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Showing papers in "Journal of Molecular Biology in 1982"


Journal ArticleDOI
TL;DR: A computer program that progressively evaluates the hydrophilicity and hydrophobicity of a protein along its amino acid sequence has been devised and its simplicity and its graphic nature make it a very useful tool for the evaluation of protein structures.

21,921 citations


Journal ArticleDOI
TL;DR: A method to explore geometrically feasible alignments of ligands and receptors of known structure and finds distinctly different geometries that provide good steric fits seems well-suited for generating starting conformations for energy refinement programs and interactive computer graphics routines.

2,197 citations


Journal ArticleDOI
TL;DR: The algorithm of Waterman et al. (1976) for matching biological sequences was modified under some limitations to be accomplished in essentially MN steps, instead of the M 2 N steps necessary in the original algorithm.

1,760 citations


Journal ArticleDOI
TL;DR: The distribution of other rare codons in the genes of the left arm suggests that they may have a controlling function on the relative amounts of the proteins produced, and the genome is fairly compact with comparatively little non-coding DNA.

1,099 citations


Journal ArticleDOI
TL;DR: Modelling the helix dipoles with positive and negative charges shows that the α-helical structure could stabilize negatively charged substrates in the active site cleft of an enzyme with an energy of a few kT.

910 citations


Journal ArticleDOI
TL;DR: Clear correlations between predictions and the actual preferences among synonymous codons were revealed, indicating that the codon choices in yeast genes are also constrained by a combination of tRNA availability and nature of its codon recognition.

588 citations


Journal ArticleDOI
TL;DR: Calculated distance measurements imply that corresponding distance measurements can be used for resonance assignments in the side-chains of the aromatic amino acid residues, asparagine and glutamine, where the complete spin systems cannot usually be identified from through-bond spin-spin coupling connectivities.

570 citations


Journal ArticleDOI
TL;DR: The assignment of the 1Hnuclear magnetic resonance spectrum of the basic pancreatic trypsin inhibitor with the use of two-dimensional 1H nuclear magnetic resonance techniques at 500 MHz is described.

542 citations


Journal ArticleDOI
TL;DR: A general scheme that relies on experimental observation by two-dimensional nuclear magnetic resonance techniques of complete throughbond and through-space proton-proton connectivity maps to obtain sequential resonance assignments for the individual residues in the amino acid sequence is proposed.

541 citations


Journal ArticleDOI
TL;DR: It is concluded that plasmid DNA integrated into Chinese hamster ovary DNA is extremely fluid, as demonstrated by its frequent deletion, and transfected DNA sequences most frequently deleted are also those most frequently amplified on methotrexate selection.

523 citations


Journal ArticleDOI
TL;DR: It is argued that the detailed conformation of B-DNA is a consequence of simple steric repulsive forces between purine bases in consecutive base-pairs but on opposite backbones, and there is a correlation between the cross-chain purine repulsions and the perturbations in helical twist angle.

Journal ArticleDOI
TL;DR: The structure of the thermostable protease thermolysin has been refined by a restrained least-squares procedure and supports the previous assertion that the ther mostable proteins in general is due to a combination of factors which can include hydrophobic interactions, hydrogen bonding, ionic interactions, disulfide linkages, metal binding and other forms of stabilization.

Journal ArticleDOI
TL;DR: Reaction centres of photosynthesis isolated from the photosynthetic bacterium Rhodopseudomonas viridis by a single step of molecular sieve chromatography were crystallized.

Journal ArticleDOI
TL;DR: The co-operative binding of Ca2+ in polyguluronate and polygalacturonate gels, is through “egg-box” complexes with the polysaccharide chains in analogous 21 conformations.

Journal ArticleDOI
TL;DR: It is suggested that vesicular stomatitis virus enters MDCK cells by endocytosis in coated pits and coated vesicles, and is transported to the lysosome where the low pH triggers a fusion reaction ultimately leading to the transfer of the genome into the cytoplasm.

