Abstract:
:The matrix metalloproteinase (MMP)/matrixin family has been implicated in both normal tissue remodeling and a variety of diseases associated with abnormal turnover of extracellular matrix components. To better understand MMP behaviors and to aid in the design of MMP inhibitors, a variety of sequence specificity studies have been performed using collagen sequence-based peptides and MMP family members. Results of these studies have been valuable for defining the differences in MMPs and for creating fluorogenic substrates that can continuously monitor MMP activity. However, these studies have also demonstrated that these peptides may not be very good models of native MMP substrates, and that the additivity principle is not always applicable for designing synthetic MMP substrates.
journal_name
Biopolymersjournal_title
Biopolymersauthors
Nagase H,Fields GBdoi
10.1002/(SICI)1097-0282(1996)40:4%3C399::AID-BIP5%subject
Has Abstractpub_date
1996-01-01 00:00:00pages
399-416issue
4eissn
0006-3525issn
1097-0282pii
10.1002/(SICI)1097-0282(1996)40:4<399::AID-BIP5>3.journal_volume
40pub_type
杂志文章,评审相关文献
BIOPOLYMERS文献大全abstract::Serine palmitoyltransferase (SPT) catalyses the first step in the de novo biosynthesis of sphingolipids (SLs). It uses a decarboxylative Claisen-like condensation reaction to couple L-serine with palmitoyl-CoA to generate a long-chain base product, 3-ketodihydrosphingosine. SLs are produced by mammals, plants, yeast, ...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.21482
更新日期:2010-09-01 00:00:00
abstract::Using high precision densimetric and ultrasonic measurements, we have determined, at 25 degrees C, the apparent molar volumes PhiV and the apparent molar compressibilities PhiK(S) of four nucleic acid duplexes-namely, the DNA duplex, poly(dIdC)poly(dIdC); the RNA duplex, poly(rA)poly(rU); and the two DNA/RNA hybrid du...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/(SICI)1097-0282(19991015)50:5<459::AID-BIP
更新日期:1999-10-15 00:00:00
abstract::We have extended our studies of Trp/Trp to other Aryl/Aryl through-space interactions that stabilize hairpins and other small polypeptide folds. Herein we detail the NMR and CD spectroscopic features of these types of interactions. NMR data remains the best diagnostic for characterizing the common T-shape orientation....
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.22821
更新日期:2016-06-01 00:00:00
abstract::The title compound represents the smallest member of cyclic proline peptides corresponding to the general formula c(DDLL-Pro4)n with a strictly D,D,L,L double-alternating sequence of the chiral amino acid residues. The cyclopeptides with n greater than or equal to 2 could be synthesized from both DDLL-Pro4 (1) and DLL...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.360310618
更新日期:1991-05-01 00:00:00
abstract::A secondary structure sequence is a symbolic string composed of three kinds of letters, indicating the helix, strand, and coil (including turns), respectively. A graphic representation for this abstract symbolic sequence is proposed here, called the S curve. The S curve is the unique representation for a given seconda...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/(SICI)1097-0282(200006)53:7<539::AID-BIP2>
更新日期:2000-06-01 00:00:00
abstract::We suggest, using dynamical simulations of a simple heteropolymer modelling the alpha-carbon sequence in a protein, that generically the folded states of globular proteins correspond to statistically well-defined metastable states. This hypothesis, called the metastability hypothesis, states that there are several fre...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.360320610
更新日期:1992-06-01 00:00:00
abstract::The discovery of the prototype delta opioid antagonists TIPP (H-Tyr-Tic-Phe-Phe-OH) and TIP (H-Tyr-Tic-Phe-OH) in 1992 was followed by extensive structure-activity relationship studies, leading to the development of analogues that are of interest as pharmacological tools or as potential therapeutic agents. Stable TIPP...
journal_title:Biopolymers
pub_type: 杂志文章,评审
doi:10.1002/(SICI)1097-0282(1999)51:6<411::AID-BIP4>3.
