tenase movie 2 second movie of docking study on the tenase macromolecular system. This movie is a supplementary material for our paper : Autin L, Miteva MA, Lee WH, Mertens K, Radtke KP, Villoutreix BO. "Molecular models of the procoagulant factor VIIIa-factor IXa complex." J Thromb Haemost. 2005 Sep;3(9):2044-56. www.blackwell-
DMSO transport across a lipid membrane Atomic-scale computer modeling shows how small amphiphilic molecules of dimethyl sulfoxide (DMSO) easily permeates across a phospholipid region of cell membranes. Created by: Andrey Gurtovenko, PhD, Institute of Macromolecular Compounds, Russian Academy of Science, St. Petersburg, Russia. More info:
CATS Sample Changer From Irelec Demonstration video of the CATS Robotic Sample Changer manufactured by IRELEC, France (). This robot is used for Macromolecular Crystallography experiments at Synchrotron Research Facilities.
Stanford Auto-Mounter (SAM) This video shows the Stanford Auto-Mounter (SAM) , which allows automated screening of crystals at the synchrotron. Individual crystals are mounted onto the beam line for screening using the SAM system. Three sample cassettes are held under liquid nitrogen in a dispensing dewar, which is located close to the goniometer, inside the experimental hutch. A commercial Epson ES553S 4-axis robot, outfitted with a pneumatically operated cryo-tong, removes samples from the cassette and places them on the goniometer. The SAM system also allows sorting of crystals from one cassette to another. Thus, the most promising crystals can be consolidated into a single cassette prior to data collection. The sorting facility is now in a prototype stage and will be developed into a full user system in the near future. SDC has fully integrated the SAM system with the existing macromolecular crystallography beam line environment by implementing a user-interface within the BLU-ICE data collection software. The system also communicates with the JCSG database via a "beam line report", which is an Excel spreadsheet describing the crystals in each shipment. Please see technology.lbl.gov for more details and contact information.
euronews hi-tech - Radiation-surviving organism yields its secrets The "world's toughest bacterium" seems to have superpowers that can survive even the deadly gamma radiation that comes from a nuclear explosion. An international group of scientists has published the results of a long study of a soil microorganism that can stand about a thousand times more Gamma rays than a human. Hi-tech spoke to Macromolecular Crystallographer Joanna Timmins: "One of the main focuses of the work in our group is the study of this bacteria called Deinoccocus radiodurans, which is extremely radiation resistant, and so we're trying to understand a little bit more how it has developed such properties, since nowhere on Earth are there such high doses of radiation that it can actually withstand." Was the radioresistant bacterium brought to Earth from Mars, as one theory suggests, or were its mechanisms developed on Earth as a side effect of drought or other distress? Its defense works on the molecular level. To see how this incredible jump between the worlds of physics and natural science works a traditional microscope will not do. Scientists use the European synchrotron, located in Grenoble, France, to discover the atomic structure of the bacterium's protein defense system. Synchrotrons produce thin beams of X-ray light using the energy emitted by electrons accelerated in a vacuum inside a circular magnetic field. The powerful X-ray beams are then "tailored" so their wavelengths can have the desired experimental characteristics, and the molecule hunt can ...
Macroscopic self-assembly supramolecules "Specific molecular-recognition interactions are often used to build supramolecular architectures on very small length scales — typically those of molecules or macromolecules. Now, it has been shown that a host--guest system based on cyclodextrin rings and hydrocarbon groups can be used to direct the self-assembly of objects from macroscopic gel-based building blocks." Supplementary information from the paper "Macroscopic self-assembly through molecular recognition," authored by Akira Harada, Ryosuke Kobayashi, Yoshinori Takashima, Akihito Hashidzume & Hiroyasu Yamaguchi, published in Nature Chemistry 3: 34--37, January 2011. Movie S1. A β-CD-gel (red gel) was brought in contact with a Ad-gel (green gel). β-CD-gel adhered so firmly to Ad-gel. Movie S2. Macroscopic self-assembly between β-CD-gel (red gels) and Ad-gel (green gels) placed in a Petri dish. Adding of 5 mL of water and shaking a few min led to the selective formation of an alternating self-assembly between β-CD-gel (red gels) and Ad-gel (green gels). Movie S3. Macroscopic self-assembly between α-CD-gel (blue gels) and guest gels (n-Bu-gel (yellow gels) and t-Bu-gel (green gels)) placed in a Petri dish. Adding of 5 mL of water and shaking a few min led to the selective formation of an alternating self-assembly between α-CD-gel (blue gels) and n-Bu-gel (yellow gel). Movie S4. Macroscopic self-assembly between host-gel (β-CD-gel (red gels)) and guest gels (n-Bu-gel (yellow gels) and t-Bu-gel (green gels ...
