Structural properties of a collagenous heterotrimer that mimics the collagenase cleavage site of collagen type I.

abstract：:Until now and based on the success of the helix/coil transition theory it has been assumed that the alpha-helical propensities of the amino acids are position independent. This has been critical to derive the set of theoretical parameters for the 20 natural amino acids. Here, we have analyzed the behavior of several n...

journal_title：Journal of molecular biology

authors： Petukhov M,Muñoz V,Yumoto N,Yoshikawa S,Serrano L

更新日期：1998-04-24 00:00:00

abstract：:The three-dimensional structure of L-fucose isomerase from Escherichia coli has been determined by X-ray crystallography at 2.5 A resolution. This ketol isomerase converts the aldose L-fucose into the corresponding ketose L-fuculose using Mn2+ as a cofactor. Being a hexamer with 64,976 Da per subunit, L-fucose isomera...

journal_title：Journal of molecular biology

authors： Seemann JE,Schulz GE

更新日期：1997-10-17 00:00:00

abstract：:The properties have been determined of a recently identified form of bovine pancreatic trypsin inhibitor, with only two of the three disulphide bonds of the native protein, but possessing a native-like conformation. The kinetics of refolding of the reduced inhibitor were re-measured to elucidate the kinetic role in fo...

journal_title：Journal of molecular biology

authors： Creighton TE,Goldenberg DP

更新日期：1984-11-05 00:00:00

abstract：:Due to their ability to degrade RNA, selected members of the bovine pancreatic ribonuclease A (RNase A) superfamily are potent cytotoxins. These cytotoxic ribonucleases enter the cytosol of target cells, where they degrade cellular RNA and cause cell death. The cytotoxic activity of most RNases, however, is abolished ...

journal_title：Journal of molecular biology

authors： Leich F,Köditz J,Ulbrich-Hofman R,Arnold U

更新日期：2006-05-19 00:00:00

abstract：:Previous work has shown that the α-tocopherol transfer protein (α-TTP) can bind to vesicular or immobilized phospholipid membranes. Revealing the molecular mechanisms by which α-TTP associates with membranes is thought to be critical to understanding its function and role in the secretion of tocopherol from hepatocyte...

journal_title：Journal of molecular biology

authors： Zhang WX,Thakur V,Lomize A,Pogozheva I,Panagabko C,Cecchini M,Baptist M,Morley S,Manor D,Atkinson J

更新日期：2011-01-28 00:00:00

abstract：:Approximately one-third of the human proteome is made up of proteins that are entirely disordered or that contain extended disordered regions. Although these disordered proteins are closely linked with many major diseases, their binding mechanisms with small molecules remain poorly understood, and a major concern is w...

journal_title：Journal of molecular biology

authors： Heller GT,Aprile FA,Bonomi M,Camilloni C,De Simone A,Vendruscolo M

更新日期：2017-09-01 00:00:00

abstract：:We demonstrate that RecA protein-coated, short single-stranded DNA probes paired with a specific homologous DNA sequence in a linear duplex target molecule and accurately targeted the selected DNA sequence. RecA protein-coated complementary ssDNA probes were reacted with linear duplexes, and the homologously paired mo...

journal_title：Journal of molecular biology

authors： Révet BM,Sena EP,Zarling DA

更新日期：1993-08-05 00:00:00

abstract：:Missense mutations of the p53 tumour suppressor gene induce the formation of proteins with an altered affinity for DNA. These mutant proteins have either a wild-type or a mutant conformation. It has been established that, on association with wild-type protein, molecules with mutant conformation can drive the wild-type...

journal_title：Journal of molecular biology

authors： Chène P

更新日期：1998-08-14 00:00:00

abstract：:We have studied the conditions needed for the formation of stable ternary complexes by Escherichia coli RNA polymerase using a procedure in which elongation by the majority of active enzyme molecules is halted at a specific template base. Stable complexes of this sort, containing RNA chains as short as 15 nucleotides,...

journal_title：Journal of molecular biology

authors： Levin JR,Krummel B,Chamberlin MJ

更新日期：1987-07-05 00:00:00

abstract：:Within the larger ABC superfamily of ATPases, ABCF family members eEF3 in Saccharomyces cerevisiae and EttA in Escherichia coli have been found to function as ribosomal translation factors. Several other ABCFs including biochemically characterized VgaA, LsaA and MsrE confer resistance to antibiotics that target the pe...

