Expanding the Paradigm: Intrinsically Disordered Proteins and Allosteric Regulation.

abstract：:A duck delta II crystallin mutant, where histidine 178 has been replaced by an aspartic acid residue, has been purified from a bacterial expression system and subsequently crystallized. The crystals grow as flat plates, with unit cell dimensions a = 94.1 A, b = 99.9 A, c = 108.7 A and beta = 102 degrees. The crystals ...

journal_title：Journal of molecular biology

authors： Abu-Abed M,Turner MA,Atkinson J,Dole K,Howell PL

更新日期：1994-11-11 00:00:00

abstract：:Plasmid pBR322 prepared from Escherichia coli strains carrying deletion of the DNA topoisomerase I gene (delta topA) with a compensatory mutation of the DNA gyrase gene (gyrA or gyrB) and from their TopA+ transductants was analyzed by agarose gel electrophoresis followed by electron microscopy, and compared with that ...

journal_title：Journal of molecular biology

authors： Shishido K,Komiyama N,Ikawa S

更新日期：1987-05-05 00:00:00

abstract：:Rat genomic clones, which together contain all of the rat genomic gamma-crystallin sequences, have been characterized. Five gamma-crystallin genes are located on a contiguous DNA region, 63 X 10(3) base-pairs long. These genes, named (5') gamma 1-1, gamma 1-2, gamma 2-2 and gamma 3-1 (3'), are all oriented head to tai...

journal_title：Journal of molecular biology

authors： Moormann RJ,den Dunnen JT,Heuyerjans J,Jongbloed RJ,van Leen RW,Lubsen NH,Schoenmakers JG

更新日期：1985-04-05 00:00:00

abstract：:The mini-chromosome maintenance (MCM) complex is the presumptive replicative helicase in archaea and eukaryotes. In archaea, the MCM is a homo-multimer, in eukaryotes a heterohexamer composed of six related subunits, MCM 2-7. Biochemical studies using naked DNA templates have revealed that archaeal MCMs and a sub-comp...

journal_title：Journal of molecular biology

authors： Marsh VL,McGeoch AT,Bell SD

更新日期：2006-04-14 00:00:00

abstract：:Escherichia coli thioesterase I (TAP) is a multifunctional enzyme possessing activities of thioesterase, esterase, arylesterase, protease, and lysophospholipase. In particular, TAP has stereoselectivity for amino acid derivative substrates, hence it is useful for the kinetic resolution of racemic mixtures of industria...

journal_title：Journal of molecular biology

authors： Lo YC,Lin SC,Shaw JF,Liaw YC

更新日期：2003-07-11 00:00:00

abstract：:The three-dimensional structure of a site-directed mutant of the bacterially expressed Fv fragment from monoclonal antibody D1.3, complexed to the specific antigen lysozyme has been determined to a nominal resolution of 1.8 A using X-ray diffraction data. The replacement of VL Trp92 by Asp allows two water molecules t...

journal_title：Journal of molecular biology

authors： Ysern X,Fields BA,Bhat TN,Goldbaum FA,Dall'Acqua W,Schwarz FP,Poljak RJ,Mariuzza RA

更新日期：1994-05-13 00:00:00

abstract：:The FLP recombinase of the 2 mu plasmid of Saccharomyces cerevisiae binds to a target containing three 13 base-pair symmetry elements called a, b and c. The symmetry elements b and c are in direct orientation while the a element is in inverted orientation with respect to b and c on the opposite side of an eight base-p...

journal_title：Journal of molecular biology

authors： Schwartz CJ,Sadowski PD

更新日期：1990-11-20 00:00:00

abstract：:The ion-channel-forming C-terminal fragment of colicin A binds to negatively charged lipid vesicles and provides an example of insertion of a soluble protein into a lipid bilayer. The soluble structure is known from X-ray crystallography and consists of a ten-helix bundle containing a hydrophobic helical hairpin. In t...

journal_title：Journal of molecular biology

authors： Lakey JH,Baty D,Pattus F

更新日期：1991-04-05 00:00:00

abstract：:The catabolic ornithine carbamoyltransferase (EC 2.1.3.3) from Pseudomonas aeruginosa, that shows allosteric behaviour, and a mutant version of this enzyme has been crystallized in several different crystal forms. All of these have been characterized by X-ray diffraction methods. A 4.5 A resolution data set has been c...

journal_title：Journal of molecular biology

authors： Marcq S,Diaz-Ruano A,Charlier P,Dideberg O,Tricot C,Piérard A,Stalon V

更新日期：1991-07-05 00:00:00

abstract：:The two-component signaling protein CtrA activates or represses the expression of one-quarter of the cell-cycle-regulated genes in Caulobacter crescentus, integrating DNA replication, morphogenesis, and cell division. The activity of this essential protein is controlled by a positive transcriptional feedback loop, cel...

