Model of a folded polypeptide chain

1950 ◽  
Vol 137 (886) ◽  
pp. 79-79
Keyword(s):  
Amino Acid ◽  
Polypeptide Chain ◽  
Molecular Model ◽  
Polymer Chains ◽  
Side Chains ◽  
Amino Acid Residues ◽  
Infra Red ◽  
New Type ◽  
Folded Proteins ◽  
Red Radiation

The models on view in the ante-room show a way of folding a polypeptide chain which is consistent with some observations we have recently made with polarized infra-red radiation (Ambrose & Hanby 1949; Ambrose, Elliott & Temple 1949). The α -folded proteins, keratin, myosin and tropomyosin, have been found when oriented to show greater absorption of the N-H frequency when the electric vector of the absorbed radiation is in the direction of the fibre axis, hence the N-H bond must be preferentially oriented in this direction. A study of models has suggested that the only likely folding of the polypeptide chain consistent with this fact involves a seven-membered ring containing two amino-acid residues; the ring is completed by hydrogen bonds: A new type of atomic model which has been developed in our laboratories has been used. The scale is 0·8 in. to the Angstrom unit. The valency links, while allowing free rotation about single co-valent bonds, also allow some distortion of the bond angles when strains occur but are strong enough to allow long polymer chains to be built. The molecular model exhibited shows twenty-four amino-acid residues, with side chains on one side of the back-bone, representative of those occurring in myosin; the side chains on the other side have been removed for clearness and their positions indicated by single carbon atoms.

The three-dimensional structure of crystalline porcine pancreatic elastase

1970 ◽  
Vol 257 (813) ◽  
pp. 111-118 ◽  
Keyword(s):  
Amino Acid ◽  
Catalytic Mechanism ◽  
Polypeptide Chain ◽  
Molecular Model ◽  
Three Dimensional ◽  
Dimensional Structure ◽  
Side Chains ◽  
Peptide Bonds ◽  
Single Polypeptide Chain ◽  
Single Polypeptide

Elastase is a proteolytic enzyme obtained from pig pancreas, which shows a high degree of amino acid sequence homology with other serine proteinases, including bovine trypsin and chymotrypsin (Hartley, this volume, p. 77). It consists of a single polypeptide chain of 240 residues, which corresponds to the single polypeptide chain of trypsin, and the B and C chains of chymotrypsin. Elastase possesses a common catalytic mechanism with these enzymes but differs from them in its substrate specificity, cleaving peptide bonds on the carboxyl terminal side of amino acid residues lacking charged or aromatic side chains (Naughton & Sanger 1961). Several workers have suggested that homologous enzymes with common catalytic mechanisms have very similar tertiary structures. This prediction was supported by Blow and his co-workers, who found that the two disulphide bridges present in trypsin, but absent in chymotrypsin, could be built into the molecular model of a-chymotrypsin with little or no distortion of the polypeptide chain (Sigler, Blow, Matthews & Henderson 1968), and by Hartley (this volume, p. 77) who has shown that the trypsin and elastase side chains can be substituted for those present in a skeletal molecular model of a-chymotrypsin with no gross distortions of the polypeptide chain.

Amino acid sequence of cyanogen bromide fragment CB5 of human hemopexin

1989 ◽  
Vol 54 (3) ◽  
pp. 803-810 ◽  
Author(s):  
Ivan Kluh ◽  
Ladislav Morávek ◽  
Manfred Pavlík
Keyword(s):  
Amino Acid ◽  
Amino Acid Sequence ◽  
Acid Hydrolysis ◽  
Cyanogen Bromide ◽  
Polypeptide Chain ◽  
Amino Acid Residues ◽  
Mild Acid Hydrolysis ◽  
Methionine Residue ◽  
Cyanogen Bromide Fragment ◽  
Mild Acid

