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Biomedical subjects

L K Duffy

Publications and source records attributed to L K Duffy.

At least 55 records · Page 3Linked to original sources

The primary structure of the hemoglobin alpha-chain of the arctic ground squirrel.

The amino acid sequence of the alpha-chain from the arctic ground squirrel Citellus parryii) is reported. The tryptic peptides prepared from the hemoglobin were isolated by reverse phase HPLC and sequenced. Data from the tryptic peptides were supported by that from cyanogen bromide peptides and acid cleavage peptides which were partially sequenced. Comparison with other rodent alpha-chains shows 15 differences with mouse, 20 with rat, 25 with muskrat, 16 with mole rat, 33 with the guinea-pig and 23 with the hamster. Comparison of arctic ground squirrel hemoglobin alpha-chain with the amino-terminal 25 residues of the marmot shows one amino acid difference at position 13.

Alaska↗

Synthetic peptide homologous to beta protein from Alzheimer disease forms amyloid-like fibrils in vitro.

Progressive amyloid deposition in senile plaques and cortical blood vessels may play a central role in the pathogenesis of Alzheimer disease. We have used x-ray diffraction and electron microscopy to study the molecular organization and morphology of macromolecular assemblies formed by three synthetic peptides homologous to beta protein of brain amyloid: beta-(1-28), residues 1-28 of the beta protein; [Ala16]beta-(1-28), beta-(1-28) with alanine substituted for lysine at position 16; and beta-(18-28), residues 18-28 of the beta protein. beta-(1-28) readily formed fibrils in vitro that were similar in ultrastructure to the in vivo amyloid and aggregated into large bundles resembling those of senile plaque cores. X-ray patterns from partially dried, oriented pellets showed a cross-beta-conformation. A series of small-angle, equatorial maxima were consistent with a tubular fibril having a mean diameter of 86 A and a wall composed of pairs of cross-beta-pleated sheets. The data may also be consistent with pairs of cross-beta-sheets that are centered 71-A apart. [Ala16]beta-(1-28) formed beta-pleated sheet assemblies that were dissimilar to in vivo fibrils. The width of the 10-A spacing indicated stacks of about six sheets. Thus, substitution of the uncharged alanine for the positively charged lysine in the beta-strand region enhances the packing of the sheets and dramatically alters the type of macromolecular aggregate formed. beta-(18-28) formed assemblies that had even a greater number of stacked sheets, approximately equal to 24 per diffracting domain as indicated by the sharp intersheet reflection. Our findings on these homologous synthetic assemblies help to define the specific sequence that is required to form Alzheimer-type amyloid fibrils, thus providing an in vitro model of age-related cerebral amyloidogenesis.

Alzheimer Disease↗

Prosimian hemoglobins. III. The primary structures of the duplicated alpha-globin chains of Lemur variegatus.

The amino acid sequences of the alpha chains of hemoglobins purified from Lemur variegatus erythrocytes have been determined. The sequences were determined primarily from peptides generated from treatment of the isolated alpha chains with cyanogen bromide or warm formic acid. The ordering of the peptides from both alpha globins was based on the homology between lemur hemoglobins and those of other primates. The genetic difference at position 15 (Asn vs. Lys) explains the phenotypic characteristic of two hemoglobin species during alkaline electrophoresis. The function of certain residues is discussed in the context of other known sequences. The dispersion of the amino acid changes noted in lemur species falls mostly within the first 75 residues of the alpha chain (exons 1 and 2). The extent of divergence of the L. variegatus alpha-globin chains from the Lemur fulvus alpha globin is similar to that seen for the beta-globin chains of these species. This degree of separation (11-16 residues) is consistent with an extended period of independent evolution by these congeneric species after their divergence.

Amino Acid Sequence↗

High molecular weight microtubule-associated proteins: purification by electro-elution and amino acid compositions.

The high molecular weight microtubule-associated proteins (MAPs) consist of MAPs 1A, 1B, 1C, 2A, and 2B. The proteins have been prepared from rat brain by using taxol and resolved by sodium dodecyl sulfate-polyacrylamide gel electrophoresis. The individual proteins were purified by electro-elution from stained fixed gels and shown to migrate at their original mobility without proteolysis. Amino acid compositions of purified MAP 1 and 2 component proteins are reported and compared.

Alkaloids↗

A note on the predicted secondary structures of the active chains of cholera and diphtheria toxins.

Both the A regions of diphtheria and cholera toxins contain the site of ADP-ribosyl transferase activity which is responsible for the modification of specific target proteins in mammalian cell types. The secondary structure prediction for these A regions has been made on the basis of their recently reported primary structures. In the center of both toxin A chains, the beta-structure and alpha-helix regions alternate in a manner similar to that reported for some NAD binding proteins. Other regions of alpha-helix in the A chains may be involved in the interactions with the toxin B chains. The lack of primary structure homology between these toxins indicates that the secondary structure homology is the result of convergent evolution of a NAD binding domain in each protein.

Amino Acid Sequence↗

A reinvestigation of hemoglobin alterations in ground squirrels while in various hibernation activity states.

