RNA

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Posted by forex | Posted in | Posted on 7:39:00 am

RNA

Ribonucleic acid (RNA) is a biologically important type of molecule that consists of a long chain of nucleotide units. Each nucleotide consists of a nitrogenous base, a ribose sugar, and a phosphate. RNA is very similar to DNA, but differs in a few important structural details: in the cell, RNA is usually single-stranded, while DNA is usually double-stranded; RNA nucleotides contain ribose while DNA contains deoxyribose (a type of ribose that lacks one oxygen atom); and RNA has the base uracil rather than thymine that is present in DNA.

RNA is transcribed from DNA by enzymes called RNA polymerases and is generally further processed by other enzymes. RNA is central to protein synthesis. Here, a type of RNA called messenger RNA carries information from DNA to structures called ribosomes. These ribosomes are made from proteins and ribosomal RNAs, which come together to form a molecular machine that can read messenger RNAs and translate the information they carry into proteins. There are many RNAs with other roles – in particular regulating which genes are expressed, but also as the genomes of most viruses.


Structure


Each nucleotide in RNA contains a ribose sugar, with carbons numbered 1' through 5'. A base is attached to the 1' position, generally adenine (A), cytosine (C), guanine (G) or uracil (U). Adenine and guanine arepurines, cytosine and uracil are pyrimidines. A phosphate group is attached to the 3' position of one ribose and the 5' position of the next. The phosphate groups have a negative charge each at physiological pH, making RNA a charged molecule (polyanion). The bases may form hydrogen bonds between cytosine and guanine, between adenine and uracil and between guanine and uracil.[1] However other interactions are possible, such as a group of adenine bases binding to each other in a bulge,or the GNRA tetraloop that has a guanine–adenine base-pair.

Chemical structure of RNA

An important structural feature of RNA that distinguishes it from DNA is the presence of a hydroxyl group at the 2' position of the ribose sugar. The presence of this functional group causes the helix to adopt the A-form geometry rather than the B-form most commonly observed in DNA.[3] This results in a very deep and narrow major groove and a shallow and wide minor groove.A second consequence of the presence of the 2'-hydroxyl group is that in conformationally flexible regions of an RNA molecule (that is, not involved in formation of a double helix), it can chemically attack the adjacent phosphodiester bond to cleave the backbone.

Secondary structure of a telomerase RNA.

RNA is transcribed with only four bases (adenine, cytosine, guanine and uracil),but there are numerous modified bases and sugars in mature RNAs. Pseudouridine (Ψ), in which the linkage between uracil and ribose is changed from a C–N bond to a C–C bond, and ribothymidine (T), are found in various places (most notably in the TΨC loop of tRNA).Another notable modified base is hypoxanthine, a deaminated adenine base whose nucleoside is called inosine (I). Inosine plays a key role in the wobble hypothesis of the genetic code.There are nearly 100 other naturally occurring modified nucleosides, of which pseudouridine and nucleosides with 2'-O-methylriboseare the most common.The specific roles of many of these modifications in RNA are not fully understood. However, it is notable that in ribosomal RNA, many of the post-transcriptional modifications occur in highly functional regions, such as the peptidyl transferase center and the subunit interface, implying that they are important for normal function.

The functional form of single stranded RNA molecules, just like proteins, frequently requires a specific tertiary structure. The scaffold for this structure is provided bysecondary structural elements which are hydrogen bonds within the molecule. This leads to several recognizable "domains" of secondary structure like hairpin loops, bulges and internal loops.Since RNA is charged, metal ions such as Mg2+ are needed to stabilise many secondary and tertiary structures.

Comparison with DNA

RNA and DNA are both nucleic acids, but differ in three main ways. First, unlike DNA which is double-stranded, RNA is a single-stranded molecule in most of its biological roles and has a much shorter chain of nucleotides. Second, while DNA contains deoxyribose, RNA contains ribose (there is no hydroxyl group attached to the pentose ring in the 2' position in DNA). These hydroxyl groups make RNA less stable than DNA because it is more prone to hydrolysis. Third, the complementary base to adenine is not thymine, as it is in DNA, but rather uracil, which is an unmethylated form of thymine.

The 50S ribosomal subunit. RNA is in orange, protein in blue. The active site is in the middle (red).

Like DNA, most biologically active RNAs, including mRNA, tRNA, rRNA, snRNAs and other non-coding RNAs, contain self-complementary sequences that allow parts of the RNA to fold and pair with itself to form double helices. Structural analysis of these RNAs has revealed that they are highly structured. Unlike DNA, their structures do not consist of long double helices but rather collections of short helices packed together into structures akin to proteins. In this fashion, RNAs can achieve chemical catalysis, like enzymes.For instance, determination of the structure of the ribosome—an enzyme that catalyzes peptide bond formation—revealed that its active site is composed entirely of RNA.

Synthesis

Synthesis of RNA is usually catalyzed by an enzyme—RNA polymerase—using DNA as a template, a process known as transcription. Initiation of transcription begins with the binding of the enzyme to a promotersequence in the DNA (usually found "upstream" of a gene). The DNA double helix is unwound by the helicase activity of the enzyme. The enzyme then progresses along the template strand in the 3’ to 5’ direction, synthesizing a complementary RNA molecule with elongation occurring in the 5’ to 3’ direction. The DNA sequence also dictates where termination of RNA synthesis will occur.