Cyanogen bromide fragment CB5 represents the region of the polypeptide chain of hemopexin between the fourth and fifth methionine residue (residues 232-352). It contains 120 amino acid residues in the following sequence: Arg-Cys-Ser-Pro-His-Leu-Val-Leu-Ser-Ala-Leu-Thr-Ser-Asp-Asn-His-Gly-Ala-Thr-Tyr-Ala-Phe-Ser-Gly-Thr-His-Tyr-Trp-Arg-Leu-Asp-Thr-Ser-Arg-Asp-Gly-Trp-His-Ser-Trp-Pro-Ile-Ala-His-Gln-Trp-Pro-Gln-Gly-Pro-Ser-Ala-Val-Asp-Ala-Ala-Phe-Ser-Trp-Glu-Glu-Lys-Leu-Tyr-Leu-Val-Gln-Gly-Thr-Gln-Val-Tyr-Val-Phe-Leu-Thr-Lys-Gly-Gly-Tyr-Thr-Leu-Val-Ser-Gly-Tyr-Pro-Lys-Arg-Leu-Glu-Lys-Glu-Val-Gly-Thr-Pro-His-Gly-Ile-Ile-Leu-Asp-Ser-Val-Asp-Ala-Ala-Phe-Ile-Cys-Pro-Gly-Ser-Ser-Arg-Leu-His-Ile-Met. The sequence was derived from the data on peptides prepared by cleavage of fragment CB5 by mild acid hydrolysis, by trypsin and chymotrypsin.

scholarly journals Bile-pigment formation from different leghaemoglobins. Methine-bridge specificity of coupled oxidation

1978 ◽  
Vol 176 (2) ◽  
pp. 359-364 ◽  
Author(s):  
Päivi Lehtovaara ◽  
Ulla Perttilä
Keyword(s):  
Amino Acid ◽  
Polypeptide Chain ◽  
Broad Bean ◽  
Amino Acid Sequences ◽  
Second Step ◽  
Bile Pigment ◽  
Site Specificity ◽  
Amino Acid Residues ◽  
Reaction Step ◽  
Pigment Formation

The coupled oxidation of leghaemoglobins with O2 and ascorbate yielded oxyleghaemoglobin in the first reaction step, and the second step was the degradation of haem characterized by an A675 increase. Leghaemoglobins were degraded to biliverdin isomers specifically, depending on the structure of the protein. The main leghaemoglobin components of Glycine (soya bean) and Phaseolus (kidney bean) were degraded to biliverdin mixtures containing about 50% of the β-form, about 30% of the α-form and about 20% of the δ-isomer, whereas the leghaemoglobin I components of Vicia (broad bean) and Pisum (pea) were degraded almost exclusively to the β-isomer, with traces of the α-isomer. The amino acid sequences of Glycine and Phaseolus leghaemoglobins resemble each other, as do those of Vicia and Pisum. The site specificity of bile-pigment formation from leghaemoglobins can be tentatively explained by specific differences in the amino acid sequences at those regions of the polypeptide chain that are in the vicinity of the appropriate methine bridges. The ligand-binding site in different leghaemoglobins may be outlined on the basis of the present results, supposing that the haem is degraded when a reduction product of haem-bound O2 reacts with a methine bridge of the haem, and that the bridge specificity is regulated by hindering amino acid residues that determine the location of the bound O2. The residue phenylalanine-CD1 appears to be further away from the haem plane or in a markedly more flexible position in leghaemoglobins than in mammalian globins. The haem-bound oxygen atom B, in Fe–O(A)–O(B), seems to be free to rotate in all directions except that of the γ-bridge in Glycine and Phaseolus leghaemoglobins, but its position in Vicia and Pisum leghaemoglobin I might be restricted to the direction of the β-methine bridge.

Structural characterization of folded and extended conformations in peptides containing γ amino acids with proteinogenic side chains: crystal structures of γn, (αγ)n and γγδγ sequences

2015 ◽  
Vol 39 (5) ◽  
pp. 3319-3326 ◽  
Author(s):  
Madhusudana M. B. Reddy ◽  
K. Basuroy ◽  
S. Chandrappa ◽  
B. Dinesh ◽  
B. Vasantha ◽  
...  
Keyword(s):  
Amino Acids ◽  
Amino Acid ◽  
Crystal Structures ◽  
Structural Characterization ◽  
Side Chains ◽  
Amino Acid Residues

γn amino acid residues can be incorporated into structures in γn and hybrid sequences containing folded and extended α and δ residues.

scholarly journals Anti-M monoclonal antibodies cross-reacting with variant Mg antigen: an example of modulation of antigenic properties of peptide by its glycosylation

Blood ◽  
1994 ◽  
Vol 84 (7) ◽  
pp. 2340-2345 ◽  
Author(s):  
E Jaskiewicz ◽  
M Czerwinski ◽  
D Syper ◽  
E Lisowska
Keyword(s):  
Monoclonal Antibodies ◽  
Amino Acid ◽  
Blood Group ◽  
Polypeptide Chain ◽  
Protein Glycosylation ◽  
Glycophorin A ◽  
Amino Acid Residues ◽  
Terminal Portion ◽  
Peptide Analogs ◽  
Antigenic Properties