Sample Handling  Jay Nix, PhD demonstrates proper technique for loading cryogenic samples into sample pucks, including tools, seating, and verifying alignment. Some tools used in this film: Rigaku ACTOR Spear Lab Dewars
Prof. Ligia Gargallo, 2007 For Women in Science Laureate for Latin America (Chile) Ligia Gargallo, Professor of macromolecular chemistry at the Institute of Macromolecular Compounds of the Pontifical Catholic University of Chile, has been awarded for her contributions to understanding solution properties of polymers. Pontifical Catholic University of Chile, Santiago
Undergraduate Researchers at the University of Memphis. Undergraduate Researcher at the University of Memphis in the Computational Macromolecular Lab.
Sample clip "Paradigm of Design" V032 This is a low-res sample from a DVD Product available from . The bacterial flagellum is a complex macromolecular machine. Are the forces of mutation and natural selection sufficient to build these structures? Do type III secretory organelles truly reflect intermediate structures? A review of our current understanding of these systems is presented by Dr. Minnich.
ZIZ 007 SARS / Severe acute respiratory syndrome Anhand von Gensequenzen wird vermutet, dass ein bekanntes Coronavirus entweder mutiert ist oder dass eine Virusart, die bisher nur Tiere befallen hat, auf den Menschen „übergesprungen ist. Das tückische ist die schnelle Mutation des Virus. English: Coronavirus (CoV) genome replication takes place in the cytoplasm in a membrane-protected microenvironment and starts with the translation of the genome to produce the viral replicase. CoV transcription involves a discontinuous RNA synthesis (template switch) during the extension of a negative copy of the subgenomic mRNAs. The requirement for base pairing during transcription has been formally demonstrated in arteriviruses and CoVs. The CoV N protein is required for coronavirus RNA synthesis and has RNA chaperon activity that may be involved in template switch. Both viral and cellular proteins are required for replication and transcription. CoVs initiate translation by cap-dependent and cap-independent mechanisms. Cell macromolecular synthesis may be controlled after CoV infection by locating some virus proteins in the host cell nucleus. Infection by different coronaviruses cause in the host alteration in the transcription and translation patterns, in the cell cycle, the cytoskeleton, apoptosis and coagulation pathways, inflammation and immune and stress responses. The balance between genes up- and down-regulated could explain the pathogenesis caused by these viruses. Coronavirus expression systems based on single genome ...
TCBG GPU Workshop: NAMD: Molecular Dynamics on GPU Clusters, Part 1 A lecture from the "Workshop on GPU Programming for Molecular Modeling" held August 6-8, 2010, at the Beckman Institute for Advanced Science and Technology, University of Illinois, in Urbana, Illinois. The workshop was organized by the Theoretical and Computational Biophysics Group (TCBG), NIH Resource for Macromolecular Modeling and Bioinformatics.Lectures provided by TCBG development staff and postdoctoral associates. Lecturer: James Phillips See this site for more information: www.ks.uiuc.edu
Prof. Tatiana Birshtein, 2007 For Women in Science Laureate for Europe (Russia) Tatiana Birshtein, Professor at the Institute of Macromolecular Compounds of the Russian Academy of Sciences, St Petersburg, has been awarded for her contribution to the understanding of the shapes, sizes and motions of large molecules.
Ribgrass mosaic virus Macromolecular structure of ribgrass mosaic virus. Data source: EBI Macromolecular Structure Database.
EMBO Workshop Grenoble 2008 EMBO Workshop Characterization of Macromolecular Complexes
RapiData: Program Overview The weeklong crash course is designed to introduce participants to the best and latest equipment and techniques for macromolecular x-ray crystallography. The students also get to meet and learn from the leading developers of software in the field, and then actually use the NSLS beamlines to collect data. The course is offered by Brookhaven Labs Biology and National Synchrotron Light Source departments, and reflects an educational component of the PXRR (Macromolecular Crystallography Research Resource), funded jointly by the National Center for Research Resources a branch of the National Institutes of Health (NIH) and the US Department of Energys Office for Biological & Environmental Research.