RNAs are often modified by enzymes after transcription. For example, a poly(A) tail and a 5' cap are added to eukaryotic pre-mRNA and introns are removed by the spliceosome.

There are also a number of RNA-dependent RNA polymerases that use RNA as their template for synthesis of a new strand of RNA. For instance, a number of RNA viruses (such as poliovirus) use this type of enzyme to replicate their genetic material.Also, RNA-dependent RNA polymerase is part of the RNA interference pathway in many organisms.

Types of RNA

Structure of a hammerhead ribozyme, a ribozyme that cuts RNA

Messenger RNA (mRNA) is the RNA that carries information from DNA to the ribosome, the sites of protein synthesis (translation) in the cell. The coding sequence of the mRNA determines the amino acid sequence in theprotein that is produced.Many RNAs do not code for protein however (about 97% of the transcriptial output is non-protein-coding in eukaryotes).

These so-called non-coding RNAs ("ncRNA") can be encoded by their own genes (RNA genes), but can also derive from mRNA introns.The most prominent examples of non-coding RNAs are transfer RNA (tRNA) andribosomal RNA (rRNA), both of which are involved in the process of translation.There are also non-coding RNAs involved in gene regulation, RNA processing and other roles. Certain RNAs are able to catalyse chemical reactions such as cutting and ligating other RNA molecules,and the catalysis of peptide bond formation in the ribosome;these are known as ribozymes.

In translation

Messenger RNA (mRNA) carries information about a protein sequence to the ribosomes, the protein synthesis factories in the cell. It is coded so that every three nucleotides (a codon) correspond to one amino acid. Ineukaryotic cells, once precursor mRNA (pre-mRNA) has been transcribed from DNA, it is processed to mature mRNA. This removes its introns—non-coding sections of the pre-mRNA. The mRNA is then exported from the nucleus to the cytoplasm, where it is bound to ribosomes and translated into its corresponding protein form with the help of tRNA. In prokaryotic cells, which do not have nucleus and cytoplasm compartments, mRNA can bind to ribosomes while it is being transcribed from DNA. After a certain amount of time the message degrades into its component nucleotides with the assistance of ribonucleases.

Transfer RNA (tRNA) is a small RNA chain of about 80 nucleotides that transfers a specific amino acid to a growing polypeptide chain at the ribosomal site of protein synthesis during translation. It has sites for amino acid attachment and an anticodon region for codon recognition that binds to a specific sequence on the messenger RNA chain through hydrogen bonding.

Ribosomal RNA (rRNA) is the catalytic component of the ribosomes. Eukaryotic ribosomes contain four different rRNA molecules: 18S, 5.8S, 28S and 5S rRNA. Three of the rRNA molecules are synthesized in thenucleolus, and one is synthesized elsewhere. In the cytoplasm, ribosomal RNA and protein combine to form a nucleoprotein called a ribosome. The ribosome binds mRNA and carries out protein synthesis. Several ribosomes may be attached to a single mRNA at any time.rRNA is extremely abundant and makes up 80% of the 10 mg/ml RNA found in a typical eukaryotic cytoplasm.

Transfer-messenger RNA (tmRNA) is found in many bacteria and plastids. It tags proteins encoded by mRNAs that lack stop codons for degradation and prevents the ribosome from stalling.

Regulatory RNAs

Several types of RNA can downregulate gene expression by being complementary to a part of an mRNA or a gene's DNA. MicroRNAs (miRNA; 21-22 nt) are found in eukaryotes and act through RNA interference (RNAi), where an effector complex of miRNA and enzymes can break down mRNA which the miRNA is complementary to, block the mRNA from being translated, or accelerate its degradation.While small interfering RNAs (siRNA; 20-25 nt) are often produced by breakdown of viral RNA, there are also endogenous sources of siRNAs.siRNAs act through RNA interference in a fashion similar to miRNAs. Some miRNAs and siRNAs can cause genes they target to be methylated, thereby decreasing or increasing transcription of those genes.Animals have Piwi-interacting RNAs (piRNA; 29-30 nt) which are active in germline cells and are thought to be a defense against transposons and play a role in gametogenesis.Many prokaryotes have CRISPR RNAs, a regulatory system similar to RNA interference.Antisense RNAs are widespread; most downregulate a gene, but a few are activators of transcription.One way antisense RNA can act is by binding to an mRNA, forming double-stranded RNA that is enzymatically degraded.There are many long noncoding RNAs that regulate genes in eukaryotes,one such RNA is Xist which coats one X chromosome in female mammals and inactivates it.

An mRNA may contain regulatory elements itself, such as riboswitches, in the 5' untranslated region or 3' untranslated region; these cis-regulatory elements regulate the activity of that mRNA.The untranslated regions can also contain elements that regulate other genes.

In RNA processing

Uridine to pseudouridine is a common RNA modification.

