Whither Ribosome Structure and Dynamics Research? (A Perspective).

abstract：:We show here that the specific use of fast or slowly translated codons in the early coding region of a gene may influence both the mRNA stability and premature transcription termination. We first inserted a pair of nearly identical 42-base-pair (bp)-long sequences into codon 3 of the Escherichia coli lacZ gene. The on...

journal_title：Journal of molecular biology

authors： Pedersen S,Terkelsen TB,Eriksen M,Hauge MK,Lund CC,Sneppen K,Mitarai N

更新日期：2019-03-15 00:00:00

abstract：:The alcohol dehydrogenase (ADHase) enzyme catalyses the oxidation of alcohols to aldehydes or ketones using NAD+ as a cofactor. Functional ADHase from Drosophila lebanonensis is a dimer, with a monomeric molecular weight of 27,000 and with 254 residues in each polypeptide chain. Crystals of the protein have been grown...

journal_title：Journal of molecular biology

authors： Gordon EJ,Bury SM,Sawyer L,Atrian S,Gonzalez-Duarte R

更新日期：1992-09-05 00:00:00

abstract：:A manuscript on allostery signed by Francis Crick and Jeffries Wyman was sent by Crick to Jacques Monod in 1965. Monod transmitted a copy of the manuscript, upon which he had written several comments, to Jean-Pierre Changeux, then a post-doctoral fellow at the University of California Berkeley in the laboratory of How...

journal_title：Journal of molecular biology

authors： Crick FH,Wyman J

更新日期：2013-05-13 00:00:00

abstract：:SHP, the capsid-stabilizing protein of lambdoid phage 21, is highly resistant against denaturant-induced unfolding. We demonstrate that this high functional stability of SHP is due to a high kinetic stability with a half-life for unfolding of 25 days at zero denaturant, while the thermodynamic stability is not unusual...

journal_title：Journal of molecular biology

authors： Forrer P,Chang C,Ott D,Wlodawer A,Plückthun A

更新日期：2004-11-12 00:00:00

abstract：:Bovine IF(1) is a basic, 84 amino acid residue protein that inhibits the hydrolytic action of the F(1)F(0) ATP synthase in mitochondria under anaerobic conditions. Its oligomerization state is dependent on pH. At a pH value below 6.5 it forms an active dimer. At higher pH values, two dimers associate to form an inacti...

journal_title：Journal of molecular biology

authors： Gordon-Smith DJ,Carbajo RJ,Yang JC,Videler H,Runswick MJ,Walker JE,Neuhaus D

更新日期：2001-04-27 00:00:00

abstract：:We reported recently that activation of the inositol 1,4,5-triphosphate receptor (IP3R) is required for efficient HIV-1 Gag trafficking and viral particle release. IP3R activation requires phospholipase C (PLC)-catalyzed hydrolysis of PI(4,5)P(2) to IP3 and diacylglycerol. We show that Sprouty2 (Spry2), which binds PI...

journal_title：Journal of molecular biology

authors： Ehrlich LS,Medina GN,Carter CA

更新日期：2011-07-22 00:00:00

abstract：:DNA polymerases that initiate replication by protein-priming are able to catalyze terminal protein (TP)-primed initiation, the following transition steps and finally DNA-primed elongation. Therefore, their structures must be able to position sequentially both primers, TP and DNA, at a common binding site. For DNA-temp...

journal_title：Journal of molecular biology

authors： Truniger V,Lázaro JM,Blanco L,Salas M

更新日期：2002-04-19 00:00:00

abstract：:Single crystals of the RNase inhibitor from porcine liver have been obtained from 30 to 34% saturated ammonium sulphate solutions at pH 6.0 to 7.2, containing 20 mM dithiothreitol, at room temperature over a period of two to three weeks. Because the inhibitor contains 30 1/2-cystinyl residues, all of which occur in th...

journal_title：Journal of molecular biology

authors： Neumann U,Hofsteenge J,Arkema AH,Dijkstra BW

更新日期：1993-05-20 00:00:00

abstract：:Malate dehydrogenase from the extreme halophile Halobacterium marismortui crystallizes in highly concentrated phosphate solution in space group 12 with cell dimensions a = 113.8 A, b = 122.8 A, c = 126.7 A, beta = 98.1 degrees. The halophilic enzyme was found to be unstable at lower concentrations of phosphate. It ass...

journal_title：Journal of molecular biology

authors： Harel M,Shoham M,Frolow F,Eisenberg H,Mevarech M,Yonath A,Sussman JL

更新日期：1988-04-05 00:00:00

abstract：:The 64 x 10(3) Mr N-terminal breakage-reunion domain of the Escherichia coli DNA gyrase A protein was purified from an over-expressing strain. When complexed with the gyrase B protein, this truncated A protein has all of the enzymic properties of the full-length counterpart, although with reduced efficiency in some ca...

