scholarly journals AmyA, an α-Amylase with β-Cyclodextrin-Forming Activity, and AmyB from the Thermoalkaliphilic Organism Anaerobranca gottschalkii: Two α-Amylases Adapted to Their Different Cellular Localizations†

2005 ◽  
Vol 71 (7) ◽  
pp. 3709-3715 ◽  
Author(s):  
Meike Ballschmiter ◽  
Martin Armbrecht ◽  
Krasimira Ivanova ◽  
Garabed Antranikian ◽  
Wolfgang Liebl
Keyword(s):  
Amino Acid ◽  
Half Life ◽  
Extracellular Enzyme ◽  
Amino Acid Sequences ◽  
Cyclodextrin Glycosyltransferase ◽  
High Similarity ◽  
Ph Optimum ◽  
Transglycosylation Activity ◽  
Optimum Ph ◽  
Ph Range

ABSTRACT Two α-amylase genes from the thermophilic alkaliphile Anaerobranca gottschalkii were cloned, and the corresponding enzymes, AmyA and AmyB, were investigated after purification of the recombinant proteins. Based on their amino acid sequences, AmyA is proposed to be a lipoprotein with extracellular localization and thus is exposed to the alkaline milieu, while AmyB apparently represents a cytoplasmic enzyme. The amino acid sequences of both enzymes bear high similarity to those of GHF13 proteins. The different cellular localizations of AmyA and AmyB are reflected in their physicochemical properties. The alkaline pH optimum (pH 8), as well as the broad pH range, of AmyA activity (more than 50% activity between pH 6 and pH 9.5) mirrors the conditions that are encountered by an extracellular enzyme exposed to the medium of A. gottschalkii, which grows between pH 6 and pH 10.5. AmyB, on the other hand, has a narrow pH range with a slightly acidic pH optimum at 6 to 6.5, which is presumably close to the pH in the cytoplasm. Also, the intracellular AmyB is less tolerant of high temperatures than the extracellular AmyA. While AmyA has a half-life of 48 h at 70°C, AmyB has a half-life of only about 10 min at that temperature, perhaps due to the lack of stabilizing constituents of the cytoplasm. AmyA and AmyB were very similar with respect to their substrate specificity profiles, clearly preferring amylose over amylopectin, pullulan, and glycogen. Both enzymes also hydrolyzed α-, β-, and γ-cyclodextrin. Very interestingly, AmyA, but not AmyB, displayed high transglycosylation activity on maltooligosaccharides and also had significant β-cyclodextrin glycosyltransferase (CGTase) activity. CGTase activity has not been reported for typical α-amylases before. The mechanism of cyclodextrin formation by AmyA is unknown.

Glutathione transferase isoenzymes from Bufo bufo embryos at an early developmental stage

1992 ◽  
Vol 283 (1) ◽  
pp. 217-222 ◽  
Author(s):  
C Di Ilio ◽  
A Aceto ◽  
T Bucciarelli ◽  
B Dragani ◽  
S Angelucci ◽  
...  
Keyword(s):  
Amino Acid ◽  
Developmental Stage ◽  
Glutathione Transferase ◽  
Bufo Bufo ◽  
Amino Acid Sequences ◽  
Early Developmental Stage ◽  
Terminal Amino Acid ◽  
Stage 4 ◽  
Terminal Amino ◽  
Ph Range

Six forms of glutathione transferase (GST) were resolved from the cytosolic fraction of Bufo bufo embryos at developmental stage 4 by GSH-Sepharose affinity chromatography followed by f.p.l.c. chromatofocusing in the 9-6 pH range. They have apparent isoelectric points at pH 8.37 (GST I), 8.22 (GST II), 8.10 (GST III), 7.84 (GST IV), 7.37 (GST V) and 7.12 (GST VI), and each displayed an apparent subunit molecular mass of 23 kDa by SDS/PAGE. The Bufo bufo embryo enzymes showed very similar structural, catalytic and immunological properties, as indicated by their substrate-specificities, inhibition characteristics, c.d. spectra, h.p.l.c. elution profiles and immunological reactivities, as well as by their N-terminal amino acid sequences. Although Bufo bufo embryo GSTs do not correspond to any other known GSTs, the results of our experiments indicate that amphibian GSTs could be included in the Pi family of GSTs. This conclusion is supported by the analysis of c.d. spectra, and by the fact that mammalian Pi class GSTs and amphibian GSTs showed about 80% identity in their N-terminal amino acid sequences. Furthermore, antisera prepared against Bufo bufo GST III cross-reacted in immunoblotting analysis with Pi class GSTs, and vice versa.