更新日期:1999-01-01 00:00:00
abstract::Many studies have examined consensus sequences required for protein-glycosaminoglycan interactions. Through the synthesis of helical heparin binding peptides, this study probes the relationship between spatial arrangement of positive charge and heparin binding affinity. Peptides with a linear distribution of positive ...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.21339
更新日期:2010-03-01 00:00:00
abstract::Study of model beta-hairpin peptides allows for better understanding of the factors involved in the formation of beta-sheet secondary structure in proteins. It is known that turn sequence, sidechain-sidechain interactions, interstrand hydrogen bonding, and beta-sheet propensity of residues are all important for beta-h...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.20840
更新日期:2008-01-01 00:00:00
abstract::The differences in the absorbance in the mid infrared region (Mid IR) between normal and abnormal tissues have been shown to be a possible criterion for the detection of different forms of cancer. The present work aimed to study the effects of cell growth and DNA synthesis on the RNA/DNA ratio, which is a promising pa...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.21048
更新日期:2008-11-01 00:00:00
abstract::RNA and DNA molecules experience motions on a wide range of time scales, ranging from rapid localized motions to much slower collective motions of entire helical domains. The many functions of RNA in biology very often require this molecule to change its conformation in response to biological signals in the form of sm...
journal_title:Biopolymers
pub_type: 杂志文章,评审
doi:10.1002/bip.20650
更新日期:2007-08-05 00:00:00
abstract::Caspases comprise a family of dimeric cysteine proteases that control apoptotic programmed cell death and are therefore critical in both organismal development and disease. Specific inhibition of individual caspases has been repeatedly attempted, but has not yet been attained. Caspase-9 is an upstream or initiator cas...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.22080
更新日期:2012-01-01 00:00:00
abstract::Photon correlation spectroscopy has been used to study the translational (D0) and internal dynamics of monodisperse linear and polydisperse superhelical plasmid-DNAs. Scattering vector dependent correlation functions were measured and analyzed with the inverse Laplace transform CONTIN written by S. Provencher. For sca...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.360310702
更新日期:1991-06-01 00:00:00
abstract::Ultraviolet hyperchromicity experiments indicate that in DNA duplex formation, a C-T mismatch is destabilizing in the center of a duplex, but behaves as a stable base pair at the terminus of a duplex. The C-T base pair is thought to contain two hydrogen bonds, but has thermodynamic parameters (delta Ho and delta Go of...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.360310908
更新日期:1991-08-01 00:00:00
abstract::We have determined using NMR the structure of the complex between the third double-stranded RNA-binding domain (dsRBD3) of Drosophila Staufen protein and a RNA stem-loop with optimal binding properties in vitro. This work was designed to understand how dsRBD proteins bind RNA and to investigate the role of Staufen dsR...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/1097-0282(1999)52:4<181::AID-BIP1003>3.0.C
更新日期:1999-01-01 00:00:00
abstract::Computer simulations can provide in principle quantitative correlation between the structures of DNA polymerases and the replication fidelity. This paper describes our progress in this direction. Using several theoretical approaches, including the free energy perturbation (FEP), linear response approximation (LRA), an...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.10244
更新日期:2003-03-01 00:00:00
abstract::Glycopeptide analogues of CSF114(Glc), modified at N-terminus with new ferrocenyl carboxylic acid and a new ferrocenyl-thiphosphino amino acid, were used to implement a new electrochemical biosensor for autoantibody detection in multiple sclerosis. The ferrocenyl moiety of these "electrochemical probes" did not affect...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.20955
更新日期:2008-01-01 00:00:00
abstract::The interhelical interfaces have been examined in seven high-resolution globin chains. The profiles of hydrophobic contact, as measured by the residue solvent-accessible area loss upon folding, have been calculated. The seven globins studied differ in their overall loss of solvent-accessible area upon packing of their...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.360320504
更新日期:1992-05-01 00:00:00
abstract::The kinetics of the hydrodynamic volume change associated with the unfolding and refolding of a globular protein can be observed using high performance size exclusion chromatography. Chromatographic profiles that evidence such dynamics can be simulated using equations in which chromatographic partitioning and the conf...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.360330113
