European Chemicals Agency
The European Chemicals Agency is an agency of the European Union which manages the technical and administrative aspects of the implementation of the European Union regulation called Registration, Evaluation and Restriction of Chemicals. ECHA is the driving force among regulatory authorities in implementing the EU's chemicals legislation. ECHA helps companies to comply with the legislation, advances the safe use of chemicals, provides information on chemicals and addresses chemicals of concern, it is located in Finland. The agency headed by Executive Director Bjorn Hansen, started working on 1 June 2007; the REACH Regulation requires companies to provide information on the hazards and safe use of chemical substances that they manufacture or import. Companies register this information with ECHA and it is freely available on their website. So far, thousands of the most hazardous and the most used substances have been registered; the information is technical but gives detail on the impact of each chemical on people and the environment.
This gives European consumers the right to ask retailers whether the goods they buy contain dangerous substances. The Classification and Packaging Regulation introduces a globally harmonised system for classifying and labelling chemicals into the EU; this worldwide system makes it easier for workers and consumers to know the effects of chemicals and how to use products safely because the labels on products are now the same throughout the world. Companies need to notify ECHA of the labelling of their chemicals. So far, ECHA has received over 5 million notifications for more than 100 000 substances; the information is available on their website. Consumers can check chemicals in the products. Biocidal products include, for example, insect disinfectants used in hospitals; the Biocidal Products Regulation ensures that there is enough information about these products so that consumers can use them safely. ECHA is responsible for implementing the regulation; the law on Prior Informed Consent sets guidelines for the import of hazardous chemicals.
Through this mechanism, countries due to receive hazardous chemicals are informed in advance and have the possibility of rejecting their import. Substances that may have serious effects on human health and the environment are identified as Substances of Very High Concern 1; these are substances which cause cancer, mutation or are toxic to reproduction as well as substances which persist in the body or the environment and do not break down. Other substances considered. Companies manufacturing or importing articles containing these substances in a concentration above 0,1% weight of the article, have legal obligations, they are required to inform users about the presence of the substance and therefore how to use it safely. Consumers have the right to ask the retailer whether these substances are present in the products they buy. Once a substance has been identified in the EU as being of high concern, it will be added to a list; this list is available on ECHA's website and shows consumers and industry which chemicals are identified as SVHCs.
Substances placed on the Candidate List can move to another list. This means that, after a given date, companies will not be allowed to place the substance on the market or to use it, unless they have been given prior authorisation to do so by ECHA. One of the main aims of this listing process is to phase out SVHCs where possible. In its 2018 substance evaluation progress report, ECHA said chemical companies failed to provide “important safety information” in nearly three quarters of cases checked that year. "The numbers show a similar picture to previous years" the report said. The agency noted that member states need to develop risk management measures to control unsafe commercial use of chemicals in 71% of the substances checked. Executive Director Bjorn Hansen called non-compliance with REACH a "worry". Industry group CEFIC acknowledged the problem; the European Environmental Bureau called for faster enforcement to minimise chemical exposure. European Chemicals Bureau Official website
The Jmol applet, among other abilities, offers an alternative to the Chime plug-in, no longer under active development. While Jmol has many features that Chime lacks, it does not claim to reproduce all Chime functions, most notably, the Sculpt mode. Chime requires plug-in installation and Internet Explorer 6.0 or Firefox 2.0 on Microsoft Windows, or Netscape Communicator 4.8 on Mac OS 9. Jmol operates on a wide variety of platforms. For example, Jmol is functional in Mozilla Firefox, Internet Explorer, Google Chrome, Safari. Chemistry Development Kit Comparison of software for molecular mechanics modeling Jmol extension for MediaWiki List of molecular graphics systems Molecular graphics Molecule editor Proteopedia PyMOL SAMSON Official website Wiki with listings of websites and moodles Willighagen, Egon. "Fast and Scriptable Molecular Graphics in Web Browsers without Java3D". Doi:10.1038/npre.2007.50.1
Simplified molecular-input line-entry system
The simplified molecular-input line-entry system is a specification in the form of a line notation for describing the structure of chemical species using short ASCII strings. SMILES strings can be imported by most molecule editors for conversion back into two-dimensional drawings or three-dimensional models of the molecules; the original SMILES specification was initiated in the 1980s. It has since been extended. In 2007, an open standard called. Other linear notations include the Wiswesser line notation, ROSDAL, SYBYL Line Notation; the original SMILES specification was initiated by David Weininger at the USEPA Mid-Continent Ecology Division Laboratory in Duluth in the 1980s. Acknowledged for their parts in the early development were "Gilman Veith and Rose Russo and Albert Leo and Corwin Hansch for supporting the work, Arthur Weininger and Jeremy Scofield for assistance in programming the system." The Environmental Protection Agency funded the initial project to develop SMILES. It has since been modified and extended by others, most notably by Daylight Chemical Information Systems.
