| Journal Articles: 52 results |
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Molecular Models of Natural Products William F. Coleman
This months Featured Molecules focus on natural products and include blattellquinone, a sex pheromone secreted by female German cockroaches to attract males, and (R)-limonene, a secondary metabolite found in citrus fruit peels.
Coleman, William F. J. Chem. Educ. 2008, 85, 1584.
Molecular Modeling |
Molecular Properties / Structure |
Natural Products
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Molecular Models of EDTA and Other Chelating Agents William F. Coleman
EDTA and related chelating agents, including EGTA, DCTA, NTA, BAPTA, and DTPA, are this months Featured Molecules.
Coleman, William F. J. Chem. Educ. 2008, 85, 1296.
Molecular Modeling |
Molecular Properties / Structure
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A-DNA and B-DNA: Comparing Their Historical X-ray Fiber Diffraction Images Amand A. Lucas
This paper provides a comparative explanation of the structural content of the diffraction diagrams of A-DNA and B-DNA that facilitated the discovery of the double-helical structure of DNA by Watson and Crick in 1953. This analysis is supported a method that simulates both A-DNA and B-DNA X-ray images optically.
Lucas, Amand A. J. Chem. Educ. 2008, 85, 737.
Biophysical Chemistry |
Conformational Analysis |
Crystals / Crystallography |
X-ray Crystallography |
Nucleic Acids / DNA / RNA
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Reply to A. F.Photooxidation of Bilirubin to Biliverdin and Bilirubin Structure William F. Coleman
The JCE Featured Molecules Editor replies to criticisms of a previous Featured Molecule.
Coleman, William F. J. Chem. Educ. 2008, 85, 202.
Dyes / Pigments |
Photochemistry |
Molecular Properties / Structure |
Molecular Modeling
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Structures for the ABO(H) Blood Group: Which Textbook Is Correct? John M. Risley
Six textbooks and two Internet sites show different structures for the A, B, and O(H) antigens of the ABO(H) blood group, but none of them are correct. This article emphasizes the correct molecular structures because it is important to distinguish between those carbohydrates that make up the antigens and those that are not part of the antigenic structures.
Risley, John M. J. Chem. Educ. 2007, 84, 1546.
Bioorganic Chemistry |
Carbohydrates |
Natural Products |
Molecular Properties / Structure
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CARBOHYDECK: A Card Game To Teach the Stereochemistry of Carbohydrates Manuel João Costa
This paper describes CARBOHYDECK, a card game that may replace or complement lectures identifying and differentiating monosaccharide isomers.
Costa, Manuel João. J. Chem. Educ. 2007, 84, 977.
Aldehydes / Ketones |
Carbohydrates |
Molecular Properties / Structure |
Stereochemistry |
Enrichment / Review Materials |
Student-Centered Learning
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Molecular Models of DNA William F. Coleman
The Featured Molecules this month are components of DNA and include purine and pyrimidine;the four corresponding deoxyribonucleosides and deoxyribonucleotides; a two-base-pair fragment showing the AT and GC hydrogen-bonded complements; several small 24-base-pair DNA fragmentspolyAT, polyGC; and a random array of bases.
Coleman, William F. J. Chem. Educ. 2007, 84, 809.
Molecular Modeling |
Molecular Properties / Structure
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Photochemical Oxidation of Bilirubin to Biliverdin William F. Coleman
The Featured Molecules for this month are related to the photochemical oxidation of bilirubin to biliverdin. Biliverdin is a breakdown product of hemoglobin which is reduced by biliverdin reductase to bilirubin, the molecule that is responsible for neonatal jaundice.
Coleman, William F. J. Chem. Educ. 2006, 83, 1329.