Abstract Some monoclonal antibodies (MoAbs) directed against blood group M- related epitope of glycophorin A (GPA) were found to agglutinate rare variant erythrocytes carrying GPA of Mg type. In contradistinction to normal GPA-M or -N, the N-terminal portion of GPA-Mg is not glycosylated. Therefore, the multipin peptide synthesis was used for testing the specificity of the cross-reacting MoAbs. Among several anti- M and anti-N MoAbs tested, only three anti-M (E3, E6, 425/2B) agglutinated Mg erythrocytes and showed binding to the synthetic octapeptides corresponding to N-terminal sequences of GPA-M (SSTTGVAM), GPA-N (LSTTEVAM), and GPA-Mg (LSTNEVAM). Testing multiple peptide analogs (window and replacement analysis) showed that these MoAbs were specific for peptidic epitope in which Met8 and Val6 were the most essential amino acid residues. The amino acid replacements Ser<-->Leu1 or Gly<-->Glu5 (M v N) and Thr<-->Asn4 (M and N v Mg) had no or negligible effect on the reaction of synthetic peptides with the MoAbs. However, when Ser2, Thr3, and Thr4 carry O-linked sialooligosaccharides (normal GPA-M or -N), the MoAbs recognize Gly5- and sialic acid- dependent blood group M-related epitope. An interesting finding concerning anti-M/Mg MoAbs described here is the fact that glycosylation of amino acid residues adjacent to the most important part of peptidic epitope not only differentially modulates the proper exposure of peptidic epitope, but also alters the requirement for some amino acid residues present within the epitope. Pathologic conditions, including hematologic disorders, are often accompanied by alterations in protein glycosylation, resulting not only from differences in the structure of antigen polypeptide chain, but also from changes in specificity or expression of enzymes involved in glycosylation. Our present findings draw attention to possibility of the bidirectional modulation of protein antigenicity by glycosylation and may be helpful in interpretation of some results obtained with MoAb used for diagnostic or other purposes.

The power of the force: mechano-physiology of the giant titin

2018 ◽  
Vol 2 (5) ◽  
pp. 681-686 ◽  
Author(s):  
Jaime Andrés Rivas-Pardo
Keyword(s):  
Amino Acid ◽  
Human Body ◽  
Actin Filaments ◽  
Polypeptide Chain ◽  
Single Gene ◽  
The Other ◽  
Amino Acid Residues ◽  
The Third ◽  
Single Polypeptide Chain ◽  
Single Polypeptide

Titin — the largest protein in the human body — spans half of the muscle sarcomere from the Z-disk to the M-band through a single polypeptide chain. More than 30 000 amino acid residues coded from a single gene (TTN, in humans Q8WZ42) form a long filamentous protein organized in individual globular domains concatenated in tandem. Owing to its location and close interaction with the other muscle filaments, titin is considered the third filament of muscle, after the thick-myosin and the thin-actin filaments.

Structure-activity studies of dermorphin. The role of side chains of amino acid residues on the biological activity of dermorphin

Peptides ◽  
1984 ◽  
Vol 5 (4) ◽  
pp. 687-689 ◽  
Author(s):  
Krzysztof Darłak ◽  
Zbigniew Grzonka ◽  
Pawel Krzaścik ◽  
Piotr Janicki ◽  
S.Witold Gumułka
Keyword(s):  
Biological Activity ◽  
Amino Acid ◽  
Side Chains ◽  
Amino Acid Residues ◽  
Structure Activity

scholarly journals Computational Insights into the Interaction between Cytoadherence Receptor gC1qR and the DBLβ12 Domain of a Plasmodium falciparum PfEMP1 Ligand

Life ◽  
2021 ◽  
Vol 11 (9) ◽  
pp. 993
Author(s):  
Rowaida Bakri ◽  
Mohd Rehan ◽  
Hina Shamshad ◽  
Abdul Hafiz
Keyword(s):  
Plasmodium Falciparum ◽  
Amino Acid ◽  
Binding Sites ◽  
Molecular Model ◽  
Protein Docking ◽  
Amino Acid Residues ◽  
Structural Insights ◽  
Malaria Interventions ◽  
Falciparum Erythrocyte Membrane Protein ◽  
Human Receptor

