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#E. coli

28 public questions tagged with this topic.

In secondary active transport, lactose permease in E. coli utilizes:

Secondary active lactose permease LacY does not itself hydrolyze ATP nor perform direct phosphorylation of sugar substrate like phosphotransferase systems that import glucose as glucose-6-phosphate. Instead energy source is electrochemical proton gradient across E. coli inner membrane established by respiratory chain proton pumping. Lactose entry is strictly coupled to downhill H+ flow: one proton symported per lactose disaccharide. Experimental evidence shows that abolishing proton motive force with uncouplers carbonyl cyanide m-chlorophenyl hydrazone, nigericin, or by inhibiting respiration eliminates lactose accumulation even when ATP remains available, whereas glycolysis inhibitors that deplete ATP but preserve respiration spare transport. Sodium gradient is irrelevant for LacY though analogous bacterial MelB uses both ions. Therefore in textbook classification, lactose permease illustrates proton gradient-driven secondary active co-transport distinct from primary ABC importers requiring ATP binding proteins and sodium-dependent mammalian SGLT transporters driven by Na+ gradient. Such detailed mechanistic insight is frequently examined in competitive tests including NEET, CUET, CSIR-NET and GATE where transporter classification, energetics and disease linkage are integrated into problem-solving questions.

Ref: Kaback et al., J Gen Physiol 2008, Proton coupling LacY; Poolman et al., Mol Microbiol 2004.

The mechanism of proton-coupled lactose transport in E. coli is an example of:

In Escherichia coli, lactose accumulation during lactose operon induction exemplifies secondary active transport powered by proton motive force, not direct ATP hydrolysis or simple diffusion. LacY permease co-transports one H+ and one lactose molecule; downhill H+ movement through transporter allows uphill lactose concentration. Gradient is sustained by primary H+ extrusion by respiratory chain complexes pumping protons outward, generating proton electrochemical gradient consisting of pH and membrane potential. When respiration is active, periplasmic proton binds outward-open LacY, increases affinity for lactose, transition to inward-open releases both in cytoplasm where subsequent beta-galactosidase action maintains low free lactose. Depletion of proton motive force by uncouplers such as CCCP abolishes accumulation without affecting respiratory enzymes. This chemiosmotic logic, conceptualized by Mitchell, conserved in human SGLT and PepT systems replacing H+ with Na+, demonstrates how bacterial nutrient uptake can be classified as secondary active proton symport rather than ABC transporter or passive diffusion mechanism. Such detailed mechanistic insight is frequently examined in competitive tests including NEET, CUET, CSIR-NET and GATE where transporter classification, energetics and disease linkage are integrated into problem-solving questions.

Ref: Kaback, Biochim Biophys Acta 2015, LacY proton coupling; Alberts, Chapter 11 secondary transport.

Primary rRNA transcript in E. coli is processed by

In Escherichia coli, seven rrn operons produce about 30S primary precursor containing leader, 16S, spacer tRNAs, 23S, 5S and trailer. Maturation initiates with RNase III, a Mg2+-dependent double-strand specific endoribonuclease that cleaves long inverted repeat stems flanking 16S and 23S, co-transcriptionally. Cleavage liberates pre-16S 17S, pre-23S and 9S 5S precursors carrying extra nucleotides at both ends. Subsequent processing by RNase E, RNase G, RNase PH, RNase T, PNPase removes leaders and trailers, generating mature termini essential for subunit assembly and translation activity.

Ref: Alberts et al., Molecular Biology of the Cell, 7th ed., Chapter 6, Processing of bacterial 30S pre-rRNA by RNase III

Average rate of transcription elongation in E. coli is about

Quantitative in vitro transcription and live-cell imaging using fluorescent reporter systems measure bacterial RNA polymerase elongation speed. Under physiological ionic strength, temperature 37°C, and saturating rNTP concentrations, average velocity approximately 40 nucleotides per second, though variable due to ubiquitous pausing induced by DNA sequences, regulatory proteins NusA, and nascent RNA secondary structures. This rate accommodates coupling with translation elongation ~15 amino acids per second maintaining ribosome behind polymerase. Compared to DNA polymerase 800 nt/s, slower speed allows proofreading and regulation. Value widely accepted in molecular microbiology textbooks describing E. coli transcription kinetics.

Ref: Watson Chapter 13: Average transcription elongation rate E coli 40 nt/s; Alberts Chapter 6: Transcription kinetics measurements; Berg Chapter 28

Which sigma factor is involved in heat shock response in E. coli?

Thermal stress induces accumulation unfolded proteins triggering activation alternate sigma factor σ32 encoded by rpoH gene, also known as heat shock sigma. Under normal growth, DnaK chaperone sequesters σ32 targeting FtsH proteolysis maintaining low levels. Upon heat shock, misfolded proteins titrate chaperones freeing σ32 to associate with core polymerase redirecting holoenzyme to promoters of heat shock regulon including groEL, dnaK, clpB chaperones and proteases. Promoters possess distinct consensus recognized preferentially by σ32. Therefore σ32 specifically orchestrates heat shock response, contrasting housekeeping σ70, σ54 nitrogen response, σ28 flagellar synthesis.

Ref: Alberts Molecular Biology Cell Chapter 7: Sigma32 heat shock response E coli RpoH regulation; Watson Chapter 14 Alternative sigma factors stress

The -10 promoter element in E. coli is also called

Bacterial promoters contain 6-base AT-rich element centered near -10 relative to transcription start site, originally described by Pribnow examining phage T7 and E. coli promoters. Sequence TATAAT facilitates duplex melting due to low stability and is specifically recognized by sigma70 region 2 for open complex formation. Eukaryotic TATA box termed Hogness box located -30 recognized by TBP, distinct in position and factor. -35 element consensus TTGACA, UP element AT-rich upstream, none termed Pribnow. Therefore -10 promoter element specifically designated Pribnow box in prokaryotic literature referencing initiator melting element.

Ref: Berg Biochemistry Section 28.2: -10 element Pribnow box nomenclature; Pribnow 1975 PNAS TATAAT sequence; Watson Chapter 13 Promoter elements naming

Core RNA polymerase of E. coli consists of

Escherichia coli core RNA polymerase comprises five polypeptides assembled as α2ββ'ω. Two α subunits of 36.5 kDa each provide assembly scaffold and contact UP element through C-terminal domain linker. β subunit 150.6 kDa binds rifampicin and forms part of catalytic channel. β' subunit 155.2 kDa contains conserved double-psi barrel motif NADFDGD coordinating catalytic magnesium. ω subunit 10.1 kDa chaperones β' folding and stabilizes assembly. Core alone competent for elongation but lacks promoter recognition. Association with sigma factor forms holoenzyme α2ββ'ωσ capable of specific initiation. Stoichiometry distinguishes core from holoenzyme containing sigma.

Ref: Berg Biochemistry Chapter 28: Core RNA polymerase subunit composition α2ββ'ω structure; Watson Chapter 13 Core assembly details