A pH-dependent dimer lock in spider silk protein.

abstract：:The recent growth in protein databases has revealed the functional diversity of many protein superfamilies. We have assessed the functional variation of homologous enzyme superfamilies containing two or more enzymes, as defined by the CATH protein structure classification, by way of the Enzyme Commission (EC) scheme. ...

journal_title：Journal of molecular biology

authors： Todd AE,Orengo CA,Thornton JM

更新日期：2001-04-06 00:00:00

abstract：:To probe the mechanism of the catalytic antibody NPN43C9, we have constructed a three-dimensional model of the NPN43C9 variable region using our antibody structural database (ASD), which takes maximal advantage of immunoglobulin sequence and structural information. The ASD contains separately superimposed variable lig...

journal_title：Journal of molecular biology

authors： Roberts VA,Stewart J,Benkovic SJ,Getzoff ED

更新日期：1994-01-21 00:00:00

abstract：:The X-ray crystal structure of the sulfide derivative of ferric Lucina pectinata hemoglobin component I (HbI) has been determined at 1.9 A resolution (R-factor 0.186). The heme pocket structural organization of HbI is in keeping with its ligand binding properties. The fast sulfide association rate constant can be rela...

journal_title：Journal of molecular biology

authors： Rizzi M,Wittenberg JB,Coda A,Ascenzi P,Bolognesi M

更新日期：1996-04-26 00:00:00

abstract：:The homodimeric enzyme form of quinoprotein ethanol dehydrogenase from Pseudomonas aeruginosa ATCC 17933 crystallizes readily with the space group R3. The X-ray structure was solved at 2.6 A resolution by molecular replacement. Aside from differences in some loops, the folding of the enzyme is very similar to the larg...

journal_title：Journal of molecular biology

authors： Keitel T,Diehl A,Knaute T,Stezowski JJ,Höhne W,Görisch H

更新日期：2000-04-07 00:00:00

abstract：:The oxyR-encoded regulatory protein, OxyR, acts to induce the synthesis of a family of hydrogen peroxide-inducible proteins in Salmonella typhimurium and Escherichia coli. To further define the mechanism by which oxyR regulates the production of these proteins, we identified, mapped, and characterized oxyR-regulated p...

journal_title：Journal of molecular biology

authors： Tartaglia LA,Storz G,Ames BN

更新日期：1989-12-20 00:00:00

abstract：:Here, we have investigated the specificity of purified recombinant tRNA:m(2)(2)G10 methyltransferase of Pyrococcus abyssi ((Pab)Trm-m(2)(2)G10 enzyme). This archaeal enzyme catalyses mono- and dimethylation of the N(2)-exocyclic amino group of guanine at position 10 of several tRNA species. Our results indicate that o...

journal_title：Journal of molecular biology

authors： Urbonavicius J,Armengaud J,Grosjean H

更新日期：2006-03-24 00:00:00

abstract：:A mutant form of human interferon-gamma (IFN-gamma SC1) that binds one IFN-gamma receptor alpha chain (IFN-gamma R alpha) has been designed and characterized. IFN-gamma SC1 was derived by linking the two peptide chains of the IFN-gamma dimer by a seven-residue linker and changing His111 in the first chain to an aspart...

journal_title：Journal of molecular biology

authors： Landar A,Curry B,Parker MH,DiGiacomo R,Indelicato SR,Nagabhushan TL,Rizzi G,Walter MR

更新日期：2000-05-26 00:00:00

abstract：:The role of electrostatic interactions in the stability and the folding of the N-terminal domain of the ribosomal protein L9 (NTL9) was investigated by determining the effects of varying the pH conditions. Urea denaturations and thermal unfolding experiments were used to measure the free energy of folding, DeltaG degr...

journal_title：Journal of molecular biology

authors： Luisi DL,Raleigh DP

更新日期：2000-06-16 00:00:00

abstract：:The crystal structure of muconate lactonizing enzyme has been solved at 3 A resolution, and an unambiguous alpha-carbon backbone chain trace made. The enzyme contains three domains; the central domain is a parallel-stranded alpha-beta barrel, which has previously been reported in six other enzymes, including triose ph...

journal_title：Journal of molecular biology

authors： Goldman A,Ollis DL,Steitz TA

更新日期：1987-03-05 00:00:00

abstract：:Molten globules are partially folded states of proteins which are generally believed to mimic structures formed during the folding process. In order to determine the minimal requirements for the formation of a molten globule state, we have prepared a set of peptide models of the molten globule state of human alpha-lac...

journal_title：Journal of molecular biology

authors： Demarest SJ,Boice JA,Fairman R,Raleigh DP

更新日期：1999-11-19 00:00:00

abstract：:A homologue of the Escherichia coli GroEL apical domain was obtained from thermophilic eubacterium Thermus thermophilus. The domains share 70 % sequence identity (101 out of 145 residues). The thermal stability of the T. thermophilus apical domain (Tm>100 degrees C as evaluated by circular dichroism) is at least 35 de...

