Crystallization and preliminary crystallographic investigations of the soluble glucose dehydrogenase from Acinetobacter calcoaceticus.

Abstract:

:Single crystals of the soluble glucose dehydrogenase (GDH) from Acinetobacter calcoaceticus have been grown by the vapour diffusion method. These crystals diffract to beyond 2.1 A and are suitable for X-ray crystallography. The space group was determined to be P2(1) with unit cell parameters a = 55.5 A, b = 104.5 A, c = 86.5 A and beta = 99.8 degrees. One asymmetric unit contains a dimer of the GDH molecule.

journal_name

J Mol Biol

authors

Schlunegger MP,Grütter MG,Streiff MB,Olsthoorn AJ,Duine JA

doi

10.1006/jmbi.1993.1553

subject

Has Abstract

pub_date

1993-10-20 00:00:00

pages

784-6

issue

4

eissn

0022-2836

issn

1089-8638

pii

S0022-2836(83)71553-6

journal_volume

233

pub_type

杂志文章
  • Monomeric restriction endonuclease BcnI in the apo form and in an asymmetric complex with target DNA.

    abstract::Restriction endonuclease BcnI cleaves duplex DNA containing the sequence CC/SGG (S stands for C or G, / designates a cleavage position) to generate staggered products with single nucleotide 5'-overhangs. Here, we show that BcnI functions as a monomer that interacts with its target DNA in 1:1 molar ratio and report cry...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2007.03.018

    authors: Sokolowska M,Kaus-Drobek M,Czapinska H,Tamulaitis G,Szczepanowski RH,Urbanke C,Siksnys V,Bochtler M

    更新日期:2007-06-08 00:00:00

  • Noncoding RNAs: Regulators of the Mammalian Transcription Machinery.

    abstract::Transcription by RNA polymerase II (Pol II) is required to produce mRNAs and some noncoding RNAs (ncRNAs) within mammalian cells. This coordinated process is precisely regulated by multiple factors, including many recently discovered ncRNAs. In this perspective, we will discuss newly identified ncRNAs that facilitate ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章,评审

    doi:10.1016/j.jmb.2016.02.019

    authors: Eidem TM,Kugel JF,Goodrich JA

    更新日期:2016-06-19 00:00:00

  • A conserved unfoldase activity for the p97 AAA-ATPase in proteasomal degradation.

    abstract::The multifunctional AAA-ATPase p97 is one of the most abundant and conserved proteins in eukaryotic cells. The p97/Npl4/Ufd1 complex dislocates proteins that fail the protein quality control in the endoplasmic reticulum to the cytosol where they are subject to degradation by the ubiquitin/proteasome system. Substrate ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2009.09.050

    authors: Beskow A,Grimberg KB,Bott LC,Salomons FA,Dantuma NP,Young P

    更新日期:2009-12-11 00:00:00

  • Solution structure of the WNK1 autoinhibitory domain, a WNK-specific PF2 domain.

    abstract::WNK1 [with no lysine (K)-1] is a 250-kDa serine/threonine protein kinase involved in the maintenance of cellular salt levels and is directly linked to a hereditary form of hypertension. Here, we report the solution NMR structure of the autoinhibitory domain of WNK1 (WNK1-AI), a small regulatory subunit that lies immed...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2013.01.031

    authors: Moon TM,Correa F,Kinch LN,Piala AT,Gardner KH,Goldsmith EJ

    更新日期:2013-04-26 00:00:00

  • MOMP from Campylobacter jejuni Is a Trimer of 18-Stranded β-Barrel Monomers with a Ca2+ Ion Bound at the Constriction Zone.

    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

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2016.09.021

    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

  • Nuclear magnetic resonance studies of the internal dynamics in Apo, (Cd2+)1 and (Ca2+)2 calbindin D9k. The rates of amide proton exchange with solvent.

    abstract::The backbone dynamics of the EF-hand Ca(2+)-binding protein, calbindin D9k, has been investigated in the apo, (Cd2+)1 and (Ca2+)2 states by measuring the rate constants for amide proton exchange with solvent. 15N-1H correlation spectroscopy was utilized to follow direct 1H-->2H exchange of the slowly exchanging amide ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(92)90524-n

    authors: Skelton NJ,Kördel J,Akke M,Chazin WJ

    更新日期:1992-10-20 00:00:00

  • Mediator Architecture and RNA Polymerase II Interaction.

