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Mycolicibacter Kumamotonensis
''Mycolicibacter'' is a genus of Gram-positive bacteria, gram-positive Bacillus (shape), rod-shaped bacteria in the family ''Mycobacteriaceae'' from the order Mycobacteriales. Members of ''Mycolicibacter'' were demarcated from the larger genus ''Mycobacterium'' in 2018 by Gupta et al. based on evidence from various phylogenetic trees constructed based on conserved genome sequences, comparative genomic analyses and average amino acid identity values. In addition to this genus, the study proposed the division of ''Mycobacterium'' into a total of five distinct genera, which was met with some resistance by some of the scientific community. The resistance was based on the grounds that ''Mycobacterium'' contains some clinically relevant species and name changes might cause confusion among clinicians and other researchers. In 2020, Yamada et al. analyzed the fundamental morphological properties of the new genera, including the cell diameter, cell length, cell perimeter, cell circularity ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Mycolicibacter Terrae
''Mycolicibacter terrae'' (formerly ''Mycobacterium terrae'') is a slow-growing species of Mycobacteriaceae, mycobacteria. It is an ungrouped member of the Runyon classification#Runyon III: Nonchromogenic, third Runyon (nonchromatogenic mycobacteria). It is known to cause serious skin infections, which are "relatively resistant to antibiotic therapy". Discovery Richmond and Cummings were the first to isolate ''Mycobacterium terrae'', which they described as "an acid‐fast saprophyte". It is sometimes called the "radish bacillus", because it was isolated from radish water. Pathology This bacterium was originally injected into guinea pigs, and did not cause apparent illness, leading to the misconception that this strain was nonpathogenic. In reality, however, infection by this organism can cause disease of the joints, tendons, lungs, gastrointestinal tract, and genitourinary tract. In humans, symptoms of infection include swelling, lesions, and inflammation, and may mimic the s ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Gram-positive Bacteria
In bacteriology, gram-positive bacteria are bacteria that give a positive result in the Gram stain test, which is traditionally used to quickly classify bacteria into two broad categories according to their type of cell wall. The Gram stain is used by microbiologists to place bacteria into two main categories, gram-positive (+) and gram-negative (−). Gram-positive bacteria have a thick layer of peptidoglycan within the cell wall, and gram-negative bacteria have a thin layer of peptidoglycan. Gram-positive bacteria retain the crystal violet stain used in the test, resulting in a purple color when observed through an optical microscope. The thick layer of peptidoglycan in the bacterial cell wall retains the stain after it has been fixed in place by iodine. During the decolorization step, the decolorizer removes crystal violet from all other cells. Conversely, gram-negative bacteria cannot retain the violet stain after the decolorization step; alcohol used in this stage ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Mycolicibacillus
''Mycolicibacillus'' is a genus of Gram-Positive rod-shaped bacteria in the family ''Mycobacteriaceae'' from the order Mycobacteriales. Members of ''Mycolicibacillus'' were demarcated from the larger genus ''Mycobacterium'' in 2018 by Gupta et al. based on evidence from various phylogenetic trees constructed based on conserved genome sequences, comparative genomic analyses and average amino acid identity values. In addition to this genus, the study proposed the division of ''Mycobacterium'' into a total of five distinct genera, which was met with some resistance by some of the scientific community. The resistance was based on the grounds that ''Mycobacterium'' contains some clinically relevant species and name changes might cause confusion among clinicians and other researchers. In 2020, Yamada et al. analyzed the fundamental morphological properties of the new genera, including the cell diameter, cell length, cell perimeter, cell circularity and aspect ratio, and determined that ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Membrane Protein