journal_title：Journal of molecular biology

authors： Ryan KR,Judd EM,Shapiro L

更新日期：2002-11-29 00:00:00

abstract：:The folding thermodynamics and kinetics of the alpha-spectrin SH3 domain with a redesigned hydrophobic core have been studied. The introduction of five replacements, A11V, V23L, M25V, V44I and V58L, resulted in an increase of 16% in the overall volume of the side-chains forming the hydrophobic core but caused no remar...

journal_title：Journal of molecular biology

authors： Cobos ES,Filimonov VV,Vega MC,Mateo PL,Serrano L,Martínez JC

更新日期：2003-04-18 00:00:00

abstract：:The 10th human fibronectin type III domain ((10)Fn3) is one of several protein scaffolds used to design and select families of proteins that bind with high affinity and specificity to macromolecular targets. To date, the highest affinity (10)Fn3 variants have been selected by mRNA display of libraries generated by ran...

journal_title：Journal of molecular biology

authors： Lipovsek D,Lippow SM,Hackel BJ,Gregson MW,Cheng P,Kapila A,Wittrup KD

更新日期：2007-05-11 00:00:00

abstract：:A systematic classification of beta-hairpin structures which takes into account the polypeptide chain length and hydrogen bonding between the two antiparallel beta-strands is described. We have used this classification of beta-hairpin structures and their specific sequence pattern to derive rules which demonstrate its...

journal_title：Journal of molecular biology

authors： Sibanda BL,Blundell TL,Thornton JM

更新日期：1989-04-20 00:00:00

abstract：:Production of seven single surface histidine variants of yeast iso-1-cytochrome c allowed measurement of the apparent pK(a), pK(a)(obs), for histidine-heme loop formation for loops of nine to 83 amino acid residues under varying denaturing conditions (2 M to 6 M guanidine hydrochloride, gdnHCl). A linear correlation b...

journal_title：Journal of molecular biology

authors： Wandschneider E,Bowler BE

更新日期：2004-05-21 00:00:00

abstract：:Nhp6p is an architectural Saccharomyces cerevisiae non-histone chromosomal protein that bends DNA and plays an important role in transcription and genome stability. We used the split-ubiquitin system to isolate proteins that interact with Nhp6p in vivo, and we confirmed 11 of these protein-protein interactions with gl...

journal_title：Journal of molecular biology

authors： Xue X,Lehming N

更新日期：2008-05-30 00:00:00

abstract：:Long-standing questions on how peptides fold are addressed by the simulation at different temperatures of the reversible folding of a peptide in solution in atomic detail. Molecular dynamics simulations correctly predict the structure that is thermodynamically stable at 298 K, irrespective of the initial peptide confo...

journal_title：Journal of molecular biology

authors： Daura X,Jaun B,Seebach D,van Gunsteren WF,Mark AE

更新日期：1998-07-31 00:00:00

abstract：:We have previously identified 20 different fusidic acid-resistant alleles of fusA, encoding mutant forms of the ribosomal translocase EF-G. One of these, P413L, is used here as the starting point in selections for internal revertants, identifying 20 different pseudo-wild-type forms of EF-G. We have also identified two...

journal_title：Journal of molecular biology

authors： Johanson U,Aevarsson A,Liljas A,Hughes D

更新日期：1996-05-10 00:00:00

abstract：:TolQ, TolR and TolA are membrane proteins involved in maintaining the structure of Escherichia coli cell envelope. TolQ and TolR span the inner membrane with three and with one alpha-helical segments, respectively. The tolQ925 mutation (A177V), located in the third putative transmembrane helix of TolQ (TolQ-III), indu...

journal_title：Journal of molecular biology

authors： Lazzaroni JC,Vianney A,Popot JL,Bénédetti H,Samatey F,Lazdunski C,Portalier R,Géli V

更新日期：1995-02-10 00:00:00

abstract：:Protein phosphorylation at serine, threonine or tyrosine residues affects a multitude of cellular signaling processes. How is specificity in substrate recognition and phosphorylation by protein kinases achieved? Here, we present an artificial neural network method that predicts phosphorylation sites in independent seq...

journal_title：Journal of molecular biology

authors： Blom N,Gammeltoft S,Brunak S

更新日期：1999-12-17 00:00:00

abstract：:Previous kinetic studies demonstrated that nucleotide-derived conformational changes regulate function in the COOH-terminal Src kinase. We have employed enhanced methods of hydrogen-deuterium exchange-mass spectrometry (DXMS) to probe conformational changes on CSK in the absence and presence of nucleotides and thereby...

journal_title：Journal of molecular biology

authors： Hamuro Y,Wong L,Shaffer J,Kim JS,Stranz DD,Jennings PA,Woods VL Jr,Adams JA