    abstract::Integrated structural biology recently elucidated the architecture of Mediator and its position on RNA polymerase II. Here we summarize these achievements and list open questions on Mediator structure and mechanism. ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章,评审

    doi:10.1016/j.jmb.2016.01.028

    authors: Plaschka C,Nozawa K,Cramer P

    更新日期:2016-06-19 00:00:00

  • Towards the molecular architecture of the asymmetric unit membrane of the mammalian urinary bladder epithelium: a closed "twisted ribbon" structure.

    abstract::The asymmetric unit membrane (AUM) forms numerous plaques covering the apical surface of mammalian urinary bladder epithelium. These plaques contain four major integral membrane proteins called uroplakins Ia, Ib, II and III, which form particles arranged in a well-ordered hexagonal lattice with p6 symmetry and a latti...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1995.0269

    authors: Walz T,Häner M,Wu XR,Henn C,Engel A,Sun TT,Aebi U

    更新日期:1995-05-19 00:00:00

  • Minimum-energy path for a u6 RNA conformational change involving protonation, base-pair rearrangement and base flipping.

    abstract::The U6 RNA internal stem-loop (U6 ISL) is a highly conserved domain of the spliceosome that is important for pre-mRNA splicing. The U6 ISL contains an internal loop that is in equilibrium between two conformations controlled by the protonation state of an adenine (pK(a)=6.5). Lower pH favors formation of a protonated ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2009.07.003

    authors: Venditti V,Clos L 2nd,Niccolai N,Butcher SE

    更新日期:2009-09-04 00:00:00

  • Cold-adaptation in sea-water-borne signal proteins: sequence and NMR structure of the pheromone En-6 from the Antarctic ciliate Euplotes nobilii.

    abstract::Ciliates of Euplotes species constitutively secrete pleiotropic protein pheromones, which are capable to function as prototypic autocrine growth factors as well as paracrine inducers of mating processes. This paper reports the amino acid sequence and the NMR structure of the pheromone En-6 isolated from the antarctic ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2007.06.046

    authors: Pedrini B,Placzek WJ,Koculi E,Alimenti C,LaTerza A,Luporini P,Wüthrich K

    更新日期:2007-09-14 00:00:00

  • The crystal structure at 2A resolution of the Ca2+ -binding protein S100P.

    abstract::S100P is a small calcium-binding protein of the S100 EF-hand-containing family of proteins. Elevated levels of its mRNA are reported to be associated with the progression to hormone independence and metastasis of prostate cancer and to be associated with loss of senescence in human breast epithelial cells in vitro. Th...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/s0022-2836(02)01278-0

    authors: Zhang H,Wang G,Ding Y,Wang Z,Barraclough R,Rudland PS,Fernig DG,Rao Z

    更新日期:2003-01-24 00:00:00

  • Mutations in beta-myosin S2 that cause familial hypertrophic cardiomyopathy (FHC) abolish the interaction with the regulatory domain of myosin-binding protein-C.

    abstract::The myosin filaments of striated muscle contain a family of enigmatic myosin-binding proteins (MyBP), MyBP-C and MyBP-H. These modular proteins of the intracellular immunoglobulin superfamily contain unique domains near their N termini. The N-terminal domain of cardiac MyBP-C, the MyBP-C motif, contains additional pho...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1998.2522

    authors: Gruen M,Gautel M

    更新日期:1999-02-26 00:00:00

  • Architecture of the Complex Formed by Large and Small Terminase Subunits from Bacteriophage P22.

    abstract::Packaging of viral genomes inside empty procapsids is driven by a powerful ATP-hydrolyzing motor, formed in many double-stranded DNA viruses by a complex of a small terminase (S-terminase) subunit and a large terminase (L-terminase) subunit, transiently docked at the portal vertex during genome packaging. Despite rece...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2015.08.013

    authors: McNulty R,Lokareddy RK,Roy A,Yang Y,Lander GC,Heck AJR,Johnson JE,Cingolani G

    更新日期:2015-10-09 00:00:00

  • The Ankrd2, Cdkn1c and calcyclin genes are under the control of MyoD during myogenic differentiation.