scholarly journals Characterization of a Thermoacidophilic l-Arabinose Isomerase from Alicyclobacillus acidocaldarius: Role of Lys-269 in pH Optimum

2005 ◽  
Vol 71 (12) ◽  
pp. 7888-7896 ◽  
Author(s):  
Sang-Jae Lee ◽  
Dong-Woo Lee ◽  
Eun-Ah Choe ◽  
Young-Ho Hong ◽  
Seong-Bo Kim ◽  
...  
Keyword(s):  
Amino Acid ◽  
Amino Acid Sequences ◽  
Site Directed Mutagenesis ◽  
Bacillus Halodurans ◽  
Wild Type ◽  
Ph Optimum ◽  
Calculated Molecular Mass ◽  
Alicyclobacillus Acidocaldarius ◽  
Arabinose Isomerase

ABSTRACT The araA gene encoding l-arabinose isomerase (AI) from the thermoacidophilic bacterium Alicyclobacillus acidocaldarius was cloned, sequenced, and expressed in Escherichia coli. Analysis of the sequence revealed that the open reading frame of the araA gene consists of 1,491 bp that encodes a protein of 497 amino acid residues with a calculated molecular mass of 56,043 Da. Comparison of the deduced amino acid sequence of A. acidocaldarius AI (AAAI) with other AIs demonstrated that AAAI has 97% and 66% identities (99% and 83% similarities) to Geobacillus stearothermophilus AI (GSAI) and Bacillus halodurans AI (BHAI), respectively. The recombinant AAAI was purified to homogeneity by heat treatment, ion-exchange chromatography, and gel filtration. The purified enzyme showed maximal activity at pH 6.0 to 6.5 and 65°C under the assay conditions used, and it required divalent cations such as Mn2+, Co2+, and Mg2+ for its activity. The isoelectric point (pI) of the enzyme was about 5.0 (calculated pI of 5.5). The apparent Km values of the recombinant AAAI for l-arabinose and d-galactose were 48.0 mM (V max, 35.5 U/mg) and 129 mM (V max, 7.5 U/mg), respectively, at pH 6 and 65°C. Interestingly, although the biochemical properties of AAAI are quite similar to those of GSAI and BHAI, the three AIs from A. acidocaldarius (pH 6), G. stearothermophilus (pH 7), and B. halodurans (pH 8) exhibited different pH activity profiles. Based on alignment of the amino acid sequences of these homologous AIs, we propose that the Lys-269 residue of AAAI may be responsible for the ability of the enzyme to act at low pH. To verify the role of Lys-269, we prepared the mutants AAAI-K269E and BHAI-E268K by site-directed mutagenesis and compared their kinetic parameters with those of wild-type AIs at various pHs. The pH optima of both AAAI-K269E and BHAI-E268K were rendered by 1.0 units (pH 6 to 7 and 8 to 7, respectively) compared to the wild-type enzymes. In addition, the catalytic efficiency (k cat/Km ) of each mutant at different pHs was significantly affected by an increase or decrease in V max. From these results, we propose that the position corresponding to the Lys-269 residue of AAAI could play an important role in the determination of the pH optima of homologous AIs.

scholarly journals Purification, characterization, DNA sequence and cloning of a pimeloyl-CoA synthetase from Pseudomonas mendocina 35

1999 ◽  
Vol 340 (3) ◽  
pp. 793-801 ◽  
Author(s):  
Andrew BINIEDA ◽  
Martin FUHRMANN ◽  
Bruno LEHNER ◽  
Claudine REY-BERTHOD ◽  
Séverine FRUTIGER-HUGHES ◽  
...  
Keyword(s):  
Amino Acid ◽  
Dna Sequence ◽  
Specific Activity ◽  
Amino Acid Sequences ◽  
Active Enzyme ◽  
Gene Probe ◽  
Pimelic Acid ◽  
Pseudomonas Mendocina ◽  
Ph Optimum ◽  
E Coli

