Abstract:
:Distance constraints from two-dimensional NMR cross-relaxation data are used to derive a three-dimensional structure for acyl carrier protein from Escherichia coli. Several approaches to structure determination are explored. The most successful proves to be an approach that combines the early stages of a distance geometry program with energy minimization in the presence of NMR constraints represented as pseudopotentials. Approximately 450 proton to proton distance constraints including 50 long-range constraints were included in these programs. Starting structures were generated at random by the distance geometry program and energies minimized by a molecular mechanics module to give final structures. Seven of the structures were deemed acceptable on the basis of agreement with experimentally determined distances. Root-mean-square deviations from the mean of these structures for backbone atoms range from 2 to 3 A. All structures show three roughly parallel helices with hydrophobic residues facing inward and hydrophilic residues facing outward. A hydrophobic cleft is recognizable and is identified as a likely site for acyl chain binding.
journal_name
Biochemistryjournal_title
Biochemistryauthors
Holak TA,Kearsley SK,Kim Y,Prestegard JHdoi
10.1021/bi00416a046subject
Has Abstractpub_date
1988-08-09 00:00:00pages
6135-42issue
16eissn
0006-2960issn
1520-4995journal_volume
27pub_type
杂志文章相关文献
BIOCHEMISTRY文献大全abstract::RuvC is a well-characterized Holliday junction resolvase from E. coli. The presence of symmetry in its preferred recognition sequence leads to ambiguity in the position of the crossover point in the junction, because a symmetric junction can undergo branch migration. Symmetric immobile junctions are junctions that con...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi020319r
更新日期:2002-09-10 00:00:00
abstract::There is increasing evidence that a class of cell membrane glycolipids, gangliosides, can mediate the fibrillogenesis and toxicity of Alzheimer's disease amyloid-beta peptide (Abeta). Using lipid monolayers and vesicles as model membranes, we measured the insertion of Abeta into 1,2-dipalmitoyl-sn-glycero-3-phosphocho...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi062177x
更新日期:2007-02-20 00:00:00
abstract::Triglyceride analogues were synthesized in which one of the primary acyl ester functions has been replaced by an alkyl group and the secondary acyl ester bond has been replaced by an acyl amino bond. The chain length at either position was varied, and both (R)- and (S)-enantiomers of each compound were synthesized. Th...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00019a020
更新日期:1995-05-16 00:00:00
abstract::Replacement of methionine (Met) residues by selenomethionine (SeMet) was recently shown to facilitate the crystallographic analysis of protein structure through the application of multi-wavelength anomalous diffraction techniques [Yang et al. (1990) Science (Washington, D.C.) 249, 1398-1405]. The availability of SeMet...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00110a009
更新日期:1991-11-19 00:00:00
abstract::Modelin-5 isoforms were used to gain an insight into the effects of amidation on antimicrobial selectivity. When tested against Escherichia coli, amidation increased toxicity 10-fold (MIC = 31.25 μM) while showing limited increased hemolytic activity (2% lysis). Our results show that both the amidated and non-amidated...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi201267v
更新日期:2011-12-20 00:00:00
abstract::Ultraviolet irradiation of calmodulin in the presence of calcium results in either the intramolecular cross-linking of Tyr99 and Tyr138 [Malencik, D.A., & Anderson, S.R. (1986) Biochemistry 25, 709] or, when [Tyr8]substance P is bound, the generation of peptide-calmodulin adducts. The latter consist of two chromatogra...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00403a016
更新日期:1988-02-09 00:00:00
abstract::For the class A β-lactamase SHV-1, the kinetic and mechanistic properties of the clinically used inhibitor sulbactam are compared with the sulbactam analog substituted in its 6β position by a CH2OH group (6β-(hydroxymethyl)penicillanic acid). The 6β substitution improves both in vitro and microbiological inhibitory pr...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi501197t
更新日期:2015-01-27 00:00:00
abstract::The crystal structure of a C-terminal domain of enterohemorrhagic Escherichia coli type III effector NleH2 has been determined to 2.6 Å resolution. The structure resembles those of protein kinases featuring the catalytic, activation, and glycine-rich loop motifs and ATP-binding site. The position of helix αC and the l...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi500016j
更新日期:2014-04-22 00:00:00
abstract::NLRP4 is a member of the nucleotide-binding and leucine-rich repeat receptor (NLR) family of cytosolic receptors and a member of an inflammation signaling cascade. Here, we present the crystal structure of the NLRP4 pyrin domain (PYD) at 2.3 Å resolution. The NLRP4 PYD is a member of the death domain (DD) superfamily ...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi3007059