Many RNAs are involved in modifying other RNAs. Introns are spliced out of pre-mRNA by spliceosomes, which contain several small nuclear RNAs (snRNA), or the introns can be ribozymes that are spliced by themselves.RNA can also be altered by having its nucleotides modified to other nucleotides than A, C, G and U. In eukaryotes, modifications of RNA nucleotides are generally directed by small nucleolar RNAs(snoRNA; 60-300 nt),found in the nucleolus and cajal bodies. snoRNAs associate with enzymes and guide them to a spot on an RNA by basepairing to that RNA. These enzymes then perform the nucleotide modification. rRNAs and tRNAs are extensively modified, but snRNAs and mRNAs can also be the target of base modification.

RNA genomes

Like DNA, RNA can carry genetic information. RNA viruses have genomes composed of RNA, and a variety of proteins encoded by that genome. The viral genome is replicated by some of those proteins, while other proteins protect the genome as the virus particle moves to a new host cell. Viroids are another group of pathogens, but they consist only of RNA, do not encode any protein and are replicated by a host plant cell's polymerase.

In reverse transcription

Reverse transcribing viruses replicate their genomes by reverse transcribing DNA copies from their RNA; these DNA copies are then transcribed to new RNA. Retrotransposons also spread by copying DNA and RNA from one another, and telomerase contains an RNA that is used as template for building the ends of eukaryotic chromosomes.

Double-stranded RNA

Double-stranded RNA (dsRNA) is RNA with two complementary strands, similar to the DNA found in all cells. dsRNA forms the genetic material of some viruses (double-stranded RNA viruses). Double-stranded RNA such as viral RNA or siRNA can triggerRNA interference in eukaryotes, as well as interferon response in vertebrates.

Discovery

Nucleic acids were discovered in 1868 by Friedrich Miescher, who called the material 'nuclein' since it was found in the nucleus.It was later discovered that prokaryotic cells, which do not have a nucleus, also contain nucleic acids. The role of RNA in protein synthesis was suspected already in 1939.Severo Ochoa won the 1959 Nobel Prize in Medicine after he discovered how RNA is synthesized.The sequence of the 77 nucleotides of a yeast tRNA was found by Robert W. Holley in 1965,winning Holley the 1968 Nobel Prize in Medicine. In 1967, Carl Woese realized RNA can be catalytic and proposed that the earliest forms of life relied on RNA both to carry genetic information and to catalyze biochemical reactions—an RNA world.In 1976, Walter Fiers and his team determined the first complete nucleotide sequence of an RNA virus genome, that of bacteriophage MS2.[60] In 1990 it was found in petunia that introduced genes can silence similar genes of the plant's own, now known to be a result of RNA interference.At about the same time, 22 nt long RNAs, now called microRNAs, were found to have a role in the development of C. elegans.The discovery of gene regulatory RNAs has led to attempts to develop drugs made of RNA, such as siRNA, to silence genes.

Polymer

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Posted by forex | Posted in | Posted on 7:31:00 am

Polymer

A polymer is a large molecule (macromolecule) composed of repeating structural units typically connected by covalent chemical bonds. While polymer in popular usage suggests plastic, the term actually refers to a large class of natural and synthetic materials with a wide variety of properties, including properties typically associated with plastics.

Because of the extraordinary range of properties accessible in polymeric materials,[2] they play an essential and ubiquitous role in everyday life[3]—from plastics and elastomers on the one hand to natural biopolymers such as DNA and proteins that are essential for life on the other. A simple example is polyethylene, whose repeating unit is based on ethylene (IUPAC name ethene) monomer. Most commonly, as in this example, the continuously linked backbone of a polymer used for the preparation of plastics consists mainly of carbon atoms. However, other structures do exist; for example, elements such as silicon form familiar materials such assilicones, examples being silly putty and waterproof plumbing sealant. The backbone of DNA is in fact based on a phosphodiester bond, and repeating units of polysaccharides (e.g. cellulose) are joined together byglycosidic bonds via oxygen atoms.

Natural polymeric materials such as shellac, amber, and natural rubber have been in use for centuries. Biopolymers such as proteins and nucleic acids play crucial roles in biological processes. A variety of other natural polymers exist, such as cellulose, which is the main constituent of wood and paper.

The list of synthetic polymers includes synthetic rubber, Bakelite, neoprene, nylon, PVC, polystyrene, polyethylene, polypropylene, polyacrylonitrile, PVB, silicone, and many more.

Polymers are studied in the fields of polymer chemistry, polymer physics, and polymer science.File:Single Polymer Chains AFM.jpg

Etymology

The word polymer is derived from the Greek words πολυ- - poly- meaning "many"; and μέρος - meros meaning "part". The term was coined in 1833 by Joens Jakob Berzelius, although his definition of a polymer was quite different from the modern definition. (see New chemical terms)

Historical development

Starting in 1811, Henri Braconnot did pioneering work in derivative cellulose compounds, perhaps the earliest important work in polymer science. The development of vulcanization later in the nineteenth century improved the durability of the natural polymerrubber, signifying the first popularized semi-synthetic polymer. In 1907, Leo Baekeland created the first completely synthetic polymer, Bakelite, by reacting phenol and formaldehyde at precisely controlled temperature and pressure. Bakelite was then publicly introduced in 1909.

