Abstract:
:15N-labeled hen lysozyme has been studied by 2D and 3D NMR in order to characterize its dynamic behavior. The resonances of all main-chain amide nitrogen atoms were assigned, as were resonances of nitrogen atoms in 28 side chains. Relaxation measurements for the main-chain and arginine and tryptophan side-chain 15N nuclei used standard methods, and those for the 15N nuclei of asparagine and glutamine side chains used pulse sequences designed to remove unwanted relaxation pathways in the NH2 groups. The calculated order parameters (S2) show that the majority of main-chain amides undergo only small amplitude librational motions on a fast time scale (S2 > or = 0.8). Increased main-chain motion (0.5 < S2 < 0.8) is observed for a total of 19 residues located at the C-terminus, in loop and turn regions, and in the first strand of the main beta-sheet. Order parameters derived for the side chains range from 0.05 to 0.9; five of the six tryptophan residues have high order parameters (S2 > or = 0.8), consistent with their location in the closely packed core of the protein, whereas the order parameters between 0.05 and 0.3 for arginine residues confirm increased side-chain mobility at the protein surface. Order parameters for the side chains of asparagine and glutamine residues range from 0.2 to 0.8; high values are found for side chains that have low solvent accessible surfaces and well-defined chi 1 values, as measured by 3J alpha beta coupling constants. Many of the main-chain and side-chain groups with low order parameters have higher than average temperature factors in X-ray crystal structures and increased positional uncertainty in NMR solution structures. They also tend to lack persistent hydrogen bond interactions and protection against amide hydrogen exchange. The most significant correlations are found between residues with low order parameters and high surface accessibility in both crystal and solution structures. The results suggest that a lack of van der Waals contacts is a major determinant of side-chain and main-chain mobility in proteins.
journal_name
Biochemistryjournal_title
Biochemistryauthors
Buck M,Boyd J,Redfield C,MacKenzie DA,Jeenes DJ,Archer DB,Dobson CMdoi
10.1021/bi00012a023subject
Has Abstractpub_date
1995-03-28 00:00:00pages
4041-55issue
12eissn
0006-2960issn
1520-4995journal_volume
34pub_type
杂志文章相关文献
BIOCHEMISTRY文献大全abstract::Extracellular matrix (ECM) proteins, such as collagen and fibronectin, play vital roles in development and maintenance of hard tissue (bone or tooth) and are, consequently, thoroughly investigated for construction of biomimetic scaffolds in combination with calcium phosphate (CaP) material (the major component of hard...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi050595g
更新日期:2005-09-20 00:00:00
abstract::Four-coordinate metalloporphyrins activate soluble guanylyl cyclase. Ni(II)PPIX and Cu(II)PPIX are high affinity activators, with activation constants of 24 and 17 nM, respectively. Both metalloporphyrins remain stably bound to the enzyme, enabling spectroscopic characterization of the Ni(II)- and Cu(II)-reconstituted...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi010777k
更新日期:2002-08-06 00:00:00
abstract::Eta-crystallin is a retinal dehydrogenase that has acquired a role as a structural protein in the eye lens of elephant shrews, members of an ancient order of mammals. While it retains some activity toward retinal, which is oxidized to retinoic acid, the protein has acquired a number of specific sequence changes that h...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi027367w
更新日期:2003-04-22 00:00:00
abstract::Human insulin-like growth factors I and II (hIGF-I, hIGF-II) are potent stimulators of cell and growth processes. They display high sequence similarity to both the A and B chains of insulin but contain an additional connecting C-domain, which reflects their secretion without specific packaging or precursor conversion....