更新日期:1993-01-01 00:00:00
abstract::The periodical D-band pattern is generally considered a unique ultrastructural feature shared by all fibril-forming collagens, which correlates with the intrafibril, paracrystalline array of tropocollagen monomers. Distinct band patterns have been reported, however, for collagen stained long-spacing (SLS) crystallites...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/1097-0282(200011)54:6<448::AID-BIP80>3.0.C
更新日期:2000-11-01 00:00:00
abstract::To examine stabilizing effects of the base pair interaction on a protein scaffold, various peptides with L-α-amino acids bearing a nucleobase in the side chain (nucleobase amino acids; NBAs) were designed based on a G-peptide β-hairpin structure, and their conformational properties were investigated by circular dichro...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.21464
更新日期:2010-01-01 00:00:00
abstract::In this paper, we explore the possibility of using experimental observations in the Monte Carlo chain growth method that we have previously developed. In this method, the macromolecule (peptide, protein, nuclei acid, etc.) is grown atom-by-atom (or residue-by-residue, etc.) and partial chains are replicated according ...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.360331210
更新日期:1993-12-01 00:00:00
abstract::Late expression factor 4 (LEF4) is one of the four subunits of Autographa californica nuclear polyhedrosis virus (AcNPV) RNA polymerase. LEF4 was overexpressed in Escherichia coli and recombinant protein was subjected to structural characterization. Chemical induced unfolding of LEF4 was investigated using intrinsic f...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.21180
更新日期:2009-07-01 00:00:00
abstract::The synthetic peptide of sequence H-Ala-Ser-Thr-Thr-Thr-Asn-Tyr-Thr-OH, termed peptide T, a competitor of the Human Immunodeficiency Virus in the binding to human T cells, and its C-terminal pentapeptide fragment, were studied by 1H-nmr in DMSO solution to determine conformational preferences. The observation of nucle...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.360280142
更新日期:1989-01-01 00:00:00
abstract::A short peptide-based molecule has been found to form a strong hydrogel at phosphate buffer solution of pH 7.46. The hydrogel has been characterized thoroughly using various techniques including field emission scanning electron microscopy (FE-SEM), wide angle powder X-ray diffraction (PXRD), and rheological analysis. ...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.22915
更新日期:2017-01-01 00:00:00
abstract::A series of novel nonpeptide inhibitors of the pp60(c-Src) (Src) SH2 domain is described that exploit multifunctional group replacement of the phenylphosphate moiety of phosphotyrosine (pTyr). Relative to an x-ray structure of citrate complexed to the pTyr binding site of the Src SH2 domain, these nonpeptide ligands i...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.10600
更新日期:2003-01-01 00:00:00
abstract::The structure of starch was studied using small-angle x-ray scattering (SAXS). The scattering data was modeled by considering a finite stack of alternating lamellae that are allowed to fluctuate both along the layer repeat direction and along the transverse layer direction. Analysis in this way of the SAXS data from s...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.10341
更新日期:2003-06-01 00:00:00
abstract::Amyloid aggregates have been implicated in the pathogenesis of diseases such as type 2 diabetes, Alzheimer's, Parkinson's, and prion disease. Recently determined microcrystal structures of several short peptide segments derived from fibril-forming proteins revealed coexistence of alternative aggregation modes (amyloid...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.21731
更新日期:2012-01-01 00:00:00
abstract::The DNA-binding protein HU from Bacillus stearothermophilus (HUBst) is a dimer with a molecular weight of 195 kDa that is capable of bending DNA. An x-ray structure has been determined previously [Tanaka et al. 1984) Nature, vol. 310, pp. 376-381], but no structure could be established for a large part of the supposed...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/(sici)1097-0282(1996)40:5<553::aid-bip13>3
更新日期:1996-01-01 00:00:00
abstract::For systems involving highly and oppositely charged proteins, electrostatic forces dominate association and contribute to biomolecular complex stability. Using experimental or theoretical alanine-scanning mutagenesis, it is possible to elucidate the contribution of individual ionizable amino acids to protein associati...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.21644
更新日期:2011-11-01 00:00:00