Photochemistry |
Molecular Modeling |
Molecular Properties / Structure
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Using Physical Models of Biomolecular Structures To Teach Concepts of Biochemical Structure and Structure Depiction in the Introductory Chemistry Laboratory Gordon A. Bain, John Yi, Mithra Beikmohamadi, Timothy M. Herman, and Michael A. Patrick
Custom-made physical models of alpha-helices and beta-sheets, the zinc finger moiety, beta-globin, and green fluorescent protein are used to introduce students in first-year chemistry to the primary, secondary, and tertiary structure of proteins.
Bain, Gordon A.; Yi, John; Beikmohamadi, Mithra; Herman, Timothy M.; Patrick, Michael A. J. Chem. Educ. 2006, 83, 1322.
Amino Acids |
Proteins / Peptides |
Molecular Modeling |
Molecular Properties / Structure |
Nucleic Acids / DNA / RNA
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A Unique Demonstration Model of DNA Jonathan P. L. Cox
Describes a physical demonstration model of DNA for the classroom. The model comprises two types of building blocks that can be put together rapidly to produce an abstract structure that portrays several of the gross architectural features of idealized B-DNA.
Cox, Jonathan P. L. J. Chem. Educ. 2006, 83, 1319.
Molecular Biology |
Molecular Properties / Structure |
Student-Centered Learning |
Nucleic Acids / DNA / RNA
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Amino Acids William F. Coleman
The Featured Molecules this month are the 20 standard alpha-amino acids found in proteins. The molecules are presented in two formats, the neutral form and the ionized form found in solution at physiologic pH.
Coleman, William F. J. Chem. Educ. 2006, 83, 1103.
Amino Acids |
Proteins / Peptides |
Molecular Properties / Structure |
Molecular Modeling |
Molecular Mechanics / Dynamics
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Molecular Handshake: Recognition through Weak Noncovalent Interactions Parvathi S. Murthy
This article traces the development of our thinking about molecular recognition through noncovalent interactions, highlights their salient features, and suggests ways for comprehensive education on this important concept.
Murthy, Parvathi S. J. Chem. Educ. 2006, 83, 1010.
Applications of Chemistry |
Biosignaling |
Membranes |
Molecular Recognition |
Noncovalent Interactions |
Chromatography |
Molecular Properties / Structure |
Polymerization |
Reactions
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DNA Profiling of the D1S80 Locus: A Forensic Analysis for the Undergraduate Biochemistry Laboratory D. Dewaine Jackson, Chad S. Abbey, and Dylan Nugent
Describes a laboratory exercise in DNA profiling that can be used to demonstrate four fundamental procedures: isolation of genomic DNA from human cells, use of the polymerase chain reaction to amplify DNA, separation of amplified DNAs on agarose and polyacrylamide gels, and quantitative analysis of data (while comparing two different gel separation techniques).
Jackson, D. Dewaine; Abbey, Chad S.; Nugent, Dylan. J. Chem. Educ. 2006, 83, 774.
Biological Cells |
Biotechnology |
Electrophoresis |
Forensic Chemistry |
Molecular Biology |
Quantitative Analysis |
Nucleic Acids / DNA / RNA
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The Chemistry of Popcorn: Polymers of Glucose William F. Coleman
The Featured Molecules this month are all polymers of glucose and include cellobiose, maltose, 10-mer of cellulose, 40-mer of amylose, and an amylopectin fragment.
Coleman, William F. J. Chem. Educ. 2006, 83, 413.
Molecular Modeling |
Molecular Properties / Structure |
Carbohydrates
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A 3D Model of Double-Helical DNA Showing Variable Chemical Details Susan G. Cady
A 3D double-helical DNA model, made by placing beads on a wire and stringing beads through holes in plastic canvas, is described. Suggestions are given to enhance the basic helical frame to show the shapes and sizes of the nitrogenous base rings, 3' and 5' chain termini, and base pair hydrogen bonding. Students can incorporate random or real gene sequence data into their models.
Cady, Susan G. J. Chem. Educ. 2005, 82, 79.
