Intrahelical hydrogen bonding of serine, threonine and cysteine residues within alpha-helices and its relevance to membrane-bound proteins.

abstract：:Proteolysis of rat liver chromatin by the Arg-C peptidase, clostripain, is characterized by a progressive fragmentation of the N-terminal segments of the four core histones H2A, H2B, H3 and H4, until a well-defined limit digest is reached. This work addresses the case of histone H4. Two intermediate proteolytic sites ...

journal_title：Journal of molecular biology

authors： Banères JL,Essalouh L,Jariel-Encontre I,Mesnier D,Garrod S,Parello J

更新日期：1994-10-14 00:00:00

abstract：:Biogenesis of β-barrel membrane proteins is a complex, multistep, and as yet incompletely characterized process. The bacterial porin family is perhaps the best-studied protein family among β-barrel membrane proteins that allows diffusion of small solutes across the bacterial outer membrane. In this study, we have iden...

journal_title：Journal of molecular biology

authors： Naveed H,Jimenez-Morales D,Tian J,Pasupuleti V,Kenney LJ,Liang J

更新日期：2012-05-25 00:00:00

abstract：:Loss-of-function mutations in the gene encoding the multifunctional protein, DJ-1, have been implicated in the pathogenesis of early-onset familial Parkinson's disease (PD), suggesting that DJ-1 may act as a neuroprotectant for dopaminergic (DA) neurons. Enhanced autophagy may benefit PD by clearing damaged organelles...

journal_title：Journal of molecular biology

authors： Gao H,Yang W,Qi Z,Lu L,Duan C,Zhao C,Yang H

更新日期：2012-10-19 00:00:00

abstract：:4-alpha-Glucanotransferase (GTase) is an essential enzyme in alpha-1,4-glucan metabolism in bacteria and plants. It catalyses the transfer of maltooligosaccharides from an 1,4-alpha-D-glucan molecule to the 4-hydroxyl group of an acceptor sugar molecule. The crystal structures of Thermotoga maritima GTase and its comp...

journal_title：Journal of molecular biology

authors： Roujeinikova A,Raasch C,Sedelnikova S,Liebl W,Rice DW

更新日期：2002-08-02 00:00:00

abstract：:Interactions of rat DNA polymerase beta with a single-stranded (ss) DNA have been studied using the quantitative fluorescence titration technique. Examination of the fluorescence changes accompanying the binding, as a function of the thermodynamically rigorous binding density of rat pol beta-ssDNA complexes, reveals t...

journal_title：Journal of molecular biology

authors： Jezewska MJ,Rajendran S,Bujalowski W

更新日期：1998-12-11 00:00:00

abstract：:An in vitro assay in which terminating Escherichia coli ribosomes with different stop signals in the A-site compete for a limited amount of a release factor (RF1 or RF2) has been used to estimate the relative termination efficiencies at stop codons with different adjacent downstream nucleotides. The assay allows direc...

journal_title：Journal of molecular biology

authors： Pavlov MY,Freistroffer DV,Dincbas V,MacDougall J,Buckingham RH,Ehrenberg M

更新日期：1998-12-04 00:00:00

abstract：:Methods for the prediction of protein function from structure are of growing importance in the age of structural genomics. Here, we focus on the problem of identifying sites of potential serine protease inhibitor interactions on the surface of proteins of known structure. Given that there is no sequence conservation w...

journal_title：Journal of molecular biology

authors： Jackson RM,Russell RB

更新日期：2000-02-18 00:00:00

abstract：:Mitochondrial function depends on the correct synthesis, transport, and assembly of proteins and cofactors of the electron transport chain. The initial idea that the respiratory chain protein complexes (RCCs) were independent structures in the inner mitochondrial membrane evolved after the identification of higher qua...

journal_title：Journal of molecular biology

authors： Cogliati S,Lorenzi I,Rigoni G,Caicci F,Soriano ME

更新日期：2018-12-07 00:00:00

abstract：:The essential cell division genes ftsQ, ftsA and ftsZ map in a cluster of cell envelope genes located at two minutes on the Escherichia coli genetic map and appear to constitute an atypical operon. These closely clustered genes are all transcribed in the same direction and yet each of these genes was independently clo...

journal_title：Journal of molecular biology

authors： Yi QM,Rockenbach S,Ward JE Jr,Lutkenhaus J

更新日期：1985-08-05 00:00:00

abstract：:The mom gene of bacteriophage Mu, which codes for a DNA modification function, is regulated in a complex manner at both transcriptional and translational levels. The phage-encoded C protein functions as an activator of mom transcription. The mom promoter has features of an activator-dependent weak promoter, and the C ...

