scholarly journals Crystallization and preliminary X-ray analysis of ginkbilobin-2 fromGinkgo bilobaseeds: a novel antifungal protein with homology to the extracellular domain of plant cysteine-rich receptor-like kinases

Author(s):  
Takuya Miyakawa ◽  
Yoriko Sawano ◽  
Ken-ichi Miyazono ◽  
Ken-ichi Hatano ◽  
Masaru Tanokura
2020 ◽  
Vol 10 (1) ◽  
Author(s):  
Teiko Shibata-Seki ◽  
Masato Nagaoka ◽  
Mitsuaki Goto ◽  
Eiry Kobatake ◽  
Toshihiro Akaike

Abstract E-cadherin is a key Ca-dependent cell adhesion molecule, which is expressed on many cell surfaces and involved in cell morphogenesis, embryonic development, EMT, etc. The fusion protein E-cad-Fc consists of the extracellular domain of E-cadherin and the IgG Fc domain. On plates coated with this chimeric protein, ES/iPS cells are cultivated particularly well and induced to differentiate. The cells adhere to the plate via E-cad-Fc in the presence of Ca2+ and detach by a chelating agent. For the purpose of clarifying the structures of E-cad-Fc in the presence and absence of Ca2+, we analyzed the molecular structure of E-cad-Fc by AFM in liquid. Our AFM observations revealed a rod-like structure of the entire extracellular domain of E-cad-Fc in the presence of Ca2+ as well as trans-binding of E-cad-Fc with adjacent molecules, which may be the first, direct confirmation of trans-dimerization of E-cadherin. The observed structures were in good agreement with an X-ray crystallographic model. Furthermore, we succeeded in visualizing the changes in the rod-like structure of the EC domains with and without calcium. The biomatrix surface plays an important role in cell culture, so the analysis of its structure and function may help promote cell engineering based on cell recognition.


1998 ◽  
Vol 72 (7) ◽  
pp. 6244-6246 ◽  
Author(s):  
José M. Casasnovas ◽  
Joanna K. Bickford ◽  
Timothy A. Springer

ABSTRACT Fragments of intercellular adhesion molecule 1 (ICAM- 1) containing only the two most N terminal of its five immunoglobulin SF domains bind to rhinovirus 3 with the same affinity and kinetics as a fragment with the entire extracellular domain. The fully active two-domain fragments contain 5 or 14 more residues than a previously described fragment that is only partially active. Comparison of X-ray crystal structures show differences at the bottom of domain 2. Four different glycoforms of ICAM- 1 bind with identical kinetics.


2017 ◽  
Author(s):  
Sandra Markovic-Mueller ◽  
Edward Stuttfeld ◽  
Mayanka Asthana ◽  
Tobias Weinert ◽  
Spencer Bliven ◽  
...  

SUMMARYVascular Endothelial Growth Factors (VEGFs) regulate blood and lymph vessel development upon activation of three receptor tyrosine kinases (RTKs), VEGFR-1, −2, and −3. Partial structures of VEGFR/VEGF complexes based on single particle electron microscopy, small angle X-ray scattering, and X-ray crystallography revealed the location of VEGF binding and domain arrangement of individual receptor subdomains. Here we describe the structure of the full-length VEGFR-1 extracellular domain (ECD) in complex with VEGF-A at 4 Å resolution. We combined X-ray crystallography, single particle electron microscopy, and molecular modeling for structure determination and validation. The structure reveals the molecular details of ligand-induced receptor dimerization, in particular of homotypic receptor interactions in Ig-domains 4, 5, and 7. Functional analyses of ligand binding and receptor activation confirm the relevance of these homotypic contacts and identify them as potential therapeutic sites to allosterically inhibit VEGFR-1 activity.


Blood ◽  
2005 ◽  
Vol 106 (11) ◽  
pp. 4433-4433
Author(s):  
Nicolas Lecomte ◽  
Laetitia Durand ◽  
Alberto Roseto ◽  
Christine Chomienne ◽  
Jean Kadouche ◽  
...  

Abstract CD44 is a highly glycosylated type-1 transmembrane protein with multiple isoforms, including the standard one, CD44s (80kDa), which is the most abundant on hematopoietic cells, and alternatively spliced variant isoforms (CD44v). CD44 is strongly expressed on Acute Myeloid Leukemia (AML) blasts, which are immature myeloid cells which terminal differentiation is blocked at various stages, defining the distinct AML subtypes. In our laboratory, we have previously shown that several specific monoclonal antibodies (mAbs) directed to the CD44s isoform, can release the differentiation blockage of primary AML blasts (Charrad et al., Nature Medicine 1999), in all AML subtypes. These results indicated the possibility of using such mAbs to develop a CD44-targeted differentiation therapy that would be efficient in all AML subtypes. Our present aim is to characterize the molecular structure of the CD44 epitopes involved in the release of AML differentiation blockage, by using X-ray crystallography. In order to obtain high levels of soluble CD44 protein and to preserve its native conformational properties, we have constructed distinct fusion proteins comprising the glycosylated CD44s extracellular domain plus the human IgG1 Fc fragment (CD44-Fc). We have also added a polyhistidine tag, which allows to easily purify them by using Ni2+- and protein G affinity, and a TEV specific recognition sequence to cleave off the fusion partner. Eight distinct CD44-Fc constructions have been prepared, transiently expressed in COS-7 cells and the one displaying both the highest affinity for the anti-CD44 mAbs and the highest expression level, has been transfected into CHO-K1 cells. Using a stable cell clone, we have succeeded to produce large amounts of CD44-Fc (100 to 200 mg/L), in serum-free culture medium, using CELLine bioreactor flasks. This optimization of the CD44 production combined with an efficient three-step purification process (successive specific binding to G protein, to Ni2+, concluded by highly resolutive gel filtration), has allowed us to produce, for the first time, a sufficient quantity of highly pure and glycosylated CD44s extracellular domain for structural studies. SPR (Surface Plasmon Resonance) analysis have shown that the 2 differentiation-inducing anti-CD44 mAbs analyzed so far, differ in their dynamics of interaction with the CD44 protein. The molecular structure of the epitopes specifically mapped by differentiation-inducing anti-CD44 mAbs, as revealed by X-ray crystallography, will be presented and discussed, with the perspective of developing an efficient CD44-targeted differentiation therapy in AML.


Author(s):  
Zhijie Li ◽  
Sayan Chakraborty ◽  
Guozhou Xu

Does not respond to nucleotides 1 (DORN1) has recently been identified as the first membrane-integral plant ATP receptor, which is required for ATP-induced calcium response, mitogen-activated protein kinase activation and defense responses inArabidopsis thaliana. In order to understand DORN1-mediated ATP sensing and signal transduction, crystallization and preliminary X-ray studies were conducted on the extracellular domain of DORN1 (atDORN1-ECD) and that of an orthologous protein,Camelina sativalectin receptor kinase I.9 (csLecRK-I.9-ECD or csI.9-ECD). A variety of deglycosylation strategies were employed to optimize the glycosylated recombinant atDORN1-ECD for crystallization. In addition, the glycosylated csI.9-ECD protein was crystallized at 291 K. X-ray diffraction data were collected at 4.6 Å resolution from a single crystal. The crystal belonged to space groupC222 orC2221, with unit-cell parametersa= 94.7,b= 191.5,c= 302.8 Å. These preliminary studies have laid the foundation for structural determination of the DORN1 and I.9 receptor proteins, which will lead to a better understanding of the perception and function of extracellular ATP in plants.


Sign in / Sign up

Export Citation Format

Share Document