Helix and -Sheet, the Principal Structural Features of Proteins
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Cambridge's 92 Nobel Prize Winners Part 2 - 1951 to 1974: from Crick and Watson to Dorothy Hodgkin
Cambridge's 92 Nobel Prize winners part 2 - 1951 to 1974: from Crick and Watson to Dorothy Hodgkin By Cambridge News | Posted: January 18, 2016 By Adam Care The News has been rounding up all of Cambridge's 92 Nobel Laureates, celebrating over 100 years of scientific and social innovation. ADVERTISING In this installment we move from 1951 to 1974, a period which saw a host of dramatic breakthroughs, in biology, atomic science, the discovery of pulsars and theories of global trade. It's also a period which saw The Eagle pub come to national prominence and the appearance of the first female name in Cambridge University's long Nobel history. The Gender Pay Gap Sale! Shop Online to get 13.9% off From 8 - 11 March, get 13.9% off 1,000s of items, it highlights the pay gap between men & women in the UK. Shop the Gender Pay Gap Sale – now. Promoted by Oxfam 1. 1951 Ernest Walton, Trinity College: Nobel Prize in Physics, for using accelerated particles to study atomic nuclei 2. 1951 John Cockcroft, St John's / Churchill Colleges: Nobel Prize in Physics, for using accelerated particles to study atomic nuclei Walton and Cockcroft shared the 1951 physics prize after they famously 'split the atom' in Cambridge 1932, ushering in the nuclear age with their particle accelerator, the Cockcroft-Walton generator. In later years Walton returned to his native Ireland, as a fellow of Trinity College Dublin, while in 1951 Cockcroft became the first master of Churchill College, where he died 16 years later. 3. 1952 Archer Martin, Peterhouse: Nobel Prize in Chemistry, for developing partition chromatography 4. -
Structural Insight Into Marburg Virus Nucleoprotein-RNA Complex Formation
bioRxiv preprint doi: https://doi.org/10.1101/2021.07.13.452116; this version posted July 13, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. 1 Structural insight into Marburg virus nucleoprotein-RNA complex formation 2 3 Yoko Fujita-Fujiharu1,2,3, Yukihiko Sugita1,2,4, Yuki Takamatsu1,#, Kazuya Houri1,2,3, Manabu 4 Igarashi5, Yukiko Muramoto1,2,3, Masahiro Nakano1,2,3, Yugo Tsunoda1, Stephan Becker6,7, 5 Takeshi Noda1,2,3* 6 7 1 Laboratory of Ultrastructural Virology, Institute for Frontier Life and Medical Sciences, 8 Kyoto University, 53 Shogoin Kawahara-cho, Sakyo-ku, Kyoto 606-8507, Japan 9 2 Laboratory of Ultrastructural Virology, Graduate School of Biostudies, Kyoto University, 53 10 Shogoin Kawahara-cho, Sakyo-ku, Kyoto 606-8507, Japan 11 3 CREST, Japan Science and Technology Agency, 4-1-8 Honcho, Kawaguchi, Saitama 332- 12 0012, Japan 13 4 Hakubi Center for Advanced Research, Kyoto University, Kyoto, Japan. 14 5 Division of Epidemiology, International Institute for Zoonosis Control, Hokkaido University, 15 Sapporo 001-0020, Japan 16 6 Institute of Virology, University of Marburg, 35043 Marburg, Germany. 17 7 German Center for Infection Research (DZIF), Marburg-Gießen-Langen Site, University of 18 Marburg, 35043 Marburg, Germany. 19 20 # present address: Department of Virology I, National Institute of Infectious Diseases, Gakuen 21 4-7-1, Musashimurayama-city, Tokyo 208-0011, Japan 22 *correspondence to: [email protected] 23 24 bioRxiv preprint doi: https://doi.org/10.1101/2021.07.13.452116; this version posted July 13, 2021. -
Α/Β Coiled Coils 2 3 Marcus D
1 α/β Coiled Coils 2 3 Marcus D. Hartmann, Claudia T. Mendler†, Jens Bassler, Ioanna Karamichali, Oswin 4 Ridderbusch‡, Andrei N. Lupas* and Birte Hernandez Alvarez* 5 6 Department of Protein Evolution, Max Planck Institute for Developmental Biology, 72076 7 Tübingen, Germany 8 † present address: Nuklearmedizinische Klinik und Poliklinik, Klinikum rechts der Isar, 9 Technische Universität München, Munich, Germany 10 ‡ present address: Vossius & Partner, Siebertstraße 3, 81675 Munich, Germany 11 12 13 14 * correspondence to A. N. Lupas or B. Hernandez Alvarez: 15 Department of Protein Evolution 16 Max-Planck-Institute for Developmental Biology 17 Spemannstr. 