In 2007, an open standard called "OpenSMILES" was developed by the Blue Obelisk open-source chemistry community. Other'linear' notations include the Wiswesser Line Notation, ROSDAL and SLN. In July 2006, the IUPAC introduced the InChI as a standard for formula representation. SMILES is considered to have the advantage of being more human-readable than InChI; the term SMILES refers to a line notation for encoding molecular structures and specific instances should be called SMILES strings. However, the term SMILES is commonly used to refer to both a single SMILES string and a number of SMILES strings; the terms "canonical" and "isomeric" can lead to some confusion when applied to SMILES. The terms are not mutually exclusive. A number of valid SMILES strings can be written for a molecule. For example, CCO, OCC and CC all specify the structure of ethanol. Algorithms have been developed to generate the same SMILES string for a given molecule; this SMILES is unique for each structure, although dependent on the canonicalization algorithm used to generate it, is termed the canonical SMILES.
These algorithms first convert the SMILES to an internal representation of the molecular structure. Various algorithms for generating canonical SMILES have been developed and include those by Daylight Chemical Information Systems, OpenEye Scientific Software, MEDIT, Chemical Computing Group, MolSoft LLC, the Chemistry Development Kit. A common application of canonical SMILES is indexing and ensuring uniqueness of molecules in a database; the original paper that described the CANGEN algorithm claimed to generate unique SMILES strings for graphs representing molecules, but the algorithm fails for a number of simple cases and cannot be considered a correct method for representing a graph canonically. There is no systematic comparison across commercial software to test if such flaws exist in those packages. SMILES notation allows the specification of configuration at tetrahedral centers, double bond geometry; these are structural features that cannot be specified by connectivity alone and SMILES which encode this information are termed isomeric SMILES.
A notable feature of these rules is. The term isomeric SMILES is applied to SMILES in which isotopes are specified. In terms of a graph-based computational procedure, SMILES is a string obtained by printing the symbol nodes encountered in a depth-first tree traversal of a chemical graph; the chemical graph is first trimmed to remove hydrogen atoms and cycles are broken to turn it into a spanning tree. Where cycles have been broken, numeric suffix labels are included to indicate the connected nodes. Parentheses are used to indicate points of branching on the tree; the resultant SMILES form depends on the choices: of the bonds chosen to break cycles, of the starting atom used for the depth-first traversal, of the order in which branches are listed when encountered. Atoms are represented by the standard abbreviation of the chemical elements, in square brackets, such as for gold. Brackets may be omitted in the common case of atoms which: are in the "organic subset" of B, C, N, O, P, S, F, Cl, Br, or I, have no formal charge, have the number of hydrogens attached implied by the SMILES valence model, are the normal isotopes, are not chiral centers.
All other elements must be enclosed in brackets, have charges and hydrogens shown explicitly. For instance, the SMILES for water may be written as either O or. Hydrogen may be written as a separate atom; when brackets are used, the symbol H is added if the atom in brackets is bonded to one or more hydrogen, followed by the number of hydrogen atoms if greater than 1 by the sign + for a positive charge or by - for a negative charge. For example, for ammonium. If there is more than one charge, it is written as digit.