Characterization of the hemoglobins of winter-hibernating, winter-active and summer-active Arctic ground squirrels (Citellus undulatus) by citrate agar electrophoresis and isoelectric focusing (IEF), pH 5.5-8.5, showed no differences in hemoglobin electrophoretic patterns. Previous studies showing alterations in hemoglobins were most likely the result of artifacts due to the use of whole blood. The Arctic ground squirrel's hemoglobin amino terminal sequence was determined for each activity state and was identical in all cases.

Amino Acid Sequence↗

Isolation of low-molecular-weight proteins from amyloid plaque fibers in Alzheimer's disease.

During aging of the human brain, and particularly in Alzheimer's disease, progressive neuronal loss is accompanied by the formation of highly stable intra- and extraneuronal protein fibers. Using fluorescence-activated particle sorting, a method has been developed for purifying essentially to homogeneity the extracellular amyloid fibers that form the cores of senile plaques. The purified plaque cores each contain 60-130 pg of protein. Their amino acid composition shows abundant glycine, trace proline, and approximately 50% hydrophobic residues; it resembles that of enriched fractions of the paired helical filaments (PHF) that accumulate intraneuronally in Alzheimer's disease. Senile plaque amyloid fibers share with PHF insolubility in numerous protein denaturants and resistance to proteinases. However, treatment of either fiber preparation with concentrated (88%) formic acid or saturated (6.8 M) guanidine thiocyanate followed by sodium dodecyl sulfate causes disappearance of the fibers and releases proteins migrating at 5-7,000 and 11-15,000 Mr which appear to be dimerically related. Following their separation by size-exclusion HPLC, the proteins solubilized from plaque amyloid and PHF-enriched fractions have highly similar compositions and, on dialysis, readily aggregate into higher Mr polymers. Antibodies raised to the major low-Mr protein selectively label both plaque cores and vascular amyloid deposits in Alzheimer brain but do not stain neurofibrillary tangles, senile plaque neurites, or any other neuronal structure. Thus, extraneuronal amyloid plaque filaments in Alzheimer's disease are composed of hydrophobic low-Mr protein(s) which are also present in vascular amyloid deposits. Current evidence suggests that such protein(s) found in PHF-enriched fractions may derive from copurifying amyloid filaments rather than from PHF.

Aged↗

Cholera toxin A subunit: functional sites correlated with regions of secondary structure.

The A subunit of cholera toxin contains the ADP-ribosyltransferase activity in its major constituent polypeptide A1 (Mr 23,000) which is responsible for the elevation of cAMP typically observed with most mammalian cell types after exposure to the toxin. The primary structure of the A subunit, recently established by sequence analyses, is presented and used as the basis for the secondary structure prediction according to the method of Chou and Fasman. The results indicated the presence of 27% alpha-helix, 25% beta-structure, 12% beta-turn, and 36% random coil. The majority of the beta-structure consisted of six strands located in the NH2-terminal portion of the molecule (residues 33-106) covering one-half of the region corresponding to the A1 polypeptide portion. The beta-sheet domain led immediately into the active site region characterized by the alternating structures of beta-pleated sheet and alpha-helix (residues 95-140) similar to that reported for other NAD+ binding proteins. The presence of this structural feature in the region was confirmed by the use of another predictive method (J. Garnier et al., J. Mol. Biol. 1978, 120, 97-120). In addition, two regions (residues 14-18 and 200-214), previously identified to contain binding sites for the B subunit as evidenced by chemical modification and monoclonal antibody studies, were found to be in alpha-helix configuration.

Amino Acid Sequence↗

Microtubule-associated protein 2: monoclonal antibodies demonstrate the selective incorporation of certain epitopes into Alzheimer neurofibrillary tangles.

Neurofibrillary tangles (NFT) are the principal structural alteration of neuronal cell bodies in Alzheimer disease as well as in normal aging of the human brain. While the ultrastructure of these intraneuronal lesions has been extensively studied, the biochemical composition of the fibers comprising the NFT is unknown. We report the production of three monoclonal antibodies against the microtubule-associated protein 2 (MAP-2), one of which intensely labels Alzheimer NFT. All three antibodies specifically recognize MAP-2 on immunoblots and stain brain tissue in a characteristic dendritic pattern. The three antibodies are directed against at least two different antigenic sites on the MAP-2 molecule, and one appears to recognize a phosphorylation site on MAP-2. That only one of the three antibodies immunolabels NFT suggests that the formation of the tangle involves some modification of the MAP-2 molecule. Our findings suggest that one aspect of Alzheimer-type neurofibrillary pathology is an aggregation of MAP-2 or MAP-2 fragments with altered neurofilamentous elements present in NFT. Normal interactive function, which putatively occurs between neurofilaments and MAP-2, may thus be disrupted in Alzheimer disease.

Alzheimer Disease↗

Prosimian hemoglobins I. The primary structure of the beta-globin chain of Lemur catta.

