Dynamics of \u3cem\u3eE. Coli\u3c/em\u3e Single Stranded DNA Binding (SSB) Protein-DNA Complexes

Single stranded DNA binding proteins (SSB) are essential to the cell as they stabilize transiently open single stranded DNA (ssDNA) intermediates, recruit appropriate DNA metabolism proteins, and coordinate fundamental processes such as replication, repair and recombination. Escherichia coli single stranded DNA binding protein (EcSSB) has long served as the prototype for the study of SSB function. The structure, functions, and DNA binding properties of EcSSB are well established: The protein is a stable homotetramer with each subunit possessing an N-terminal DNA binding core, a C-terminal protein-protein interaction tail, and an intervening intrinsically disordered linker (IDL). EcSSB wraps ssDNA in multiple DNA binding modes and can diffuse along DNA to remove secondary structures and remodel other protein-DNA complexes. This review provides an update on these features based on recent findings, with special emphasis on the functional and mechanistic relevance of the IDL and DNA binding modes

A proposed concept for a crustal dynamics information management network

The findings of a requirements and feasibility analysis of the present and potential producers, users, and repositories of space-derived geodetic information are summarized. A proposed concept is presented for a crustal dynamics information management network that would apply state of the art concepts of information management technology to meet the expanding needs of the producers, users, and archivists of this geodetic information

\u3cem\u3ePlasmodium falciparum\u3c/em\u3e SSB Tetramer Wraps Single-Stranded DNA with Similar Topology but Opposite Polarity to \u3cem\u3eE. coli\u3c/em\u3e SSB

Single-stranded DNA binding (SSB) proteins play central roles in genome maintenance in all organisms. Plasmodium falciparum, the causative agent of malaria, encodes an SSB protein that localizes to the apicoplast and likely functions in the replication and maintenance of its genome. P. falciparum SSB (Pf-SSB) shares a high degree of sequence homology with bacterial SSB proteins but differs in the composition of its C-terminus, which interacts with more than a dozen other proteins in Escherichia coli SSB (Ec-SSB). Using sedimentation methods, we show that Pf-SSB forms a stable homo-tetramer alone and when bound to single-stranded DNA (ssDNA). We also present a crystal structure at 2.1 Å resolution of the Pf-SSB tetramer bound to two (dT)35 molecules. The Pf-SSB tetramer is structurally similar to the Ec-SSB tetramer, and ssDNA wraps completely around the tetramer with a “baseball seam” topology that is similar to Ec-SSB in its “65 binding mode”. However, the polarity of the ssDNA wrapping around Pf-SSB is opposite to that observed for Ec-SSB. The interactions between the bases in the DNA and the amino acid side chains also differ from those observed in the Ec-SSB–DNA structure, suggesting that other differences may exist in the DNA binding properties of these structurally similar proteins

\u3cem\u3ePlasmodium falciparum\u3c/em\u3e SSB Tetramer Binds Single-Stranded DNA Only in a Fully Wrapped Mode

The tetrameric Escherichia coli single-stranded DNA (ssDNA) binding protein (Ec-SSB) functions in DNA metabolism by binding to ssDNA and interacting directly with numerous DNA repair and replication proteins. Ec-SSB tetramers can bind ssDNA in multiple DNA binding modes that differ in the extent of ssDNA wrapping. Here, we show that the structurally similar SSB protein from the malarial parasite Plasmodium falciparum (Pf-SSB) also binds tightly to ssDNA but does not display the same number of ssDNA binding modes as Ec-SSB, binding ssDNA exclusively in fully wrapped complexes with site sizes of 52–65 nt/tetramer. Pf-SSB does not transition to the more cooperative (SSB)35 DNA binding mode observed for Ec-SSB. Consistent with this, Pf-SSB tetramers also do not display the dramatic intra-tetramer negative cooperativity for binding of a second (dT)35 molecule that is evident in Ec-SSB. These findings highlight variations in the DNA binding properties of these two highly conserved homotetrameric SSB proteins, and these differences might be tailored to suit their specific functions in the cell

