Sequence alignment programs such as BLAST and PSI-BLAST are used routinely in pairwise, profile-based, or intermediate-sequence-search (ISS) methods to detect remote homologies for the purposes of fold assignment and comparative modeling. Yet, the sequence alignment quality of these methods at low sequence identity is not known. We have used the CE structure alignment program (Shindyalov and Bo...

In this paper we discuss the problem of attaining a dynamic compromise between using redundancy to improve software dependability and limiting the amount of redundancy so as to avoid unnecessary inefficiencies. A scheme, called self-configuring optimal programming (SCOP), is developed. SCOP attempts to reduce the resource cost of faulttolerant software, both in space and time, by providing desi...

The Structural Classification of Proteins (SCOP) database provides a detailed and comprehensive description of the relationships of all known protein structures. The classification is on hierarchical levels: the first two levels, family and superfamily, describe near and far evolutionary relationships; the third, fold, describes geometrical relationships. The distinction between evolutionary re...

UNLABELLED Several methods for establishing cross-links between Protein Data Bank (PDB) structures or Structural Classification of Proteins (SCOP) domains and Swiss-Prot + TrEMBL sequences (or vice versa) rely on database annotations. Alternatively, sequence alignment procedures can be used. In this study, we describe Seq2Struct, a web resource for the identification of sequence-structure links...

Background: Memory loss is the main disorder accompanied by Alzheimer's disease (AD). Objectives: We aimed to investigate protective effects of aminoguanidine (Amg) on cell apoptosis in hippocampal CA1 region and memory impairment male rats received scopolamine (Scop). Methods: Thirty Wistar (200 - 250 g) were randomly divided into three groups saline-saline group, Scop + saline, Amg groups. Th...

We present an automated procedure to assign CATH and SCOP classifications to proteins whose FSSP score is available. CATH classification is assigned down to the topology level, and SCOP classification is assigned to the fold level. Because the FSSP database is updated weekly, this method makes it possible to update also CATH and SCOP with the same frequency. Our predictions have a nearly perfec...

Abstract A comparative analysis was carried out to establish the energy performance of an air handling unit (AHU) for two-stage heat recovery exhaust air. The seasonal coefficient (SCOP) calculated when AHU is operating in heating mode, as well COP entire on annual basis, taking into account specific features different climatic zones Republic Bulgaria. results have been compared with BIN-temper...

Dry eye disease can be a consequence of lacrimal gland insufficiency in Sjögren's Syndrome or increased tear film evaporation despite normal lacrimal gland function. To determine if there is a correlation between severity effects in these models and underlying pathophysiological responses, we compared the time dependent changes in each of these parameters that occur during a 6 week period. Dry ...