Protein folding requires crowd control in a simulated cell Film presented at ISMB 2010 to illustrate my recent paper in JMB: Macromolecular crowding has a profound effect upon biochemical processes in the cell. We have computationally studied the effect of crowding upon protein folding for 12 small domains in a simulated cell, using a coarse-grained protein model based upon Langevin dynamics designed to unify the often disjoint goals of protein folding simulation and structure prediction. The model can make predictions of native conformation with an accuracy comparable to the best current template-free models. It is fast enough to enable a more extensive ***ysis of crowding than previously attempted, studing several proteins at many different crowding levels, and further random repetitions designed to more closely approximate the ensemble of conformations. We find that when crowding approaches 40% excluded volume, the maximum level found in the cell, proteins fold to fewer native-like states. Notably, when crowding is increased beyond this level, there is a sudden failure of protein folding: proteins fix upon a structure more quickly, and become trapped in extended conformations. These results suggest that the ability of small protein domains to fold without the help of chaperones may be an important factor in limiting the degree of macromolecular crowding in the cell. We discuss the possible implications regarding the relationship between protein expression level, protein size, chaperone activity and aggregation.
Assorted finds of Fossiles minerals and artifacts at our Farm In Bucks County Assorted finds of Fossiles minerals and artifacts at our Farm In Bucks County 215 651 8329 Highland Hill Farm Whitelaw Road water project stalled in Lenox - Jul 23, 2010 ... The USDA has thus far failed to set up a meeting with the SHPO, ... to be on the National Register's list of historical artifacts will then ... - CachedObsidian Nov 12, 2007 ... The effects of fire on obsidian artifacts: 1989 regional forester's challenge grant study. USDA Forest Service, Pacific Northwest Region, ... /linnog/Fire_Arch/Obsidian.html - Cached[PDF] VIEW ARTICLE - Macromolecular Plant-Wilting Toxins: Artifacts of ... File Format: PDF/Adobe Acrobat - Quick View by NK Van Alfen - Cited by 16 - Related articles Macromolecular Plant-Wilting Toxins: Artifacts of the Bioassay Method? ... We thank DK Barnes, USDA, SEA-AR, Department of Agronomyand Plant Genetics, ... /publications/phytopathology/.../Phyto72n01_132.pdf[PDF] Entomologist Charles Valentine Riley's Artifacts and Papers ... File Format: PDF/Adobe Acrobat - Quick View Artifacts and Papers. Treasures of the National Agricultural Library. Sketches in this article were drawn by pioneering USDA entomologist Charles Valentine ... /***/ars_pdf/social/2005/10entomologist.pdf[PDF] Geochemistry of artifactual coarse fragment types from selected ... File Format: PDF/Adobe Acrobat - Quick View Aug 6, 2010 ... Classification of ...
Personalized Medicine: Drugs Tailored to your Genetic Makeup Heralded as the future of medicine, personalized medicines seem to be the answer for making therapeutics more likely to be highly effective and safer. Join Deanna Kroetz of UCSF's School of Pharmacy and learn about macromolecular therapeutics, their promise, their limitations. Series: UCSF Mini Medical School for the Public [3/2007] [Health and Medicine] [Show ID: 12154]
Beam Center Corrected Video from www.P212121.com
Abbreviations: WCFR, COAM, SAC, QSC, WUF, WGCF, WVSU, SARS, MOA, SAA, FITS, MU Abbreviations for Universities: WCFR, COAM, SAC, QSC, WUF, WGCF, WVSU, SARS, MOA, SAA, FITS, MU, ACIP, EAPS, AUV, AASCB, LMAP, VWE, WOCS, IPRC, OEB, NROTC
Susan Taylor Part 1: Architecture of a Protein Kinase In this lecture, I have given an overview of protein kinase structure and function using cyclic AMP dependent kinase (PKA) as a prototype for this enzyme superfamily. I have demonstrated what we have learned from the overall structural kinome which allows us to compare many protein kinases and also to appreciate how the highly regulated eukaryotic protein kinase has evolved. By comparing many protein kinase structures, we are beginning to elucidate general rules of architecture. In addition, I have attempted to illustrate how PKA is regulated by cAMP and how it is localized to specific macromolecular complexes through scaffold proteins.
Phase Behavior of Thin Film Polymer Brush-Coated/Homopolymer Systems "Phase Behavior of Thin Film Polymer Brush-Coated/Homopolymer Systems" by Jesse Tzeng, Chelsea Chen, and Dr. Peter Green. A SURE program research project video, from the University of Michigan through the Macromolecular Science and Engineering department.