Journal ArticleDOI
TL;DR: This result indicates that the length of polygalacturonate sequences between rhamnose interruptions is approximately constant within and between the pectins studied, and provides further support for the model of junction zone formation from sequences of contiguous deesterified residues, with Ca 2+ -mediated chain dimers providing the primary associations that can offer resistance to deformation.

Journal ArticleDOI
TL;DR: Measurements of the amide proton-C α proton cross-peak intensities in the two-dimensional homonuclear correlated 1 H nuclear magnetic resonance spectra yield exchange rates for the individual amide protons that are for the first time obtained for numerous peptide groups located near the protein surface in the single crystal structure of BPTI.

Journal ArticleDOI
TL;DR: Mossbauer absorption experiments on 57 Fe of deoxygenated myoglobin crystals and on K 4 57 Fe(CN) 6 dissolved in the water of metmyoglobin crystals were performed over a large temperature range, finding that the surface water mediates a possible trigger mechanism that switches on protein dynamics within a narrow temperature interval.

Journal ArticleDOI
TL;DR: The observation that regions of rDNA and histone repeats have become homogeneous for variants that can discriminate between the two most closely related and recently diverged species suggests that additional processes might be required to drive variants to complete fixation.

Journal ArticleDOI
TL;DR: Although certain mechanisms are specific to the double β-sheet structure, the immunoglobulin domains like other families of proteins, accommodate mutations of interior residues through substantial structural changes consistent with the preservation of their function.

Journal ArticleDOI
TL;DR: The molecular structures of ferri-and ferrocytochrome c 551 from Pseudomonas aeruginosa have been refined at a resolution of 1.6 A, to an R factor of 19.5% for the oxidized molecule and 18.7 % for the reduced as mentioned in this paper.

Journal ArticleDOI
TL;DR: The crystal structure of carboxypeptidase A as determined in the inhibitor complex is quite similar to the structure of the unliganded enzyme (Lipscomb et al., 1968), which was solved from an unrelated crystal form.

Journal ArticleDOI
TL;DR: The transcriptional organization and the sequence of a 4000 base region of the chloroplast genome of Chlamydomonas reinhardii have been determined and the 5′ upstream regions of the LS and X genes contain sequences which resemble bacterial translational and transcriptional signals.

Journal ArticleDOI
TL;DR: This article isolated 29 kilobase-pairs of DNA encompassing the centromere-linked gene, TRP1, of Saccharomyces cerevisiae, from chromosome IV of yeast.

Journal ArticleDOI
TL;DR: The results suggest an intercalative mode of binding, which partially unwinds the DNA, in which 18.6 base-pairs and 6.4 recA monomers contribute to one turn of a right-handed helix.

Journal ArticleDOI
TL;DR: A model in which the mutation directly affects only one step, the initial binding, while the observed effect on the isomerization rate is indirect is proposed, which demonstrates that repressor is required only for the formation, but not for the maintenance, of the open complex.

Journal ArticleDOI
TL;DR: It is found that, with rare exceptions, freshly dissected muscles always show a substantial increase in the integrated intensity of the 143 A meridional reflection during the peak of both tetani and twitches, which indicates a close correlation between the helical disordering of crossbridges and tension development.

Journal ArticleDOI
TL;DR: Evidence is presented that confirms that β-mercaptoethanol acts to disrupt metalloprotein interactions important for the stabilization of type I structures and it is demonstrated thattype I structures are stabilized by CaCl2.

Journal ArticleDOI
TL;DR: Guanosine 5′-phosphor)-2-methylimidazolide (2-MeImpG) undergoes an efficient, buffer-independent, template-directed oligomerization in the presence of poly(C) at pH values above 7.6.

Journal ArticleDOI
TL;DR: It is suggested that the intracellular formation of large cruciform structures is incompatible with survival of the DNA species Escherichia coli.