35 18 D-72076 Tübingen 19 Germany 20 Tel. –49 7071 601 356 21 Fax –49 7071 601 349 22 [email protected], [email protected] 23 1 24 Abstract 25 Coiled coils are the best-understood protein fold, as their backbone structure can uniquely be 26 described by parametric equations. This level of understanding has allowed their manipulation 27 in unprecedented detail. They do not seem a likely source of surprises, yet we describe here 28 the unexpected formation of a new type of fiber by the simple insertion of two or six residues 29 into the underlying heptad repeat of a parallel, trimeric coiled coil. These insertions strain the 30 supercoil to the breaking point, causing the local formation of short β-strands, which move the 31 path of the chain by 120° around the trimer axis. The result is an α/β coiled coil, which retains 32 only one backbone hydrogen bond per repeat unit from the parent coiled coil. -
Max Ferdinand Perutz 1914–2002
OBITUARY Max Ferdinand Perutz 1914–2002 Max Ferdinand Perutz, who died on in the MRC Laboratory of Molecular 6 February, will be remembered as Biology, which has grown to house one of the 20th century’s scientific over 400 people. He published over giants. Often referred to as the ‘fa- 100 papers and articles during his re- ther of molecular biology’, his work tirement. Once asked why he didn’t re- remains one of the foundations on tire at 65 he replied that he was tied up which science is being built today. in some very interesting research at Born in Vienna in 1914, Max was the time. Until the Friday before educated in the Theresianum, a Christmas, he was active in the lab al- grammar school originating from most every day, submitting his last an earlier Officers’ academy. His paper just a few days before then. parents suggested that he study law Max’s scientific interests ranged far to prepare for entering the family beyond medical research. As a sideline, business, but he chose to study he also worked on glaciers in his chemistry at the University of youth. He studied the transformation Vienna. of snowflakes that fall on glaciers into In 1936, with financial support the huge single ice crystals that make from his father, he began a PhD at the Cavendish up its bulk, and the relationship between the mechanical Laboratory in Cambridge. Using X-ray crystallography he properties of ice measured in the laboratory and the mecha- aimed to determine the structure of hemoglobin. But the nism of glacier flow. -
Max Perutz (1914–2002)
PERSONAL NEWS NEWS Max Perutz (1914–2002) Max Perutz died on 6 February 2002. He Nobel Prize for Chemistry in 1962 with structure is more relevant now than ever won the Nobel Prize for Chemistry in his colleague and his first student John as we turn attention to the smallest 1962 after determining the molecular Kendrew for their work on the structure building blocks of life to make sense of structure of haemoglobin, the red protein of haemoglobin (Perutz) and myoglobin the human genome and mechanisms of in blood that carries oxygen from the (Kendrew). He was one of the greatest disease.’ lungs to the body tissues. Perutz attemp- ambassadors of science, scientific method Perutz described his work thus: ted to understand the riddle of life in the and philosophy. Apart from being a great ‘Between September 1936 and May 1937 structure of proteins and peptides. He scientist, he was a very kindly and Zwicky took 300 or more photographs in founded one of Britain’s most successful tolerant person who loved young people which he scanned between 5000 and research institutes, the Medical Research and was passionately committed towards 10,000 nebular images for new stars. Council Laboratory of Molecular Bio- societal problems, social justice and This led him to the discovery of one logy (LMB) in Cambridge. intellectual honesty. His passion was to supernova, revealing the final dramatic Max Perutz was born in Vienna in communicate science to the public and moment in the death of a star. Zwicky 1914. He came from a family of textile he continuously lectured to scientists could say, like Ferdinand in The Tempest manufacturers and went to the Theresium both young and old, in schools, colleges, when he had to hew wood: School, named after Empress Maria universities and research institutes. -
Guides to the Royal Institution of Great Britain: 1 HISTORY