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi020084j
更新日期:2002-07-30 00:00:00
abstract::"Charged-to alanine" scanning mutagenesis of the catalytic subunit of the Saccharomyces cerevisiae cAMP-dependent protein kinase (C1) identified three glutamate residues, E171, E214, and E274, that are involved in the recognition of a peptide substrate, kemptide (Leu1Arg2Arg3Ala4Ser5Leu6Gly7). These glutamate residues...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00236a001
更新日期:1991-06-04 00:00:00
abstract::Recent studies have indicated that CYP3A4 exhibits non-Michaelis-Menten kinetics for numerous substrates. Both homo- and heterotropic activation have been reported, and kinetic models have suggested multiple substrates within the active site. We provide some of the first physicochemical data supporting the hypothesis ...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi051689t
更新日期:2005-11-01 00:00:00
abstract::Using 125I-labeled phenol-alanine sparsomycin, an analogue of sparsomycin having higher biological activity than the unmodified antibiotic, we studied the requirements and the characteristics of its interaction with the ribosome. The drug does not bind to either isolated ribosomal subunits or reconstituted whole ribos...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00104a011
更新日期:1991-10-08 00:00:00
abstract::T4 RNA ligase catalyzes the ATP-dependent addition of a single 2'-deoxyribonucleoside 3',5'-bisphosphate to the 3'-hydroxyl of an oligodeoxyribonucleotide. The bisphosphate is joined to the deoxyoligomer by a 3' leads to 5' phosphodiester bond and the product, which is terminated by a 3'-phosphate, is one nucleotide l...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00617a004
更新日期:1978-11-28 00:00:00
abstract::L-alpha-Hydroxy acid oxidase (listed as EC 1.4.3.2, L-amino acid: O2 oxidoreductase) has been purified 100-fold from rat kidney to apparent homogeneity by gel electrophoresis. A subunit molecular weight of 47,500 was found by sodium dodecyl sulfate gel electrophoresis, but in contrast to previous reports, the enzyme h...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00683a005
更新日期:1975-06-17 00:00:00
abstract::The in vitro reaction of the vinyl chloride metabolite chloroacetaldehyde (CAA) with cytosine and adenine residues in ribo- and deoxyribopolynucleotides leads to the formation of the relatively stable hydrated etheno derivatives 3,N4-(N4-alpha-hydroxyethene)adenine (epsilon C . H2O) and 1,N6-(N6-alpha-hydroxyethene)cy...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00265a050
更新日期:1982-10-26 00:00:00
abstract::The instantaneous electrochromic response of carotenoids associated with the B800-850 light-harvesting complex of Rhodobacter sphaeroides has been used widely as an intrinsic probe of membrane potential. In the present study, the structural basis for this phenomenon was examined by phospholipase A2 digestion of chroma...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00054a017
更新日期:1993-01-26 00:00:00
abstract::Nramp (natural resistance-associated macrophage protein) family members have been characterized in mammals, yeast, and bacteria as divalent metal ion/H(+) symporters. In previous work, a bioinformatic approach was used for the identification of residues that are conserved within the Nramp family [Haemig, H. A., and Br...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi100320y
更新日期:2010-06-08 00:00:00
abstract::Bacterial hemoglobins and flavohemoglobins share a common globin fold but differ otherwise in structural and functional aspects. The bases of these differences were investigated through kinetic studies on oxygen, carbon monoxide, and nitric oxide binding. The novel bacterial hemoglobins from Clostridium perfringens an...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi047389d
更新日期:2005-03-15 00:00:00
abstract::The Rhodnius prolixus aggregation inhibitor 1 (RPAI-1) is a novel blood-sucking salivary molecule that binds to ADP and attenuates platelet aggregation. In this report, we determine the binding constants and specificity of RPAI-1 for adenine nucleotides and its functional significance. By the Hummel-Dreyer method of e...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi011015s
更新日期:2002-03-19 00:00:00
abstract::The single-subunit RNA polymerases make up a widespread family of proteins found in phage, mitochondria, and chloroplasts. Unlike the phage RNAPs, the eukaryotic RNAPs require accessory factors to melt their promoters and diverge from the phage RNAPs in the regions where functions associated with promoter melting in t...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi300074j
更新日期:2012-05-08 00:00:00
abstract::Sterol carrier protein 2 like 2 from Aedes aegypti (AeSCP2L2) plays an important role in lipid transport in mosquitoes for its routine metabolic processes. Repeated unsuccessful attempts to crystallize ligand free SCP2L2 prompted us to undertake nuclear magnetic resonance (NMR) spectroscopy to determine its three-dime...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/acs.biochem.6b00322
更新日期:2016-09-06 00:00:00
abstract::The enzyme As(III) S-adenosylmethionine methyltransferase (EC 2.1.1.137) (ArsM or AS3MT) is found in members of every kingdom, from bacteria to humans. In these enzymes, there are three conserved cysteine residues at positions 72, 174, and 224 in the CmArsM orthologue from the thermophilic eukaryotic alga Cyanidioschy...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi201500c
更新日期:2012-02-07 00:00:00
abstract::The stereochemical problem involving a pro-pro-prochiral phosphorus center, the hydrolysis of adenosine 5'-monophosphate to adenosine and inorganic phosphate catalyzed by the venom 5'-nucleotidase, has been studied by use of chiral [16O, 17O, 18O]thiophosphates (Psi). (Rp)- and (Sp)-[alpha-18O1]Adenosine 5'-thiophosph...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00564a025
更新日期:1980-11-11 00:00:00
abstract::Treatment of murine leukemia virus reverse transcriptase (MuLV RT) with potassium ferrate, an oxidizing agent known to oxidize amino acids involved in phosphate binding domains of proteins, results in the irreversible inactivation of both the DNA polymerase and the RNase H activities. Significant protection from ferra...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00247a015
更新日期:1991-08-20 00:00:00
abstract::Living organisms have evolved a vast array of catalytic functions that make them ideally suited for the production of medicinally and industrially relevant small-molecule targets. Indeed, native metabolic pathways in microbial hosts have long been exploited and optimized for the scalable production of both fine and co...