A pimeloyl-CoA synthetase from Pseudomonas mendocina 35 was purified and characterized, the DNA sequence determined, and the gene cloned into Escherichia coli to yield an active enzyme. The purified enzyme had a pH optimum of ≈ 8.0, Km values of 0.49 mM for pimelic acid, 0.18 mM for CoA and 0.72 mM for ATP, a subunit Mr of ≈ 80000 as determined by SDS/PAGE, and was found to be a tetramer by gel-filtration chromatography. The specific activity of the purified enzyme was 77.3 units/mg of protein. The enzyme was not absolutely specific for pimelic acid. The relative activity for adipic acid (C6) was 72% and for azaleic acid (C9) was 18% of that for pimelic acid (C7). The N-terminal amino acid was blocked to amino acid sequencing, but controlled proteolysis resulted in three peptide fragments for which amino acid sequences were obtained. An oligonucleotide gene probe corresponding to one of the amino acid sequences was synthesized and used to isolate the gene (pauA, imelic cid-tilizing ) coding for pimeloyl-CoA synthetase. The pauA gene, which codes for a protein with a theoretical Mr of 74643, was then sequenced. The deduced amino acid sequence of the enzyme showed similarity to hypothetical proteins from Archaeoglobus fulgidus, Methanococcus jannaschii, Pyrococcus horikoshii, E. coli and Streptomyces coelicolor, and some limited similarity to microbial succinyl-CoA synthetases. The similarity with the protein from A. fulgidus was especially strong, thus indicating a function for this unidentified protein. The pauA gene was cloned into E. coli, where it was expressed and resulted in an active enzyme.

scholarly journals Generation of Affinity Purified Antibody Reagents for Specific Determination of Efruxifermin in Biological Matrices

2021 ◽  
Vol 5 (Supplement_1) ◽  
pp. A288-A288
Author(s):  
Adam S Kinne ◽  
Sanofar J Abdeen ◽  
Elijah S Parmer ◽  
Jennifer A Thystrup ◽  
Erik J Tillman ◽  
...  
Keyword(s):  
Amino Acid ◽  
Half Life ◽  
Clinical Development ◽  
Amino Acid Sequences ◽  
Fibroblast Growth Factor 21 ◽  
Biological Matrices ◽  
Specific Determination ◽  
Human Igg1 ◽  
Human Fgf21

Abstract Efruxifermin (EFX) is a novel Fc-fusion analog of human fibroblast growth factor 21 (FGF21), currently in clinical development as a potential treatment for non-alcoholic steatohepatitis (NASH). Each molecule of EFX consists of two modified FGF21 molecules, each attached at their N-termini to a human IgG1 Fc domain by a short polyglycine-serine linker. The FGF21 moiety of EFX incorporates three amino acid substitutions (L98R, P171G, and A180E relative to native FGF21). Two of these are proximal to the C-terminus (P171G and A180E), and reduce cleavage and inactivation by an endogenous protease, fibroblast activation protein (FAP), thereby prolonging its half-life. Fusion to human IgG1 Fc domain further extends circulating half-life, enabling once-weekly subcutaneous dosing. Accordingly, to support on-going clinical development of EFX, a specific assay is needed to distinguish intact EFX from both endogenous FGF21 and any in vivo biotransformation products of EFX that display reduced pharmacology. To maximize the antigenicity of EFX, FGF21 amino acid sequences were compared across species. Based on this, an antibody generation campaign was initiated in both rabbits and chickens. Comparison of titer responses against EFX and human FGF21 suggested that antisera from chickens was superior to rabbit antisera. Following a scaled-up, 12-week antibody campaign, antisera were purified by a combination of batch and column chromatographic procedures. By exploiting differences in structure and amino acid sequence of EFX relative to human FGF21, a purification strategy was designed to isolate chicken antibodies with increased specificity for EFX unique sequences. This reagent is being used as a capture antibody in the development of a noncompetitive ECLIA employing chemiluminescence detection. Presently, a number of different antibodies are being evaluated for potential pairing with the specific capture. We conclude that application of affinity purified chicken anti-EFX IgY will enable sensitive and specific determination of EFX in biological matrices with decreased cross-reactivity from endogenous hFGF21 and EFX metabolites.

