Structural analysis of yeast HSF by site-specific crosslinking.

abstract：:The type A domain of the von Willebrand Factor is found also in the complement proteins factor B (FB), C2, CR3 and CR4, the integrins, collagen types VI, VII, XII and XIV, and other proteins. FB is a component of the alternative pathway of the complement system of immune defence, and is cleaved into the fragments Bb a...

journal_title：Journal of molecular biology

authors： Perkins SJ,Smith KF,Williams SC,Haris PI,Chapman D,Sim RB

更新日期：1994-04-22 00:00:00

abstract：:The evolution of protein interactions cannot be deciphered without a detailed analysis of interaction interfaces and binding modes. We performed a large-scale study of protein homooligomers in terms of their symmetry, interface sizes, and conservation of binding modes. We also focused specifically on the evolution of ...

journal_title：Journal of molecular biology

authors： Dayhoff JE,Shoemaker BA,Bryant SH,Panchenko AR

更新日期：2010-01-29 00:00:00

abstract：:The preferred DNase I cleavage sites within the 160 bp tyrT DNA fragment were identified by studying the initial rate of cleavage of individual bonds. The results show that there is no correlation between the rate of cleavage and the identity of the dinucleotide sequence that is cleaved. Examination of the sequences s...

journal_title：Journal of molecular biology

authors： Herrera JE,Chaires JB

更新日期：1994-02-18 00:00:00

abstract：:The roles of the residues in the catalytic trio Glu212-Asp214-Glu217 in cellobiohydrolase I (CBHI) from Trichoderma reesei have been investigated by changing these residues to their isosteric amide counterparts. Three mutants, E212Q, D214N and E217Q, were constructed and expressed in T. reesei. All three point mutatio...

journal_title：Journal of molecular biology

authors： Ståhlberg J,Divne C,Koivula A,Piens K,Claeyssens M,Teeri TT,Jones TA

更新日期：1996-11-29 00:00:00

abstract：:While the disulfide bridge is highly conserved within the immunoglobulin fold, a few antibody variable domains lack one of the essential cysteine residues. In the levan binding antibody ABPC48 one of the essential cysteine residues (Cys H92) of the heavy chain variable domain is replaced by tyrosine. We expressed scFv...

journal_title：Journal of molecular biology

authors： Proba K,Honegger A,Plückthun A

更新日期：1997-01-17 00:00:00

abstract：:The expression of xylose utilization in Bacillus subtilis is regulated at the level of transcription by xylose dependent Xyl repressor-xyl operator interaction. We have structurally and functionally characterized the binding sites of Xyl repressor in the xyl regulatory region. Methylation and hydroxyl radical protecti...

journal_title：Journal of molecular biology

authors： Dahl MK,Degenkolb J,Hillen W

更新日期：1994-10-28 00:00:00

abstract：:Relaxation of nucleosomes on an homologous series (pBR) of ca 350-370 bp DNA minicircles originating from plasmid pBR322 was recently used as a tool to study their structure and dynamics. These nucleosomes thermally fluctuated between three distinct DNA conformations within a histone N-terminal tail-modulated equilibr...

journal_title：Journal of molecular biology

authors： Sivolob A,Lavelle C,Prunell A

更新日期：2003-02-07 00:00:00

abstract：:The methylation-dependent restriction endonuclease McrBC from Escherichia coli K12 cleaves DNA containing two R(m)C dinucleotides separated by about 40 to 2000 base-pairs. McrBC is unique in that cleavage is totally dependent on GTP hydrolysis. McrB is the GTP binding and hydrolyzing subunit, whereas MrC stimulates it...

journal_title：Journal of molecular biology

authors： Pieper U,Schweitzer T,Groll DH,Gast FU,Pingoud A

更新日期：1999-09-24 00:00:00

abstract：:The chloroplast thylakoid membrane of green plants is organized in stacked grana membranes and unstacked stroma membranes. We investigated the structural organization of Photosystem II (PSII) in paired grana membrane fragments by transmission electron microscopy. The membrane fragments were obtained by a short treatme...

journal_title：Journal of molecular biology

authors： Boekema EJ,van Breemen JF,van Roon H,Dekker JP

更新日期：2000-09-01 00:00:00

abstract：:The number of intrinsically disordered proteins known to be involved in cell-signaling and regulation is growing rapidly. To test for a generalized involvement of intrinsic disorder in signaling and cancer, we applied a neural network predictor of natural disordered regions (PONDR VL-XT) to four protein datasets: huma...

