Crystal structure of the 2-oxoglutarate- and Fe(II)-dependent lysyl hydroxylase JMJD6.

abstract：:The functional properties of fetal bovine hemoglobin have been studied as a function of temperature, chloride and 2,3-diphosphoglycerate (DPG) concentration. The fetal bovine erythrocyte has six times the concentration of the allosteric modulator DPG compared with the adult cell, and yet the oxygen affinity of the fet...

journal_title：Journal of molecular biology

authors： Clementi ME,Scatena R,Mordente A,Condò SG,Castagnola M,Giardina B

更新日期：1996-01-12 00:00:00

abstract：:The plasma of the striped bass Morone saxatilis contains a fucose-specific lectin (MsaFBP32) that consists of two F-type carbohydrate recognition domains (CRDs) in tandem. The crystal structure of the complex of MsaFBP32 with l-fucose reported here shows a cylindrical 81-A-long and 60-A-wide trimer divided into two gl...

journal_title：Journal of molecular biology

authors： Bianchet MA,Odom EW,Vasta GR,Amzel LM

更新日期：2010-08-13 00:00:00

abstract：:Assembly of infectious retroviral particles involves recognition of specific sequences on the viral RNA by the nucleocapsid (NC) domain of the Gag polyprotein, and subsequent stoichiometric binding of the processed NC protein along the entire length of the RNA. NC proteins also act as nucleic acid chaperones. They acc...

journal_title：Journal of molecular biology

authors： Urbaneja MA,Wu M,Casas-Finet JR,Karpel RL

更新日期：2002-05-03 00:00:00

abstract：:Glyceraldehyde 3-phosphate dehydrogenase (GAPDH) is a glycolytic enzyme that displays several non-glycolytic activities, including the maintenance and/or protection of telomeres. In this study, we determined the molecular mechanism and biological role of the interaction between GAPDH and human telomeric DNA. Using gel...

journal_title：Journal of molecular biology

authors： Demarse NA,Ponnusamy S,Spicer EK,Apohan E,Baatz JE,Ogretmen B,Davies C

更新日期：2009-12-11 00:00:00

abstract：:Previously we have shown that nuclear extracts from mouse cells contain a heterogeneous group of polypeptides (p65, p80, p90, p100) which form distinct DNA-protein complexes on the 18 base-pair sequence element (termed Sal-box), which constitutes the murine rDNA transcription termination signal. These distinct protein...

journal_title：Journal of molecular biology

authors： Smid A,Finsterer M,Grummt I

更新日期：1992-10-05 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：:We present a calculation of the relative changes in binding free energy between the complex of ribonuclease T1 (RNase Tr) with its inhibitor 2'-guanosine monophosphate (2'GMP) and that of RNase T1-2'-adenosine monophosphate (2'AMP) by means of a thermodynamic perturbation method implemented with molecular dynamics. Us...

journal_title：Journal of molecular biology

authors： Hirono S,Kollman PA

更新日期：1990-03-05 00:00:00

abstract：:The Escherichia coli rap mutant inhibits vegetative growth of bacteriophage lambda. Phage mutations termed bar, which overcome the rap defect, have been mapped to three genetic loci in the pL operon. Plasmids with a lambda wild-type bar DNA segment cloned downstream from an active promoter cannot be maintained in rap ...

journal_title：Journal of molecular biology

authors： Pérez-Morga D,Guarneros G

更新日期：1990-11-20 00:00:00

abstract：:The transcription of the beta-globin genes in mouse erythroleukemia cells has been examined by hybridizing labeled RNA obtained from isolated nuclei after chain elongation in the presence of [alpha-32P]UTP. There is induction of at least 30-fold of beta maj globin transcription after cells are treated with either dime...

journal_title：Journal of molecular biology

authors： Salditt-Georgieff M,Sheffery M,Krauter K,Darnell JE Jr,Rifkind R,Marks PA

更新日期：1984-02-05 00:00:00

abstract：:Drosophila projectin is an extremely large protein found within the muscle sarcomeric unit, parallel with the actin and myosin filaments. Projectin has been suggested as the elastic component of C-filaments in insect indirect flight muscles, which is consistent with its localization from the Z band to the tip of the A...