更新日期：2002-11-08 00:00:00

abstract：:During the late phase of human immunodeficiency virus type-1 (HIV-1) replication, newly synthesized retroviral Gag proteins are targeted to lipid raft regions of specific cellular membranes, where they assemble and bud to form new virus particles. Gag binds preferentially to the plasma membrane (PM) of most hematopoie...

journal_title：Journal of molecular biology

authors： Saad JS,Loeliger E,Luncsford P,Liriano M,Tai J,Kim A,Miller J,Joshi A,Freed EO,Summers MF

更新日期：2007-02-16 00:00:00

abstract：:Pathogenic Vibrio cholerae secrete V. cholerae cytolysin (VCC), an 80 kDa pro-toxin that assembles into an oligomeric pore on target cell membranes following proteolytic cleavage and interaction with cell surface receptors. To gain insight into the activation and targeting activities of VCC, we solved the crystal stru...

journal_title：Journal of molecular biology

authors： Olson R,Gouaux E

更新日期：2005-07-29 00:00:00

abstract：:We have used two structurally well-characterized serine proteinase variants, subtilisins Carlsberg and BPN', to produce (Cys)-S-/(His)-Im+H ion-pairs by chemical mutation in well defined, different, electrostatic microenvironments. These ion-pairs have been characterized by pH-dependent rapid reaction kinetics using, ...

journal_title：Journal of molecular biology

authors： Plou FJ,Kowlessur D,Malthouse JP,Mellor GW,Hartshorn MJ,Pinitglang S,Patel H,Topham CM,Thomas EW,Verma C,Brocklehurst K

更新日期：1996-04-19 00:00:00

abstract：:Diffraction data for alpha-chymotrypsin crystals at -10 degrees C were measured at 1.68 A resolution and refined by restrained structure-factor least-squares refinement. The two independent chymotrypsin molecules in the crystallographic asymmetric unit were refined independently. The overall structure of alpha-chymotr...

journal_title：Journal of molecular biology

authors： Tsukada H,Blow DM

更新日期：1985-08-20 00:00:00

abstract：:A long-standing problem of molecular biology is the prediction of globular protein tertiary structure from the primary sequence. In the context of a new, 24-nearest-neighbor lattice model of proteins that includes both alpha and beta-carbon atoms, the requirements for folding to a unique four-member beta-barrel, four-...

journal_title：Journal of molecular biology

authors： Skolnick J,Kolinski A

更新日期：1991-09-20 00:00:00

abstract：:Inhibitors of the enzymes of the lysine biosynthetic pathway are considered promising lead compounds for the design of new antibacterial drugs, because the pathway appears to be indispensable for bacteria and because it is absent in humans. As part of our efforts to structurally characterize all enzymes of this pathwa...

journal_title：Journal of molecular biology

authors： Weyand S,Kefala G,Weiss MS

更新日期：2007-03-30 00:00:00

abstract：:We improved a motility assay system by using an affinity-purified antibody against the C-terminal globular domain of characean myosin. This improvement allowed us to study the sensitivity to ionic strength or the processivity of characean myosin. The sliding velocity of actin filaments on a characean myosin-coated sur...

journal_title：Journal of molecular biology

authors： Awata JY,Kashiyama T,Ito K,Yamamoto K

更新日期：2003-02-21 00:00:00

abstract：:Amyloid deposits in the pancreatic islets of Langerhans are thought to be a main factor responsible for death of the insulin-producing islet beta-cells in type 2 diabetes. It is hypothesized that beta-cell death is related to interaction of the 37 amino acid residue human islet amyloid polypeptide (hIAPP), the major c...

journal_title：Journal of molecular biology

authors： Engel MF,Yigittop H,Elgersma RC,Rijkers DT,Liskamp RM,de Kruijff B,Höppener JW,Antoinette Killian J

更新日期：2006-02-24 00:00:00

abstract：:Single crystals of ribonuclease I from Escherichia coli have been obtained by the vapor diffusion method. The crystals belong to the tetragonal space group P4(1)2(1)2 or its enantiomer P4(3)2(1)2 and have cell parameters a = b = 119.01 A and c = 34.40 A. There is one 27,000 dalton monomer in the asymmetric unit. The c...

journal_title：Journal of molecular biology

authors： Lim LW,Mathur S,Cannistraro VJ,Kennell D

更新日期：1993-11-20 00:00:00

abstract：:Solvent binding in the nucleosome core particle containing a 147 base pair, defined-sequence DNA is characterized from the X-ray crystal structure at 1.9 A resolution. A single-base-pair increase in DNA length over that used previously results in substantially improved clarity of the electron density and accuracy for ...

journal_title：Journal of molecular biology

authors： Davey CA,Sargent DF,Luger K,Maeder AW,Richmond TJ

更新日期：2002-06-21 00:00:00