In mathematics and chemistry, a space group is the symmetry group of a configuration in space in three dimensions. In three dimensions, there are 230 if chiral copies are considered distinct. Space groups are studied in dimensions other than 3 where they are sometimes called Bieberbach groups, are discrete cocompact groups of isometries of an oriented Euclidean space. In crystallography, space groups are called the crystallographic or Fedorov groups, represent a description of the symmetry of the crystal. A definitive source regarding 3-dimensional space groups is the International Tables for Crystallography. Space groups in 2 dimensions are the 17 wallpaper groups which have been known for several centuries, though the proof that the list was complete was only given in 1891, after the much more difficult classification of space groups had been completed. In 1879 Leonhard Sohncke listed the 65 space groups. More he listed 66 groups, but Fedorov and Schönflies both noticed that two of them were the same.
The space groups in three dimensions were first enumerated by Fedorov, shortly afterwards were independently enumerated by Schönflies. The correct list of 230 space groups was found by 1892 during correspondence between Fedorov and Schönflies. Barlow enumerated the groups with a different method, but omitted four groups though he had the correct list of 230 groups from Fedorov and Schönflies. Burckhardt describes the history of the discovery of the space groups in detail; the space groups in three dimensions are made from combinations of the 32 crystallographic point groups with the 14 Bravais lattices, each of the latter belonging to one of 7 lattice systems. This results in a space group being some combination of the translational symmetry of a unit cell including lattice centering, the point group symmetry operations of reflection and improper rotation, the screw axis and glide plane symmetry operations; the combination of all these symmetry operations results in a total of 230 different space groups describing all possible crystal symmetries.
The elements of the space group fixing a point of space are the identity element, reflections and improper rotations. The translations form a normal abelian subgroup of rank 3, called the Bravais lattice. There are 14 possible types of Bravais lattice; the quotient of the space group by the Bravais lattice is a finite group, one of the 32 possible point groups. Translation is defined as the face moves from one point to another point. A glide plane is a reflection in a plane, followed by a translation parallel with that plane; this is noted depending on which axis the glide is along. There is the n glide, a glide along the half of a diagonal of a face, the d glide, a fourth of the way along either a face or space diagonal of the unit cell; the latter is called the diamond glide plane. In 17 space groups, due to the centering of the cell, the glides occur in two perpendicular directions i.e. the same glide plane can be called b or c, a or b, a or c. For example, group Abm2 could be called Acm2, group Ccca could be called Cccb.
In 1992, it was suggested to use symbol e for such planes. The symbols for five space groups have been modified: A screw axis is a rotation about an axis, followed by a translation along the direction of the axis; these are noted by a number, n, to describe the degree of rotation, where the number is how many operations must be applied to complete a full rotation. The degree of translation is added as a subscript showing how far along the axis the translation is, as a portion of the parallel lattice vector. So, 21 is a twofold rotation followed by a translation of 1/2 of the lattice vector; the general formula for the action of an element of a space group is y = M.x + D where M is its matrix, D is its vector, where the element transforms point x into point y. In general, D = D + D, where D is a unique function of M, zero for M being the identity; the matrices M form a point group, a basis of the space group. The lattice dimension can be less than the overall dimension, resulting in a "subperiodic" space group.