journal_title：Journal of molecular biology

authors： Iakoucheva LM,Brown CJ,Lawson JD,Obradović Z,Dunker AK

更新日期：2002-10-25 00:00:00

abstract：:Expansion of the polyglutamine (polyQ) region in the protein ataxin-3 is associated with spinocerebellar ataxia type 3, an inherited neurodegenerative disorder that belongs to the family of polyQ diseases. Increasing evidence indicates that protein aggregation and fibre formation play an important role in these pathol...

journal_title：Journal of molecular biology

authors： Masino L,Nicastro G,Menon RP,Dal Piaz F,Calder L,Pastore A

更新日期：2004-12-03 00:00:00

abstract：:DNA polymerase I of Escherichia coli provides an excellent model for the study of template-directed enzymatic synthesis of DNA because it is a single subunit enzyme, it can be obtained in large quantities and the three-dimensional structure of the polymerizing domain (the Klenow fragment) has recently been determined ...

journal_title：Journal of molecular biology

authors： Joyce CM,Fujii DM,Laks HS,Hughes CM,Grindley ND

更新日期：1985-11-20 00:00:00

abstract：:Transfer RNA su7 G36 is a derivative of tRNA(Trp) with a 3'GUC anticodon complementary to the glutamine codon CAG. This tRNA requires a normally forbidden G-U wobble at the first codon position to suppress a UAG (amber) termination codon. Measurement of amber suppression by mutated su7 G36 tRNAs and correction for tRN...

journal_title：Journal of molecular biology

authors： Schultz DW,Yarus M

更新日期：1994-02-04 00:00:00

abstract：:Crystals have been obtained of threonyl-tRNA synthetase from the extreme thermophile Thermus thermophilus using sodium formate as a precipitant. The crystals are very stable and diffract to at least 2.4 A. The crystals belong to space group P2(1)2(1)2(1) with cell parameters a = 61.4 A, b = 156.1 A, c = 177.3 A. ...

journal_title：Journal of molecular biology

authors： Garber MB,Yaremchuk AD,Tukalo MA,Egorova SP,Fomenkova NP,Nikonov SV

更新日期：1990-08-20 00:00:00

abstract：:The DNA decamer d(CCAGGCCTGG) has been studied by X-ray crystallography. At a nominal resolution of 1.6 A, the structure was refined to R = 16.9% using stereochemical restraints. The oligodeoxyribonucleotide forms a straight B-DNA double helix with crystallographic dyad symmetry and ten base-pairs per turn. In the cry...

journal_title：Journal of molecular biology

authors： Heinemann U,Alings C

更新日期：1989-11-20 00:00:00

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

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

abstract：:The gene sup61+, which codes for the essential Saccharomyces cerevisiae tRNA(SerUCG), is the only single-copy tRNA gene in this organism know to contain an intron. To assess the role of this intron in tRNA gene expression, an intron-deleted sup61+ gene was constructed in vitro and introduced into the yeast genome. Iso...

journal_title：Journal of molecular biology

authors： Ho CK,Abelson J

更新日期：1988-08-05 00:00:00

abstract：:Solid-state 2H nuclear magnetic resonance line shapes have been obtained from folded films of oriented Li-DNA molecules with the purine bases selectively labeled with deuterium at the 8-position. From line shape simulations, the static base tilts as well as the anisotropic motional amplitudes were determined as a func...

journal_title：Journal of molecular biology

authors： Brandes R,Vold RR,Kearns DR,Rupprecht A

更新日期：1988-07-20 00:00:00

abstract：:NADH-dehydrogenase (Complex I) is the first complex of the mitochondrial respiratory chain. It is an amphipatic molecule located in the inner mitochondrial membrane and is composed of at least 35 unique subunits encoded by both mitochondrial and nuclear DNA. The whole complex was isolated in detergent from the fungus ...

journal_title：Journal of molecular biology

authors： Guénebaut V,Vincentelli R,Mills D,Weiss H,Leonard KR

更新日期：1997-01-31 00:00:00

abstract：:Pancreatic amyloid is found in more than 95 % of type II diabetes patients. Pancreatic amyloid is formed by the aggregation of islet amyloid polypeptide (hIAPP or amylin), which is a 37-residue peptide. Because pancreatic amyloid is cytotoxic, it is believed that its formation is directly associated with the developme...