更新日期:2012-09-18 00:00:00
abstract::A novel and efficient enzyme kinetics assay using electrospray ionization mass spectrometry was developed and applied to the bacterial carbohydrate sulfotransferase (NodST). NodST catalyzes the sulfuryl group transfer from 3'-phosphoadenosine 5'-phosphosulfate (PAPS) to chitobiose, generating 3'-phosphoadenosine 5'-ph...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi020457g
更新日期:2002-11-05 00:00:00
abstract::Recycling of yeast fumarase to permit repetition of its reaction chemistry requires two proton transfers and two conformational changes, in pathways that are different in detail but thematically similar in the two directions. In the malate --> fumarate direction, simple anions such as acetate accelerate the fumarate-o...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi9821521
更新日期:1998-12-22 00:00:00
abstract::The crystal structures of 7,8-dimethylisoalloxazine-10-acetic acid-tryptamine (1:1) tetrahydrate and 7,8-dimethylisoalloxazine-10-acetic acid-tyramine (1:1) tetrahydrate complexes were determined by the X-ray diffraction method, as models for flavin-tryptophan and flavin-tyrosine interactions in flavoproteins. The obs...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00513a034
更新日期:1981-05-12 00:00:00
abstract::Virulent strains of Clostridium sordellii cause gangrenous myonecrosis in humans. The released lethal toxin (TcsL) and hemorrhagic toxin (TcsH) are regarded as the major virulence factors. TcsL inactivates low molecular weight GTP-binding proteins of the Rho/Ras subfamilies by monoglucosylation. In cultured cell lines...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi900964c
更新日期:2009-09-29 00:00:00
abstract::New classes of small proteins have recently been found that refold rapidly with two-state kinetics from a substantially unfolded conformation ("U") and without the accumulation of a folding intermediate. Barnase, on the other hand, is representative of a class of proteins that display multistate kinetics and refold fr...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi950967t
更新日期:1996-02-27 00:00:00
abstract::Hepatic microsomal cytochrome P-450 from phenobarbital-pretreated rats is destroyed by propyne in a reduced nicotinamide adenine dinucleotide dependent process which also results in vivo in the accumulation of an abnormal green porphyrin. The green porphyrin has been identified by its electronic absorption, mass spect...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00528a033
更新日期:1981-12-08 00:00:00
abstract::Cytochrome P450 reductase (CPR) is a tethered membrane protein which transfers electrons from NADPH to microsomal P450s. We show that the lipid bilayer has a role in defining the redox potential of the CPR flavin domains. In order to quantitate the electrochemical behavior of this central redox protein, full-length CP...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi9011435
更新日期:2009-12-29 00:00:00
abstract::Five gangliosides, accounting for over 95% of the total ganglioside fraction, were isolated from bovine adrenal medulla by preparative thin-layer chromatography and the carbohydrate structures determined by a combination of periodate oxidation and permethylation techniques. Partially methylated alditol acetates were g...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00678a026
更新日期:1975-04-08 00:00:00
abstract::We have found that the atomic force microscope (AFM) can be used to image the "beads-on-a-string" chromatin structure in a normal air environment following adsorption onto a cover glass substrate. Individual nucleosome cores and linker DNA could be resolved clearly along chromatin fibers that were reconstituted using ...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00084a002
更新日期:1993-08-24 00:00:00
abstract::Many naturally occurring RNA structures contain single mismatches. However, the algorithms currently used to predict RNA structure from sequence rely on a minimal set of data for single mismatches, most of which occur rather infrequently in nature. As a result, several approximations and assumptions are used to predic...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi701311c
更新日期:2007-11-20 00:00:00
abstract::Faithful translation of the genetic code is mainly based on the specificity of tRNA aminoacylation catalyzed by aminoacyl-tRNA synthetases. These enzymes are comprised of a catalytic core and several appended domains. Bacterial glutamyl-tRNA synthetases (GluRS) contain five structural domains, the two distal ones inte...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi801690f
更新日期:2009-06-30 00:00:00
abstract::It is now appreciated that the relationships of proteins, particularly enzymes, within a protein superfamily can be understood not only in terms of their sequence similarities and three-dimensional structures but also by chemical threads that relate their functional attributes. The mechanistic ties among superfamily m...