journal_title：Journal of molecular biology

authors： Hua Q,Dementieva IS,Walsh MA,Hallenga K,Weiss MA,Joachimiak A

更新日期：2001-02-23 00:00:00

abstract：:The folding thermodynamics and kinetics of the alpha-spectrin SH3 domain with a redesigned hydrophobic core have been studied. The introduction of five replacements, A11V, V23L, M25V, V44I and V58L, resulted in an increase of 16% in the overall volume of the side-chains forming the hydrophobic core but caused no remar...

journal_title：Journal of molecular biology

authors： Cobos ES,Filimonov VV,Vega MC,Mateo PL,Serrano L,Martínez JC

更新日期：2003-04-18 00:00:00

abstract：:Phenylamidine cationic groups linked by a furan ring (furamidine) and related symmetric diamidine compounds bind as monomers in the minor groove of AT sequences of DNA. DB293, an unsymmetric derivative with one of the phenyl rings of furamidine replaced with a benzimidazole, can bind to AT sequences as a monomer but b...

journal_title：Journal of molecular biology

authors： Wang L,Kumar A,Boykin DW,Bailly C,Wilson WD

更新日期：2002-03-29 00:00:00

abstract：:The proteins coded by the five major capsid genes of herpes simplex virus 1, VP5 (gene UL19), VP19c (UL38), VP23 (UL18), pre-VP22a (UL26.5), and pre-VP21 (UL26), assemble into fragile roundish "procapsids", which mature into robust polyhedral capsids in a transition similar to that undergone by bacteriophage proheads....

journal_title：Journal of molecular biology

authors： Trus BL,Booy FP,Newcomb WW,Brown JC,Homa FL,Thomsen DR,Steven AC

更新日期：1996-11-01 00:00:00

abstract：:The clarification of the physico-chemical determinants underlying amyloid deposition is critical for our understanding of misfolding diseases. With this purpose we have performed a systematic all-atom molecular dynamics (MD) study of a series of single point mutants of the de novo designed amyloidogenic peptide STVIIE...

journal_title：Journal of molecular biology

authors： López de la Paz M,de Mori GM,Serrano L,Colombo G

更新日期：2005-06-10 00:00:00

abstract：:Exocyclic DNA adducts are formed from metabolites of chemical carcinogens and have also been detected as endogenous lesions in human DNA. The exocyclic adduct 3,N(4)-etheno-2'-deoxycytidine (epsilon dC), positioned opposite deoxyguanosine in the B-form duplex of the dodecanucleotide d(CGCGAATTepsilonCGCG), has been cr...

journal_title：Journal of molecular biology

authors： Freisinger E,Fernandes A,Grollman AP,Kisker C

更新日期：2003-06-13 00:00:00

abstract：:In the present work, we have studied in vitro replication of N-2-acetylaminofluorene (AAF) or cis-diamminedichloroplatinum II (cis-DDP) single modified DNA templates. We used the holoenzyme (pol III HE) or the alpha subunit of DNA polymerase III, which is involved in SOS mutagenesis, and other DNA polymerases in order...

journal_title：Journal of molecular biology

authors： Belguise-Valladier P,Maki H,Sekiguchi M,Fuchs RP

更新日期：1994-02-11 00:00:00

abstract：:Structure-based drug design is underway to inhibit the S100B-p53 interaction as a strategy for treating malignant melanoma. X-ray crystallography was used here to characterize an interaction between Ca(2)(+)-S100B and TRTK-12, a target that binds to the p53-binding site on S100B. The structures of Ca(2+)-S100B (1.5-A ...

journal_title：Journal of molecular biology

authors： Charpentier TH,Thompson LE,Liriano MA,Varney KM,Wilder PT,Pozharski E,Toth EA,Weber DJ

更新日期：2010-03-12 00:00:00

abstract：:FF domains are small protein-protein interaction modules that have two flanking conserved phenylalanine residues. They are present in proteins involved in transcription, RNA splicing, and signal transduction, and often exist in tandem arrays. Although several individual FF domain structures have been determined by NMR...

journal_title：Journal of molecular biology

authors： Lu M,Yang J,Ren Z,Sabui S,Espejo A,Bedford MT,Jacobson RH,Jeruzalmi D,McMurray JS,Chen X

更新日期：2009-10-23 00:00:00

abstract：:Protein phosphorylation at serine, threonine or tyrosine residues affects a multitude of cellular signaling processes. How is specificity in substrate recognition and phosphorylation by protein kinases achieved? Here, we present an artificial neural network method that predicts phosphorylation sites in independent seq...