For:: One-dimensional line groups: Two-dimensional line groups: frieze groups: Wallpaper groups: Three-dimensional line groups. Some of these methods can assign several different names to the same space group, so altogether there are many thousands of different names. Number; the International Union of Crystallography publishes tables of all space group types, assigns each a unique number from 1 to 230. The numbering is arbitrary, except that groups with the same crystal system or point group are given consecutive numbers. International symbol or Hermann–Mauguin notation; the Hermann–Mauguin notation describes the lattice and some generators for the group. It has a shortened form called the international short symbol, the one most used in crystallography
A chemical compound is a chemical substance composed of many identical molecules composed of atoms from more than one element held together by chemical bonds. A chemical element bonded to an identical chemical element is not a chemical compound since only one element, not two different elements, is involved. There are four types of compounds, depending on how the constituent atoms are held together: molecules held together by covalent bonds ionic compounds held together by ionic bonds intermetallic compounds held together by metallic bonds certain complexes held together by coordinate covalent bonds. A chemical formula is a way of expressing information about the proportions of atoms that constitute a particular chemical compound, using the standard abbreviations for the chemical elements, subscripts to indicate the number of atoms involved. For example, water is composed of two hydrogen atoms bonded to one oxygen atom: the chemical formula is H2O. Many chemical compounds have a unique numerical identifier assigned by the Chemical Abstracts Service: its CAS number.
A compound can be converted to a different chemical composition by interaction with a second chemical compound via a chemical reaction. In this process, bonds between atoms are broken in both of the interacting compounds, bonds are reformed so that new associations are made between atoms. Any substance consisting of two or more different types of atoms in a fixed stoichiometric proportion can be termed a chemical compound, it follows from their being composed of fixed proportions of two or more types of atoms that chemical compounds can be converted, via chemical reaction, into compounds or substances each having fewer atoms. The ratio of each element in the compound is expressed in a ratio in its chemical formula. A chemical formula is a way of expressing information about the proportions of atoms that constitute a particular chemical compound, using the standard abbreviations for the chemical elements, subscripts to indicate the number of atoms involved. For example, water is composed of two hydrogen atoms bonded to one oxygen atom: the chemical formula is H2O.
In the case of non-stoichiometric compounds, the proportions may be reproducible with regard to their preparation, give fixed proportions of their component elements, but proportions that are not integral. Chemical compounds have a unique and defined chemical structure held together in a defined spatial arrangement by chemical bonds. Chemical compounds can be molecular compounds held together by covalent bonds, salts held together by ionic bonds, intermetallic compounds held together by metallic bonds, or the subset of chemical complexes that are held together by coordinate covalent bonds. Pure chemical elements are not considered chemical compounds, failing the two or more atom requirement, though they consist of molecules composed of multiple atoms. Many chemical compounds have a unique numerical identifier assigned by the Chemical Abstracts Service: its CAS number. There is varying and sometimes inconsistent nomenclature differentiating substances, which include non-stoichiometric examples, from chemical compounds, which require the fixed ratios.
Many solid chemical substances—for example many silicate minerals—are chemical substances, but do not have simple formulae reflecting chemically bonding of elements to one another in fixed ratios. It may be argued that they are related to, rather than being chemical compounds, insofar as the variability in their compositions is due to either the presence of foreign elements trapped within the crystal structure of an otherwise known true chemical compound, or due to perturbations in structure relative to the known compound that arise because of an excess of deficit of the constituent elements at places in its structure. Other compounds regarded as chemically identical may have varying amounts of heavy or light isotopes of the constituent elements, which changes the ratio of elements by mass slightly. Compounds are held together through a variety of different types of bonding and forces; the differences in the types of bonds in compounds differ based on the types of elements present in the compound.
London dispersion forces are the weakest force of all intermolecular forces. They are temporary attractive forces that form when the electrons in two adjacent atoms are positioned so that they create a temporary dipole. Additionally, London dispersion forces are responsible for condensing non polar substances to liquids, to further freeze to a solid state dependent on how low the temperature of the environment is. A covalent bond known as a molecular bond, involves the sharing of electrons between two atoms; this type of bond occurs between elements that fall close to each other on the periodic table of elements, yet it is observed between some metals and nonmetals. This is due to the mechanism of this type of bond. Elements that fall close to each other on the periodic table tend to have similar electronegativities, which means they have a similar affinity for electrons. Since neither element has a stronger affinity to donate or gain electrons, it causes the elements to share electrons so both elements have a more stable octet.