The primary structure of the beta chain from the hemoglobin of a prosimian primate, Lemur catta, has been determined by automated Edman degradation of intact polypeptide chain and fragments produced by tryptic, cyanogen bromide and acid cleavage, and by homology with the sequence of Lemur fulvus. The sequence presented here differs from the human beta-globin sequence at 26 sites. This is the same degree of divergence previously reported for the beta-globin chain of Lemur fulvus. The sequences of the two congeneric lemuroid beta-globin chains are surprisingly divergent, differing at 18 sites. Of the 26 positions where L. catta differs from Homo sapiens, 7 are at positions with defined function. Of these 7 positions, 4 (2-Phe, 54-Ile, 94-Val, 112-Ile) are unique to L. catta among the primate beta-globin chains of established sequence. Residue 112-Ile is consistent with the prediction of Beard and Goodman (19) of an isoleucyl residue in this position in the ancestral primate beta-globin chain.

Amino Acid Sequence↗

Purification and chemical characterization of type 1 pili isolated from Klebsiella pneumoniae.

Type 1 pili were purified from a Klebsiella pneumoniae strain isolated from a human urinary tract infection. The pili were removed from the bacteria by mechanical shearing, precipitated out of solution by ammonium sulfate, solubilized in a deoxycholate-containing buffer, and finally purified by gel filtration. Chemical characterization of the isolated pili revealed a single protein subunit (pilin) which had a Mr = 21,500. Amino acid compositional analysis revealed a high content of residues that contribute significantly to secondary structure. Automated sequence analysis of the NH2-terminal region revealed a striking homology (79% identity) with type 1 pili of Escherichia coli. In contrast, NH2-terminal sequence comparison of K. pneumoniae pilin with other previously reported bacterial pilins showed no significant homology. No immunological cross-reactivity was detectable between E. coli and K. pneumoniae pili when tested by Ouchterlony double immunodiffusion or by rocket immunoelectrophoresis. The results of this study, when compared to other studies of bacterial pili, indicate that type 1 pili from members of the Enterobacteriaceae share morphological similarities and that their monomeric subunits are chemically similar. In addition, these results give strong evidence that the type 1 pilins of the enteric bacteria represent a separate class of homologous pilins.

Amino Acid Sequence↗

Clostridium perfringens type A enterotoxin: characterization of the amino-terminal region.

The amino-terminal region of the enterotoxin of Clostridium perfringens was investigated by automated sequence analysis. The primary structure results revealed that the enterotoxin is composed of a single polypeptide amino acid sequence. Computer comparison of a 20-residue sequence with a sequence library of reported proteins revealed no significant chemical similarities, indicating that the enterotoxin represents a unique polypeptide primary structure.

Amino Acid Sequence↗

Covalent structure of the gamma chain of the A subunit of cholera toxin.

The complete amino acid sequence of the gamma chain of the A subunit of cholera enterotoxin was determined: NH2-Met-Ser-Asn-Thr-Cys-Asp-Glu-Lys-Thr-Gln-Ser-Leu-Gly-Val-Lys-Phe-Leu-Asp-Glu -Tyr-Gln-Ser-Lys-Val-Lys-Arg-Gln-Ile-Phe-Ser-Gly-Tyr-Gln-Ser-Ile-Asp-Asp-Thr- His-Asn-Arg-Ile-Lys-Asn-Glu-Leu-COOH. This amino acid sequence was established in part by automated sequence analysis of intact gamma chain as well as of clostripain fragments and tryptic fragments generated from succinylated gamma chain. Smaller peptides from chymotryptic and Staphylococcus aureus protease hydrolyses provided the necessary overlaps. The gamma chain represents a segment of 46 amino acid residues (Mr = 5,395) from the carboxyl-terminal region of the precursor single-chain A subunit of cholera toxin (Duffy, L. K., Peterson, J. W., and Kurosky, A. (1981) FEBS Lett. 126, 187-190). Alignment of the gamma chain region of cholera toxin to a comparable chain region of 36 residues previously reported for heat-labile enterotoxin of Escherichia coli revealed an identity of 31%. The chemical similarity between the gamma chain regions of these two enterotoxins was thus considerably less than that of their beta chains which were shown to be 79% identical.

Amino Acid Sequence↗

Identification of a histidine residue near the aminoacyl transfer ribonucleic acid binding site of elongation factor Tu.

The complex of elongation factor Tu with GTP (EF-Tu.GTP) reacts with N or epsilon -bromoacetyl-lys-tRNA ( or epsilon BrAcLys-tRNA) to form a functional covalently linked complex (XLTC). The site of cross-linking must be near the site on EF-Tu.GTP that binds the aminoacyl moiety of aminoacyl transfer ribonucleic acid (AA-tRNA). For identification of this site, a nanomole of purified XLTC prepared from or epsilon BrAc[(14)C]Lys-tRNA was digested first with RNase A and then with trypsin, and the peptides were resolved by high-performance liquid chromatography using a c8 reverse-phase column. A single peptide contained 80% of the label. The amino acid composition of this peptide was identical with that of residues 59-74 in EF-Tu. The NH2-terminal sequence of the peptide was determined to be Fly-Ile-Thr-Ile, which are residues 59-62 in EF-Tu. The modified amino acid was identified as pi - (carboxymethyl)histidine, which establishes that His-66 is at or near the AA-tRNA binding site on EF-Tu.GTP.

Affinity Labels↗