    abstract::Skeletal muscle development requires the coordinated expression of numerous transcription factors to control the specification of the muscle fate in mesodermal cells and the differentiation of the committed myoblasts into functional contractile fibers. The bHLH transcription factor MyoD plays a key role in these proce...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2005.03.063

    authors: Bean C,Salamon M,Raffaello A,Campanaro S,Pallavicini A,Lanfranchi G

    更新日期:2005-06-03 00:00:00

  • Molecular evolution of antibody affinity for sensitive detection of botulinum neurotoxin type A.

    abstract::Botulism is caused by botulinum neurotoxin (BoNT), the most poisonous substance known. Potential use of BoNT as a biothreat agent has made development of sensitive assays for toxin detection and potent antitoxin for treatment of intoxication a high priority. To improve detection and treatment of botulism, molecular ev...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2005.06.003

    authors: Razai A,Garcia-Rodriguez C,Lou J,Geren IN,Forsyth CM,Robles Y,Tsai R,Smith TJ,Smith LA,Siegel RW,Feldhaus M,Marks JD

    更新日期:2005-08-05 00:00:00

  • Divergent genetic control of protein solubility and conformational quality in Escherichia coli.

    abstract::In bacteria, protein overproduction results in the formation of inclusion bodies, sized protein aggregates showing amyloid-like properties such as seeding-driven formation, amyloid-tropic dye binding, intermolecular beta-sheet architecture and cytotoxicity on mammalian cells. During protein deposition, exposed hydroph...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2007.09.004

    authors: García-Fruitós E,Martínez-Alonso M,Gonzàlez-Montalbán N,Valli M,Mattanovich D,Villaverde A

    更新日期:2007-11-16 00:00:00

  • Study of the active site residues of a glycoside hydrolase family 8 xylanase.

    abstract::Site-directed mutagenesis and a comparative characterisation of the kinetic parameters, pH dependency of activity and thermal stability of mutant and wild-type enzymes have been used in association with crystallographic analysis to delineate the functions of several active site residues in a novel glycoside hydrolase ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2005.09.064

    authors: Collins T,De Vos D,Hoyoux A,Savvides SN,Gerday C,Van Beeumen J,Feller G

    更新日期:2005-11-25 00:00:00

  • Alternative oligomeric states of the yeast Rvb1/Rvb2 complex induced by histidine tags.

    abstract::Rvb1 and Rvb2 are essential AAA(+) (ATPases associated with diverse cellular activities) helicases, which are important components of critical complexes such as chromatin remodeling and telomerase complexes. The oligomeric state of the Rvb proteins has been controversial. Independent studies from several groups have d...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2010.10.003

    authors: Cheung KL,Huen J,Kakihara Y,Houry WA,Ortega J

    更新日期:2010-12-03 00:00:00

  • Architecture and flexibility of the yeast Ndc80 kinetochore complex.

    abstract::Kinetochores mediate microtubule-chromosome attachment and ensure accurate segregation of sister chromatids. The highly conserved Ndc80 kinetochore complex makes direct contacts with the microtubule and is essential for spindle checkpoint signaling. It contains a long coiled-coil region with globular domains at each e...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2008.08.077

    authors: Wang HW,Long S,Ciferri C,Westermann S,Drubin D,Barnes G,Nogales E

    更新日期:2008-11-21 00:00:00

  • Mechanism and energy landscape of domain swapping in the B1 domain of protein G.

    abstract::Three-dimensional domain swapping has emerged as a ubiquitous process for homo-oligomer formation in many unrelated proteins, but the molecular mechanism of this process is still poorly understood. Here we present a mechanism for the swapping reaction in the B1 domain of the immunoglobulin G binding protein from group...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2008.06.025

    authors: Malevanets A,Sirota FL,Wodak SJ

    更新日期:2008-09-26 00:00:00

  • The role of the L-chain in ferritin iron incorporation. Studies of homo and heteropolymers.

    abstract::Mammalian ferritins are 24-meric proteins composed of variable proportions of H and L-subunits. The L-chain, in contrast to the H-chain, lacks detectable ferroxidase activity, and its role in ferritin iron incorporation is unclear. In this study, apoferritins were subjected to iron loading with large iron increments t...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1994.1325

    authors: Levi S,Santambrogio P,Cozzi A,Rovida E,Corsi B,Tamborini E,Spada S,Albertini A,Arosio P

    更新日期:1994-05-20 00:00:00

  • Characterization of a membrane protein folding motif, the Ser zipper, using designed peptides.