Ionic bonding occurs when valence electrons are transferred between elements. Opposite to covalent bonding, this chemical bond creates two oppositely charged ions; the metals in ionic bonding
The melting point of a substance is the temperature at which it changes state from solid to liquid. At the melting point the solid and liquid phase exist in equilibrium; the melting point of a substance depends on pressure and is specified at a standard pressure such as 1 atmosphere or 100 kPa. When considered as the temperature of the reverse change from liquid to solid, it is referred to as the freezing point or crystallization point; because of the ability of some substances to supercool, the freezing point is not considered as a characteristic property of a substance. When the "characteristic freezing point" of a substance is determined, in fact the actual methodology is always "the principle of observing the disappearance rather than the formation of ice", that is, the melting point. For most substances and freezing points are equal. For example, the melting point and freezing point of mercury is 234.32 kelvins. However, certain substances possess differing solid-liquid transition temperatures.
For example, agar melts at 85 °C and solidifies from 31 °C. The melting point of ice at 1 atmosphere of pressure is close to 0 °C. In the presence of nucleating substances, the freezing point of water is not always the same as the melting point. In the absence of nucleators water can exist as a supercooled liquid down to −48.3 °C before freezing. The chemical element with the highest melting point is tungsten, at 3,414 °C; the often-cited carbon does not melt at ambient pressure but sublimes at about 3,726.85 °C. Tantalum hafnium carbide is a refractory compound with a high melting point of 4215 K. At the other end of the scale, helium does not freeze at all at normal pressure at temperatures arbitrarily close to absolute zero. Many laboratory techniques exist for the determination of melting points. A Kofler bench is a metal strip with a temperature gradient. Any substance can be placed on a section of the strip, revealing its thermal behaviour at the temperature at that point. Differential scanning calorimetry gives information on melting point together with its enthalpy of fusion.
A basic melting point apparatus for the analysis of crystalline solids consists of an oil bath with a transparent window and a simple magnifier. The several grains of a solid are placed in a thin glass tube and immersed in the oil bath; the oil bath is heated and with the aid of the magnifier melting of the individual crystals at a certain temperature can be observed. In large/small devices, the sample is placed in a heating block, optical detection is automated; the measurement can be made continuously with an operating process. For instance, oil refineries measure the freeze point of diesel fuel online, meaning that the sample is taken from the process and measured automatically; this allows for more frequent measurements as the sample does not have to be manually collected and taken to a remote laboratory. For refractory materials the high melting point may be determined by heating the material in a black body furnace and measuring the black-body temperature with an optical pyrometer. For the highest melting materials, this may require extrapolation by several hundred degrees.
The spectral radiance from an incandescent body is known to be a function of its temperature. An optical pyrometer matches the radiance of a body under study to the radiance of a source, calibrated as a function of temperature. In this way, the measurement of the absolute magnitude of the intensity of radiation is unnecessary. However, known temperatures must be used to determine the calibration of the pyrometer. For temperatures above the calibration range of the source, an extrapolation technique must be employed; this extrapolation is accomplished by using Planck's law of radiation. The constants in this equation are not known with sufficient accuracy, causing errors in the extrapolation to become larger at higher temperatures. However, standard techniques have been developed to perform this extrapolation. Consider the case of using gold as the source. In this technique, the current through the filament of the pyrometer is adjusted until the light intensity of the filament matches that of a black-body at the melting point of gold.