Despite significant advances in synthesis and characterization of polymers, a correct understanding of polymer molecular structure did not emerge until the 1920s. Before then, scientists believed that polymers were clusters of small molecules (calledcolloids), without definite molecular weights, held together by an unknown force, a concept known as association theory. In 1922, Hermann Staudinger proposed that polymers consisted of long chains of atoms held together by covalent bonds, an idea which did not gain wide acceptance for over a decade and for which Staudinger was ultimately awarded the Nobel Prize. Work by Wallace Carothers in the 1920s also demonstrated that polymers could be synthesized rationally from their constituent monomers. An important contribution to synthetic polymer science was made by the Italian chemist Giulio Natta and the German chemist Karl Ziegler, who won the Nobel Prize in Chemistry in 1963 for the development of the Ziegler-Natta catalyst. Further recognition of the importance of polymers came with the award of the Nobel Prize in Chemistry in 1974 to Paul Flory, whose extensive work on polymers included the kinetics of step-growth polymerization and of addition polymerization, chain transfer, excluded volume, theFlory-Huggins solution theory, and the Flory convention.

Synthetic polymer materials such as nylon, polyethylene, Teflon, and silicone have formed the basis for a burgeoning polymer industry. These years have also shown significant developments in rational polymer synthesis. Most commercially important polymers today are entirely synthetic and produced in high volume on appropriately scaled organic synthetic techniques. Synthetic polymers today find application in nearly every industry and area of life. Polymers are widely used as adhesives and lubricants, as well as structural components for products ranging from children's toys to aircraft. They have been employed in a variety of biomedical applications ranging from implantable devices to controlled drug delivery. Polymers such as poly(methyl methacrylate) find application as photoresist materials used in semiconductor manufacturing and low-k dielectrics for use in high-performance microprocessors. Recently, polymers have also been employed as flexible substrates in the development of organic light-emitting diodes for electronic display.

Polymer synthesis

The repeating unit of the polymerpolypropylene

Polymerization is the process of combining many small molecules known as monomers into a covalently bonded chain. During the polymerization process, some chemical groups may be lost from each monomer. This is the case, for example, in the polymerization of PET polyester. The monomers are terephthalic acid (HOOC-C6H4-COOH) and ethylene glycol (HO-CH2-CH2-OH) but the repeating unit is -OC-C6H4-COO-CH2-CH2-O-, which corresponds to the combination of the two monomers with the loss of two water molecules. The distinct piece of each monomer that is incorporated into the polymer is known as a repeat unit or monomer residue.

Laboratory synthesis

Laboratory synthetic methods are generally divided into two categories, step-growth polymerization and chain-growth polymerization. The essential difference between the two is that in chain growth polymerization, monomers are added to the chain one at a time only, whereas in step-growth polymerization chains of monomers may combine with one another directly. However, some newer methods such as plasma polymerization do not fit neatly into either category. Synthetic polymerization reactions may be carried out with or without a catalyst. Laboratory synthesis of biopolymers, especially of proteins, is an area of intensive research.

Biological synthesis

There are three main classes of biopolymers: polysaccharides, polypeptides, and polynucleotides. In living cells, they may be synthesized by enzyme-mediated processes, such as the formation of DNA catalyzed by DNA polymerase. The synthesis of proteins involves multiple enzyme-mediated processes to transcribe genetic information from the DNA to RNA and subsequently translate that information to synthesize the specified protein from amino acids. The protein may be modified further following translation in order to provide appropriate structure and functioning.

Modification of natural polymers

Many commercially important polymers are synthesized by chemical modification of naturally occurring polymers. Prominent examples include the reaction of nitric acid and cellulose to form nitrocellulose and the formation of vulcanized rubber by heating natural rubber in the presence of sulfur.

Polymer properties

Polymer properties are broadly divided into several classes based on the scale at which the property is defined as well as upon its physical basis. The most basic property of a polymer is the identity of its constituent monomers. A second set of properties, known as microstructure, essentially describe the arrangement of these monomers within the polymer at the scale of a single chain. These basic structural properties play a major role in determining bulk physical properties of the polymer, which describe how the polymer behaves as a continuous macroscopic material. Chemical properties, at the nano-scale, describe how the chains interact through various physical forces. At the macro-scale, they describe how the bulk polymer interacts with other chemicals and solvents.

Monomers and repeat units

The identity of the monomer residues (repeat units) comprising a polymer is its first and most important attribute. Polymer nomenclature is generally based upon the type of monomer residues comprising the polymer. Polymers that contain only a single type of repeat unit are known as homopolymers, while polymers containing a mixture of repeat units are known as copolymers. Poly(styrene), for example, is composed only of styrene monomer residues, and is therefore classified as a homopolymer. Ethylene-vinyl acetate, on the other hand, contains more than one variety of repeat unit and is thus a copolymer. Some biological polymers are composed of a variety of different but structurally related monomer residues; for example, polynucleotides such as DNA are composed of a variety of nucleotide subunits.

A polymer molecule containing ionizable subunits is known as a polyelectrolyte or ionomer.