journal_title:Biochemistry
pub_type: 杂志文章,评审
doi:10.1021/bi001814v
更新日期:2000-11-14 00:00:00
abstract::DNA three-way junctions (3WJs) are branched structures that serve as important biological intermediates and as components in DNA nanostructures. We recently derived the global structure of a fully complementary 3WJ and found that it contained unpaired bases at the branchpoint, which is consistent with previous observa...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/acs.biochem.7b00677
更新日期:2017-09-19 00:00:00
abstract::Pectate lyase C (pelC) was the first protein in which the parallel beta-helix structure was recognized. The unique features of parallel beta-helix-containing proteins-a relatively simple topology and unusual interactions among side chains-make pelC an interesting protein to study with respect to protein folding. In th...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi001900v
更新日期:2000-12-26 00:00:00
abstract::Colchicine induces a weak assembly-independent GTPase activity in calf brain tubulin [David-Pfeuty, T., Erickson, H. P., & Pantaloni, D. (1977) Proc. Natl. Acad. Sci. U.S.A. 74, 5372-5376; Andreu, J. M., & Timasheff, S. N. (1981) Arch. Biochem. Biophys. 211, 151-157]. Kinetic analysis shows a turnover number of 2 x 10...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00186a027
更新日期:1994-05-24 00:00:00
abstract::RS1, also known as retinoschisin, is an extracellular discoidin domain-containing protein that has been implicated in maintaining the cellular organization and synaptic structure of the vertebrate retina. Mutations in the gene encoding RS1 are responsible for X-linked retinoschisis, a retinal degenerative disease char...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi800938g
更新日期:2008-09-02 00:00:00
abstract::We have determined the mechanism of DNA-dependent protein kinase (DNA-PK) inhibition by cis-diamminedichloroplatinum(II)-(cisplatin-) damaged DNA. We previously have demonstrated that Ku, the DNA binding subunit of DNA-PK, is capable of binding to DNA duplexes globally damaged with cisplatin but was unable to stimulat...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi963124q
更新日期:1997-06-17 00:00:00
abstract::We have obtained a quantitative description of villin-nucleated actin polymerization in physiological salt by determining the concentrations of free villin (V), villin-actin monomer (VA), villin-actin dimer (VA2), and villin-actin oligomer (VAn). Over a range of actin-villin ratios from 0.1 to 20 we determined the con...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00383a019
更新日期:1987-05-05 00:00:00
abstract::Sedimentation and gel retardation studies show a stronger interaction of HMG 1 and 2 with negatively supercoiled DNA than with linear, nicked-circular, or positively supercoiled ds-DNA. An apparent unwinding angle of 58 degrees was obtained for HMG 1 and 2 when assayed by protection of negatively supercoiled DNA from ...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00064a005
更新日期:1993-04-06 00:00:00
abstract::In this study, we have mapped the intracellular alkylation sites of adozelesin and bizelesin, two potent analogs of CC-1065, in individual genes at the single-nucleotide level. Human colon carcinoma cells were treated with adozelesin and bizelesin, and the position of adducts were mapped within the PGK-1 and p53 genes...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00185a043
更新日期:1994-05-17 00:00:00
abstract::A study of the voltage induction of transient pores in phospholipid bilayer vesicles is reported. Unilamellar vesicles (dipalmitoylphosphatidylcholine), with a size distribution of 100 +/- 30 nm, were prepared by the method of Enoch & Strittmatter [Enoch, H., & Strittmatter, P. (1979) Proc. Natl. Acad. Sci. U.S.A. 76,...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00509a022
更新日期:1981-03-17 00:00:00