Guides to the Royal Institution of Great Britain: 1 HISTORY Theo James presenting a bouquet to HM The Queen on the occasion of her bicentenary visit, 7 December 1999. by Frank A.J.L. James The Director, Susan Greenfield, looks on Front page: Façade of the Royal Institution added in 1837. Watercolour by T.H. Shepherd or more than two hundred years the Royal Institution of Great The Royal Institution was founded at a meeting on 7 March 1799 at FBritain has been at the centre of scientific research and the the Soho Square house of the President of the Royal Society, Joseph popularisation of science in this country. Within its walls some of the Banks (1743-1820). A list of fifty-eight names was read of gentlemen major scientific discoveries of the last two centuries have been made. who had agreed to contribute fifty guineas each to be a Proprietor of Chemists and physicists - such as Humphry Davy, Michael Faraday, a new John Tyndall, James Dewar, Lord Rayleigh, William Henry Bragg, INSTITUTION FOR DIFFUSING THE KNOWLEDGE, AND FACILITATING Henry Dale, Eric Rideal, William Lawrence Bragg and George Porter THE GENERAL INTRODUCTION, OF USEFUL MECHANICAL - carried out much of their major research here. The technological INVENTIONS AND IMPROVEMENTS; AND FOR TEACHING, BY COURSES applications of some of this research has transformed the way we OF PHILOSOPHICAL LECTURES AND EXPERIMENTS, THE APPLICATION live. Furthermore, most of these scientists were first rate OF SCIENCE TO THE COMMON PURPOSES OF LIFE. communicators who were able to inspire their audiences with an appreciation of science. -
Stapled Peptides—A Useful Improvement for Peptide-Based Drugs
molecules Review Stapled Peptides—A Useful Improvement for Peptide-Based Drugs Mattia Moiola, Misal G. Memeo and Paolo Quadrelli * Department of Chemistry, University of Pavia, Viale Taramelli 12, 27100 Pavia, Italy; [email protected] (M.M.); [email protected] (M.G.M.) * Correspondence: [email protected]; Tel.: +39-0382-987315 Received: 30 July 2019; Accepted: 1 October 2019; Published: 10 October 2019 Abstract: Peptide-based drugs, despite being relegated as niche pharmaceuticals for years, are now capturing more and more attention from the scientific community. The main problem for these kinds of pharmacological compounds was the low degree of cellular uptake, which relegates the application of peptide-drugs to extracellular targets. In recent years, many new techniques have been developed in order to bypass the intrinsic problem of this kind of pharmaceuticals. One of these features is the use of stapled peptides. Stapled peptides consist of peptide chains that bring an external brace that force the peptide structure into an a-helical one. The cross-link is obtained by the linkage of the side chains of opportune-modified amino acids posed at the right distance inside the peptide chain. In this account, we report the main stapling methodologies currently employed or under development and the synthetic pathways involved in the amino acid modifications. Moreover, we report the results of two comparative studies upon different kinds of stapled-peptides, evaluating the properties given from each typology of staple to the target peptide and discussing the best choices for the use of this feature in peptide-drug synthesis. Keywords: stapled peptide; structurally constrained peptide; cellular uptake; helicity; peptide drugs 1. -
The Generic Geometry of Helices and Their Close-Packed Structures
Theor Chem Acc (2010) 125:207–215 DOI 10.1007/s00214-009-0639-4 REGULAR ARTICLE The generic geometry of helices and their close-packed structures Kasper Olsen Æ Jakob Bohr Received: 23 May 2009 / Accepted: 9 September 2009 / Published online: 25 September 2009 Ó The Author(s) 2009. This article is published with open access at Springerlink.com Abstract The formation of helices is an ubiquitous 1 Introduction phenomenon for molecular structures whether they are biological, organic, or inorganic, in nature. Helical struc- Helical structures are common in chain molecules such as tures have geometrical constraints analogous to close- proteins, RNA, and DNA, e.g., a-helices and the A, B and Z packing of three-dimensional crystal structures. For helical forms of DNA. In this paper, we consider the packing of packing the geometrical constraints involve parameters idealized helices formed by a continuous tube with the such as the radius of the