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CHEM2011 Transcription

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CHEM2011 Lecture 4 Transcription Study synthesis of mRNA carried out by? DNA-dependent RNA polymerase (RNAP) housekeeping genes must be expressed at all times because they code for proteins that are necessary for basic cellular functions promoters regions of DNA that signal RNAP to bind to unwind DNA and begin transcription mediator proteins interacts with protein at promoter site to bring RNAP closer to the enhancer sequence and form nucleoprotein assembly enhancers short sequences of DNA that increase the rate of transcription most highly regulated part of transcription? initiation initiation followed by elongation elongation followed by termination sigma factors determine promoter specificity of RNAP in prokaryotes, each sigma number (e.g. sigma70) controls specific type of gene process of RNA transcription initiating nucleotide triphosphate is bound to unwound DNA, RNAP catalyses first phosphodiester bond, then translocated to next position and continues adding NTPs until it switches to elongation mode until it encounters termination signal RNAP backtracking removes mis-incorporated or damaged NTPs by hydrolysing bonds trapped RNAP can get trapped in backtracking state by stable complex needs to be "bumped" out by MFD MFD searches along DNA for any trapped RNAPs and frees them operon group of genes operating together controlled by a single promoter - RNAP transcribes all genes in the operon two termination mechanisms in bacteria rho-independent (intrinsic), rho-dependent intrinsic termination mediated by stem-loop structures formed by DNA transcript which promotes RNAP release from DNA rho-dependent termination mediated by RNA-dependent translocase (rho termination factor), uses energy from ATP binding/hydrolysis to bind at 5' end of RNA then translocates quickly along RNA to catch up with RNAP and bump it off the DNA

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CHEM2011 Lecture 2 Antibiotics
Study
beta-lactams
4M-cyclic amide substituted next to nitrogen (beta position)
Penicillin G properties
-active against gram +ve and some gram -ve
-non-toxic even at high doses
-must be injected otherwise hydrolysed in acidic stomach
-ineffective against bacteria producing beta-lactamases
-might be allergic to it
cause of penicillin allergy
mode of action - it rapidly releases antigenic bacterial membrane proteins
essential elements in SAR
-alpha-subtd amide
-beta-lactam ring
-cis stereochemistry at alpha and beta
-fused 5/6MR at alpha and ring amide
-free acid on fused ring
penicillin acid instability due to
poor overlap of nitrogen lone pair with carbonyl - carbonyl more electrophilic, easy to
reduce/hydrolyse
degradation of penicillin G major route
intramolecular cyclisation, gives penillic acid
degradation of penicillin G minor route
direct water attack, gives penicilloic acid
first orally active penicillin and modification from G?
penicillin V, -CH2OPh group on alpha amide
mechanism of acid hydrolysis resistance
PhO group electronegativity reduces adjacent carbonyl nucleophilicity therefore more
stable to acidic conditions
bacteria electrolyte dependency
require high [K+] inside membrane, moderated by Na+/K+ pump to avoid osmotic
pressure inside membrane leading to cell rupture :(
bacterial cell wall structure (gram +ve)
-outer cell wall with peptidoglycan and teichoic acid
-cytoplasmic membrane containing lipoteichoic acid and transpeptidases
-cytoplasm on inside
bacterial cell wall structure (gram -ve)
-outer membrane with porins, lipopolysaccharides
-periplasmic space with lipoproteins and peptidoglycan layer
-cytoplasmic membrane with transpeptidases
-cytoplasm on inside
beta-lactamases on gram +ve?
outside of cell wall
beta-lactamases on gram -ve?
in periplasmic space

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