journal_title：Journal of molecular biology

authors： Murina V,Kasari M,Takada H,Hinnu M,Saha CK,Grimshaw JW,Seki T,Reith M,Putrinš M,Tenson T,Strahl H,Hauryliuk V,Atkinson GC

更新日期：2019-08-23 00:00:00

abstract：:Biosynthesis of NAD(P) in bacteria occurs either de novo or through one of the salvage pathways that converge at the point where the reaction of nicotinate mononucleotide (NaMN) with ATP is coupled to the formation of nicotinate adenine dinucleotide (NaAD) and inorganic pyrophosphate. This reaction is catalyzed by nic...

journal_title：Journal of molecular biology

authors： Sershon VC,Santarsiero BD,Mesecar AD

更新日期：2009-01-23 00:00:00

abstract：:The multi-domain serine protease C2 provides the catalytic activity for the C3 and C5- convertases of the classical and lectin pathways of complement activation. Formation of these convertases requires the Mg(2+)-dependent binding of C2 to C4b, and the subsequent cleavage of C2 by C1s or MASP2, respectively. The C-ter...

journal_title：Journal of molecular biology

authors： Krishnan V,Xu Y,Macon K,Volanakis JE,Narayana SV

更新日期：2007-03-16 00:00:00

abstract：:The sarcin/ricin domain in 23 S/28 S rRNA is crucial for ribosome function, since it constitutes at least part of the binding site for the elongation factors and hence is essential for binding aminoacyl-tRNA and for translocation. The domain is also the site of action of ricin and sarcin and analysis of the effect of ...

journal_title：Journal of molecular biology

authors： Macbeth MR,Wool IG

更新日期：1999-01-15 00:00:00

abstract：:The X-ray structures of two hemoglobins (Hb) from the sea cucumber Caudina arenicola (an echinoderm) have been determined: a low spin, hemichrome, monomeric Hb-C chain, and a cyanomet-liganded dimeric Hb-D chain. Attempts to obtain crystal structures of the deoxy-liganded and hemichrome forms from the same chain type ...

journal_title：Journal of molecular biology

authors： Mitchell DT,Kitto GB,Hackert ML

更新日期：1995-08-18 00:00:00

abstract：:We have applied a search strategy for determining the optimal packing of protein secondary structure elements to the rotational positioning of the seven transmembrane helices of bacteriorhodopsin. The search is based on the assumption that the relative orientations of the helices within the bundle are conditioned prin...

journal_title：Journal of molecular biology

authors： Tuffery P,Etchebest C,Popot JL,Lavery R

更新日期：1994-03-04 00:00:00

abstract：:RNase MRP is a ribonucleoprotein endoribonuclease involved in eukaryotic pre-rRNA processing. The enzyme possesses a putatively catalytic RNA subunit, structurally related to that of RNase P. A thorough structure analysis of Saccharomyces cerevisiae MRP RNA, entailing enzymatic and chemical probing, mutagenesis and th...

journal_title：Journal of molecular biology

authors： Walker SC,Avis JM

更新日期：2004-08-06 00:00:00

abstract：:Escherichia coli pyridoxine 5'-phosphate oxidase catalyzes the terminal step in the biosynthesis of pyridoxal 5'-phosphate by the FMN oxidation of pyridoxine 5'-phosphate forming FMNH(2) and H(2)O(2). Recent studies have shown that in addition to the active site, pyridoxine 5'-phosphate oxidase contains a non-catalyti...

journal_title：Journal of molecular biology

authors： Safo MK,Musayev FN,di Salvo ML,Schirch V

更新日期：2001-07-20 00:00:00

abstract：:The crystal structures of three vancomycin complexes with two vancomycin-sensitive cell-wall precursor analogs (diacetyl-Lys-D-Ala-D-Ala and acetyl-D-Ala-D-Ala) and a vancomycin-resistant cell-wall precursor analog (diacetyl-Lys-D-Ala-D-lactate) were determined at atomic resolutions of 1.80 A, 1.07 A, and 0.93 A, resp...