helical cylinder, the helical pitch purpose to calculate the constraints on such helices which angle, and the helical tube radius. In this communication, arise from close-packing and space filling considerations; the geometrical constraints for single helix, double helix, we consider single helical tubes, as well as sets of two and for double helices with minor and major grooves are identical helical tubes. It is found that the efficiency of the calculated. The results are compared with values from the use of space depends on the helical pitch angle, and the literature for helical polypeptide backbone structures, the optimum helical pitch angle is determined for single and a-, p-, 310-, and c-helices. -
Breaking Non-Native Hydrophobic Clusters Is the Rate-Limiting Step In
Shibasish Chowdhury Wei Zhang Breaking Non-Native Chun Wu Guoming Xiong Hydrophobic Clusters is the Yong Duan Rate-Limiting Step in the Department of Chemistry and Biochemistry, Folding of an Alanine-Based Center of Biomedical Research Excellence, Peptide University of Delaware, Newark, DE 19716 Received 13 March 2002; accepted 29 April 2002 Abstract: The formation mechanism of an alanine-based peptide has been studied by all-atom molecular dynamics simulations with a recently developed all-atom point-charge force field and the Generalize Born continuum solvent model at an effective salt concentration of 0.2M. Thirty-two simulations were conducted. Each simulation was performed for 100 ns. A surprisingly complex folding process was observed. The development of the helical content can be divided into three phases with time constants of 0.06–0.08, 1.4–2.3, and 12–13 ns, respectively. Helices initiate extreme rapidly in the first phase similar to that estimated from explicit solvent simulations. Hydrophobic collapse also takes place in this phase. A folding intermediate state develops in the second phase and is unfolded to allow the peptide to reach the transition state in the third phase. The folding intermediate states are characterized by the two-turn short helices and the transition states are helix–turn–helix motifs—both of which are stabilized by hydrophobic clusters. The equilibrium helical content, calculated by both the main-chain ⌽–⌿ torsion angles and the main-chain hydrogen bonds, is 64–66%, which is in remarkable agreement with experiments. After corrected for the solvent viscosity effect, an extrapolated folding time of 16–20 ns is obtained that is in qualitative agreement with experiments. -
Structure of Voltage-Modulated Sodium-Selective NALCN-FAM155A Channel Complex ✉ Yunlu Kang 1, Jing-Xiang Wu1,2,3 & Lei Chen 1,2,3
ARTICLE https://doi.org/10.1038/s41467-020-20002-9 OPEN Structure of voltage-modulated sodium-selective NALCN-FAM155A channel complex ✉ Yunlu Kang 1, Jing-Xiang Wu1,2,3 & Lei Chen 1,2,3 Resting membrane potential determines the excitability of the cell and is essential for the cellular electrical activities. The NALCN channel mediates sodium leak currents, which positively adjust resting membrane potential towards depolarization. The NALCN channel is 1234567890():,; involved in several neurological processes and has been implicated in a spectrum of neu- rodevelopmental diseases. Here, we report the cryo-EM structure of rat NALCN and mouse FAM155A complex to 2.7 Å resolution. The structure reveals detailed interactions between NALCN and the extracellular cysteine-rich domain of FAM155A. We find that the non- canonical architecture of NALCN selectivity filter dictates its sodium selectivity and calcium block, and that the asymmetric arrangement of two functional voltage sensors confers the modulation by membrane potential. Moreover, mutations associated with human diseases map to the domain-domain interfaces or the pore domain of NALCN, intuitively suggesting their pathological mechanisms. 1 State Key Laboratory of Membrane Biology, College of Future Technology, Institute of Molecular Medicine, Beijing Key Laboratory of Cardiometabolic Molecular Medicine, Peking University, 100871 Beijing, China. 2 Peking-Tsinghua Center for Life Sciences, Peking University, 100871 Beijing, China. ✉ 3 Academy for Advanced Interdisciplinary Studies, Peking University, 100871 Beijing, China. email: [email protected] NATURE COMMUNICATIONS | (2020) 11:6199 | https://doi.org/10.1038/s41467-020-20002-9 | www.nature.com/naturecommunications 1 ARTICLE NATURE COMMUNICATIONS | https://doi.org/10.1038/s41467-020-20002-9 ALCN channel is a voltage-modulated sodium-selective Therefore, we started with the cryo-EM studies of the NALCN– ion channel1. -