Microstructure

The microstructure of a polymer (sometimes called configuration) relates to the physical arrangement of monomer residues along the backbone of the chain. These are the elements of polymer structure that require the breaking of a covalent bond in order to change. Structure has a strong influence on the other properties of a polymer. For example, two samples of natural rubber may exhibit different durability, even though their molecules comprise the same monomers.

Polymer architecture

Branch point in a polymer

An important microstructural feature determining polymer properties is the polymer architecture.The simplest polymer architecture is a linear chain: a single backbone with no branches. A related unbranching architecture is a ring polymer. A branched polymer molecule is composed of a main chain with one or more substituent side chains or branches. Special types of branched polymers include star polymers, comb polymers, brush polymers, dendronized polymers, ladders, and dendrimers[9].

Branching of polymer chains affects the ability of chains to slide past one another by altering intermolecular forces, in turn affecting bulk physical polymer properties. Long chain branches may increase polymer strength, toughness, and the glass transition temperature due to an increase in the number of entanglements per chain. The effect of such long-chain branches on the size of the polymer in solution is characterized by the branching index. Random length and atactic short chains, on the other hand, may reduce polymer strength due to disruption of organization and may likewise reduce the crystallinity of the polymer.

A good example of this effect is related to the range of physical attributes of polyethylene. High-density polyethylene (HDPE) has a very low degree of branching, is quite stiff, and is used in applications such as milk jugs. Low-density polyethylene (LDPE), on the other hand, has significant numbers of both long and short branches, is quite flexible, and is used in applications such as plastic films.

Dendrimer and dendron

Dendrimers are a special case of polymer where every monomer unit is branched. This tends to reduce intermolecular chain entanglement and crystallization. Alternatively, dendritic polymers are not perfectly branched but share similar properties to dendrimers due to their high degree of branching.

The architecture of the polymer is often physically determined by the functionality of the monomers from which it is formed. This property of a monomer is defined as the number of reaction sites at which may form chemical covalent bonds. The basic functionality required for forming even a linear chain is two bonding sites. Higher functionality yields branched or even crosslinked or networked polymer chains.

An effect related to branching is chemical crosslinking - the formation of covalent bonds between chains. Crosslinking tends to increase Tg and increase strength and toughness. Among other applications, this process is used to strengthen rubbers in a process known as vulcanization, which is based on crosslinking by sulfur. Car tires, for example, are highly crosslinked in order to reduce the leaking of air out of the tire and to toughen their durability. Eraser rubber, on the other hand, is not crosslinked to allow flaking of the rubber and prevent damage to the paper.

A cross-link suggests a branch point from which four or more distinct chains emanate. A polymer molecule with a high degree of crosslinking is referred to as a polymer network.Sufficiently high crosslink concentrations may lead to the formation of an infinite network, also known as a gel, in which networks of chains are of unlimited extent—essentially all chains have linked into one molecule.

Chain length

The physical properties of a polymer are strongly dependent on the size or length of the polymer chain.[13]. For example, as chain length is increased, melting and boiling temperatures increase quickly. Impact resistance also tends to increase with chain length, as does the viscosity, or resistance to flow, of the polymer in its melt state. Chain length is related to melt viscosity roughly as 1:103.2, so that a tenfold increase in polymer chain length results in a viscosity increase of over 1000 times[citation needed]. Increasing chain length furthermore tends to decrease chain mobility, increase strength and toughness, and increase the glass transition temperature (Tg)[citation needed]. This is a result of the increase in chain interactions such as Van der Waals attractions and entanglements that come with increased chain length[citation needed]. These interactions tend to fix the individual chains more strongly in position and resist deformations and matrix breakup, both at higher stresses and higher temperatures[citation needed].

A common means of expressing the length of a chain is the degree of polymerization, which quantifies the number of monomers incorporated into the chain. As with other molecules, a polymer's size may also be expressed in terms of molecular weight. Since synthetic polymerization techniques typically yield a polymer product including a range of molecular weights, the weight is often expressed statistically to describe the distribution of chain lengths present in the same. Common examples are the number average molecular weight and weight average molecular weight. The ratio of these two values is the polydispersity index, commonly used to express the "width" of the molecular weight distribution.A final measurement is contour length, which can be understood as the length of the chain backbone in its fully extended state

The flexibility of an unbranched chain polymer is characterized by its persistence length.

Monomer arrangement in copolymers

Different types of copolymers

Monomers within a copolymer may be organized along the backbone in a variety of ways.

  • Alternating copolymers possess regularly alternating monomer residues:[21] [AB...]n (2).
  • Periodic copolymers have monomer residue types arranged in a repeating sequence: [AnBm...] m being different from n .
  • Statistical copolymers have monomer residues arranged according to a known statistical rule. A statistical copolymer in which the probability of finding a particular type of monomer residue at an particular point in the chain is independent of the types of surrounding monomer residue may be referred to as a truly random copolymer.
  • Block copolymers have two or more homopolymer subunits linked by covalent bonds(4). Polymers with two or three blocks of two distinct chemical species (e.g., A and B) are called diblock copolymers and triblock copolymers, respectively. Polymers with three blocks, each of a different chemical species (e.g., A, B, and C) are termed triblock terpolymers.
  • Graft or grafted copolymers contain side chains that have a different composition or configuration than the main chain.(5)

Tacticity

Tacticity describes the relative stereochemistry of chiral centers in neighboring structural units within a macromolecule. There are three types: isotactic (all substituents on the same side),atactic (random placement of substituents), and syndiotactic (alternating placement of substituents).