journal_title：Journal of molecular biology

authors： Reece RJ,Dauter Z,Wilson KS,Maxwell A,Wigley DB

更新日期：1990-10-20 00:00:00

abstract：:Members of the double-stranded RNA (dsRNA) specific RNase III family are known to use a conserved dsRNA-binding domain (dsRBD) to distinguish RNA A-form helices from DNA B-form ones, however, the basis of this selectivity and its effect on cleavage specificity remain unknown. Here, we directly examine the molecular re...

journal_title：Journal of molecular biology

authors： Lamontagne B,Hannoush RN,Damha MJ,Abou Elela S

更新日期：2004-04-23 00:00:00

abstract：:Replication of bacteriophage phi 29 DNA initiates at either end of its linear double-stranded DNA molecule and proceeds by a strand-displacement mechanism. In the present paper we have used an in vitro phi 29 DNA replication system to analyse by electron microscopy the replicative intermediates produced at different r...

journal_title：Journal of molecular biology

authors： Gutiérrez C,Sogo JM,Salas M

更新日期：1991-12-20 00:00:00

abstract：:The activation of vitamin D to its hormonal form is mediated by cytochrome P450 enzymes. CYP2R1 catalyzes the initial step converting vitamin D into 25-hydroxyvitamin D. A CYP2R1 gene mutation causes an inherited form of rickets due to 25-hydroxylase deficiency. To understand the narrow substrate specificity of CYP2R1...

journal_title：Journal of molecular biology

authors： Strushkevich N,Usanov SA,Plotnikov AN,Jones G,Park HW

更新日期：2008-06-27 00:00:00

abstract：:Viral scaffolding proteins direct polymerization of major capsid protein subunits into icosahedral procapsid structures. The scaffolding protein of bacteriophage SPP1 was engineered with a C-terminal hexahistidine tag (gp11-His(6)) and purified. The protein is an alpha-helical-rich molecule with a very elongated shape...

journal_title：Journal of molecular biology

authors： Poh SL,el Khadali F,Berrier C,Lurz R,Melki R,Tavares P

更新日期：2008-05-02 00:00:00

abstract：:The SH3 domain is a protein-protein interaction module commonly found in intracellular signaling and adaptor proteins. The SH3 domains of multiple endocytic proteins have been recently implicated in binding ubiquitin, which serves as a signal for diverse cellular processes including gene regulation, endosomal sorting,...

journal_title：Journal of molecular biology

authors： He Y,Hicke L,Radhakrishnan I

更新日期：2007-10-12 00:00:00

abstract：:The Ri (root-inducing) plasmid in Agrobacterium rhizogenes and Ti (tumor-inducing) plasmid in Agrobacterium tumefaciens have provided the fundamental basis for the construction of plant vectors and transgenic plants. Recently, the determination of the first complete nucleotide sequence of the Ti plasmid (pTi-SAKURA) h...

journal_title：Journal of molecular biology

authors： Moriguchi K,Maeda Y,Satou M,Hardayani NS,Kataoka M,Tanaka N,Yoshida K

更新日期：2001-03-30 00:00:00

abstract：:Bacterial microcompartments (BMCs) sequester enzymes from the cytoplasmic environment by encapsulation inside a selectively permeable protein shell. Bioinformatic analyses indicate that many bacteria encode BMC clusters of unknown function and with diverse combinations of shell proteins. The genome of the halophilic m...

journal_title：Journal of molecular biology

authors： Lassila JK,Bernstein SL,Kinney JN,Axen SD,Kerfeld CA

更新日期：2014-05-29 00:00:00

abstract：:The disulfide bond between Cys14 and Cys38 of bovine pancreatic trypsin inhibitor lies on the surface of the inhibitor and forms part of the protease-binding region. The functional properties of three variants lacking this disulfide, with one or both of the Cys residues replaced with Ser, were examined, and X-ray crys...

journal_title：Journal of molecular biology

authors： Zakharova E,Horvath MP,Goldenberg DP

更新日期：2008-10-17 00:00:00

abstract：:Infection of Escherichia coli by filamentous bacteriophages is mediated by the minor phage coat protein g3p and involves two distinct cellular receptors, the F' pilus and the periplasmic protein TolA. Recently we have shown that the two receptors are contacted in a sequential manner, such that binding of TolA by the N...

journal_title：Journal of molecular biology

authors： Holliger P,Riechmann L,Williams RL

更新日期：1999-05-14 00:00:00

abstract：:Synthesis of asparaginyl-tRNA (Asn-tRNA(Asn)) in bacteria can be formed either by directly ligating Asn to tRNA(Asn) using an asparaginyl-tRNA synthetase (AsnRS) or by synthesizing Asn on the tRNA. In the latter two-step indirect pathway, a non-discriminating aspartyl-tRNA synthetase (ND-AspRS) attaches Asp to tRNA(As...