scholarly journals Prediction of the allergic response of extracellular amylase producing bacteria through in-silico method

2019 ◽  
Vol 10 (2) ◽  
pp. 1185-1189
Author(s):  
Neha Sharma ◽  
Shuchi Kaushik ◽  
Rajesh Singh Tomar
Keyword(s):  
Amino Acid ◽  
In Silico ◽  
Soil Bacteria ◽  
Correct Diagnosis ◽  
Extracellular Enzyme ◽  
Amino Acid Sequences ◽  
Allergic Response ◽  
Alternative Source ◽  
Epitope Region ◽  
Industrial Soil

Allergies intolerance is a common problem worldwide. The major difficulties are related to the correct diagnosis of causes which is associated with amino acid sequences present in the epitope region of allergen. So there is a need to find out the factors causing allergies and allergens themselves. In the present study a bioinformatics tool is used to predict amino acid sequence and mast cell association with different integrated approaches. Internet databases for amylase producing bacteria were used in In-silico method to check the allergy for microorganism producing the extracellular enzyme. Amylase is an extracellular enzyme isolated from soil bacteria Salmonella species and Proteus vulgaris. It is very important in the pharmaceutical industry to check the allergenicity of any drug, protein or enzyme that be used in the treatment of diseases or food industries for various purpose. The aim of the present study is isolation and characterisation of extracellular enzyme produced from soil bacteria and to analyzed allergic response through AlgPred tool of bioinformatics. From results, it was concluded that the protein sequence of amylase did not contain any epitope, no hits for mast and blast which proved that it was not an allergen. So, bacterial isolates from the industrial soil are a good alternative source of enzyme production and may be used as an industrial level. Thus, from the results, it may be concluded that microbes from soil sample can be a good source of industrially important enzymes without any allergy.

Multiple molecular forms of avian aldolases. II. Enzymic properties and amino acid composition of chicken (Gattus domesticus) breast muscle aldolase

1969 ◽  
Vol 47 (5) ◽  
pp. 527-534 ◽  
Author(s):  
Ronald R. Marquardt
Keyword(s):  
Amino Acid ◽  
Amino Acid Composition ◽  
Acid Composition ◽  
Heat Stability ◽  
Breast Muscle ◽  
Molecular Forms ◽  
Ph Optimum ◽  
Wide Ph Range ◽  
Michaelis Constants ◽  
Ph Range

Several properties of crystalline chicken (Gallus domesticus) breast muscle aldolase (fructose 1,6-diphosphate–D-glyceraldehyde 3-phosphate lyase, EC 4.1.2.13) were determined. The enzyme was found to have a broad pH optimum centered around pH 7.1 and to be remarkably stable over a wide pH range. The temperature coefficient Q10 is 2.6 in the range from 10 to 35 °C. The enzyme is stable at 48 °C for 10 min and almost completely inactivated at 55 °C. The apparent Michaelis constants for fructose 1,6-diphosphate and fructose 1-phosphate were 4.2 × 10−5 M and 1.7 × 10−2 M, respectively. The phosphate inhibitor constant (K1) was 5.5 × 10−3 M.Chicken breast muscle aldolase is similar to the rabbit enzyme in many of the above properties, although there are significant differences in heat stability and amino acid composition.

scholarly journals Novel α-Glucosidase from Aspergillus nidulans with Strong Transglycosylation Activity

2002 ◽  
Vol 68 (3) ◽  
pp. 1250-1256 ◽  
Author(s):  
Naoki Kato ◽  
Sachie Suyama ◽  
Masao Shirokane ◽  
Masashi Kato ◽  
Tetsuo Kobayashi ◽  
...  
Keyword(s):  
Amino Acids ◽  
Amino Acid ◽  
Aspergillus Nidulans ◽  
Glycosyl Hydrolase ◽  
Amino Acid Sequences ◽  
Glycosyl Hydrolase Family ◽  
Transglycosylation Activity ◽  
Single Polypeptide ◽  
Hydrolysis Of ◽  
Hydrolase Family