journal_title：Journal of molecular biology

authors： Ramesh V,Nagaraja V

更新日期：1996-07-05 00:00:00

abstract：:During vacuum condensation of metals on frozen proteins, nanoclusters are preferentially formed at specific surface sites (decoration). Understanding the nature of metal/protein interaction is of interest for structure analysis and is also important in the fields of biocompatibility and sensor development. Studies on ...

journal_title：Journal of molecular biology

authors： Braun N,Meining W,Hars U,Fischer M,Ladenstein R,Huber R,Bacher A,Weinkauf S,Bachmann L

更新日期：2002-08-09 00:00:00

abstract：:Kinetic and thermodynamic parameters, derived from 1H-NMR measurements of the imino proton exchange rates upon titration with the exchange catalyst ammonia, are reported for two mixed-sequence peptide nucleic acid (PNA)-DNA hybrids and their counterpart DNA duplex. The exchange times of the imino protons in the PNA st...

journal_title：Journal of molecular biology

authors： Leijon M,Sehlstedt U,Nielsen PE,Gräslund A

更新日期：1997-08-22 00:00:00

abstract：:Anthracycline antibiotics daunomycin and adriamycin are among the most widely used in cancer chemotherapy and DNA is believed to be the primary target of their biological action. The crystal structure of a morpholino derivative of adriamycin bound to the DNA hexamer d(CGTACG) has been determined at 1.5 A resolution. T...

journal_title：Journal of molecular biology

authors： Cirilli M,Bachechi F,Ughetto G,Colonna FP,Capobianco ML

更新日期：1993-04-05 00:00:00

abstract：:Chromatin compacts genomic DNA in eukaryotes. The primary chromatin unit is the nucleosome core particle, composed of four pairs of the core histones, H2A, H2B, H3, and H4, and 145-147 base pairs of DNA. Since replication, recombination, repair, and transcription take place in chromatin, the structure and dynamics of ...

journal_title：Journal of molecular biology

authors： Kurumizaka H,Kujirai T,Takizawa Y

更新日期：2020-10-14 00:00:00

abstract：:Antibodies and prorenin mutants have long been used to structurally characterize prorenin, the inactive proenzyme form of renin. They were designed on the basis of homology models built using other aspartyl protease proenzyme structures since no structure was available for prorenin. Here, we present the first X-ray st...

journal_title：Journal of molecular biology

authors： Morales R,Watier Y,Böcskei Z

更新日期：2012-08-03 00:00:00

abstract：:We have previously reported the structures of the native holo and substrate-bound forms of LL-diaminopimelate aminotransferase from Arabidopsis thaliana (AtDAP-AT). Here, we report the crystal and molecular structures of the LL-diaminopimelate aminotransferase from Chlamydia trachomatis (CtDAP-AT) in the apo-form and ...

journal_title：Journal of molecular biology

authors： Watanabe N,Clay MD,van Belkum MJ,Fan C,Vederas JC,James MN

更新日期：2011-08-19 00:00:00

abstract：:The three-dimensional structures of double and single-shelled simian rotavirus have been determined to a resolution of 40 A by image processing electron micrographs of unstained, unfixed virus particles embedded in vitreous ice. This study demonstrates that the icosahedral surface lattices in these structures have a t...

journal_title：Journal of molecular biology

authors： Prasad BV,Wang GJ,Clerx JP,Chiu W

更新日期：1988-01-20 00:00:00

abstract：:The Monte Carlo estimate of the p value of the hypergeometric test is described and advocated for the testing of the hypothesis that different treatments induce the same mutational spectrum. The hypergeometric test is a generalization of Fisher's "exact" test for tables with more than two rows and two columns. Use of ...

journal_title：Journal of molecular biology

authors： Adams WT,Skopek TR

更新日期：1987-04-05 00:00:00

abstract：:The restriction enzyme R.BbvCI cleaves duplex DNA within a seven base-pair asymmetric recognition sequence, thus: CCTCAGC/GCTGAGG-->CC--TCAGC/GC--TGAGG. We show that R.BbvCI comprises two different subunits, R(1) and R(2); that each subunit contains a catalytic site for DNA strand hydrolysis; and that these sites act ...

journal_title：Journal of molecular biology

authors： Heiter DF,Lunnen KD,Wilson GG

更新日期：2005-05-06 00:00:00

abstract：:The regulation of crystal morphology by proteins is often observed in biology. It is a central feature in the formation of hard tissues such as bones, teeth and mollusc shells. We have developed a genetic system in the bacterium Escherichia coli to study the protein-mediated control of crystal growth. We have used the...

journal_title：Journal of molecular biology

authors： Brown S,Sarikaya M,Johnson E

更新日期：2000-06-09 00:00:00

abstract：:The bacterial flagellar motor is a rotary motor in the cell envelope of bacteria that couples ion flow across the cytoplasmic membrane to torque generation by independent stators anchored to the cell wall. The recent observation of stepwise rotation of a Na(+)-driven chimeric motor in Escherichia coli promises to reve...