journal_title：Journal of molecular biology

authors： Southgate R,Ayme-Southgate A

更新日期：2001-11-09 00:00:00

abstract：:Despite the fact that DNA polymerases have been investigated for many years and are commonly used as tools in a number of molecular biology assays, many details of the kinetic mechanism they use to catalyze DNA synthesis remain unclear. Structural and kinetic studies have characterized a rapid, pre-catalytic open-to-c...

journal_title：Journal of molecular biology

authors： Xu C,Maxwell BA,Suo Z

更新日期：2014-08-12 00:00:00

abstract：:The results of more than a dozen single-molecule Förster resonance energy transfer (smFRET) experiments suggest that chemically unfolded polypeptides invariably collapse from an expanded random coil to more compact dimensions as the denaturant concentration is reduced. In sharp contrast, small-angle X-ray scattering (...

journal_title：Journal of molecular biology

authors： Yoo TY,Meisburger SP,Hinshaw J,Pollack L,Haran G,Sosnick TR,Plaxco K

更新日期：2012-05-04 00:00:00

abstract：:To explore the ways that proline residues may influence the conformational options of a polypeptide backbone, we have characterized Pro-->Ala mutants of cellular retinoic acid-binding protein I (CRABP I). While all three Xaa-Pro bonds are in the trans conformation in the native protein and the equilibrium stability of...

journal_title：Journal of molecular biology

authors： Eyles SJ,Gierasch LM

更新日期：2000-08-18 00:00:00

abstract：:Multidimensional 1H, 13C and 15N nuclear magnetic resonance spectroscopy has been used to study the complex between palmitoyl-coenzyme A and acyl-coenzyme A binding protein. The 1H and the 15N spectra of the holo-protein have been almost completely assigned and so has most of the 1H spectrum of the coenzyme A part of ...

journal_title：Journal of molecular biology

authors： Kragelund BB,Andersen KV,Madsen JC,Knudsen J,Poulsen FM

更新日期：1993-04-20 00:00:00

abstract：:DNA opening is an essential step in the initiation of replication via the Cairns mode of replication. The opening reaction was investigated in a gamma ori system by using hyperactive variants of plasmid R6K-encoded initiator protein, pi. Reactivity to KMnO4 (indicative of opening) within gamma ori DNA occurred in both...

journal_title：Journal of molecular biology

authors： Krüger R,Konieczny I,Filutowicz M

更新日期：2001-03-09 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：:Antidote/toxin gene pairs known as "addiction modules" can maintain plasmids in bacterial populations by means of post-segregational killing. However, several chromosome-encoded addiction modules may provide an entirely distinct function in the programmed cell death of moribund subpopulations under starvation conditio...

journal_title：Journal of molecular biology

authors： Bishop RE,Leskiw BK,Hodges RS,Kay CM,Weiner JH

更新日期：1998-07-24 00:00:00

abstract：:We have studied in reconstitution experiments the conditions under which peptides derived from histones H1 and H5 are bound in chromatin and to what extent they are involved in the organization of chromatin fibers. The fragments of rat liver histone H1 (rH1) and chicken erythrocytes H1 (cH1) and H5 (cH5) used were the...

journal_title：Journal of molecular biology

authors： Thoma F,Losa R,Koller T

更新日期：1983-07-05 00:00:00

abstract：:An analysis by electron microscopy in amorphous ice and X-ray diffraction of four types of three-dimensional crystals of adenovirus fibre is presented. Fibre from adenovirus type 2 (Ad2) crystallizes in two forms depending on whether it is native or cleaved near the N terminus at Tyr17. Fibre from Ad5 also crystallize...

journal_title：Journal of molecular biology

authors： Devaux C,Adrian M,Berthet-Colominas C,Cusack S,Jacrot B

更新日期：1990-10-20 00:00:00

abstract：:The cylindrical chaperonin GroEL and its cofactor GroES mediate ATP-dependent protein folding in Escherichia coli by transiently encapsulating non-native substrate in a nano-cage formed by the GroEL ring cavity and the lid-shaped GroES. Mechanistic studies of GroEL/ES with heterologous protein substrates suggested tha...

journal_title：Journal of molecular biology

authors： Singh AK,Balchin D,Imamoglu R,Hayer-Hartl M,Hartl FU

更新日期：2020-03-27 00:00:00

abstract：:Cytochrome c6from the unicellular green alga Scenedesmus obliquus was sequenced, crystallized in its reduced and oxidized state and the three-dimensional structure of the protein in both redox states was determined by X-ray crystallography. Reduced cytochrome c6crystallized as a monomer in the space group P 21212, whe...

