Brookhaven

Preparation of a Brookhaven Protein Data Bank (PDB)-formatted [10] file containing the coordinates and appropriate names of all atoms, including all polar and aromatic hydrogens. 

To find appropriate empirical pair potentials from the known protein structures in the Brookhaven Protein Data Bank, it is necessary to calculate densities for the distance distribution of Ga-atoms at given bond distance d and given residue assignments ai,a2- Up to a constant factor that is immaterial for subsequent structure determination by global optimization, the potentials then ciiiergo as the negative logarithm of the densities. Since... 

We tested our new potential by applying a local optimization procedure to the potential of some proteins, starting with the native structure as given in the Brookhaven Protein Data Bank, and observing how far the coordinates moved through local optimization. For a good potential, one expects the optimizer to be close to the native structure. As in Ulrich et al. [34], we measure the distance between optimizer B and native structure A by the distance matrix error... 

D.R. Stampf, C.E. Felser and J.L. Sussman, PDBBrowse - a graphics interface to the Brookhaven Protein Data Bank, Nature 374 (1995), 572-574. 

L.L. Walsh, Navigating the Brookhaven Protein Data Bank, Gabos Communication 10 (1994), 551-557. 

In 1971 the Protein Data Bank - PDB [146] (see Section 5.8 for a complete story and description) - was established at Brookhaven National Laboratories - BNL -as an archive for biological macromolccular cr7stal structures. This database moved in 1998 to the Research Collaboratory for Structural Bioinformatics -RCSB. A key component in the creation of such a public archive of information was the development of a method for effreient and uniform capture and curation of the data [147], The result of the effort was the PDB file format [53], which evolved over time through several different and non-uniform versions. Nevertheless, the PDB file format has become the standard representation for exchanging inacromolecular information derived from X-ray diffraction and NMR studies, primarily for proteins and nucleic acids. In 1998 the database was moved to the Research Collaboratory for Structural Bioinformatics - RCSB. 

HyperChem contains a database of amino and nucleic acid residues so you can quickly build polymers con laining these subunits. You can also read in structures in files from standard databases, such as the Brookhaven Protein Data Bank (see the HyperChem Reference Manual). 

The "time of flight" mass spectrometer has been used to confirm that this highly radioactive halogen behaves chemically very much like other halogens, particularly iodine. Astatine is said to be more metallic than iodine, and, like iodine, it probably accumulates in the thyroid gland. Workers at the Brookhaven National Laboratory have recently used reactive scattering in crossed molecular beams to identify and measure elementary reactions involving astatine. 

In the snmmer of 1962, I was able for the first time to present my work in pnblic at the Brookhaven Organic Reaction Mechanism Conference, and subsequently in a number of other presentations and publications. I had convincing evidence to substantiate that, after a... 

PDB Databases Brookhaven Protein Data Bank Brookhaven National Laboratory... 

Mueller Associates, Inc., Syscon Corporation, and Brookhaven National Laboratory, Handbook of Radon in Buildings, Hemisphere Publishing Corporation, New York, 1988, p. 95. 

N. M. Bemholc, S. C. Morris, III, andJ. E. Brower, BiologicalPffects Summary Report4,4 -Methylenedianiline (BNL-51903), Brookhaven National Laboratory, Upton, N.Y., 1985. 

Fig. 3. Representation of the nine principal folds which recur in protein stmctures, where the codes of the representative proteins taken from the Brookhaven Protein Data Bank (PDB) (17) are given in parentheses (18) (1) globin (Ithb) (2) trefoil (lilb) (3) up—down (256b) (4) immunoglobulin folds...

Nuclear Data Sheets, Academic Press, San Diego, Calif., TvaluatedNuclear Structure Data File (ENSDF), a computer database of nuclear stmcture data evaluated by an international network of evaluators, is maintained at the National Nuclear Data Center, Brookhaven National Laboratory. NUDNTis a computer database of decay data extracted from the ENSDF. 

Zeta potential Photon correlation Spectroscopy Zeta Plus, Micromeretics, Zeta sizer Malvern, Nicomp, Brookhaven, Goulter, Photol 0.001-30 im 0.1-1 lm... 

Where specialized fluctuation data are not available, estimates of horizontal spreading can be approximated from convential wind direction traces. A method suggested by Smith (2) and Singer and Smith (10) uses classificahon of the wind direction trace to determine the turbulence characteristics of the atmosphere, which are then used to infer the dispersion. Five turbulence classes are determined from inspection of the analog record of wind direction over a period of 1 h. These classes are defined in Table 19-1. The atmosphere is classified as A, B2, Bj, C, or D. At Brookhaven National Laboratory, where the system was devised, the most unstable category. A, occurs infrequently enough that insufficient information is available to estimate its dispersion parameters. For the other four classes, the equations, coefficients, and exponents for the dispersion parameters are given in Table 19-2, where the source to receptor distance x is in meters. 

Brookhaven Gustiness Classes (Based on Variations of Horizontal Wind Direction over 1 Hr at the Height of Release)... 

The Brookhaven Protein Data Bank, PDB (http //www.pdb.bnl.gov), is the primary store of experimentally determined atomic coordinates of proteins. Each coordinate set has a unique identification code that can be... 

Crease, R.C. (1999) Making Physics A Biography of Brookhaven National Laboratory, 1946 1972, Chapter 12 (University of Chicago Press, Chicago) p. 316. 

Casimir, in his memoirs, mentions that the first Philips representative to visit Brookhaven gave the design team a set of guaranteed magnetic specifications which were too conservative, and Brookhaven was pleased to find that the material was better than they had been led to expect. Casimir reckons that Brookhaven must have concluded that Philips was dumb but honest . 

The simulation of molecular (or atomic) dynamics on a computer was invented by the physicist George Vineyard, working at Brookhaven National Laboratory in New York State. This laboratory, whose biography has recently been published (Crease 1999), was set up soon after World War II by a group of American universities. 

The HFBR at Brookhaven National Laboratory is a heavy water moderated and cooled reactor designed to provide an intense beam of neutrons to the experimental area. In addition using thimbles i oiitaincd within the vessel, it provides isotopic production, neutron activation analysis, ami muiemi irradiations. It began operation in 1965 at a power of 40 MW to be upgraded to 60 MW m 19S2. 

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