This establishes the primary calibration temperature and can be expressed in terms of current through the pyrometer lamp. With the same current setting, the pyrometer is sighted on another black-body at a higher temperature. An absorbing medium of known transmission is inserted between this black-body; the temperature of the black-body is adjusted until a match exists between its intensity and that of the pyrometer filament. The true higher temperature of the black-body is determined from Planck's Law; the absorbing medium is removed and the current through the filament is adjusted to match the filament intensity to that of the black-body. This establishes a second calibration point for the pyrometer; this step is repeated to carry the calibration to hi
Gibbs free energy
In thermodynamics, the Gibbs free energy is a thermodynamic potential that can be used to calculate the maximum of reversible work that may be performed by a thermodynamic system at a constant temperature and pressure. The Gibbs free energy is the maximum amount of non-expansion work that can be extracted from a thermodynamically closed system; when a system transforms reversibly from an initial state to a final state, the decrease in Gibbs free energy equals the work done by the system to its surroundings, minus the work of the pressure forces. The Gibbs energy is the thermodynamic potential, minimized when a system reaches chemical equilibrium at constant pressure and temperature, its derivative with respect to the reaction coordinate of the system vanishes at the equilibrium point. As such, a reduction in G is a necessary condition for the spontaneity of processes at constant pressure and temperature; the Gibbs free energy called available energy, was developed in the 1870s by the American scientist Josiah Willard Gibbs.
In 1873, Gibbs described this "available energy" as the greatest amount of mechanical work which can be obtained from a given quantity of a certain substance in a given initial state, without increasing its total volume or allowing heat to pass to or from external bodies, except such as at the close of the processes are left in their initial condition. The initial state of the body, according to Gibbs, is supposed to be such that "the body can be made to pass from it to states of dissipated energy by reversible processes". In his 1876 magnum opus On the Equilibrium of Heterogeneous Substances, a graphical analysis of multi-phase chemical systems, he engaged his thoughts on chemical free energy in full. According to the second law of thermodynamics, for systems reacting at STP, there is a general natural tendency to achieve a minimum of the Gibbs free energy. A quantitative measure of the favorability of a given reaction at constant temperature and pressure is the change ΔG in Gibbs free energy, caused by the reaction.
As a necessary condition for the reaction to occur at constant temperature and pressure, ΔG must be smaller than the non-PV work, equal to zero. ΔG equals the maximum amount of non-PV work that can be performed as a result of the chemical reaction for the case of reversible process. If the analysis indicated a positive ΔG for the reaction energy — in the form of electrical or other non-PV work — would have to be added to the reacting system for ΔG to be smaller than the non-PV work and make it possible for the reaction to occur. We can think of ∆G as the amount of "free" or "useful" energy available to do work; the equation can be seen from the perspective of the system taken together with its surroundings. First, assume that the given reaction at constant temperature and pressure is the only one, occurring; the entropy released or absorbed by the system equals the entropy that the environment must absorb or release, respectively. The reaction will only be allowed if the total entropy change of the universe is positive.
This is reflected in a negative ΔG, the reaction is called exergonic. If we couple reactions an otherwise endergonic chemical reaction can be made to happen; the input of heat into an inherently endergonic reaction, such as the elimination of cyclohexanol to cyclohexene, can be seen as coupling an unfavourable reaction to a favourable one such that the total entropy change of the universe is greater than or equal to zero, making the total Gibbs free energy difference of the coupled reactions negative. In traditional use, the term "free" was included in "Gibbs free energy" to mean "available in the form of useful work"; the characterization becomes more precise if we add the qualification that it is the energy available for non-volume work.. However, an increasing number of books and journal articles do not include the attachment "free", referring to G as "Gibbs energy"; this is the result of a 1988 IUPAC meeting to set unified terminologies for the international scientific community, in which the adjective "free" was banished.
This standard, has not yet been universally adopted. The quantity called "free energy" is a more advanced and accurate replacement for the outdated term affinity, used by chemists in the earlier years of physical chemistry to describe the force that caused chemical reactions. In 1873, Willard Gibbs published A Method of Geometrical Representation of the Thermodynamic Properties of Substances by Means of Surfaces, in which he sketched the principles of his new equation, able to predict or estimate the tendencies of various natural processes to ensue when bodies or systems are brought into contact. By studying the interactions of homogeneous substances in contact, i.e. bodies composed of part solid, part liquid, part vapor, by using a three-dimensional volume-entropy-internal energy graph, Gibbs was able to determine three states of equilibrium, i.e. "necessarily stable", "neutral", "unstable", whether or not changes woul