journal_title：Journal of molecular biology

authors： Inoue Y,Lo CJ,Fukuoka H,Takahashi H,Sowa Y,Pilizota T,Wadhams GH,Homma M,Berry RM,Ishijima A

更新日期：2008-03-07 00:00:00

abstract：:Nudaurelia capensis omega virus is a T=4, icosahedral virus with a bipartite, positive-sense RNA genome. Expression of the coat protein gene in a baculovirus system was previously shown to result in the formation of procapsids when purified at pH 7.6. Procapsids are round, porous particles (480 A diameter) and have T=...

journal_title：Journal of molecular biology

authors： Tang J,Lee KK,Bothner B,Baker TS,Yeager M,Johnson JE

更新日期：2009-09-25 00:00:00

abstract：:The Gram-negative organism Campylobacter jejuni is the major cause of food poisoning. Unlike Escherichia coli, which has two major porins, OmpC and OmpF, C. jejuni has one, termed major outer membrane protein (MOMP) through which nutrients and antibiotics transit. We report the 2.1-Å crystal structure of C. jejuni MOM...

journal_title：Journal of molecular biology

authors： Ferrara LGM,Wallat GD,Moynié L,Dhanasekar NN,Aliouane S,Acosta-Gutiérrez S,Pagès JM,Bolla JM,Winterhalter M,Ceccarelli M,Naismith JH

更新日期：2016-11-06 00:00:00

abstract：:The observed propeller twist in base-pairs of crystalline double-helical DNA oligomers improves the stacking overlap along each individual helix strand. But, as proposed by Calladine, it also leads to clash or steric hindrance between purines at adjacent base-pairs on opposite strands of the helix. This clash can be r...

journal_title：Journal of molecular biology

authors： Dickerson RE

更新日期：1983-05-25 00:00:00

abstract：:The capsid (CA) protein plays crucial roles in HIV infection and replication, essential to viral maturation. The absence of high-resolution structural data on unassembled CA hinders the development of antivirals effective in inhibiting assembly. Unlike enzymes that have targetable, functional substrate-binding sites, ...

journal_title：Journal of molecular biology

authors： Du S,Betts L,Yang R,Shi H,Concel J,Ahn J,Aiken C,Zhang P,Yeh JI

更新日期：2011-02-25 00:00:00

abstract：:Sirtuins are NAD+-dependent protein deacetylase enzymes that are broadly conserved from bacteria to human, and have been implicated to play important roles in gene regulation, metabolism and longevity. cobB is a bacterial sirtuin that deacetylates acetyl-CoA synthetase (Acs) at an active site lysine to stimulate its e...

journal_title：Journal of molecular biology

authors： Zhao K,Chai X,Marmorstein R

更新日期：2004-03-26 00:00:00

abstract：:Protein catalyzed DNA rearrangements typically require assembly of complex nucleoprotein structures. In transposition and integration reactions, these structures, termed synaptic complexes, are mandatory for catalysis. We characterize the Tn5 pre-cleavage synaptic complex, the simplest transposition complex described ...

journal_title：Journal of molecular biology

authors： Bhasin A,Goryshin IY,Steiniger-White M,York D,Reznikoff WS

更新日期：2000-09-08 00:00:00

abstract：:The Myosin A-tail interacting protein (MTIP) of the malaria parasite links the actomyosin motor of the host cell invasion machinery to its inner membrane complex. We report here that at neutral pH Plasmodium falciparum MTIP in complex with Myosin A adopts a compact conformation, with its two domains completely surroun...

journal_title：Journal of molecular biology

authors： Bosch J,Turley S,Roach CM,Daly TM,Bergman LW,Hol WG

更新日期：2007-09-07 00:00:00

abstract：:Myosin isoform sequence variation is likely critical for generating differences in contraction velocity and force production exhibited by the various skeletal muscles in an animal. To examine how myosin heavy chain (MHC) isoform diversity could affect physiological function, we studied the locations of structural diff...

journal_title：Journal of molecular biology

authors： Bernstein SI,Milligan RA

更新日期：1997-08-08 00:00:00

abstract：:The mercury resistance locus encoded by Tn21 on the monocopy IncFII plasmid R100 (merTn21) consists of a metal-responsive activator/repressor, merR, which controls initiation of a polycistronic message that includes genes for the uptake (merTPC) and reduction (merA) of Hg2+ and merD, which may also play a minor regula...

journal_title：Journal of molecular biology

authors： Gambill BD,Summers AO

更新日期：1992-05-20 00:00:00