journal_title：Journal of molecular biology

authors： Nair N,Raff H,Islam MT,Feen M,Garofalo DM,Sheppard K

更新日期：2016-02-13 00:00:00

abstract：:Transforming growth factor beta (TGF-beta) is secreted primarily as a latent complex consisting of the TGF-beta homodimer, the TGF-beta propeptides (called the latency-associated protein or LAP) and the latent TGF-beta binding protein (LTBP). Mature TGF-beta remains associated with LAP by non-covalent interactions tha...

journal_title：Journal of molecular biology

authors： Chen Y,Ali T,Todorovic V,O'leary JM,Kristina Downing A,Rifkin DB

更新日期：2005-01-07 00:00:00

abstract：:Elongation factor G (EF-G) is a large, five domain GTPase that catalyses the translocation of the tRNAs on the bacterial ribosome at the expense of GTP. In the crystal structure of GDP-bound EF-G, domain 1 (G domain) makes direct contacts with domains 2 and 5, whereas domain 4 protrudes from the body of the molecule. ...

journal_title：Journal of molecular biology

authors： Savelsbergh A,Matassova NB,Rodnina MV,Wintermeyer W

更新日期：2000-07-21 00:00:00

abstract：:Two major methods are currently being used to characterize transient intermediates during protein folding at the level of individual residues. Nuclear magnetic resonance (n.m.r.) measurements on the protection of peptide NH hydrogens against exchange with solvent during refolding can provide information about secondar...

journal_title：Journal of molecular biology

authors： Matouschek A,Serrano L,Meiering EM,Bycroft M,Fersht AR

更新日期：1992-04-05 00:00:00

abstract：:Chemically modified DNA oligonucleotides have been crucial to the success of antisense therapeutics. Although such modifications are ubiquitous in the clinic, high-resolution structural studies of pharmaceutically relevant derivatives have been limited to only a few molecules. We have completed a high-resolution NMR s...

journal_title：Journal of molecular biology

authors： Furrer P,Billeci TM,Donati A,Kojima C,Karwowski B,Sierzchala A,Stec W,James TL

更新日期：1999-01-29 00:00:00

abstract：:DNA recombinases (RecA in bacteria, Rad51 in eukarya and RadA in archaea) catalyse strand exchange between homologous DNA molecules, the central reaction of homologous recombination, and are among the most conserved DNA repair proteins known. RecA is the sole protein responsible for this reaction in bacteria, whereas ...

journal_title：Journal of molecular biology

authors： McRobbie AM,Carter LG,Kerou M,Liu H,McMahon SA,Johnson KA,Oke M,Naismith JH,White MF

更新日期：2009-06-19 00:00:00

abstract：:The hydrogen exchange behaviour of two stabilised disulfide mutants of barnase has been examined using NMR H/2H exchange measurements. The choice of experimental conditions is crucial in experiments to study the effects of mutations on local and global stability and dynamic behaviour of proteins. If exchange condition...

journal_title：Journal of molecular biology

authors： Clarke J,Hounslow AM,Fersht AR

更新日期：1995-10-27 00:00:00

abstract：:The extracellular matrix is a dynamic environment that constantly undergoes remodelling and degradation during vital physiological processes such as angiogenesis, wound healing, and development. Unbalanced extracellular matrix breakdown is associated with many diseases such as arthritis, cancer and fibrosis. Interstit...

journal_title：Journal of molecular biology

authors： Iyer S,Visse R,Nagase H,Acharya KR

更新日期：2006-09-08 00:00:00

abstract：:pBR322 DNA, linearized by lysis of an oxolinic acid-treated culture of Escherichia coli strain DK6recA- (pBR322) with sodium dodecyl sulfate, was purified, treated with DNA polymerase in the presence of the four deoxynucleoside triphosphates, and ligated to DNA linkers containing the XhoI recognition sequence. Most of...

journal_title：Journal of molecular biology

authors： Lockshon D,Morris DR

更新日期：1985-01-05 00:00:00

abstract：:Profilins are small proteins capable of binding actin, poly-l-proline and other proline-rich sequences, and phosphatidylinositol (4,5)-bisphosphate. A number of proline-rich ligands for profilin have been characterised, including proteins of the Ena/VASP and formin families. We have determined the high-resolution crys...

journal_title：Journal of molecular biology

authors： Kursula P,Kursula I,Massimi M,Song YH,Downer J,Stanley WA,Witke W,Wilmanns M

更新日期：2008-01-04 00:00:00

abstract：:RGG/RG motifs are RNA binding segments found in many proteins that can partition into membraneless organelles. They occur in the context of low-complexity disordered regions and often in multiple copies. Although short RGG/RG-containing regions can sometimes form high-affinity interactions with RNA structures, multipl...

journal_title：Journal of molecular biology

authors： Chong PA,Vernon RM,Forman-Kay JD

更新日期：2018-11-02 00:00:00