The role of CDK in the initiation step of DNA replication in eukaryotes

annatto submitted, created time 1 year 6 months (www.celldiv.com)

"Cyclin-dependent kinases (CDKs) regulate the progression of cell cycle in eukaryotes. One of the major roles of CDK is to promote chromosome DNA replication. However, how CDK promote DNA replication has been a long-standing question, because all the essential CDK substrates in DNA replication has not been identified. Recently Sld2 and Sld3 were identified as the essential substrates of CDK in the initiation step of DNA replication in budding yeast. Moreover, bypass of their phosphorylations is sufficient to promote DNA replication

Submit comment | Blog It | Email It | Keywords: Smad-DNA complex viral DNA replication DNA repair&checkpoint complex protein-DNA interactions

Connecting protein structure with predictions of regulatory sites

diggman submitted, created time 1 year 8 months (www.pnas.org)

"A common task posed by microarray experiments is to infer the binding site preferences for a known transcription factor from a collection of genes that it regulates and to ascertain whether the factor acts alone or in a complex. The converse problem can also be posed: Given a collection of binding sites, can the regulatory factor or complex of factors be inferred? "

Submit comment | Blog It | Email It | Keywords: protein-DNA interactions homology models of transcription factors weight matrix predictions

Intrastrand Annealing Leads to the Formation of a Large DNA Palindrome and Determines the Boundaries of Genomic Amplification in Human Cancer

saury submitted, created time 1 year 9 months (mcb.asm.org)

“Amplification of large chromosomal regions (gene amplification) is a common somatic alteration in human cancer cells and often is associated with advanced disease. A critical event initiating gene amplification is a DNA double-strand break (DSB), which is immediately followed by the formation of a large DNA palindrome. Large DNA palindromes are frequent and nonrandomly distributed in the genomes of cancer cells and facilitate a further increase in copy number

Submit comment | Blog It | Email It | Keywords: DNA duplex formation protein-DNA interactions DNA repair

The Best Scout: tusk DNA

angelfish submitted, created time 1 year 10 months (www.newscientist.com)

Thanks to a DNA test that reveals the geographical origin of ivory.Developed using comparisons of elephant DNA from different regions, the test can theoretically pinpoint to between 500 and 1000 kilometres the origin of a particular sample. In its first use, the test showed that a huge cache of 532 tusks, seized in Singapore in 2002, came mainly from Zambia, not from multiple locations as originally suspected. Results showed that poaching was more widespread in Zambia than the country's government had admitted.

Submit comment | Blog It | Email It | Keywords: genetic Test DNA hypermethylation protein-DNA interactions

The evolutionary history of human DNA transposons: Evidence for intense activity in the primate lineage

angelfish submitted, created time 1 year 10 months (www.genome.org)

“Class 2, or DNA transposons, make up 3% of the human genome, yet the evolutionary history of these elements has been largely overlooked and remains poorly understood. Here scientists carried out the first comprehensive analysis of the activity of human DNA transposons over the course of primate evolution using three independent computational methods. First, They conducted an exhaustive search for human DNA transposons nested within L1 and Alu elements known to be primate specific

Submit comment | Blog It | Email It | Keywords: human activity protein-DNA interactions nuclear DNA

Two-dimensional Blue Native/SDS Gel Electrophoresis of Multiprotein Complexes.

angelfish submitted, created time 1 year 10 months (www.mcponline.org)

“The study of protein interactions constitutes an important domain to understand the physiology and pathogenesis of microorganisms. The two-dimensional blue native/SDS-PAGE was initially reported to analyze membrane protein complexes. In this study, both cytoplasmic and membrane complexes of a bacterium, the strain J99 of the gastric pathogen Helicobacter pylori, were analyzed by this method. It was possible to identify 34 different proteins grouped in 13 multiprotein complexes, 11 from the cytoplasm and two from the membrane, either previously reported partially or totally in the literature

Submit comment | Blog It | Email It | Keywords: protein-DNA interactions Metalloprotein complexes microtubule-associated protein

Complete repository of sequence-verified protein-encoding clones for Saccharomyces cerevisiae.

saury submitted, created time 1 year 10 months (www.genome.org)

“The availability of an annotated genome sequence for the yeast Saccharomyces cerevisiae has made possible the proteome-scale study of protein function and protein–protein interactions. These studies rely on availability of cloned open reading frame (ORF) collections that can be used for cell-free or cell-based protein expression

Submit comment | Blog It | Email It | Keywords: protein function protein-DNA interactions protein core G protein-coupled receptors

Oxidative protein said catch me if you can!

angelfish submitted, created time 1 year 10 months (www.jcb.org)

“The intermembrane space (IMS) of mitochondria, the compartment that phylogenetically originated from the periplasm of bacteria, contains machinery to catalyze the oxidative folding of protein.This machinery introduces disulfide bonds into newly imported precursor proteins, thereby locking them in a folded conformation. Because folded proteins cannot traverse the translocase of the outer membrane, this stably traps the proteins in the mitochondria

1 comment | Blog It | Email It | Keywords: amyloid precursor protein scaffold protein protein association Gab-2 protein protein construct protein network protein-DNA interactions

Dosage compensation distinguish the sex chromosomes will not a mystery.

DanyC submitted, created time 1 year 10 months (genomebiology.com)

“How the mechanisms of dosage compensation distinguish the sex chromosomes from the autosomes has been something of a mystery. A recent study in Caenorhabditis elegans has identified clusters of two common DNA motifs as a cis-acting code for the recruitment of the DCC, the protein complex that mediates dosage compensation.”

2 comments | Blog It | Email It | Keywords: protein-DNA interactions Protein design amyloid precursor protein dna replication

Approaching a complete repository of sequence-verified protein-encoding clones

DanyC submitted, created time 1 year 10 months (www.genome.org)

"The availability of an annotated genome sequence for the yeast Saccharomyces cerevisiae has made possible the proteome-scale study of protein function and protein–protein interactions. These studies rely on availability of cloned open reading frame (ORF) collections that can be used for cell-free or cell-based protein expression

1 comment | Blog It | Email It | Keywords: protein-DNA interactions protein structure and function amyloid precursor protein MAP kinase docking protein transmembrane protein protein delivery

WATER MEDIATION IN PROTEIN FOLDING AND MOLECULAR RECOGNITION