    abstract::Polar residues play important roles in the association of transmembrane helices and the stabilities of membrane proteins. Although a single Ser residue in a transmembrane helix is unable to mediate a strong association of the helices, the cooperative interactions of two or more appropriately placed serine hydroxyl gro...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2006.04.001

    authors: North B,Cristian L,Fu Stowell X,Lear JD,Saven JG,Degrado WF

    更新日期:2006-06-16 00:00:00

  • DNA sequences required for the initiation of adenovirus type 4 DNA replication in vitro.

    abstract::In-vivo studies have demonstrated that adenovirus type 2 and adenovirus type 4 have different DNA sequence requirements for the initiation of DNA replication. To investigate the basis of these differences an in-vitro system has been developed which will faithfully initiate adenovirus type 4 DNA replication. A plasmid ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(88)90438-x

    authors: Harris MP,Hay RT

    更新日期:1988-05-05 00:00:00

  • Mutations in the conserved P loop perturb the conformation of two structural elements in the peptidyl transferase center of 23 S ribosomal RNA.

    abstract::Evidence is presented for the participation of the P loop (nucleotides G2250-C2254) of 23 S rRNA in establishing the tertiary structure of the peptidyl transferase center. Single base substitutions were introduced into the P loop, which participates in peptide bond formation through direct interaction with the CCA end...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1998.2410

    authors: Gregory ST,Dahlberg AE

    更新日期:1999-01-29 00:00:00

  • Molecular phylogeny and evolutionary timescale for the family of mammalian herpesviruses.

    abstract::A detailed phylogenetic analysis for mammalian members of the family Herpesviridae, based on molecular sequences is reported. Sets of encoded amino acid sequences were collected for eight well conserved genes that are common to mammalian herpesviruses. Phylogenetic trees were inferred from alignments of these sequence...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1995.0152

    authors: McGeoch DJ,Cook S,Dolan A,Jamieson FE,Telford EA

    更新日期:1995-03-31 00:00:00

  • Error rate and specificity of human and murine DNA polymerase eta.

    abstract::We describe here the error specificity of mammalian DNA polymerase eta (pol eta), an enzyme that performs translesion DNA synthesis and may participate in somatic hypermutation of immunoglobulin genes. Both mouse and human pol eta lack intrinsic proofreading exonuclease activity and both copy undamaged DNA inaccuratel...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.2001.4937

    authors: Matsuda T,Bebenek K,Masutani C,Rogozin IB,Hanaoka F,Kunkel TA

    更新日期:2001-09-14 00:00:00

  • Translation initiation factor 3 regulates switching between different modes of ribosomal subunit joining.

    abstract::Ribosomal subunit joining is a key checkpoint in the bacterial translation initiation pathway during which initiation factors (IFs) regulate association of the 30S initiation complex (IC) with the 50S subunit to control formation of a 70S IC that can enter into the elongation stage of protein synthesis. The GTP-bound ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2014.09.024

    authors: MacDougall DD,Gonzalez RL Jr

    更新日期:2015-05-08 00:00:00

  • Isolation and characterization of sarcomeric actin genes expressed in Xenopus laevis embryos.

    abstract::A Xenopus laevis complementary DNA (cDNA) library prepared from messenger RNAs extracted from embryos has been screened for actin-coding sequences. Two cDNA clones corresponding to an alpha cardiac and an alpha skeletal muscle actin mRNA have been identified and characterized. From a genomic library, we have furthermo...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(86)90438-9

    authors: Stutz F,Spohr G

    更新日期:1986-02-05 00:00:00

  • Tryptophan supports interaction of transmembrane helices.

    abstract::Interactions of transmembrane helices play an important role in folding and oligomerization of integral membrane proteins. The interfacial residues of these helices frequently correspond to heptad repeat motifs. In order to uncover novel mechanisms underlying these interactions, we randomised a heptad repeat pattern w...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2005.09.084

    authors: Ridder A,Skupjen P,Unterreitmeier S,Langosch D

    更新日期:2005-12-09 00:00:00

  • Kinetic isotope effects reveal the presence of significant secondary structure in the transition state for the folding of the N-terminal domain of L9.

    abstract::Our present understanding of the nature of the transition state for protein folding depends predominantly on studies where individual side-chain contributions are mapped out by mutational analysis (phi value analysis). This approach, although extremely powerful, does not in general provide direct information about the...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2007.02.084

    authors: Sato S,Raleigh DP

    更新日期:2007-07-06 00:00:00