journal_title:Biochemistry
pub_type: 杂志文章,评审
doi:10.1021/bi200416g
更新日期:2011-06-21 00:00:00
abstract::We demonstrate a general strategy for determining structures from showers of microcrystals. It uses acoustic droplet ejection to transfer 2.5 nL droplets from the surface of microcrystal slurries, through the air, onto mounting micromesh pins. Individual microcrystals are located by raster-scanning a several-micromete...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi200549x
更新日期:2011-05-31 00:00:00
abstract::Organisms and cellular systems which have adapted to stresses such as high temperature, desiccation, and urea-concentrating environments have responded by concentrating particular organic solutes known as osmolytes. These osmolytes are believed to confer protection to enzyme and other macromolecular systems against su...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00138a006
更新日期:1992-06-16 00:00:00
abstract::As for many enzymes, the enzymatic pathway of triosephosphate isomerase (TIM) includes the partially rate determining motion of an active site loop (loop 6, residues 166-176), which must remain closed during chemistry but must open just before product release. The motion of this loop was monitored using laser induced ...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi026994i
更新日期:2003-03-18 00:00:00
abstract::We have purified the junctional acetylcholine receptor from normal rat skeletal muscle and compared its structure with that of the extrajunctional receptor from denervated muscle. The two receptors from leg muscle were distinguished by isoelectric focusing and by reaction with sera from patients with myasthenia gravis...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00582a028
更新日期:1979-07-24 00:00:00
abstract::The hydrogen exchange kinetics of the complex of trypsin-soybean trypsin inhibitor (Kunitz) have been compared to the calculated sum of the exchange kinetics for the inhibitor and trypsin measured separately. The exchange rates observed for the complex are substantially less than the sum of the exchange rates in the t...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00686a020
更新日期:1975-07-29 00:00:00
abstract::We have used resonance energy transfer to study the spatial relationship between Cys-98 of rabbit skeletal troponin C and Cys-133 of rabbit skeletal troponin I in the reconstituted ternary troponin complex. The donor was introduced by labeling either troponin C or troponin I with N-(iodoacetyl)-N'-(5-sulfo-1-naphthyl)...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00440a029
更新日期:1989-07-11 00:00:00
abstract::Oxidized cytochrome c oxidase exists in two reasonably well-defined conformations, a high-spin conformation with maximal absorption at 418 nm and a low-spin conformation with maximal absorption at 428 nm. The equilibrium between these two conformations has been studied as a function of pH, pressure, and temperature. p...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00265a009
更新日期:1982-10-26 00:00:00
abstract::Development of potent and isoform selective nitric oxide synthase (NOS) inhibitors is challenging because of the structural similarity in the heme active sites. One amino acid difference between NOS isoforms, Asp597 in rat neuronal NOS (nNOS) versus Asn368 in bovine endothelial NOS (eNOS), has been identified as the s...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/acs.biochem.6b00261
更新日期:2016-07-05 00:00:00
abstract::Pantothenate kinase (PanK) catalyzes the first step of the universal five-step coenzyme A (CoA) biosynthetic pathway. The recently characterized type III PanK (PanK-III, encoded by the coaX gene) is distinct in sequence, structure and enzymatic properties from both the long-known bacterial type I PanK (PanK-I, exempli...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi7018578
更新日期:2008-02-05 00:00:00
abstract::Gelatinase B is a matrix metalloproteinase (MMP-9) involved in tissue remodeling, development, cancer, and inflammation. Neutrophils produce three major forms of (pro)gelatinase B: 92 kDa monomers, homodimers, and complexes of gelatinase B covalently bound to neutrophil gelatinase B-associated lipocalin (NGAL). In con...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi991162e
更新日期:1999-10-19 00:00:00