Biotechnology |
Molecular Properties / Structure |
Molecular Modeling |
Nucleic Acids / DNA / RNA
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Chocolate: Theobromine and Caffeine William F. Coleman
Theobromine and caffeine are both methyl-xanthines. Theobromine is a smooth muscle stimulant, while caffeine is predominately a central nervous system stimulant.
Coleman, William F. J. Chem. Educ. 2004, 81, 1232.
Molecular Properties / Structure |
Molecular Modeling
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Exploring the Structure–Function Relationship of Macromolecules at the Undergraduate Level Belinda Pastrana-Rios
The undergraduate teaching initiatives discussed in this manuscript take advantage of a state-of-the-art visualization center devoted to teaching and research activities.
Pastrana-Rios, Belinda. J. Chem. Educ. 2004, 81, 837.
Molecular Properties / Structure |
Biophysical Chemistry |
Biotechnology
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A "Polypeptide Demonstrator" Addison Ault
I have used a telephone Handset Coil Cord as a simple and convenient model for the structure of a polypeptide.
Ault, Addison. J. Chem. Educ. 2004, 81, 196.
Proteins / Peptides |
Molecular Modeling |
Molecular Properties / Structure
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Some Like It Cold: A Computer-Based Laboratory Introduction to Sequence and Tertiary Structure Comparison of Cold-Adapted Lactate Dehydrogenases Using Bioinformatics Tools M. Sue Lowery and Leigh A. Plesniak
Students download sequences and structures from appropriate databases, create sequence alignments, and carry out molecular modeling exercises, and then form hypotheses about the mechanism of biochemical adaptation for function and stability. This laboratory is appropriate for biochemistry and molecular biology laboratory courses, special topics, and advanced biochemistry lecture courses, and can be adapted for honors high school programs.
Lowery, M. Sue; Plesniak, Leigh A. J. Chem. Educ. 2003, 80, 1300.
Enzymes |
Molecular Modeling |
Proteins / Peptides |
Molecular Properties / Structure
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A Structure–Activity Investigation of Photosynthetic Electron Transport. An Interdisciplinary Experiment for the First-Year Laboratory Kerry K. Karukstis, Gerald R. Van Hecke, Katherine A. Roth, and Matthew A. Burden
Investigation in which students measure the effect of several inhibitors (herbicides) on the electron transfer rate in chloroplasts and formulate a hypothesis between the inhibitor's activity and its structure as a means of using a physical technique to measure a chemical process in a biological system.
Karukstis, Kerry K.; Van Hecke, Gerald R.; Roth, Katherine A.; Burden, Matthew A. J. Chem. Educ. 2002, 79, 985.
Biophysical Chemistry |
Electrochemistry |
Noncovalent Interactions |
Molecular Properties / Structure |
UV-Vis Spectroscopy |
Aromatic Compounds |
Plant Chemistry
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News from Online: What's New with Chime? Liz Dorland
The Chime plug-in, resources, materials for student and classroom use, and structure libraries.
Dorland, Liz. J. Chem. Educ. 2002, 79, 778.
Molecular Properties / Structure
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Spontaneous Assembly of Soda Straws D. J. Campbell, E. R. Freidinger, J. M. Hastings, and M. K. Querns
Demonstrating spontaneous assembly using soda straws.
Campbell, D. J.; Freidinger, E. R.; Hastings, J. M.; Querns, M. K. J. Chem. Educ. 2002, 79, 201.
Materials Science |
Molecular Properties / Structure |
Nanotechnology |
Surface Science |
Thermodynamics
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Blood-Chemistry Tutorials: Teaching Biological Applications of General Chemistry Material Rachel E. Casiday, Dewey Holten, Richard Krathen, and Regina F. Frey
Four, Web-based tutorials that deal with chemical processes in the blood and provide an integrated biological context for a variety of chemical concepts.
Casiday, Rachel E.; Holten, Dewey; Krathen, Richard; Frey, Regina F. J. Chem. Educ. 2001, 78, 1210.