journal_title：Journal of molecular biology

authors： Blom N,Gammeltoft S,Brunak S

更新日期：1999-12-17 00:00:00

abstract：:The minor structural protein (p80), found in about one copy per virion in turnip crinkle virus (TCV), is shown by amino acid analysis and peptide mapping to be a covalent dimer of the major coat protein (p40). The covalent linkage occurs near the N termini of the crosslinked chains. These data suggest that TGV and rel...

journal_title：Journal of molecular biology

authors： Stockley PG,Kirsh AL,Chow EP,Smart JE,Harrison SC

更新日期：1986-10-20 00:00:00

abstract：:Controlled activity of several kinesin motors is required for the proper assembly of the mitotic spindle. Eg5, a homotetrameric bipolar kinesin-5 from Xenopus laevis, can cross-link and slide anti-parallel microtubules apart by a motility mechanism comprising diffusional and directional modes. How this mechanism is re...

journal_title：Journal of molecular biology

authors： Lakämper S,Thiede C,Düselder A,Reiter S,Korneev MJ,Kapitein LC,Peterman EJ,Schmidt CF

更新日期：2010-05-28 00:00:00

abstract：:In order to determine how much of the natural sequence is required for function of the lambda tR1 rho-dependent terminator, and to determine the minimum length required, we made two deletion series of a tR1 derivative that contains mostly foreign DNA, encoding C-rich RNA, substituted for the natural upstream sequences...

journal_title：Journal of molecular biology

authors： Hart CM,Roberts JW

更新日期：1994-04-01 00:00:00

abstract：:The Bacillus subtilis extracytoplasmic function (ECF) sigma factor sigma(W) controls a large regulon that is strongly induced by alkali shock. To define the physiological role of sigma(W) we have sought to identify the complete set of genes under sigma(W) control. Previously, we described a promoter consensus search p...

journal_title：Journal of molecular biology

authors： Cao M,Kobel PA,Morshedi MM,Wu MF,Paddon C,Helmann JD

更新日期：2002-02-22 00:00:00

abstract：:Human serum amyloid P component crystallizes from sodium acetate buffer (pH 5.5) in the presence of calcium and polyethylene glycol 6000, at 4 degrees C. The space group is P2(1) and the cell parameters are a = 69.0 A (1 A = 0.1 nm), b = 99.3 A, c = 96.8 A, beta = 96.1. Density considerations supported by neutron scat...

journal_title：Journal of molecular biology

authors： Wood SP,Oliva G,O'Hara BP,White HE,Blundell TL,Perkins SJ,Sardharwalla I,Pepys MB

更新日期：1988-07-05 00:00:00

abstract：:The bacteriophage P1 recombinase Cre mediates site-specific recombination between loxP sites. The loxP site consists of two 13 base-pair inverted repeats separated by an eight base-pair spacer region. When DNA containing the loxP site is incubated with Cre, specific cleavages occur within the spacer region, creating a...

journal_title：Journal of molecular biology

authors： Hoess RH,Abremski K

更新日期：1985-02-05 00:00:00

abstract：:We describe in this work X-ray scattering and electron microscope studies of rat sciatic and optic nerves as a function of temperature. The scattering experiments were analyzed as described in the previous papers of this series: a variety of parameters were determined, some of which characterize the lattice disorder, ...

journal_title：Journal of molecular biology

authors： Mateu L,Luzzati V,Vonasek E,Mateu E,Villegas GM,Vargas R

更新日期：1995-01-13 00:00:00

abstract：:Fasciculin 2 and toxin alpha proteins belong to the same structural family of three-fingered snake toxins. They act on different targets, but in each case the binding region involves residues from loops I and II. The superimposition of the two structures suggests that these functional regions correspond to structurall...

journal_title：Journal of molecular biology

authors： Le Du MH,Ricciardi A,Khayati M,Ménez R,Boulain JC,Ménez A,Ducancel F

更新日期：2000-03-03 00:00:00

abstract：:The control of DNA replication initiation in the plasmid ColE1 is mediated by RNAI, a 108 nucleotide plasmid-encoded RNA that is entirely complementary to the 5'-terminal region of the replication primer RNA. RNAI acts in trans to inhibit primer maturation. Previously, we constructed a plasmid in which the ColE1 RNAI ...

journal_title：Journal of molecular biology

authors： Dooley TP,Tamm J,Polisky B

更新日期：1985-11-05 00:00:00

abstract：:We have evaluated the thermodynamic parameters associated with cooperative cofilin binding to actin filaments, accounting for contributions of ion-linked equilibria, and determined the kinetic basis of cooperative cofilin binding. Ions weaken non-contiguous (isolated, non-cooperative) cofilin binding to an actin filam...

journal_title：Journal of molecular biology

authors： Cao W,Goodarzi JP,De La Cruz EM

更新日期：2006-08-11 00:00:00