Gene/Protein Disease Symptom Drug Enzyme Compound
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Query: UNIPROT:P06889 (Mol)
 630,302 document(s) hit in 31,850,051 MEDLINE articles (0.00 seconds)

PCDRA was designed to provide the average biologist with a user-friendly molecular display on a low-cost personal computer. The package is menu driven and is built so that a biologist, with little or no computing knowledge, finds it easy to use. The system gives a color representation with depth cueing of a protein whose atomic coordinates are stored as a PDB file. Moreover, the system presents several features similar to HYDRA and therefore is a good introduction to molecular graphics, especially for beginners in protein modeling.
J Mol Graph 1990 Mar
PMID:PCDRA: PC interactive molecular representation and modeling system. 226 26

The synergism between H1- and H2-receptors in the histamine-induced stimulation of cAMP accumulation was studied in slices from guinea pig hippocampus. Since H1-receptors appear to be coupled to the phosphatidylinositol cycle, the participation of the two branches of the cycle in this synergism was assessed by using phorbol esters and/or by removing Ca2+ from the external medium. The protein kinase C activator, 4 beta-phorbol 12,13-dibutyrate (4 beta-PDB), strongly potentiated, with an EC50 of 0.2 microM, the accumulation of cAMP elicited by dimaprit, an H2-receptor agonist used at supramaximal concentration (0.3 mM). The effect of 4 beta-PDB was also observed in the presence of impromidine, an H2-receptor agonist, and histamine. 4 beta-Phorbol 12-myristate, 13-acetate, another protein kinase C activator, also potentiated the effect of dimaprit in a concentration-dependent manner although less potently than 4 beta-PDB. In contrast, 4 alpha-phorbol or the phorbol esters, 4 alpha-phorbol 12,13-didecanoate or 4-O-methylphorbol 12-myristate, 13-acetate, all inactive on protein kinase C, had no potentiating effect. 2-Thiazolylethylamine (2-TEA), a predominantly H1-receptor agonist, increased the stimulation induced by dimaprit (0.3 mM), and this response was further enhanced in the presence of 4 beta-PDB in maximal concentration (1 microM). Mepyramine (0.1 microM) antagonized the H1-receptor-mediated effect in the absence as well as the presence of 4 beta-PDB. The phorbol ester did not significantly alter the EC50 of 2-TEA or the magnitude of its effect. In the absence of phorbol esters, removal of Ca2+ from the incubation medium did not change the response elicited by 0.3 mM dimaprit but reduced by 50% the response to a supramaximal concentration of 2-TEA. This effect was more marked when EGTA was added in the Ca2+-free medium. The EC50 value of 2-TEA was only slightly modified in the absence of Ca2+ (180 +/- 20 microM as compared with 70 +/- 4 microM in the presence of 2.6 mM Ca2+). In the presence of 4 beta-PDB (1 microM), removal of Ca2+, particularly in the presence of EGTA, did not affect or slightly increased the response to dimaprit, but still strongly reduced the response to 2-TEA. The Ca2+ ionophore A 23187 (10 microM) showed a tendency to mimic the potentiating effect of 2-TEA.(ABSTRACT TRUNCATED AT 400 WORDS)
Mol Pharmacol 1988 Jan
PMID:Synergism between histamine H1- and H2-receptors in the cAMP response in guinea pig brain slices: effects of phorbol esters and calcium. 282 97

1. In the present paper two questions are discussed: (A) Does protein kinase C (PKC) participate in the modulation of evoked noradrenaline release in brain tissue? and (B) Is there any link between presynaptic alpha 2-adrenoceptors and regulatory G proteins? 2. Slices of the middle part of the rabbit hippocampus, labeled with 3H-noradrenaline, were superfused with medium containing the reuptake inhibitor cocaine. During superfusion the tissue was stimulated twice electrically for 2 min each. 3. The PKC activators 4 beta-phorbol 12,13-dibutyrate (4 beta-PDB) and 12-O-tetradecanoyl phorbol 13-acetate (TPA) increased the stimulation-evoked transmitter release in a concentration-dependent manner. 4 alpha-PDB and 4-O-methyl-TPA, which do not activate PKC, were without effect on transmitter release. Polymyxin B, an inhibitor of PKC, diminished the stimulus-evoked overflow and counteracted the effects of the phorbol esters. The increases in release caused by phorbol esters and the alpha 2-adrenoceptor antagonist yohimbine were additive. 4. Treatment of hippocampal tissue with islet-activating protein (IAP) or N-ethylmaleimide (NEM), both known to inactivate the regulatory G proteins Gi and Go by chemical modification, led to a marked increase in evoked noradrenaline release. In addition, the effects of both the alpha 2-adrenoceptor agonist clonidine and the alpha 2-adrenoceptor antagonist yohimbine were inhibited. 5. The facilitatory effects of IAP and NEM on transmitter release were not additive. In synaptosomes prepared from rabbit hippocampus two polypeptides with molecular weights corresponding to those of alpha i and alpha o were 32P-ADP-ribosylated with IAP. Pretreatment of synaptosomes with NEM reduced the subsequent ADP ribosylation by IAP concentration dependently. 6. The above results suggest that PKC is involved in the modulation of noradrenaline release in the rabbit hippocampus. The presynaptic alpha 2-autoreceptors modulate transmitter release by a mechanism which is not directly affected by PKC. The alpha 2-autoreceptor-mediated signals seem to be transduced across the plasma membrane via regulatory G proteins.
Cell Mol Neurobiol 1988 Mar
PMID:Participation of protein kinase C and regulatory G proteins in modulation of the evoked noradrenaline release in brain. 284 Oct 25