Applications of Chemistry |
Medicinal Chemistry |
Proteins / Peptides |
Acids / Bases |
Equilibrium |
Molecular Properties / Structure
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Protein Structure Wordsearch Terry L. Helser
Puzzle with 37 names, terms, prefixes, and acronyms that describe protein structure.
Helser, Terry L. J. Chem. Educ. 2001, 78, 474.
Proteins / Peptides |
Nomenclature / Units / Symbols |
Molecular Properties / Structure
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Genomics: The Science and Technology Behind the Human Genome Project (by Charles R. Cantor and Cassandra L. Smith) reviewed by Martin J. Serra
This book is an outgrowth of a series of lectures given by one of the former heads (CRC) of the Human Genome Initiative. The book is designed to reach a wide audience, from biologists with little chemical or physical science background through engineers, computer scientists, and physicists with little current exposure to the chemical or biological principles of genetics.
Serra, Martin J. J. Chem. Educ. 2000, 77, 33.
Biotechnology |
Nucleic Acids / DNA / RNA
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Liver and Onions: DNA Extraction from Animal and Plant Tissues Karen J. Nordell, Anne-Marie L. Jackelen, S. Michael Condren, George C. Lisensky, and Arthur B. Ellis*
This activity, which allows students to extract DNA from plant and animal cells, serves as a spectacular example of the complexity of biochemical structure and function and fits well with a discussion of nucleic acids, hydrogen bonding, genetic coding, and heredity. DNA extraction can also be used in conjunction with a discussion of polymers and their properties.
Nordell, Karen J.; Jackelen, Anne-Marie L.; Condren, S. Michael; Lisensky, George C.; Ellis, Arthur B. J. Chem. Educ. 1999, 76, 400A.
Hydrogen Bonding |
Molecular Properties / Structure |
Nucleic Acids / DNA / RNA
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Portraying the Structure of Micelles F. M. Menger, R. Zana, and B. Lindman
The schematic of a micelle is given as an attempt to "disprove" the appearance of the spokes of a wheel.
Menger, F. M.; Zana, R.; Lindman, B. J. Chem. Educ. 1998, 75, 115.
Micelles |
Molecular Properties / Structure |
Molecular Modeling
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A Simple Demonstration of How Intermolecular Forces Make DNA Helical Michael F. Bruist
The usage of stacked identical boxes can be used to demonstrate the helical shape of DNA by the effect of intermolecular forces.
Bruist, Michael F. J. Chem. Educ. 1998, 75, 53.
Molecular Properties / Structure |
Hydrogen Bonding |
Noncovalent Interactions |
Molecular Modeling
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Fostering Curiosity-Driven Learning through Interactive Multimedia Representations of Biological Molecules Abby L. Parrill and Jacquelyn Gervay
A series of QuickTime movies have been developed and are available over the World Wide Web (WWW) to help evoke student curiosity about organic chemistry. When viewed in series the movies start with a 'big picture' view based on crystallographic data and narrow in on the basic concepts needed to understand that scientific observation.
Parrill, Abby L.; Gervay, Jacquelyn. J. Chem. Educ. 1997, 74, 1141.
Molecular Properties / Structure |
Molecular Modeling
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Low Cost 3-D Viewing of Chemical Structures Wong, Yue-Ling; Yip, Ching-Wan
Generating 3-D stereoscopic projections using a anaglyphic (red-blue) pair processed with Adobe PhotoShop.
Wong, Yue-Ling; Yip, Ching-Wan J. Chem. Educ. 1995, 72, A237.
Molecular Modeling |
Molecular Properties / Structure
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Visual Basic and Dynamic Data Exchange: Controlling Windows Applications Porter, Timothy L.; Maxka, Jim; Abes, John
Description of general methods of controlling HyperChem through Visual Basic and dynamic data exchange (DDE).
Timothy L. Porter; Jim Maxka and John Abes. J. Chem. Educ. 1995, 72, A236.
