Category:Team Purple B

In mutant SOS-deficient LexA hosts, transcription of the P1-P2-lacZ fusion gene, which is otherwise induced during SOS conditions, was not activated. Thus, LexA regulates transcription.

Mutations in SOS box dinbox1 (a region on DNA), known to be important for LexA binding, makes it so that SOS can no longer be induced (Fig 1B), showing that LexA, which causes SOS induction, binds to dinbox1.

Blastp with T4 phage shows correlation to prohead protease of T4

Figure 2A Euclidian distance map. "In distance mapping, each sequence is represented by a point in a multidimensional Euclidian space and the distances between these points reflect the evolutionary distances between the sequences. A two-dimensional projection of this space is shown in Figure 2A ▶ (below). This plot offers a visualization of the sequence clustering; each family or subfamily appears as a rather distinct group, except for U35.002.a and U35.002.c. These two subfamilies are divided on the basis of sequence conservation and insertion/ deletion patterns."

Thymidylate synthase catalyzes the reductive methylation of dUMP to dTMP with concomitant conversion of 5,10-methylenetetrahydrofolate to dihydrofolate: 5,10-methylenetetrahydrofolate + dUMP = dihydrofolate + dTMP This provides the sole de novo pathway for production of dTMP and is the only enzyme in folate metabolism in which the 5,10-methylenetetrahydrofolate is oxidised during one-carbon transfer.

Autolysin hydrolyses the link between N-acetylmuramoyl residues and L-amino acid residues in certain bacterial cell wall glycopeptides.

From the fourth paragraph under results,"in the course of expanding the U35.001 family, we found statistical evidence that the U9 family and the U35.001 family are remote homologs. For example, starting with the U35.001 representative HK97 gp4 protease (gi|9634157, residues 1–225), PSI-BLAST search found a close homolog gi|26988298 with e-value 2e-18 in the first iteration. Using this sequence as query to run PSI-BLAST (default parameters in NCBI Web site), we found a U9 family member (gi|30044105) in the third iteration with a significant e-value 0.003."

From first two paragraphs under the "Identification of φKZ gp175 as the morphogenetic protease" says "we used local implementations of the Sequence Analysis and Modeling System and HHpred.The E-value of this match was only 3, however the HHpred P-value, which takes secondary structure into account, was 2.5E-05. This match was solidified using a custom T4 gp21 HHM powerful enough to detect an HHM based on the U35 peptidase family at E-values of 3.5E-05. Members of the U35 peptidase family contain diverged, but known, homologs to the T4 protease, such as the HK97 protease."

Figure 2 shows the location of the phage DNA where the prohead protease cleaves.

Figure 1. SDS-Page and Mass Spec shows the size and boundaries of the genes cleaved by the prohead protease.

Figure 5 shows "SDS-PAGE of an expression vector assay of the φKZ protease showing cleavage of φKZ head protein gp93."

PhoH has an ATP-binding activity was demonstrated by a photoaffinity labeling experiment.

The resulting recA mutants exhibited an increased sensitivity to UV irradiation, were impaired in their ability to perform homologous recombination and showed a slightly reduced growth rate when compared with the respective wild-type strains. The Rhizobium recA strains did not have altered symbiotic nitrogen fixation capacity. Therefore, they represent ideal candidates for release experiments with impaired strains.

The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage.

In Saccharomyces cerevisiae, YGR024c (Thg1p) protein is responsible for this guanylyltransferase reaction. It catalyses the guanylyltransferase step of G(-1) addition using a ppp-tRNA His substrate, and appears to catalyses the activation step using p-tRNA His and ATP. Thus, it catalyses phosphodiester bond formation at the 5' end of RNAs, formally in a 3'-5' direction.

Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase

Enzyme assay viewed by gel separation shows that YoqZ reduces the molecular weight of y-PGA over time (Fig 3A), providing evidence that YoqZ is a y-PGA hydrolase.

Enzyme assay viewed by gel separation shows that YndL reduces the molecular weight of y-PGA over time (Fig 3A), providing evidence that YndL is a y-PGA hydrolase.

Cell fractionation shows that cytosolic PGK1 translocates to the mitochondria in response to hypoxia (Figure S1B).