journal_title：Journal of molecular biology

authors： Nitanai Y,Kikuchi T,Kakoi K,Hanamaki S,Fujisawa I,Aoki K

更新日期：2009-02-06 00:00:00

abstract：:HBII-52 is a human brain-specific C/D box snoRNA that potentially regulates the editing and/or alternative splicing of the serotonin receptor. Forty-two nearly identical copies of the HBII-52 gene are located immediately downstream of the SNRPN protein-coding gene in an imprinted locus associated with Prader-Willi syn...

journal_title：Journal of molecular biology

authors： Nahkuri S,Taft RJ,Korbie DJ,Mattick JS

更新日期：2008-09-12 00:00:00

abstract：:Mechanisms by which many N-terminal propeptides facilitate folding of proteins are unknown. The maturation of such proteins from their precursors involve three steps, namely: (1) folding of the precursor, (2) autoprocessing of the propeptide from the N terminus and (3) degradation of the cleaved propeptide. Using subt...

journal_title：Journal of molecular biology

authors： Shinde U,Inouye M

更新日期：1995-09-08 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：:A cytochrome c kinetic folding intermediate was studied by hydrogen exchange (HX) pulse labeling. Advances in the technique and analysis made it possible to define the structured and unstructured regions, equilibrium stability, and kinetic opening and closing rates, all at an amino acid-resolved level. The entire N-te...

journal_title：Journal of molecular biology

authors： Krishna MM,Lin Y,Mayne L,Englander SW

更新日期：2003-11-28 00:00:00

abstract：:Crystal structures of two complexes between recombinant MS2 capsids and RNA operator fragments have been determined at 2.7 A resolution. The coat protein of the RNA bacteriophage MS2 is bifunctional; it forms the icosahedral virus shell to protect the viral nucleic acid and it acts as a translational repressor by bind...

journal_title：Journal of molecular biology

authors： Valegârd K,Murray JB,Stonehouse NJ,van den Worm S,Stockley PG,Liljas L

更新日期：1997-08-01 00:00:00

abstract：:The expression of intracellular antibodies (intrabodies) in eukaryotic cells has provided a powerful tool to manipulate microbial and cellular signaling pathways in a highly precise manner. However, there have been several technical issues that have restricted their more widespread use. In particular, single-chain ant...

journal_title：Journal of molecular biology

authors： Gennari F,Mehta S,Wang Y,St Clair Tallarico A,Palu G,Marasco WA

更新日期：2004-01-02 00:00:00

abstract：:A recently developed approach to calculate the pH dependence of protein stability from three-dimensional structure information is applied to the analysis of acid denaturation of sperm whale apomyoglobin. The finite difference Poisson-Boltzmann method is used to calculate pKa values and these are used to obtain titrati...

journal_title：Journal of molecular biology

authors： Yang AS,Honig B

更新日期：1994-04-15 00:00:00

abstract：:Bacteriophage T4 provides an important model for the biochemistry and genetics of DNA metabolism. Phage-encoded proteins conduct all essential steps of T4 DNA replication, repair, and recombination. Central to these three processes is the T4 UvsX protein, a member of the filamentous, ATP-dependent class of general rec...

journal_title：Journal of molecular biology

authors： Ando RA,Morrical SW

更新日期：1998-11-06 00:00:00

abstract：:We produced human leukotriene B(4) (LTB(4)) receptor BLT1 as a recombinant protein in Escherichia coli. This detergent-solubilized receptor displays two states with regard to its affinity for LTB(4): (i) a low-affinity state (K(a)=7.8x10(8)M(-1)) that involves a receptor homodimer (BLT1.LTB(4))(2); we report evidence ...

journal_title：Journal of molecular biology

authors： Banères JL,Parello J

更新日期：2003-06-13 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：:Drugs can affect function in proteins by modulating their flexibility. Despite this possibility, there are very few studies on how drug binding affects the dynamics of target macromolecules. FKBP12 (FK506 binding protein 12) is a prolyl cis-trans isomerase and a drug target. The immunosuppressant drug rapamycin exerts...

journal_title：Journal of molecular biology

authors： Sapienza PJ,Mauldin RV,Lee AL

更新日期：2011-01-14 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