Molecular Modeling |
Molecular Properties / Structure
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A method for building simple physical models: Representing the structures of nucleic acids Benedetti, Giorgio; Morosetti, Stefano.
A low-resolution model made from inexpensive and common materials that retains the essentials structural features of a three-dimensional high-resolution structure.
Benedetti, Giorgio; Morosetti, Stefano. J. Chem. Educ. 1992, 69, 569.
Molecular Properties / Structure |
Molecular Modeling
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Viewing stereo drawings Srinivasan, A. R.; Olson, Wilma K.
Using stereo triptych representations in place of conventional stereo diagrams.
Srinivasan, A. R.; Olson, Wilma K. J. Chem. Educ. 1989, 66, 664.
Molecular Properties / Structure |
Stereochemistry
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A simple qualitative technique for pattern recognition in structure-activity relationships Roy, Glenn
Acetate Overlay Repeating Topology Assay (AORTA) provides an inexpensive way to introduce high school or college students to the ever expanding library of structure-taste relationships without the need of a computer.
Roy, Glenn J. Chem. Educ. 1989, 66, 435.
Qualitative Analysis |
Molecular Properties / Structure |
Aromatic Compounds
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The catalytic function of enzymes Splittgerber, Allan G.
Review of the structure, function, and factors that influence the action of enzymes.
Splittgerber, Allan G. J. Chem. Educ. 1985, 62, 1008.
Catalysis |
Enzymes |
Mechanisms of Reactions |
Proteins / Peptides |
Molecular Properties / Structure
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A useful model for the "lock and key" analogy Fenster, Ariel E.; Harpp, David N.; Schwarcz, Joseph A.
A model that nicely illustrates this principle is the "SOMA" puzzle cube.
Fenster, Ariel E.; Harpp, David N.; Schwarcz, Joseph A. J. Chem. Educ. 1984, 61, 967.
Molecular Modeling |
Molecular Properties / Structure |
Molecular Recognition |
Enzymes
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[Brand] rand the name with the linkage of the same Garrett, James M.
Tool for helping to remember the configuration of the glucosidic linkages in maltose and cellobiose.
Garrett, James M. J. Chem. Educ. 1984, 61, 665.
Carbohydrates |
Molecular Properties / Structure
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Protein denaturation: A physical chemistry project lab Pickering, Miles; Crabtree, Robert H.
This experiment links physical chemistry with biology and can be done with in advanced freshman course.
Pickering, Miles; Crabtree, Robert H. J. Chem. Educ. 1981, 58, 513.
Proteins / Peptides |
Biophysical Chemistry |
Molecular Properties / Structure
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Compact Compacts Huebner, Jay S.; Shiflett, R. B.; Blanck, Harvey F.
A collection of three suggestions regarding demonstrating the oxidation of hydrocarbons and the primary, secondary, and tertiary structure of proteins and the first law of thermodynamics as applied to air conditioning.
Huebner, Jay S.; Shiflett, R. B.; Blanck, Harvey F. J. Chem. Educ. 1979, 56, 389.
Oxidation / Reduction |
Alkanes / Cycloalkanes |
Molecular Properties / Structure |
Proteins / Peptides |
Thermodynamics
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Compact compact Nelson, Gregory V.
Using a cardboard mailing tube to demonstrate the rigidity of the folding pattern and the flexibility of a non-helical region in a protein.
Nelson, Gregory V. J. Chem. Educ. 1977, 54, 578.
Molecular Modeling |
Molecular Properties / Structure |
Proteins / Peptides
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New skeletal-space-filling models. A model of an enzyme active site Clarke, Frank H.
Reviews the molecular modeling systems available for representing organic and biochemical structures; includes requirements and coordinates for a model of the alpha chymotrypsin active site.
Clarke, Frank H. J. Chem. Educ. 1977, 54, 230.
Molecular Properties / Structure |
Enzymes |
Molecular Modeling |
Molecular Recognition
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Non-covalent interactions: Key to biological flexibility and specificity Frieden, Earl
Summarizes the types of non-covalent interactions found among biomolecules and how they facilitate the function of antibodies, hormones, and hemoglobin.