We have evaluated the catalytic and receptor-binding properties of protein kinase C in swine luteal cytosol using two complementary approaches: assay of catalytic activity assessed as the enzymatic transfer of radiolabeled phosphate to histone III-s acceptor protein in the presence of specific phospholipid, diacylglycerol, or phorbol ester and ionic calcium; and, the high-affinity binding of [3H]phorbol-12,13-dibutyrate ([3H]PDB) to the protein kinase C receptor. Catalytic properties of pig luteal protein kinase C included: absolute dependence on calcium ions for maximal activation (approximate ka = 0.5 microM); synergistic activation by 1,2-sn-diolein, phospholipid and calcium ions; and rank order of specific phospholipid activational potency: phosphatidylserine greater than phosphatidic acid greater than phosphatidylinositol greater than phosphatidylethanolamine greater than phosphatidylcholine. The enzyme was also activated by specific phorbol esters at the following half-maximally effective (ED50) concentrations: 12-O-tetradecanoylphorbol-13-acetate (TPA) 11 nM; phorbol-12,13-dibenzoate (PDBe) 26 nM; phorbol-12,13-dibutyrate (PDBu) 33 nM; mezerein 65 nM; and phorbol-12,13-diacetate (PDA) 130 nM. Phorbol-ester receptor properties of protein kinase C included specific, high-affinity (kd congruent to 19 nM), saturable, low-capacity (congruent to 44 pmol/mg protein) [3H]PDB binding sites. Moreover, the rank order of the equilibrium binding ID50s for various phorbol compounds was similar to that of catalytic ED50s: viz. 3 nM TPA; 8 nM PDBe; 16 nM PDBu; 19 nM mezerein; and 590 nM PDA. Thus, swine luteal cytosol contains catalytically active protein kinase C with specific phospholipid sensitivity, synergistic activation by diacylglycerol, phospholipid and calcium, and a strict dependence on ionic calcium concentrations that is influenced markedly by the presence of diacylglycerol.(ABSTRACT TRUNCATED AT 250 WORDS)
Mol Cell Endocrinol 1987 Mar
PMID:Catalytic and receptor-binding properties of the calcium-sensitive phospholipid-dependent protein kinase (protein kinase C) in swine luteal cytosol. 347 79

Homology modelling, currently, is the only theoretical tool which can successfully predict protein 3D structure. As 3D structure is conserved in sequence families, homology modelling allows to predict 3D structure for 20% of SWISSPROT. 20% of the proteins in PDB are remote homologues to another PDB protein. Threading techniques attempt to predict such remote homologues based on sequence information. Here, a new threading method is presented. First, for a list of PDB proteins, 3D structure was projected onto 1D strings of secondary structure and relative solvent accessibility. Then, secondary structure and accessibility were predicted by neural network systems (PHD). Finally, the predicted and observed 1D strings were aligned by dynamic programming. The resulting alignment was used to detect remote 3D homologues. Four results stand out. Firstly, even for an optimal prediction (assignment based on known structure), only about half the hits that ranked above a given threshold were correctly identified as remote homologues; only about 25% of the first hits were correct. Secondly, real predictions (PHD) were not much worse: about 20% of the first hits were correct. Thirdly, a simple filtering procedure improved prediction performance to about 30% correct first hits. The correct hit ranked among the first three for more than 23 out of 46 cases. Fourthly, the combination of the 1D threading and sequence alignments markedly improved the performance of the threading method TOPITS for some selected cases.
Proc Int Conf Intell Syst Mol Biol 1995
PMID:TOPITS: threading one-dimensional predictions into three-dimensional structures. 758 54