Membrane proteins are common proteins that are part of, or interact with, biological membranes. Membrane proteins fall into several broad categories depending on their location. Integral membrane proteins are a permanent part of a cell membrane and can either penetrate the membrane (Transmembrane protein, transmembrane) or associate with one or the other side of a membrane (Integral monotopic protein, integral monotopic). Peripheral membrane proteins are transiently associated with the cell membrane. Membrane proteins are common, and medically important—about a third of all human proteins are membrane proteins, and these are targets for more than half of all drugs. Nonetheless, compared to other classes of proteins, determining membrane protein structures remains a challenge in large part due to the difficulty in establishing experimental conditions that can preserve the correct (Native state, native) Protein structure, conformation of the protein in isolation from its native ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Potassium Transporter Family
The K+ Transporter (Trk) Family is a member of the voltage-gated ion channel (VIC) superfamily. The proteins of the Trk family are derived from Gram-negative and Gram-positive bacteria, yeast and plants. Homology The phylogenetic tree reveals that the proteins cluster according to phylogeny of the source organism with # the Gram-negative bacterial Trk proteins, # the Gram-negative and Gram-positive bacterial Ktr proteins, # the yeast proteins and # the plant proteins comprising four distinct clusters. ''S. cerevisiae'' possesses at least two paralogues, high- and low-affinity K+ transporters. Folding pattern seen in Trk proteins resembles quadruplicated primitive K+ channels of the VIC superfamilyTC #1.A.1 instead of typical 12 TMS carriers. Homology has been established between Trk carriers and VIC family channels. Structure The sizes of the Trk family members vary from 423 residues to 1235 residues. The bacterial proteins are of 423-558 residues, the ''Triticum aestiv ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Alpha/beta Hydrolase Superfamily
The alpha/beta hydrolase superfamily is a superfamily of hydrolytic enzymes of widely differing phylogenetic origin and catalytic function that share a common fold. The core of each enzyme is an alpha/beta-sheet (rather than a barrel), containing 8 beta strands connected by 6 alpha helices. The enzymes are believed to have diverged from a common ancestor, retaining little obvious sequence similarity, but preserving the arrangement of the catalytic residues. All have a catalytic triad, the elements of which are borne on loops, which are the best-conserved structural features of the fold. The alpha/beta hydrolase fold includes proteases, lipases, peroxidases, esterases, epoxide hydrolases and dehalogenases. Database The ESTHER database provides a large collection of information about this superfamily of proteins. Subfamilies *3-oxoadipate enol-lactonase Human proteins containing this domain ABHD10; ABHD11; ABHD12; ABHD12B; ABHD13; ABHD2; ABHD3; ABHD4; ABHD5; ABHD6; ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Cobalt Chelatase
Cobalt chelatase () is an enzyme that catalyzes the chemical reaction :ATP + hydrogenobyrinic acid a,c-diamide + Co2+ + H2O \rightleftharpoons ADP + phosphate + cob(II)yrinic acid a,c-diamide + H+ The four substrates of this enzyme are ATP, hydrogenobyrinic acid a,c-diamide, Co2+, and H2O; its four products are ADP, phosphate, cob(II)yrinic acid a,c-diamide, and H+. The aerobic cobalt chelatase (aerobic cobalamin biosynthesis pathway) consists of three subunits, CobT, CobN () and CobS (). The macrocycle of vitamin B12 can be complexed with metal via the ATP-dependent reactions in the aerobic pathway (e.g., in '' Pseudomonas denitrificans'') or via ATP-independent reactions of sirohydrochlorin in the anaerobic pathway (e.g., in ''Salmonella typhimurium''). The corresponding cobalt chelatases are not homologous. However, aerobic cobalt chelatase subunits CobN and CobS are homologous to Mg-chelatase subunits BchH and BchI, respectively. CobT, too, has been found to be rem ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
UDP-N-acetylmuramate—L-alanine Ligase
In enzymology, a UDP-''N''-acetylmuramate—L-alanine ligase () is an enzyme that catalyzes the chemical reaction :ATP + UDP-N-acetylmuramate + L-alanine \rightleftharpoons ADP + phosphate + UDP-N-acetylmuramoyl-L-alanine The 3 substrates of this enzyme are ATP, UDP-N-acetylmuramate, and L-alanine, whereas its 3 products are ADP, phosphate, and UDP-N-acetylmuramoyl-L-alanine. This enzyme belongs to the family of ligases, specifically those forming carbon-nitrogen bonds as acid-D-amino-acid ligases (peptide synthases). The systematic name of this enzyme class is UDP-N-acetylmuramate:L-alanine ligase (ADP-forming). Other names in common use include MurC synthetase, UDP-N-acetylmuramoyl-L-alanine synthetase, uridine diphospho-N-acetylmuramoylalanine synthetase, UDP-N-acetylmuramoylalanine synthetase, L-alanine-adding enzyme, UDP-acetylmuramyl-L-alanine synthetase, UDPMurNAc-L-alanine synthetase, L-Ala ligase, uridine diphosphate N-acetylmuramate:L-alanine ligase, uridine 5'-di ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Amidohydrolase