Structural and Biochemical Insights Into the Multiple Functions of Yeast Grx3
Article Structural and Biochemical Insights into the Multiple Functions of Yeast Grx3 Chang-Biao Chi, YaJun Tang, Jiahai Zhang, Ya-Nan Dai, Mohnad Abdalla, Yuxing Chen and Cong-Zhao Zhou School of Life Sciences and Hefei National Laboratory for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei, Anhui 230027, People's Republic of China Key Laboratory of Structural Biology, Chinese Academy of Science, Hefei, Anhui, 230027, People's Republic of China Correspondence to YaJun Tang and Cong-Zhao Zhou: School of Life Sciences and Hefei National Laboratory for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei, Anhui 230027, People's Republic of China. [email protected]; [email protected] https://doi.org/10.1016/j.jmb.2018.02.024 Edited by Charalampo Kalodimos Abstract The yeast Saccharomyces cerevisiae monothiol glutaredoxin Grx3 plays a key role in cellular defense against oxidative stress and more importantly, cooperates with BolA-like iron repressor of activation protein Fra2 to regulate the localization of the iron-sensing transcription factor Aft2. The interplay among Grx3, Fra2 and Aft2 responsible for the regulation of iron homeostasis has not been clearly described. Here we solved the crystal structures of the Trx domain (Grx3Trx) and Grx domain (Grx3Grx) of Grx3 in addition to the solution structure of Fra2. Structural analyses and activity assays indicated that the Trx domain also contributes to the glutathione S-transferase activity of Grx3, via an inter-domain disulfide bond between Cys37 and Cys176. NMR titration and pull-down assays combined with surface plasmon resonance experiments revealed that Fra2 could form a noncovalent heterodimer with Grx3 via an interface between the helix-turn-helix motif of Fra2 and the C- terminal segment of Grx3Grx, different from the previously identified covalent heterodimer mediated by Fe–S cluster. -
Max Perutz's Achievements: How Did He Do
Protein Science (1994), 3:1625-1628. Cambridge University Press. Printed in the USA. Copyright 0 1994 The Protein Society ”. ” ” ~~ ”” . .. .. INVITED TRIBUTE, SPECIAL SECTION IN HONOR OF MAX PERUTZ Max Perutz’s achievements: How did he do it? DAVID EISENBERG UCLA-DOE Laboratory of Structural Biology and Molecular Medicine, Molecular Biology Institute, and Department of Chemistry and Biochemistry, University of California at Los Angeles, Los Angeles, California 90024-1570 This issue of Protein Science honors the 80th birthday of Max sin, which Bernal and Dorothy Crowfoot Hodgkin had obtained Perutz, oneof the great contributorsto our science. Other great the year before. Professor Mark claimed he was so excited by contributors include EmilFischer, who showed that proteins are these photos that he forgot aboutPerutz’s request to workwith polymerized peptides; James Sumner, who proved decisively Hopkins and instead arranged for him to work with Bernal. that enzymes are proteinsby crystallizing urease; Fred Sanger, When Perutz heard about this, he protested that he knew no who determined the amino acid sequence of insulin, and later crystallography. Professor Mark replied: “Never mind, my boy, along with Gilbert gave us accurate and rapidways to determine you will learn it.” DNA sequences fromwhich protein sequences can be derived; And so Perutz joined Bernal’s lab in September 1936. Perutz and Linus Pauling, who came with up the basic secondary struc- (1980) recalls Bernal as “the mostbrilliant talker I have ever en- tures, the a-helix and 0-sheets. These were all great discover- countered . [and] was soon inspired by [Bernal’s] visionary ies. But Max Perutz gave us the method for determining the faith in the power of X-ray diffraction to solve the structures 3-dimensional structures of proteins and also provided the in- of molecules as large and complex as enzymes or viruses at a tellectual environment thatled to thediscovery of the structure time when the structure of ordinary sugar was still unsolved” of DNA.