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An Adhesive Interface for the Non-Clustered Δ1 Protocadherin-1

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bioRxiv preprint doi: https://doi.org/10.1101/498196; this version posted December 16, 2018. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. 1 AN ADHESIVE INTERFACE FOR THE NON-CLUSTERED δ1 PROTOCADHERIN-1 2 INVOLVED IN RESPIRATORY DISEASES. 3 4 Debadrita Modak and Marcos Sotomayor* 5 Email correspondence: [email protected] th 6 Department of Chemistry and Biochemistry, The Ohio State University, 484 W 12 Avenue 7 Columbus, OH 43210 8 December 2018 1 bioRxiv preprint doi: https://doi.org/10.1101/498196; this version posted December 16, 2018. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. 1 ABSTRACT (150 WORDS) 2 Cadherins form a large family of calcium-dependent adhesive proteins involved in 3 morphogenesis, cell differentiation, and neuronal connectivity. Non-clustered δ1 protocadherins 4 form a cadherin subgroup of proteins with seven extracellular cadherin (EC) repeats and 5 cytoplasmic domains distinct from those of classical cadherins. The non-clustered δ1 6 protocadherins mediate homophilic adhesion and have been implicated in various diseases 7 including asthma, autism, and cancer. Here we present X-ray crystal structures of Protocadherin- 8 1 (PCDH1), a δ1-protocadherin member essential for New World hantavirus infection that is 9 typically expressed in the brain, airway epithelium, skin keratinocytes, and lungs. The structures 10 suggest a binding mode that involves antiparallel overlap of repeats EC1 to EC4. Mutagenesis 11 combined with binding assays and biochemical experiments validated this mode of adhesion. 12 Overall, these results reveal the molecular mechanism underlying adhesiveness of PCDH1 and 13 δ1-protocadherins, also shedding light on PCDH1’s role in maintaining airway epithelial 14 integrity, the loss of which causes respiratory diseases. 15 2 bioRxiv preprint doi: https://doi.org/10.1101/498196; this version posted December 16, 2018. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. 1 Cells are the basic units of life and selectively organize themselves to form tissues with the help 2 of various adhesion proteins that engage in homophilic (same type) and heterophilic (different 3 type) contacts. Cell-cell adhesion is of prime importance for the formation and maintenance of 4 multicellular structures. Some of the main families of adhesion proteins include integrins, 1–4 5 selectins, cadherins and members of the immunoglobulin superfamily . 6 7 Cadherins are calcium-dependent adhesion glycoproteins involved in a variety of biological 5 6–8 8 processes such as cell differentiation and tissue morphogenesis , cell signaling , 9–11 12–16 9 mechanotransduction , and brain morphogenesis and wiring . These proteins have a unique 5,17,18 10 structure including tandem extracellular cadherin (EC) repeats , followed by a 11 transmembrane and a cytoplasmic domain. The highly similar EC repeats are around 100 amino 12 acids long and feature highly conserved calcium-binding motifs that bind three calcium ions at 13 the linker regions between the repeats. 14 15 Non-clustered protocadherins are non-classical cadherins expressed in various tissues all over the 16 body and have a wide range of functions. They are typically placed in two groups: δ and ε 19 17 protocadherins . The δ-protocadherins have seven (δ1) or six (δ2) EC repeats, a single 18 transmembrane helix, and a cytoplasmic domain containing highly conserved motifs of unclear 19,20 19 function (CM1, CM2 and CM3 in δ1; CM1 and CM2 in δ2) . These play a major role in 20 neuronal tissue connectivity and brain wiring and are involved in various neurological disorders 20–22 21 such as epilepsy, autism and schizophrenia . 22 23 Protocadherin-1 (PCDH1) is a non-clustered δ1 protocadherin involved in respiratory diseases. It 3 bioRxiv preprint doi: https://doi.org/10.1101/498196; this version posted December 16, 2018. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. 23 1 was first identified by Sano and coworkers as PC42 in rat brain and retina tissue . Later on, it 2 was found to be mainly expressed in the airway epithelium, bronchial epithelium, lungs, skin 24–28 3 keratinocytes and also in kidney, neural, and glial cells . PCDH1 has seven EC repeats 4 (labeled EC1 to EC7 from N to C-terminus), a single pass transmembrane domain and a 5 cytoplasmic domain with the three conserved motifs (CM1-CM3) typical of the δ1 subgroup. 6 Immunofluorescence microscopy experiments showed that L cells transfected with PCDH1 DNA 7 aggregated in a calcium-dependent manner and expressed the protein along the boundary of the 23 8 cells at cellular contact sites . These results suggested that PCDH1 mediated aggregation 9 through calcium-dependent homophilic interactions. 10 11 PCDH1 has been associated with asthma, a chronic inflammatory disorder of the airways 12 characterized by wheezing, coughing, breathlessness, chest-tightness, bronchial 13 hyperresponsiveness (BHR) and obstruction to airflow. It is a widespread health problem 14 affecting people of all ages, especially children, and is caused by interaction of genetic and 29,30 15 environmental factors . The epithelial layer of the airway mucosa and bronchia acts as a 16 barrier and prevents the passage of allergens and pathogens. Dysfunction of this epithelial layer 31 17 barrier is thought to play a role in asthma . PCDH1 may bind bronchial epithelial cells and 18 epithelial cells of the airway mucosa together by mediating homophilic adhesion and helping in 19 forming the epithelial barrier. Loss of adhesion by PCDH1 or underexpression of the protein 31 20 may lead to loss of epithelial integrity and pathogenesis . However, how PCDH1 and other 21 members of the δ1-protocadherin family can mediate cellular adhesion is unclear. 22 32 23 PCDH1 has also been found to be essential for New World hantaviruses infection . These 4 bioRxiv preprint doi: https://doi.org/10.1101/498196; this version posted December 16, 2018. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. 1 viruses are transmitted from rodents to humans and cause a fatal respiratory disease called 33,34 2 hantavirus pulmonary syndrome (HPS) . There are no known vaccines or specific treatments 35 3 for this disease in humans . Results from in vitro and in vivo experiments indicate that direct 4 recognition of PCDH1 EC1 by Gn/Gc glycoproteins on the virus envelope is a necessary step for 32 5 infection . However, the specific molecular mechanism by which PCDH1 EC1 interacts with 6 the viral glycoproteins, and whether this interaction disrupts PCDH1 homophilic adhesion, 7 remains to be elucidated. 8 9 The molecular mechanisms underlying adhesion by classical cadherins are well established. 10 These proteins use their extracellular domains to form an intercellular (trans) bond that is mostly 36,37 11 homophilic (between identical cadherins) . The trans-homophilic bond is formed by contacts 38,36 12 between the most membrane-distal EC repeats (EC1-EC1) coming from adjacent cells . The 13 EC1-EC1 contacts are mediated by the exchange of an N-terminal β-strand containing one or 14 two tryptophan residues (Trp2 or Tpr2 and Trp4) that are docked into the hydrophobic pocket of 15 the binding partner, thus forming a “strand-swapped” dimer. 16 17 Non-classical cadherins lack the tryptophans involved in classical adhesion and use different 18 binding mechanisms. Cadherin-23 (CDH23) and protocadherin-15 (PCDH15) form a 9,11 19 heterophilic bond essential for inner ear mechanotransduction . The heterophilic CDH23- 20 PCDH15 bond involves an antiparallel “extended handshake” arrangement that uses both EC1 39 21 and EC2 repeats . In contrast, the clustered protocadherins (α, β, γ) and the non-clustered δ2 22 member PCDH19, all featuring six EC repeats, mediate trans-homophilic interactions using their 23 first four extracellular repeats (EC1-4) arranged in an antiparallel bond, where EC1 interacts with 5 bioRxiv preprint doi: https://doi.org/10.1101/498196; this version posted December 16, 2018. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. 40–45 1 EC4, EC2 with EC3, EC3 with EC2 and EC4 with EC1 . Missense mutations in PCDH19 42 2 that impair the formation of this bond are known to cause a form of epilepsy . 3 4 The calcium-dependent adhesion mechanisms for various other non-classical cadherins, 5 including the non-clustered δ1 protocadherins, are still poorly understood. Here we use bead 6 aggregation assays to show that repeats EC1 to EC4 form the minimal adhesive unit for human 7 (Homo sapiens [hs]) PCDH1. In addition, we present crystal structures of hs PCDH1 EC1-4 and 8 show that an antiparallel overlapped dimer mediates hs PCDH1 adhesion. The discovery of this 9 mode of adhesion, likely used by all other members of the δ1 protocadherin family, along with 10 our structures, might help in understanding the molecular mechanisms underlying PCDH1- 11 related respiratory diseases such as asthma and HPS.
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  • 1 Structural Studies of a Protocadherin-15 Fragment Essential for Hearing

