Serine family

Amino Acid Biosynthesis Aromatic amino acid family Aspartate family Glutamate family Pyruvate family Serine family Histidine family Other... 

Non-essential amino acids are those that arise by transamination from 2-oxoacids in the intermediary metabolism. These belong to the glutamate family (Glu, Gin, Pro, Arg, derived from 2-oxoglutarate), the aspartate family (only Asp and Asn in this group, derived from oxaloacetate), and alanine, which can be formed by transamination from pyruvate. The amino acids in the serine family (Ser, Gly, Cys) and histidine, which arise from intermediates of glycolysis, can also be synthesized by the human body. 

Inspection of the amino acid biosynthetic pathways shows that all amino acids arise from a few intermediates in the central metabolic pathways (see fig. 21.1). Amino acids de-rived from a common intermediate are said to be in the same family. For example, the serine family of amino acids, which includes serine, glycine, and cysteine, all arise from glycerate-3-phosphate (see fig. 21.1). The carbon flow from the central metabolic pathways to amino acids is a regulated... 

As already noted the serine family includes three amino acids Serine, glycine, and cysteine (see fig. 21.1). We focus on cysteine synthesis, which funnels sulfur into the biochemical world and supplies the cysteine needed for biosynthesis. 

In addition to transamination reactions, one-carbon transfer reactions occur frequently in amino acid biosynthesis. A good example of a one-carbon transfer can be found in the reactions that produce the amino acids of the serine family. This family also includes glycine and cysteine. Serine and glycine themselves are frequently precursors in other biosynthetic pathways. A discussion of the synthesis of cysteine will give us some insight into the metabolism of sulfur, as well as that of nitrogen. 

Many herbicides, lilce ureas and triazines of the serine family share a common substructure a sp carbon attached to a nitrogen with a free electron pair and a positive n-charge (2,18,28). Their QSARs show usually a dependence on electronic and lipophilicity parameters. Individual compounds, chemically different, displace each other from the membrane (14.29). This family looses inhibitory potency in tris-treated cbloroplast membranes (7,18). Cross resistance studies of chloroplasts in triazine/triazinone or DCHU tolerant plants and algae have indicated subfamilies (reviewed in 13,18). None of these mutants are tolerant to phenol-type inhibitors. 

Certain hydroxyquinolines have already been reported to be herbicides in the patent literature (33,34), although their mode of action had not been established. The well known inhibitor (35,36) of electron flow systems, hydroxyquinoline-N-oxide, is, of course, also a hydroxyquinoline derivative, although with a different substitution pattern to those reported here. Therefore the compound may be oriented in a turned around way in the binding niche (see 37), placing it in the serine family. 

The serine family includes A. a. derived from triose phosphate serine, glycine, cysteine and cystine ... 

Thiostrepton family members are biosynthesized by extensive modification of simple peptides. Thus, from amino acid iacorporation studies, the somewhat smaller (mol wt 1200) nosiheptide, which contains five thiazole rings, a trisubstituted iadole, and a trisubstituted pyridine, is speculated to arise from a simple dodecapeptide. This work shows that the thiazole moieties arise from the condensation of serine with cysteiae (159,160). Only a few reports on the biosynthesis of the thiostrepton family are available (159,160). Thiostrepton is presently used ia the United States only as a poly antimicrobial vetetinary ointment (Panalog, Squibb), but thiazole antibiotics have, ia the past, been used as feed additives ia various parts of the world. General (158) and mechanism of action (152) reviews on thiostrepton are available. 

J Greer. Comparative modelling methods Application to the family of the mammalian serine proteases. Proteins 7 317-334, 1990. 

All the well-characterized proteinases belong to one or other of four families serine, cysteine, aspartic, or metallo proteinases. This classification is based on a functional criterion, namely, the nature of the most prominent functional group in the active site. Members of the same functional family are usually evolutionarily related, but there are exceptions to this rule. We... 

The serine proteinases all have the same substrate, namely, polypeptide chains of proteins. However, different members of the family preferentially cleave polypeptide chains at sites adjacent to different amino acid residues. The structural basis for this preference lies in the side chains that line the substrate specificity pocket in the different enzymes. 