Polymer morphology

Polymer morphology generally describes the arrangement of chains in space and microscopic ordering of many polymer chains.

Crystallinity

When applied to polymers, the term crystalline has a somewhat ambiguous usage. In some cases, the term crystalline finds identical usage to that used in conventional crystallography. For example, the structure of a crystalline protein or polynucleotide, such as a sample prepared for x-ray crystallography, may be defined in terms of a conventional unit cell composed of one or more polymer molecules with cell dimensions of hundreds of angstroms or more.

A synthetic polymer may be lightly described as crystalline if it contains regions of three-dimensional ordering on atomic (rather than macromolecular) length scales, usually arising from intramolecular folding and/or stacking of adjacent chains. Synthetic polymers may consist of both crystalline and amorphous regions; the degree of crystallinity may be expressed in terms of a weight fraction or volume fraction of crystalline material. Few synthetic polymers are entirely crystalline.

The crystallinity of polymers is characterized by their degree of crystallinity, ranging from zero for a completely non-crystalline polymer to one for a theoretical completely crystalline polymer. Polymers with microcrystalline regions are generally tougher (can be bent more without breaking) and more impact-resistant than totally amorphous polymers.

Polymers with a degree of crystallinity approaching zero or one will tend to be transparent, while polymers with intermediate degrees of crystallinity will tend to be opaque due to light scattering by crystalline or glassy regions. Thus for many polymers, reduced crystallinity may also be associated with increased transparency.

Chain conformation

The space occupied by a polymer molecule is generally expressed in terms of radius of gyration, which is an average distance from the center of mass of the chain to the chain itself. Alternatively, it may be expressed in terms of pervaded volume, which is the volume of solution spanned by the polymer chain and scales with the cube of the radius of gyration.

Mechanical properties

The bulk properties of a polymer are those most often of end-use interest. These are the properties that dictate how the polymer actually behaves on a macroscopic scale.

Tensile strength

The tensile strength of a material quantifies how much stress the material will endure before suffering permanent deformation.This is very important in applications that rely upon a polymer's physical strength or durability. For example, a rubber band with a higher tensile strength will hold a greater weight before snapping. In general, tensile strength increases with polymer chain length and crosslinking of polymer chains.

Young's modulus of elasticity

Young's Modulus quantifies the elasticity of the polymer. It is defined, for small strains, as the ratio of rate of change of stress to strain. Like tensile strength, this is highly relevant in polymer applications involving the physical properties of polymers, such as rubber bands. The modulus is strongly dependent on temperature.

Transport properties

Transport properties such as diffusivity relate to how rapidly molecules move through the polymer matrix. These are very important in many applications of polymers for films and membranes.

Melting point

The term melting point, when applied to polymers, suggests not a solid-liquid phase transition but a transition from a crystalline or semi-crystalline phase to a solid amorphous phase. Though abbreviated as simply Tm, the property in question is more properly called the crystalline melting temperature. Among synthetic polymers, crystalline melting is only discussed with regards to thermoplastics, as thermosetting polymers will decompose at high temperatures rather than melt.

Boiling point

The boiling point of a polymeric material is strongly dependent on chain length. High polymers with a large degree of polymerization do not exhibit a boiling point because they decompose before reaching theoretical boiling temperatures. For shorteroligomers, a boiling transition may be observed and will generally increase rapidly as chain length is increased.

[edit]Glass transition temperature

A parameter of particular interest in synthetic polymer manufacturing is the glass transition temperature (Tg), which describes the temperature at which amorphous polymers undergo a second-order phase transition from a rubbery, viscous amorphous solid, or from a crystalline solid (depending on the degree of crystallization) to a brittle, glassy amorphous solid. The glass transition temperature may be engineered by altering the degree of branching or crosslinking in the polymer or by the addition ofplasticizer.

Mixing behavior

Phase diagram of the typical mixing behavior of weakly interacting polymer solutions.

In general, polymeric mixtures are far less miscible than mixtures of small molecule materials. This effect results from the fact that the driving force for mixing is usually entropy, not interaction energy. In other words, miscible materials usually form a solution not because their interaction with each other is more favorable than their self-interaction, but because of an increase in entropy and hence free energy associated with increasing the amount of volume available to each component. This increase in entropy scales with the number of particles (or moles) being mixed. Since polymeric molecules are much larger and hence generally have much higher specific volumes than small molecules, the number of molecules involved in a polymeric mixture is far smaller than the number in a small molecule mixture of equal volume. The energetics of mixing, on the other hand, is comparable on a per volume basis for polymeric and small molecule mixtures. This tends to increase the free energy of mixing for polymer solutions and thus make solvation less favorable. Thus, concentrated solutions of polymers are far rarer than those of small molecules.