journal_title：Journal of molecular biology

authors： Tenidis K,Waldner M,Bernhagen J,Fischle W,Bergmann M,Weber M,Merkle ML,Voelter W,Brunner H,Kapurniotu A

更新日期：2000-01-28 00:00:00

abstract：:The conserved and essential eukaryotic protein Spt6 functions in transcription elongation, chromatin maintenance, and RNA processing. Spt6 has three characterized functions. It is a histone chaperone capable of reassembling nucleosomes, a central component of transcription elongation complexes, and is required for rec...

journal_title：Journal of molecular biology

authors： Close D,Johnson SJ,Sdano MA,McDonald SM,Robinson H,Formosa T,Hill CP

更新日期：2011-05-13 00:00:00

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

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

更新日期：2006-06-16 00:00:00

abstract：:A 144 amino acid residue cts-52 mutant repressor (mtc phi 105) located in the EcoRI-F immunity region (immF) of Bacillus subtilis phage phi 105 is involved in the control mechanism of a thermo-inducible expression system. Adjacent to the repressor gene, an open-reading frame, designated ORF4, encodes a polypeptide of ...

journal_title：Journal of molecular biology

authors： Chan AY,Lim BL

更新日期：2003-10-10 00:00:00

abstract：:Methods that compare a protein sequence directly to a structure can be divided into those that construct a molecular model (threading methods) and those that perform a sequence alignment with the structure encoded as a sequence of structural states (one-dimensional/three-dimensional (1D/3D) matching). The former take ...

journal_title：Journal of molecular biology

authors： Taylor WR

更新日期：1997-06-27 00:00:00

abstract：:A variant of human growth hormone (hGH), in which 15 mutations were introduced with phage display mutagenesis to improve receptor binding affinity by 400-fold, yielded two related crystal forms diffracting to high resolution. The structure of this variant was determined in both crystal forms, one at 2.0 A resolution a...

journal_title：Journal of molecular biology

authors： Ultsch MH,Somers W,Kossiakoff AA,de Vos AM

更新日期：1994-02-11 00:00:00

abstract：:FokI is a type IIS restriction endonuclease that recognizes the 5'-GGATG-3' sequence and cleaves non-specifically at 9 and 13 base-pairs away on the top and bottom strands, respectively, to produce a 5' overhang. FokI is a bipartite endonuclease with separate recognition and cleavage domains. Because of its bipartite ...

journal_title：Journal of molecular biology

authors： Vanamee ES,Berriman J,Aggarwal AK

更新日期：2007-07-06 00:00:00

abstract：:Bovine enterovirus (BEV) strain VG-5-27 derived from an infectious cDNA clone has been crystallized as extended hexagonal plates. Virus recovered from crystals produced cytopathic effect in BHK cells. These crystals diffract X-rays from high energy synchrotron sources to beyond 2.7 A. The crystal system is monoclinic,...

journal_title：Journal of molecular biology

authors： Smyth M,Fry E,Stuart D,Lyons C,Hoey E,Martin SJ

更新日期：1993-06-05 00:00:00

abstract：:Building on the substantial progress that has been made in using free energy perturbation (FEP) methods to predict the relative binding affinities of small molecule ligands to proteins, we have previously shown that results of similar quality can be obtained in predicting the effect of mutations on the binding affinit...

journal_title：Journal of molecular biology

authors： Clark AJ,Negron C,Hauser K,Sun M,Wang L,Abel R,Friesner RA

更新日期：2019-03-29 00:00:00

abstract：:Small multidrug resistance (SMR) transporters contribute to bacterial resistance by coupling the efflux of a wide range of toxic aromatic cations, some of which are commonly used as antibiotics and antiseptics, to proton influx. EmrE is a prototypical small multidrug resistance transporter comprising four transmembran...

journal_title：Journal of molecular biology

authors： Fleishman SJ,Harrington SE,Enosh A,Halperin D,Tate CG,Ben-Tal N

更新日期：2006-11-17 00:00:00

abstract：:Pre-steady-state chemical quenched-flow techniques were used to study DNA unwinding catalyzed by Escherichia coli UvrD helicase (helicase II), a member of the SF1 helicase superfamily. Single turnover experiments, with respect to unwinding of a DNA oligonucleotide, were used to examine the DNA substrate and UvrD conce...

journal_title：Journal of molecular biology

authors： Ali JA,Maluf NK,Lohman TM

更新日期：1999-11-05 00:00:00