A program is described that allows the user to analyze and display atomic structures on any Macintosh personal computer. The program reads ASCII format structure files including PDB, plot files from the graphics programs O and FRODO, and Cartesian coordinates from ChemDraw 3D. The program has a graphical interface that features floating button palettes for objects and tools. The structures may be displayed using stick, ball-and-stick, space-filling, and ribbon models. Each type of drawing can be colored according to a variety of schemes to accentuate various structural aspects. The figures can be rotated, displayed in stereo, and exported using the Clipboard, PICT files, or Quick-Time movies. The structure can be further analyzed by displaying hydrogen bonds, making Ramachandran plots, labeling atoms, measuring distances, and finding neighboring atoms. By using the Macintosh computer and emphasizing a graphical interface, this program helps to bring structural analysis to students and researchers that may not have access to, or experience with, large graphics workstations. In addition, the object-oriented output PICT images are ideal for creating publication-ready diagrams that can be easily modified or inserted into other documents (e.g., see Refs. 1-3).
J Mol Graph 1995 Apr
PMID:MolView: a program for analyzing and displaying atomic structures on the Macintosh personal computer. 761 87

MacMolecular displays small- to medium-sized biomolecules, with particular emphasis on peptides. It has been developed to run on color Macintosh computers. The display can be stick, ball and stick, depth cued by thickness stick, or several types of space-filling representations. The program takes input from standard PDB files, simple Cartesian coordinate files, and, in addition, from Kinemage files in which atom information has been included. The program allows color changes of various types as well as the normal functions of translation, rotation, and zooming. In addition, animation files may be produced for subsequent display. Bonding of atoms is done by a distance algorithm (standard) or sequentially to properly display C alpha traces and traces of peptides containing simplified representations of amino acids. Stereo viewing is available, and manipulated structures which were drawn from PDB files can be written out to new PDB files. In addition, PICT files of the drawing window can be generated.
J Mol Graph 1994 Sep
PMID:MacMolecular: a program for visualization of molecular structures on the Macintosh. 781 65

Description of open CAN format (Compressed Amino acids and Nucleotides) is presented for storing genetic information in compressed form in data banks (DB). Data compression principles are demonstrated in detail on examples of EMBL DB (sequences of nucleotides), SWISSPROT DB (sequences of amino acids) and PDB DB (3D structures). A unified compressed data format provides a possibility to integrate EMBL, SWISSPROT, and PDB DB in one data bank. We are going to use this approach for integration of GENBANK and other similar DBs. One of the outcomes of the research is a library of data retrieval procedures for access to DB, providing developers of the application software packages with a uniform interface to DBs with biologically related data. The proposed scheme for data representation was recommended by the Expert Commission of the Informatics Section of the RSSIP "Human Genome" as a standard for distribution of data banks in Russia.
Mol Biol (Mosk)
PMID:[A compressed form for presenting data to banks on the primary and spatial structure of biopolymers. Means for accessing compressed data banks]. 814 48

The SURFNET program generates molecular surfaces and gaps between surfaces from 3D coordinates supplied in a PDB-format file. The gap regions can correspond to the voids between two or more molecules, or to the internal cavities and surface grooves within a single molecule. The program is particularly useful in clearly delineating the regions of the active site of a protein. It can also generate 3D contour surfaces of the density distributions of any set of 3D data points. All output surfaces can be viewed interactively, along with the molecules or data points in question, using some of the best-known molecular modeling packages. In addition, PostScript output is available, and the generated surfaces can be rendered using various other graphics packages.
J Mol Graph 1995 Oct
PMID:SURFNET: a program for visualizing molecular surfaces, cavities, and intermolecular interactions. 860 61

A software package is described that operates on small molecules observed in the PDB collection of protein structures. Molecular topology files for many molecular modeling programs can be generated automatically. The three-dimensional coordinates of small molecules can be converted to molecular descriptor strings that encode them uniquely in order to enable small-molecule recognition, despite high variability in atom and molecule nomenclature. From this descriptor a plausible 3D structure can be regenerated using energy minimisation. Alternatively, an ensemble of structures can be generated using a distance-geometry-based algorithm.
J Comput Aided Mol Des 1996 Jun
PMID:PRODRG, a program for generating molecular topologies and unique molecular descriptors from coordinates of small molecules. 880 41


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