ABSTRACT Aspergillus nidulans possessed an α-glucosidase with strong transglycosylation activity. The enzyme, designated α-glucosidase B (AgdB), was purified and characterized. AgdB was a heterodimeric protein comprising 74- and 55-kDa subunits and catalyzed hydrolysis of maltose along with formation of isomaltose and panose. Approximately 50% of maltose was converted to isomaltose, panose, and other minor transglycosylation products by AgdB, even at low maltose concentrations. The agdB gene was cloned and sequenced. The gene comprised 3,055 bp, interrupted by three short introns, and encoded a polypeptide of 955 amino acids. The deduced amino acid sequence contained the chemically determined N-terminal and internal amino acid sequences of the 74- and 55-kDa subunits. This implies that AgdB is synthesized as a single polypeptide precursor. AgdB showed low but overall sequence homology to α-glucosidases of glycosyl hydrolase family 31. However, AgdB was phylogenetically distinct from any other α-glucosidases. We propose here that AgdB is a novel α-glucosidase with unusually strong transglycosylation activity.

scholarly journals Molecular cloning of aryl-alcohol oxidase from the fungus Pleurotus eryngii, an enzyme involved in lignin degradation

1999 ◽  
Vol 341 (1) ◽  
pp. 113-117 ◽  
Author(s):  
Elisa VARELA ◽  
Angel T. MARTÍNEZ ◽  
María Jesús MARTÍNEZ
Keyword(s):  
Amino Acid ◽  
Dna Sequences ◽  
Alcohol Oxidase ◽  
Extracellular Enzyme ◽  
Pleurotus Eryngii ◽  
Amino Acid Sequences ◽  
Protein Sequencing ◽  
Lignin Biodegradation ◽  
Genomic Libraries ◽  
Enzyme Active Site

Aryl-alcohol oxidase (AAO), an extracellular enzyme characteristic of fungi from the genus Pleurotus, constitutes a source for H2O2 required in lignin biodegradation. The gene aao has been cloned, sequenced and characterized for the first time in Pleurotus eryngii. Both cDNA and genomic libraries were screened with probes obtained by PCR using as primers oligonucleotides corresponding to the N-terminus and internal sequences of AAO. DNA sequences from positive clones showed a unique open reading frame of 1779 nucleotides interrupted by 12 introns. The conceptual translation of the protein agrees with the partial amino acid sequences obtained from protein sequencing. A search for proteins with related amino-acid sequences revealed that glucose oxidase from Aspergillus niger has 33% identity and 51% similarity. A comparison with other oxidoreductases showed common motifs in both N- and C-terminal regions corresponding, respectively, to the FAD-binding region and the enzyme active site. However, AAO probably has structural differences with other oxidases, as deduced from its unique ability to generate H2O2 from the oxidation of aromatic alcohols.

scholarly journals Genetics of l-Sorbose Transport and Metabolism in Lactobacillus casei

2000 ◽  
Vol 182 (1) ◽  
pp. 155-163 ◽  
Author(s):  
María J. Yebra ◽  
Ana Veyrat ◽  
Mario A. Santos ◽  
Gaspar Pérez-Martínez
Keyword(s):  
Amino Acid ◽  
Catabolite Repression ◽  
Lactobacillus Casei ◽  
Amino Acid Sequences ◽  
Peptide Sequence ◽  
Transcriptional Analysis ◽  
Transcriptional Unit ◽  
Sugar Uptake ◽  
High Similarity ◽  
Chromosomal Dna