Amidohydrolases (or amidases) are a type of hydrolase that acts upon amide bonds. They are categorized under EC number EC 3.5.1 and 3.5.2. Examples include: * Beta-lactamase * Histone deacetylase * Urease The amidohydrolase superfamily is a large protein family of more than 20,000 members with diverse chemistry and physiologic roles. Due to its complexity and size, the amidohydrolase superfamily is being used by the Enzyme Function Initiative The Enzyme Function Initiative (EFI) is a large-scale collaborative project aiming to develop and disseminate a robust strategy to determine enzyme function through an integrated sequence–structure-based approach. The project was funded in May ... (EFI) for developing a large-scale strategy for functional assignment of unknown proteins. See also * EC 3.5.1 EC 3.5.2 Hydrolases {{3.5-enzyme-stub ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Nonribosomal Peptide Synthetase
Nonribosomal peptides (NRP) are a class of peptide secondary metabolites, usually produced by microorganisms like bacteria and fungi. Nonribosomal peptides are also found in higher organisms, such as nudibranchs, but are thought to be made by bacteria inside these organisms. While there exist a wide range of peptides that are not synthesized by ribosomes, the term ''nonribosomal peptide'' typically refers to a very specific set of these as discussed in this article. Nonribosomal peptides are synthesized by nonribosomal peptide synthetases, which, unlike the ribosomes, are independent of messenger RNA. Each nonribosomal peptide synthetase can synthesize only one type of peptide. Nonribosomal peptides often have cyclic and/or branched structures, can contain non-proteinogenic amino acids including D-amino acids, carry modifications like '' N''-methyl and ''N''-formyl groups, or are glycosylated, acylated, halogenated, or hydroxylated. Cyclization of amino acids against the peptide " ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Conserved Signature Indels
Conserved signature inserts and deletions (CSIs) in protein sequences provide an important category of molecular markers for understanding phylogenetic relationships. CSIs, brought about by rare genetic changes, provide useful phylogenetic markers that are generally of defined size and they are flanked on both sides by conserved regions to ensure their reliability. While indels can be arbitrary inserts or deletions, CSIs are defined as only those protein indels that are present within conserved regions of the protein. The CSIs that are restricted to a particular clade or group of species, generally provide good phylogenetic markers of common evolutionary descent. Due to the rarity and highly specific nature of such changes, it is less likely that they could arise independently by either Convergent evolution, convergent or parallel evolution (i.e. homoplasy) and therefore are likely to represent synapomorphy. Other confounding factors such as differences in evolutionary rates at dif ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Mycobacterium
''Mycobacterium'' is a genus of over 190 species in the phylum Actinomycetota, assigned its own family, Mycobacteriaceae. This genus includes pathogens known to cause serious diseases in mammals, including tuberculosis (''Mycobacterium tuberculosis, M. tuberculosis'') and leprosy (''Mycobacterium leprae, M. leprae'') in humans. The Greek language, Greek prefix ''myco-'' means 'fungus', alluding to this genus' Mold (fungus), mold-like colony surfaces. Since this genus has cell walls with a waxy lipid-rich outer layer containing high concentrations of mycolic acid, acid-fast staining is used to emphasize their resistance to acids, compared to other cell types. Mycobacterial species are generally aerobic, non-motile, and capable of growing with minimal nutrition. The genus is divided based on each species' pigment production and growth rate. While most ''Mycobacterium'' species are non-pathogenic, the genus' characteristic complex cell wall contributes to evasion from host defenses. ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