    1 Structural Studies of a Protocadherin-15 Fragment Essential for Hearing

    Structural Studies of a Protocadherin-15 Fragment Essential for Hearing A thesis presented By Conghui Chen To The Committee on Degrees in Chemistry ad Biochemistry In partial fulfillment of the requirements For a degree of Bachelor of Science with Research Distinction In the field of Biochemistry Research Advisor: Dr. Marcos Sotomayor, Assistant Professor of Department of Chemistry and Biochemistry Defense Committee: Dr. John Shimko, Chemistry Lecturer of Department of Chemistry and Biochemistry The Ohio State University Columbus, Ohio April 13th, 2016 1 Statement of Research I conducted the research presented in this thesis under the professional guidance of Dr. Marcos Sotomayor of The Ohio State University Main Campus Chemistry and Biochemistry Department. I joined the Sotomayor lab in August of 2013, during my second year at the university. I was trained in the process of protein purification and cell culture by visiting graduate student Deryanur Kilic in conjunction with Dr. Sotomayor. Dr. Sotomayor offered knowledgeable tutelage in designing and performing the experiments, analyzing data, and the writing of this thesis. All molecular modeling and analysis was performed with the guidance and assistance from Dr. Marcos Sotomayor and Dr. Raul Araya-Secchi. My research was generously funded by The Ohio State University Chemistry and Biochemistry Undergraduate Research Scholarship from autumn 2013 until spring 2015. I performed research as part of the Biochemistry 4998 and 4999 courses as a requirement for the completion of the thesis. 2 Abstract Sound travels through the external and middle ear to the fluid-filled cochlea where mechanosensitive hair cells transform it into electrochemical signals. On the apical side of each hair cell, a set of hair-like protrusions, called stereocilia form a bundle with filamentous connections (tip links) that are essential for hearing.