Lesk, A. M., and Fordham, W. D., 1996. Conservation and variability in the structures of serine proteinases of die chymotrypsin family. Journal of Molecular Biology 258 501—537. 

A beta barrel is a three-dimensional protein fold motif in which beta strands connected by loops form a barrellike structure. For example, this fold motif is found in many proteins of the immunoglobulin family and of the chymotrypsin family of serine proteases. 

G-protein-coupled receptor kinases (GRKs) are a family of enzymes that catalyze the phosphorylation of threonine or serine residues on G-protein-coupled receptors. Characteristically, GRKs only phosphorylate the ligand-activated form of the receptors. Phosphorylation by GRKs usually leads to impaired receptor/G-protein coupling. 

MAPK cascades are composed of three cytoplasmic kinases, the MAPKKK, MAPKK, and MAPK, that are regulated by phosphorylation (Fig. 1) [1, 2]. The MAPKKK, also called MEKK for MEK kinase, is a serine/threonine kinase. Selective activation of MAPKKKs by upstream cellular stimuli results in the phosphorylation of MAPKK, also called MEK for MAP/ERK kinase by the MAPKKK. MAPKKK members are structurally diverse and are differentially regulated by specific upstream stimuli. The MAPKK is phosphorylated by the MAPKKK on two specific serine/ threonine residues in its activation loop. The MAPKK family members are dual specificity kinases capable of phosphorylating critical threonine and tyrosine residues in the activation loop of the MAPKs. MAPKKs have the fewest members in the MAPK signaling module. MAPKs are a family of serine/threonine kinases that upon activation by their respective MAPKKs, are capable of phosphorylating cytoplasmic substrates as well as... 

Peptidases have been classified by the MEROPS system since 1993 [2], which has been available viatheMEROPS database since 1996 [3]. The classification is based on sequence and structural similarities. Because peptidases are often multidomain proteins, only the domain directly involved in catalysis, and which beais the active site residues, is used in comparisons. This domain is known as the peptidase unit. Peptidases with statistically significant peptidase unit sequence similarities are included in the same family. To date 186 families of peptidase have been detected. Examples from 86 of these families are known in humans. A family is named from a letter representing the catalytic type ( A for aspartic, G for glutamic, M for metallo, C for cysteine, S for serine and T for threonine) plus a number. Examples of family names are shown in Table 1. There are 53 families of metallopeptidases (24 in human), 14 of aspartic peptidases (three of which are found in human), 62 of cysteine peptidases (19 in human), 42 of serine peptidases (17 in human), four of threonine peptidases (three in human), one of ghitamicpeptidases and nine families for which the catalytic type is unknown (one in human). It should be noted that within a family not all of the members will be peptidases. Usually non-peptidase homologues are a minority and can be easily detected because not all of the active site residues are conserved. 

All peptidases within a family will have a similar tertiary structure, and it is not uncommon for peptidases in one family to have a similar structure to peptidases in another family, even though there is no significant sequence similarity. Families of peptidases with similar structures and the same order of active site residues are included in the same clan. A clan name consists of two letters, the first representing the catalytic type as before, but with the extra letter P , and the second assigned sequentially. Unlike families, a clan may contain peptidases of more than one catalytic type. So far this has only been seen for peptidases with protein nucleophiles, and these clans are named with an initial P . Only three such clans are known. Clan PA includes peptidases with a chymotrypsin-like fold, which besides serine peptidases such as chymotrypsin... 

The action of a peptidase can be neutralized by an inhibitor. Some inhibitors are very broad in their action and are capable of inhibiting many different peptidases, including peptidases of different catalytic types. Some inhibitors are assumed to be specific for a particular catalytic type, but can inhibit peptidases of different types. Leupeptin, for example, is widely used as an inhibitor of serine peptidases from family SI, but it is also known to inhibit cysteine peptidases from family Cl. Cysteine pqrtidase inhibitors such as iodoacetic acid interact with the thiol of the catalytic cysteine. However, this reduction can occur on any thiol group and can affect other, predominantly intracellular, peptidases with a thiol dependency. One example is thimet oligopepti-dase. Metal chelators such as EDTA can inhibit meta-llopeptidases, but can also affect peptidases that have a requirement for metal ions that is indq>endent of their catalytic activity, such as the calcium-dependent cysteine endopqrtidase calpain 1. 

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