The Relationship Between Non-Completers\u27 Decisions to Leave Certificate Programs Before Earning Certificates and Their Career Goals

The primary purpose of this research was to conduct a systematic study that investigated ways other than awarding certificates of completion to determine the effectiveness of community colleges\u27 occupational-technical certificate programs. These programs are designed to provide students with the skills necessary to enter the workforce or receive promotions in existing employment, and they attract students whose primary goals are to gain the skills necessary to be more productive workers. This study was designed to assess the effectiveness of fifteen occupational-technical certificate programs at Tidewater Community College (TCC) according to the institution\u27s mission statement and to identify ways to encourage students to earn certificates of completion. Students\u27 academic records, responses to surveys, focus group discussions, and unsolicited comments were analyzed. These analyses determined that although TCC\u27s occupational-technical certificate programs do not meet accountability according to numbers of certificates awarded, they are meeting standards of effectiveness in respect to the college\u27s mission statement, providing students with skills necessary to successfully enter the workforce or advance in existing jobs. Thus, this study concluded that effectiveness of community colleges\u27 occupational-technical certificate programs could be measured by means other than traditional methods, such as counting graduates. Findings showed that 68% of the students who enrolled in TCC\u27s occupational-technical certificate programs for career goals made the decision to withdraw because they had met their goals. Significantly more students left programs for trade-related reasons after they had completed trade-related courses but before they enrolled in academic classes; significantly more students who were unemployed, while attending classes, withdrew from programs for trade-related influences than those from other employment groups. While non-completers perceived academic requirements as the primary barriers to students earning certificates, 56% of these former students did not believe institutional policies and procedures affected the decisions of students to leave programs. Seven areas of concern that signaled the need for further research are discussed. While three of these areas apply to TCC, four address concerns of community colleges in general

A Study to Determine the Correlation Between the Level of Cultural Literacy and the Rate of Progress an Illiterate Person Experiences During the First Year of Learning to Read

The following hypothesis was applied to this study: 1. Adult non-readers who display higher levels of cultural literacy before beginning basic reading programs show average or rapid progress, during the first year of basic reading instruction, more often than those who display lower levels of cultural literacy

Helicase activity on DNA as a propagating front

We develop a propagating front analysis, in terms of a local probability of zipping, for the helicase activity of opening up a double stranded DNA (dsDNA). In a fixed-distance ensemble (conjugate to the fixed-force ensemble) the front separates the zipped and unzipped phases of a dsDNA and a drive acts locally around the front. Bounds from variational analysis and numerical estimates for the speed of a helicase are obtained. Different types of helicase behaviours can be distinguished by the nature of the drive.Comment: 5 pages, 5 eps figures; replaced by the published versio

Generic functional requirements for a NASA general-purpose data base management system

Generic functional requirements for a general-purpose, multi-mission data base management system (DBMS) for application to remotely sensed scientific data bases are detailed. The motivation for utilizing DBMS technology in this environment is explained. The major requirements include: (1) a DBMS for scientific observational data; (2) a multi-mission capability; (3) user-friendly; (4) extensive and integrated information about data; (5) robust languages for defining data structures and formats; (6) scientific data types and structures; (7) flexible physical access mechanisms; (8) ways of representing spatial relationships; (9) a high level nonprocedural interactive query and data manipulation language; (10) data base maintenance utilities; (11) high rate input/output and large data volume storage; and adaptability to a distributed data base and/or data base machine configuration. Detailed functions are specified in a top-down hierarchic fashion. Implementation, performance, and support requirements are also given

A Closed Network Queue Model of Underground Coal Mining Production, Failure, and Repair

Underground coal mining system production, failures, and repair cycles were mathematically modeled as a closed network of two queues in series. The model was designed to better understand the technological constraints on availability of current underground mining systems, and to develop guidelines for estimating the availability of advanced mining systems and their associated needs for spares as well as production and maintenance personnel. It was found that: mine performance is theoretically limited by the maintainability ratio, significant gains in availability appear possible by means of small improvements in the time between failures the number of crews and sections should be properly balanced for any given maintainability ratio, and main haulage systems closest to the mine mouth require the most attention to reliability