Frieden, Earl J. Chem. Educ. 1975, 52, 754.
Noncovalent Interactions |
Hydrogen Bonding |
Water / Water Chemistry |
Proteins / Peptides |
Amino Acids |
Molecular Properties / Structure |
Hormones
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Strand polarity: Antiparallel molecular interactions in nucleic acids Davidson, Michael W.; Wilson, W. David
121. The illustrations in many biochemistry textbooks indicates a parallel polarity in DNA, but in truth DNA is antiparallel.
Davidson, Michael W.; Wilson, W. David J. Chem. Educ. 1975, 52, 323.
Molecular Properties / Structure
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The helix coil transition of DNA Steinert, Roger; Hudson, Bruce
The design and use of a photometer to detect the transition of DNA from the double helix to random coil form.
Steinert, Roger; Hudson, Bruce J. Chem. Educ. 1973, 50, 129.
Molecular Properties / Structure |
Photochemistry |
Spectroscopy |
Laboratory Equipment / Apparatus
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Questions [and] Answers Campbell, J. A.
Five questions requiring an application of chemical principles and their solutions.
Campbell, J. A. J. Chem. Educ. 1973, 50, 128.
Enrichment / Review Materials |
Proteins / Peptides |
pH |
Carbohydrates |
Molecular Properties / Structure
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The chlorophyll cat Hardcastle, J. E.
A short poem and cartoon representation of the chlorophyll structure.
Hardcastle, J. E. J. Chem. Educ. 1972, 49, 364.
Plant Chemistry |
Photosynthesis |
Molecular Properties / Structure |
Proteins / Peptides
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Hydrogen sulfide under any other name still smells. A poisonous story Brasted, Robert C.
The chemistry of hydrogen sulfide affords an excellent opportunity to integrate descriptive inorganic and coordination chemistry with biochemistry.
Brasted, Robert C. J. Chem. Educ. 1970, 47, 574.
Descriptive Chemistry |
Molecular Properties / Structure |
Coordination Compounds |
Enzymes |
Proteins / Peptides
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A weevil's loss is our gain or sex strikes the pages on the Journal. Brasted, Robert C.
The trans-isomer of the boll weevil sex attractant is a million times more active than the cis-isomer.
Brasted, Robert C. J. Chem. Educ. 1970, 47, 447.
Natural Products |
Diastereomers |
Molecular Properties / Structure |
Agricultural Chemistry |
Applications of Chemistry
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Simple construction to determine protein molecular weights by the osmotic pressure method Candlish, John K.
This short note presents a simple device to determine protein molecular weights through osmotic pressure.
Candlish, John K. J. Chem. Educ. 1968, 45, 93.
Molecular Properties / Structure |
Proteins / Peptides |
Physical Properties
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Schematic models of biochemical polymers Blackwell, R. Quentin
Demonstrates the use of plastic necklace beads to represent polysaccharides, peptides and proteins, and nucleotides.
Blackwell, R. Quentin J. Chem. Educ. 1957, 34, 500.
Molecular Modeling |
Molecular Properties / Structure |
Proteins / Peptides |
Carbohydrates
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Model of the alpha helix configuration in polypeptides Whalen, Thomas A.
The alpha helix configuration in polypeptides is modeled using sheets of ordinary paper.
Whalen, Thomas A. J. Chem. Educ. 1957, 34, 136.
Molecular Modeling |
Molecular Properties / Structure |
Proteins / Peptides
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Potentialities of protein isomerism Asimov, Isaac
The permutations generated by structural isomerism in proteins could be demonstrated more convincingly and realistically if the amino acid compositions of actual proteins were taken into consideration.
Asimov, Isaac J. Chem. Educ. 1954, 31, 125.
Proteins / Peptides |
Molecular Properties / Structure |
Amino Acids |
Constitutional Isomers
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