Human receptor gC1qR is a 32 kD protein that mediates the cytoadherence of Plasmodium falciparum-infected erythrocytes (IEs) to human brain microvascular endothelial cells (HBMEC) and platelets. The cytoadherence of IEs to gC1qR has been associated with severe malaria symptoms. The cytoadherence to gC1qR is mediated by the Duffy binding-like β12 (DBLβ12) domain of Plasmodium falciparum erythrocyte membrane protein 1 (PfEMP1), PFD0020c. Here, we report the structural insights into the binding of the DBLβ12 domain of PfEMP1 with the human receptor gC1qR using computational methods. A molecular model of the DBLβ12 domain was generated and used for protein–protein docking with the host receptor gC1qR. The protein–protein docking revealed that the DBLβ12 asymmetrically interacts with two subunits of the gC1qR trimer at the solution face of gC1qR. A total of 21 amino acid residues of DBLβ12 interact with 26 amino acid residues in the gC1qR trimer through 99 nonbonding interactions and 4 hydrogen bonds. Comparative analysis of binding sites on the DBL domain fold for the two receptors gC1qR and ICAM1 showed that the two sites are distinct. This is the first study that provides structural insights into DBLβ12 binding with its receptor gC1qR and may help in designing novel antisevere malaria interventions.

scholarly journals The overexpression and complete amino acid sequence of Escherichia coli 3-dehydroquinase

1986 ◽  
Vol 238 (2) ◽  
pp. 475-483 ◽  
Author(s):  
K Duncan ◽  
S Chaudhuri ◽  
M S Campbell ◽  
J R Coggins
Keyword(s):  
Escherichia Coli ◽  
Amino Acid ◽  
Nucleotide Sequence ◽  
Amino Acid Sequence ◽  
Polypeptide Chain ◽  
Amino Acid Residues ◽  
Transcript Mapping ◽  
Terminal Amino Acid ◽  
Terminal Amino ◽  
Terminal Amino Acid Sequence

The enzyme 3-dehydroquinase was purified in milligram quantities from an overproducing strain of Escherichia coli. The amino acid sequence was deduced from the nucleotide sequence of the aroD gene and confirmed by determining the amino acid composition of the overproduced enzyme and its N-terminal amino acid sequence. The complete polypeptide chain consists of 240 amino acid residues and has a calculated subunit Mr of 26,377. Transcript mapping revealed that aroD is a typical monocistronic gene.

Attraction of Aedes aegypti (L.): responses to human arms, carbon dioxide, and air currents in a new type of olfactometer

1969 ◽  
Vol 58 (3) ◽  
pp. 629-642 ◽  
Author(s):  
M. S. Mayer ◽  
J. D. James
Keyword(s):  
Carbon Dioxide ◽  
Aedes Aegypti ◽  
Large Scale ◽  
Host Location ◽  
Direct Method ◽  
Behavioural Effects ◽  
Infra Red ◽  
New Type ◽  
Red Radiation ◽  
A Current

A new type of olfactometer was designed to study the responses of mosquitos to various stimuli. Hosts could be displayed downwind as well as upwind from the mosquitos, and two hosts could be displayed simultaneously, one upwind from the other. Responses to radiations, if any, and to odours could be measured.Mosquitos were not attracted downwind to an arm displayed within 61 cm., even when they were stimulated by CO2 (under an incident illumination of about 10 foot-candles). About half the mosquitos showed a positive anemotactic response (i.e., they left the end downwind compartment in which they were released) in a current of room air, which undoubtedly contained human emanations. Only 15 per cent, responded to filtered air. Carbon dioxide caused no increase in response to filtered air but increased the number responding to room air (76 per cent, left the end down-wind compartment). Equal numbers of mosquitos responded to an arm displayed upwind in room air and in filtered air, i.e., about 83 per cent, left the end compartment. Carbon dioxide caused no increase in the number of mosquitos responding to an arm but increased the number responding to attenuated emanations from an arm. A repellent (deet) eliminated most of the response to an arm; the addition of carbon dioxide increased upwind flight to the treated arm, but many of the mosquitos flew past it. Carbon dioxide therefore appears to have a synergistic action with arm odours in the attraction of females of Aedes aegypti (L.). However, this conclusion does not exclude other behavioural effects of carbon dioxide demonstrated by other investigators.Eesponses to arms in this new type of olfactometer were nearly identical to those obtained in another type previously used in a large-scale study. The testing confirmed earlier reports that mosquitos do not fly far in the same direction as wind-current and that host location was not possible through positive anemotaxis in the absence of light. Mosquitos were not attracted to a source of infra-red radiation.The new direct method of comparing the attractiveness of different subjects demonstrated that mosquitos would leave the vicinity of one arm and migrate further upwind to another that was more attractive. Water and acetone rinses of human arms reduced attraction; acetone appeared to be a better solvent for the attractant substance than water.

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