Furthermore, the phase behavior of polymer solutions and mixtures is more complex than that of small molecule mixtures. Whereas most small molecule solutions exhibit only an upper critical solution temperature phase transition, at which phase separation occurs with cooling, polymer mixtures commonly exhibit a lower critical solution temperature phase transition, at which phase separation occurs with heating.

In dilute solution, the properties of the polymer are characterized by the interaction between the solvent and the polymer. In a good solvent, the polymer appears swollen and occupies a large volume. In this scenario, intermolecular forces between the solvent and monomer subunits dominate over intramolecular interactions. In a bad solvent or poor solvent, intramolecular forces dominate and the chain contracts. In the theta solvent, or the state of the polymer solution where the value of the second virial coefficient becomes 0, the intermolecular polymer-solvent repulsion balances exactly the intramolecular monomer-monomer attraction. Under the theta condition (also called the Flory condition), the polymer behaves like an ideal random coil.

Inclusion of plasticizers

Inclusion of plasticizers tends to lower Tg and increase polymer flexibility. Plasticizers are generally small molecules that are chemically similar to the polymer and create gaps between polymer chains for greater mobility and reduced interchain interactions. A good example of the action of plasticizers is related to polyvinylchlorides or PVCs. A uPVC, or unplasticized polyvinylchloride, is used for things such as pipes. A pipe has no plasticizers in it, because it needs to remain strong and heat-resistant. Plasticized PVC is used for clothing for a flexible quality. Plasticizers are also put in some types of cling film to make the polymer more flexible.

Chemical properties

The attractive forces between polymer chains play a large part in determining a polymer's properties. Because polymer chains are so long, these interchain forces are amplified far beyond the attractions between conventional molecules. Different side groups on the polymer can lend the polymer to ionic bonding or hydrogen bonding between its own chains. These stronger forces typically result in higher tensile strength and higher crystalline melting points.

The intermolecular forces in polymers can be affected by dipoles in the monomer units. Polymers containing amide or carbonyl groups can form hydrogen bonds between adjacent chains; the partially positively charged hydrogen atoms in N-H groups of one chain are strongly attracted to the partially negatively charged oxygen atoms in C=O groups on another. These strong hydrogen bonds, for example, result in the high tensile strength and melting point of polymers containing urethane or urea linkages.Polyesters have dipole-dipole bonding between the oxygen atoms in C=O groups and the hydrogen atoms in H-C groups. Dipole bonding is not as strong as hydrogen bonding, so a polyester's melting point and strength are lower than Kevlar's (Twaron), but polyesters have greater flexibility.

Ethene, however, has no permanent dipole. The attractive forces between polyethylene chains arise from weak van der Waals forces. Molecules can be thought of as being surrounded by a cloud of negative electrons. As two polymer chains approach, their electron clouds repel one another. This has the effect of lowering the electron density on one side of a polymer chain, creating a slight positive dipole on this side. This charge is enough to attract the second polymer chain. Van der Waals forces are quite weak, however, so polyethylene can have a lower melting temperature compared to other polymers.

Standardized polymer nomenclature

There are multiple conventions for naming polymer substances. Many commonly used polymers, such as those found in consumer products, are referred to by a common or trivial name. The trivial name is assigned based on historical precedent or popular usage rather than a standardized naming convention. Both the American Chemical Society[30] and IUPAC[31] have proposed standardized naming conventions; the ACS and IUPAC conventions are similar but not identical.[32] Examples of the differences between the various naming conventions are given in the table below:

Common nameACS nameIUPAC name
Poly(ethylene oxide) or PEOPoly(oxyethylene)Poly(oxyethene)
Poly(ethylene terephthalate) or PETPoly(oxy-1,2-ethanediyloxycarbonyl-1,4-phenylenecarbonyl)Poly(oxyetheneoxyterephthaloyl)
Nylon 6Poly[amino(1-oxo-1,6-hexanediyl)]Poly[amino(1-oxohexan-1,6-diyl)]

In both standardized conventions, the polymers' names are intended to reflect the monomer(s) from which they are synthesized rather than the precise nature of the repeating subunit. For example, the polymer synthesized from the simple alkene ethene is called polyethylene, retaining the -ene suffix even though the double bond is removed during the polymerization process:

Ethene polymerization.png

Polyethene monomer.png

Polymer characterization

The characterization of a polymer requires several parameters which need to be specified. This is because a polymer actually consists of a statistical distribution of chains of varying lengths, and each chain consists of monomer residues which affect its properties.