Fascinating Journey into the Human Cell Darwin himself stated in the Origin of Species that if just one complex system could be discovered that would become in-operational by subtraction of just one component his theory would be completely dis-proven. Let's take a journey to the center of a cell and view just some of the awesome complexity.via DNA Synthesis, DNA Transcription, and Protein Synthesis via Molecular Machines and Nanomotors. It is known that many molecular systems of these become dysfunctional or even non-operational by mutation or deletion of just one component of a macromolecular assembly. Most biological pathways are intimately dependent on the operation of many other complex macromolecular assemblies. Dysfunction of just one component of any pathway can render the entire system nonoperational.
Echovirus Macromolecular structure of echovirus. Animated electron density isosurface level and orthogonal slicing. Data source: EBI Macromolecular Structure Database.
Design and Logos in Biology: AE Wilder Smith DNA "Did the code and means of translation it appear simultaneously in evolution? It seems almost incredible that any such coincidences could have occurred, given the extraordinary complexities of both sides and the requirements that they be coordinated accurately for survival. By a pre-Darwinian (or a skeptic of evolution after Darwin) this is a puzzle surely would have been interpreted as the most powerful sort of evidence for special creation." *C. Haskins, "Advances and Challenges in Science" in American Scientist 59 (1971), pp. 298. "The code is meaning unless translated. The modern cell's translations amchinery consists of at least fifty macromolecular compoents which are themselves encoded in DNA [!]; the code cannot be trnslated otherwise than by products of translation. It is the Modern expression of omne vivum ex ovo ['every living thing comes from an egg']. When and how did this circle become closed? It is exceedingly difficult to imagine." *J. Monod, Cahnce and Necessity (1971), p. 143 "The information content of amino acid seguences cannot increase until a genetic code with an adapter function has appeared. Nothing which even vaguely resembles a code exists in the physio-chemical world. One must conclude that no valid scientific explantion of the origin of life exists at present." *H. Yockey, "Self Organization Origin of Life Scenarios and information Theory". in Journal of Theoretical Biology 91 (1981), p. 13. "Cells and organisms are also informed ...
Flagellar motor Electron density structure of bacterial flagellar motor (published by Murphy, GE et al. in Nature, 2006) Data source: EBI Macromolecular Structure Database.
Susan Taylor Part 2: Architecture of a Protein Kinase In this lecture, I have given an overview of protein kinase structure and function using cyclic AMP dependent kinase (PKA) as a prototype for this enzyme superfamily. I have demonstrated what we have learned from the overall structural kinome which allows us to compare many protein kinases and also to appreciate how the highly regulated eukaryotic protein kinase has evolved. By comparing many protein kinase structures, we are beginning to elucidate general rules of architecture. In addition, I have attempted to illustrate how PKA is regulated by cAMP and how it is localized to specific macromolecular complexes through scaffold proteins.
Macromolecular Structure Notation, Editing and Registration - Tianhong Zhang (Pfizer) While many software systems exist for small molecule structure representation, drawing and registration and are widely used by biotech/pharmaceutical companies in small molecule drug discovery, there is no system available designed specifically for large molecules. This talk begins with a review of the challenges in large molecule structure representation and the shortcomings in using small molecule systems for large molecules. A notation language to represent large molecule structure will be presented, and examples will be provided on how to use it for modified oligonucleotides and peptides. A Graphic User Interface (GUI) tool will then be presented to demonstrate how to construct a complex large molecule structure, such as siRNA with chemical modifications. Finally, the talk will discuss a large molecule registration system, with focus on structure uniqueness checking, validation and verification.
TCBG GPU Workshop: Introduction and Welcome, Part 1 A lecture from the "Workshop on GPU Programming for Molecular Modeling" held August 6-8, 2010, at the Beckman Institute for Advanced Science and Technology, University of Illinois, in Urbana, Illinois. The workshop was organized by the Theoretical and Computational Biophysics Group (TCBG), NIH Resource for Macromolecular Modeling and Bioinformatics.Lectures provided by TCBG development staff and postdoctoral associates. Lecturer: John Stone See this site for more information: www.ks.uiuc.edu
Fantastic Voyage Part 1: AutoFill on a synaptic vesicle with placeholder proteins and mock bilayer • As of 2010, scientists can see cells, cell organelles, and even large macromolecular structures with microscopes. We can visualize molecules and a handful macromolecular structures with what I call 'nano-inference' technologies like xray crystallography and NMR. • An algorithm we've developed called AutoFill, pools data from several sources to fill organelle, cell, and histological structure data gathered from microscopes (or computationally generated (a recursive scaling capability of AutoFill itself) ), with molecular detail including: structure data from the Protein Data Bank, the TransMembrane Protein DataBank, cryo EM databases, transcriptomes, translatomes (providing rough molecular weight for appropriate sized placeholder spheres), and many other databases. HISTORY • For over a decade, I've contemplated algorithms to help model the interface of these two resolution limits, aka the meso-scale that David Goodsell mgl.scripps.edu has illustrated in watercolored drawings with meticulous research and comprehensive detail for two decades now. • In 2004 I motivated to develop these algorithms. Lacking substantial programming education and experience, I moved in '05 to work next to David in Art Olson's Molecular Graphics Lab at the Scripps Research Institute to formally initiate this project as part of my PhD thesis. While working on other projects, I roughed together several crude versions of the the fundamental algorithms and received valuable feedback from my PI (Art ...