journal_title：Journal of molecular biology

authors： Schnackenberg J,Than ME,Mann K,Wiegand G,Huber R,Reuter W

更新日期：1999-07-30 00:00:00

abstract：:We have determined the nucleotide sequence of core histone genes and flanking regions from two of approximately 11 different genomic histone clusters of the nematode Caenorhabditis elegans. Four histone genes from one cluster (H3, H4, H2B, H2A) and two histone genes from another (H4 and H2A) were analyzed. The predict...

journal_title：Journal of molecular biology

authors： Roberts SB,Emmons SW,Childs G

更新日期：1989-04-20 00:00:00

abstract：:We have investigated the translational and rotational diffusion of two proteins, bovine pancreatic trypsin inhibitor and hen egg white lysozyme, using molecular dynamics simulations in explicit solvent. The translational diffusion constants obtained from the simulations compare favourably with results from experiments...

journal_title：Journal of molecular biology

authors： Smith PE,van Gunsteren WF

更新日期：1994-02-18 00:00:00

abstract：:The bacterial enzyme maltodextrin phosphorylase (MalP) catalyses the phosphorolysis of an alpha-1,4-glycosidic bond in maltodextrins, removing the non-reducing glucosyl residues of linear oligosaccharides as glucose-1-phosphate (Glc1P). In contrast to the well-studied muscle glycogen phosphorylase (GP), MalP exhibits ...

journal_title：Journal of molecular biology

authors： Geremia S,Campagnolo M,Schinzel R,Johnson LN

更新日期：2002-09-13 00:00:00

abstract：:Peptide deformylase (PDF) has received considerable attention during the last few years as a potential target for a new type of antibiotics. It is an essential enzyme in eubacteria for the removal of the formyl group from the N terminus of the nascent polypeptide chain. We have solved the X-ray structures of four memb...

journal_title：Journal of molecular biology

authors： Kreusch A,Spraggon G,Lee CC,Klock H,McMullan D,Ng K,Shin T,Vincent J,Warner I,Ericson C,Lesley SA

更新日期：2003-07-04 00:00:00

abstract：:The structure of goose egg-white lysozyme (GEWL) has been refined to an R-value of 15.9% at 1.6 A resolution. Details of the structure determination, the refinement and the structure itself are presented. The structure of a complex of the enzyme with the trisaccharide of N-acetyl glucosamine has also been determined a...

journal_title：Journal of molecular biology

authors： Weaver LH,Grütter MG,Matthews BW

更新日期：1995-01-06 00:00:00

abstract：:We have studied the statistical constraints on synonymous codon choice to evaluate various proposals regarding the origin of the bias in synonymous codon usage observed by Fiers et al. (1975), Air et al. (1976), Grantham et al. (1980) and others. We have determined the statistical dependence of the degenerate third ba...

journal_title：Journal of molecular biology

authors： Lipman DJ,Wilbur WJ

更新日期：1983-01-25 00:00:00

abstract：:We used transient phosphorescence anisotropy to detect the microsecond rotational dynamics of erythrosin-iodoacetamide-labeled actin strongly bound to single-headed fragments of muscle myosin subfragment 1 (S1) and non-muscle myosin V (MV). The conformational dynamics of actin filaments in solution are markedly influe...

journal_title：Journal of molecular biology

authors： Prochniewicz E,Chin HF,Henn A,Hannemann DE,Olivares AO,Thomas DD,De La Cruz EM

更新日期：2010-02-26 00:00:00

abstract：:The 3' terminus of the (-) RNA strand in the replicative forms of several (+)-stranded RNA viruses possesses an unpaired guanosine with unknown function. This unpaired guanosine is also found at the 3' terminus of the (-) strand in the double-stranded form of two cucumoviral satellite RNAs. Using a cucumber mosaic vir...

journal_title：Journal of molecular biology

authors： Wu G,Kaper JM

更新日期：1994-05-20 00:00:00

abstract：:A combination of Monte Carlo simulated annealing and energy minimization was utilized to determine the conformation of the antifreeze protein from the fish winter flounder. It was found from the energy-optimized structure that the hydroxyl groups of its four threonine residues, i.e. Thr2, Thr13, Thr24, Thr35, are alig...

journal_title：Journal of molecular biology

authors： Chou KC

更新日期：1992-01-20 00:00:00