ABSTRACT Genes encoding l-sorbose metabolism ofLactobacillus casei ATCC 393 have been identified on a 6.8-kb chromosomal DNA fragment. Sequence analysis revealed seven complete genes and a partial open reading frame transcribed as two units. The deduced amino acid sequences of the first transcriptional unit (sorRE) showed high similarity to the transcriptional regulator and the l-sorbose-1-phosphate reductase of the sorbose (sor) operon from Klebsiella pneumoniae. The other genes are transcribed as one unit (sorFABCDG) in opposite direction to sorRE. The deduced peptide sequence of sorF showed homology with thed-sorbitol-6-phosphate dehydrogenase encoded in thesor operon from K. pneumoniae andsorABCD to components of the mannose phosphotransferase system (PTS) family but especially to domains EIIA, EIIB, EIIC and EIID of the phosphoenolpyruvate-dependentl-sorbose PTS from K. pneumoniae. Finally, the deduced amino acid sequence of a truncated gene (sorG) located downstream of sorD presented high similarity with ketose-1,6-bisphosphate aldolases. Results of studies on enzyme activities and transcriptional analysis revealed that the two gene clusters, sorRE and sorFABCDG, are induced by l-sorbose and subject to catabolite repression by d-glucose. Data indicating that the catabolite repression is mediated by components of the PTS elements and by CcpA, are presented. Results of sugar uptake assays inL. casei wild-type and sorBC mutant strains indicated that l-sorbose is taken up byl-sorbose-specific enzyme II and that L. caseicontains an inducible d-fructose-specific PTS. Results of growth analysis of those strains and a man sorBC double mutant suggested that l-sorbose is probably also transported by the d-mannose PTS. We also present evidence, from studies on a sorR mutant, suggesting that thesorR gene encodes a positive regulator of the twosor operons. Sequence alignment of SorR, SorC (K. pneumoniae), and DeoR (Bacillus subtilis) revealed that they might constitute a new group of transcriptional regulators.

scholarly journals Enzymatic Properties of a Novel Liquefying α-Amylase from an Alkaliphilic Bacillus Isolate and Entire Nucleotide and Amino Acid Sequences

1998 ◽  
Vol 64 (9) ◽  
pp. 3282-3289 ◽  
Author(s):  
Kazuaki Igarashi ◽  
Yuji Hatada ◽  
Hiroshi Hagihara ◽  
Katsuhisa Saeki ◽  
Mikio Takaiwa ◽  
...  
Keyword(s):  
Amino Acids ◽  
Amino Acid ◽  
Molecular Mass ◽  
Specific Activity ◽  
Polyacrylamide Gel Electrophoresis ◽  
Sodium Dodecyl ◽  
Maximum Activity ◽  
Amino Acid Sequences ◽  
Ph Optimum ◽  
Calculated Molecular Mass

ABSTRACT A novel liquefying α-amylase (LAMY) was found in cultures of an alkaliphilic Bacillus isolate, KSM-1378. The specific activity of purified LAMY was approximately 5,000 U mg of protein−1, a value two- to fivefold greater between pH 5 and 10 than that of an industrial, thermostable Bacillus licheniformis enzyme. The enzyme had a pH optimum of 8.0 to 8.5 and displayed maximum activity at 55°C. The molecular mass deduced from sodium dodecyl sulfate-polyacrylamide gel electrophoresis was approximately 53 kDa, and the apparent isoelectric point was around pH 9. This enzyme efficiently hydrolyzed various carbohydrates to yield maltotriose, maltopentaose, maltohexaose, and maltose as major end products after completion of the reaction. Maltooligosaccharides in the maltose-to-maltopentaose range were unhydrolyzable by the enzyme. The structural gene for LAMY contained a single open reading frame 1,548 bp in length, corresponding to 516 amino acids that included a signal peptide of 31 amino acids. The calculated molecular mass of the extracellular mature enzyme was 55,391 Da. LAMY exhibited relatively low amino acid identity to other liquefying amylases, such as the enzymes from B. licheniformis (68.9%), Bacillus amyloliquefaciens (66.7%), and Bacillus stearothermophilus (68.6%). The four conserved regions, designated I, II, III, and IV, and the putative catalytic triad were found in the deduced amino acid sequence of LAMY. Essentially, the sequence of LAMY was consistent with the tertiary structures of reported amylolytic enzymes, which are composed of domains A, B, and C and which include the well-known (α/β)8 barrel motif in domain A.

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