In-line Raman with sol-gel method using glucan polymers Molecular based insight to well known sol-gel method with glucan (consisting of only glucose units) polymers. Three macromolecular alternatives in coating are: proteins (easily denatured), lipids (not watersoluble), and polysaccharides and the safest of these is glucan!
How To Use The Sliding Dewar Lid
Sasha McGee Meyerhoff 20th Oral Presentation Real-Time Spectroscopic Assessment Of Epithelial Dysplasia In The Oral Cavity
Introducing Gene Music Videos: Codon Table Song and Nucleosome Structure Gene Music was born out as a DNA base-to-pitch assignment (A=la, T=sol, C=mi, G=re) and extended to amino acids to play any gene and protein of interest. This rule was rendered to music in the "Codon Table Song". Subsequently, for greater appreciation of macromolecular structures and interactions, ball-and-stick displays are made from crystallographic data. In the "Nucleosome Structure", each histone molecule is tri-colored according to secondary structure assignments (magenta-yellow for alpha helix, green-blue for beta strand and grey for other).
M3 Metal Pen Blanks at Penn State Industries Learn how to create one of a kind metal (M3) pen blanks on a wood lathe. Michael Kogan, one of the inventors of the blanks, will teach you how to easily cut, drill, turn, sand, finish and polish the blanks with your regular woodturning tools. The blanks are made with up to 95% of the source metal that has been atomized down to the molecular level and combined with special chemical binders to form a new composite material called M3 (short for "MacroMolecular Metal"). This space-age material is used on the skin of the Space Shuttle, the Stealth Bomber and the International Space Station. In an exclusive process, source metals are mixed to result in a unique 2 tone metallic pattern. In spite of the blank's hardness they are very easy to drill and turn on a wood lathe. They can be intricately detailed with standard wood turning tools. Size: 3/4" x 3/4" x 5", non-magnetic, will not conduct heat or electricity. Fully Guaranteed against defects, imperfections or instability when drilling or turning.
Prof. Wolfgang P. Baumeister - Harvey Prize Recipient 2005 Prof. Wolfgang P. Baumeister of the Max-Planck-Institute of Biochemistry received the Harvey Prize in Science and Technology for his discovery of new macromolecular complexes essential for protein folding and degradation and for his contributions to understanding chaperonins and proteasomes. He has also played a pioneering role in the development of cryoelectron tomography. The ceremony took place on Jan. 30, 2006.
Autophagy Suite: Atg9 Cycling in the Cytoplasm to Vacuole Targeting Pathway Autophagy is a lysosome-dependent mechanism of intracellular degradation used for the turnover of damaged proteins and excess or aberrant organelles. Various pathways and processes involving macromolecular interactions and assemblies have been disclosed and it continues to gather increasing attention because of the connection to various diseases, development and aging. We have initiated the project to present these processes, and this is the first piece published in the journal, Autophagy, vol. 6, 679-685 (2010).
Nobel Laureate Lecture: Dr. Venkatraman "Venki" Ramakrishnan The road to the structure of the ribosome: A personal account "The ribosome is the large macromolecular machine that translates the genetic code into protein in all life forms. Since its discovery in the 1950s, it has been the subject of intensive study in many labs world wide. In the last decade, the structures of the atomic subunits and subsequently of the whole ribosome trapped in different stages of translation have revolutionized our understanding of the process. In this talk I will discuss some early approaches to the structure of the ribosome, the difficulties we encountered in our crystallography of the 30S subunit and finally discuss how the ribosome facilitates the accurate decoding of the genetic message." Presented by UCSD Division of Biological Sciences in conjunction with the Clifford Grobstein Memorial Lecture Series.