A variety of lab techniques are used to determine the properties of polymers. Techniques such as wide angle X-ray scattering, small angle X-ray scattering, and small angle neutron scattering are used to determine the crystalline structure of polymers. Gel permeation chromatography is used to determine the number average molecular weight, weight average molecular weight, and polydispersity. FTIR, Raman and NMR can be used to determine composition. Thermal properties such as the glass transition temperature and melting point can be determined by differential scanning calorimetry and dynamic mechanical analysis. Pyrolysis followed by analysis of the fragments is one more technique for determining the possible structure of the polymer.Thermogravimetry is a useful technique to evaluate the thermal stability of the polymer. Detailed analyses of TG curves also allow us to know a bit of the phase segregation in polymers. Rheological properties are also commonly used to help determine molecular architecture (molecular weight, molecular weight distribution and branching)as well as to understand how the polymer will process, through measurements of the polymer in the melt phase. Another Polymer characterization technique is Automatic Continuous Online Monitoring of Polymerization Reactions (ACOMP) which provides real-time characterization of polymerization reactions. It can be used as an analytical method in R&D, as a tool for reaction optimization at the bench and pilot plant level and, eventually, for feedback control of full-scale reactors. ACOMP measures in a model-independent fashion the evolution of average molar mass and intrinsic viscosity, monomer conversion kinetics and, in the case of copolymers, also the average composition drift and distribution. It is applicable in the areas of free radical and controlled radical homo- and copolymerization, polyelectrolyte synthesis, heterogeneous phase reactions, including emulsion polymerization, adaptation to batch and continuous reactors, and modifications of polymers.

Polymer degradation

A plastic item with thirty years of exposure to heat and cold, brake fluid, and sunlight. Notice the discoloration, swollen dimensions, and tiny splits running through the material

Polymer degradation is a change in the properties—tensile strength, color, shape, molecular weight, etc.—of a polymer or polymer-based product under the influence of one or more environmental factors, such as heat, light, chemicals and, in some cases, galvanic action. It is often due to the hydrolysis of the bonds connecting the polymer chain, which in turn leads to a decrease in the molecular mass of the polymer. These changes may be undesirable, such as changes during use, or desirable, as in biodegradation or deliberately lowering the molecular mass of a polymer. Such changes occur primarily because of the effect of these factors on the chemical composition of the polymer. Ozone cracking and UV degradation are specific failure modes for certain polymers. The susceptibility of a polymer to degradation depends on its structure. Epoxies and chains containing aromatic functionality are especially susceptible to UV degradation while polyesters are susceptible to degradation by hydrolysis. Carbon based polymers are more susceptible to thermal degradation than inorganically bound polymers such as Polydimethylsiloxane and are therefore not ideal for most high temperature applications.

Polymer degradation may occur through galvanic action. In 1990, Michael Faudree discovered that imide-linked resins in CFRP (carbon fiber reinforced polymers) composites degrade when bare composite is coupled with an active metal in saline, i.e. salt water environments.Polymers affected include bismaleimides (BMI), condensation polyimides, triazines, and blends thereof. Degradation occurs in the form of dissolved resin and loose fibers. Hydroxyl ions are generated at the graphite cathode attacking the O-C-N bond in the polyimide structure. This phenomenon, that polymers can undergo galvanic corrosion like metals do has been referred to as the "Faudree Effect". Standard corrosion protection procedures were found to prevent polymer degradation under most conditions.

The degradation of polymers to form smaller molecules may proceed by random scission or specific scission. The degradation of polyethylene occurs by random scission—a random breakage of the linkages (bonds) that hold the atoms of the polymer together. When heated above 450 DEGC it degrades to form a mixture of hydrocarbons. Other polymers—like polyalphamethylstyrene—undergo specific chain scission with breakage occurring only at the ends. They literally unzip or depolymerize to become the constituent monomer.

However, the degradation process can be useful from the viewpoints of understanding the structure of a polymer or recycling/reusing the polymer waste to prevent or reduce environmental pollution. Polylactic acid and polyglycolic acid, for example, are two polymers that are useful for their ability to degrade under aqueous conditions. A copolymer of these polymers is used for biomedical applications, such as hydrolysable stitches that degrade over time after they are applied to a wound. These materials can also be used for plastics that will degrade over time after they are used and will therefore not remain as litter.

The sorting of polymer waste for recycling purposes may be facilitated by the use of the Resin identification codes developed by the Society of the Plastics Industry to identify the type of plastic.

Product failure

Chlorine attack of acetal resin plumbing joint

In a finished product, such a change is to be prevented or delayed. Failure of safety-critical polymer components can cause serious accidents, such as fire in the case of cracked and degraded polymer fuel lines. Chlorine-induced cracking of acetal resin plumbing joints and polybutylene pipes has caused many serious floods in domestic properties, especially in the USA in the 1990s. Traces of chlorine in the water supply attacked vulnerable polymers in the plastic plumbing, a problem which occurs faster if any of the parts have been poorly extruded or injection molded. Attack of the acetal joint occurred because of faulty molding, leading to cracking along the threads of the fitting which is a serious stress concentration.

Ozone-induced cracking in natural rubber tubing

Polymer oxidation has caused accidents involving medical devices. One of the oldest known failure modes is ozone cracking caused by chain scission when ozone gas attacks susceptible elastomers such as natural rubber and nitrile rubber. They possess double bonds in their repeat units which are cleaved during ozonolysis. Cracks in fuel lines can penetrate the bore of the tube and cause fuel leakage. If cracking occurs in the engine compartment, electric sparks can ignite the gasoline and can cause a serious fire.

Fuel lines can also be attacked by another form of degradation: hydrolysis. Nylon 6,6 is susceptible to acid hydrolysis, and in one accident, a fractured fuel line led to a spillage of diesel into the road. If diesel fuel leaks onto the road, accidents to following cars can be caused by the slippery nature of the deposit, which is like black ice.