteria respond to such mechanical cues is an important yet poorly understood issue. Staphylococcus aureus uses a repertoire of surface proteins to resist shear stress during the colonization of host tissues, but whether their adhesive functions can be modulated by physical forces is not known. Here, we show that the interaction of S. aureus clumping factor B (ClfB) with the squamous epithelial cell envelope protein loricrin is enhanced by mechanical force. We find that ClfB mediates S. aureus adhesion to loricrin through weak and strong molecular interactions both in a laboratory strain and in a clinical isolate. Strong forces (~1,500 pN), among the strongest measured for a receptor-ligand bond, are consistent with a high-affinity “dock, lock, and latch” binding mechanism involving dynamic conformational changes in the adhesin. Notably, we demonstrate that the strength of the ClfB-loricrin bond increases as mechanical force is applied. These findings favor a two-state model whereby bacterial adhesion to loricrin is enhanced through force-induced conformational changes in the ClfB molecule, from a weakly binding folded state to a strongly binding extended state. This force-sensitive mechanism may provide S. aureus with a means to finely tune its adhesive properties during the colonization of host surfaces, helping cells to attach firmly under high shear stress and to detach and spread under low shear stress. IMPORTANCE Staphylococcus aureus colonizes the human skin and the nose and can cause various disorders, including superficial skin lesions and invasive infections. During nasal colonization, the S. aureus surface protein clumping factor B (ClfB) binds to the squamous epithelial cell envelope protein loricrin, but the molecular interactions involved are poorly understood. Here, we unravel the molecular mechanism guiding the ClfB-loricrin interaction. We show that the ClfB-loricrin bond is remarkably strong, consistent with a high-affinity “dock, lock, and latch” binding mechanism. We discover that the ClfB-loricrin interaction is enhanced under tensile loading, thus providing evidence that the function of an S. aureus surface protein can be activated by physical stress. IMPORTANCE Staphylococcus aureus colonizes the human skin and the nose and can cause various disorders, including superficial skin lesions and invasive infections. During nasal colonization, the S. aureus surface protein clumping factor B (ClfB) binds to the squamous epithelial cell envelope protein loricrin, but the molecular interactions involved are poorly understood. Here, we unravel the molecular mechanism guiding the ClfB-loricrin interaction. We show that the ClfB-loricrin bond is remarkably strong, consistent with a high-affinity “dock, lock, and latch” binding mechanism. We discover that the ClfB-loricrin interaction is enhanced under tensile loading, thus providing evidence that the function of an S. aureus surface protein can be activated by physical stress.


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