Q.Differentiate between the sticky ends produced by EcoRI and the blunt ends produced by an enzyme like SmaI. Why are sticky ends generally preferred for constructing recombinant DNA?

Only 5' GAATTC 3' / 3' CTTAAG 5' -- the real EcoRI site -- is a true palindromic sequence, cut near its centre by a restriction enzyme.

Working

Most Type II restriction enzymes recognise short, palindromic sequences of double-stranded DNA -- sequences where the base sequence on one strand, read 5' to 3', is identical to the sequence on the complementary strand, also read 5' to 3'. Such symmetry lets the enzyme (which usually acts as a symmetrical dimer) bind and cut both strands near the axis of symmetry, close to the middle of the recognition site.

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Restriction endonuclease recognition sites are typically short palindromic sequences of 4 to 8 base pairs.

Restriction enzymes recognize specific, usually palindromic, DNA sequences and cleave the DNA at or near that site. Most commonly used restriction enzymes (like EcoRI, BamHI, HindIII) recognize sequences that are 4 to 8 nucleotides long, which is short enough to occu …

Restriction enzymes are both nucleases that cut DNA at specific sites AND an essential tool in genetic engineering, so both (b) and (c) are correct -- option (d).

Working

Restriction endonucleases (restriction enzymes) are bacterial enzymes that recognise specific, usually palindromic, short DNA sequences (recognition sites) and cleave the DNA backbone at or near those sites. This is exactly what option (c) states: "Nucleases that cleave DNA at specific sites" -- a correct description of their mechanism. Because they can cut DNA at precise, predictable locations, restriction enzymes are one of the foundational tools of recombinant DNA technology, used to cut both the DNA of interest and the vector so that they can be joined together -- making option (b), "Essential tool in genetic engineering," also correct. Option …

Exonuclease cuts DNA at the terminus, endonuclease cuts it in the middle, alkaline phosphatase adds/removes a phosphate group, and ligase joins DNA fragments -- matching to (c).

Working

These four enzymes are all classic tools of recombinant DNA technology, each with a distinct site and mode of action on a DNA molecule:

1. Exonuclease -- removes nucleotides progressively starting from the free end (terminus) of a DNA strand, either from the 5' or 3' end. So (1) matches (iii) "cut the DNA at terminus".
2. Endonuclease -- recognises a specific internal sequence and cleaves the DNA strand in the middle of the molecule, not at an end. Restriction endonucleases (e.g. EcoRI) are the best-known example. So (2) matches (iv) "cut the DNA at middle".
3. Alkaline phosphatase -- catalyses the removal (or, in reverse reactions, transfer) of a terminal 5'-phosphate group from DNA, commonly used to prevent unwanted self-ligation of a vector. So (3) matches (i) "add or remove phosphate". …

Nucleases are the class of enzymes that cut/degrade nucleic acids (DNA/RNA); restriction endonucleases are the sequence-specific nucleases used in genetic engineering.

Nucleases are enzymes that catalyse the cleavage (hydrolysis) of phosphodiester bonds in nucleic acid chains (DNA or RNA). They include exonucleases (which remove nucleotides from the ends of a strand) and endonucleases (which cut within the strand, often at specific recognition sequences, as in restriction enzymes used in genetic engineering). Ligase JOINS DNA fragments (the opposite function), proteases cleave proteins (not nucleic acids), and polymerases synthesise new nucleic-acid strands rather than cleave them.

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Restriction endonucleases cut DNA at specific sites; among the options only EcoRI is one — the answer is (d).

Let us classify each enzyme:

• (a) Taq polymerase — a DNA polymerase from Thermus aquaticus used in PCR (synthesises DNA); not a nuclease.
• (b) DNA polymerase — synthesises new DNA strands; not a restriction enzyme.
• (c) Ligase — joins DNA fragments (seals nicks); it is a joining enzyme, not a cutter. …

Restriction endonucleases are 'molecular scissors' that cut DNA at specific recognition sequences.

Restriction endonucleases are bacterial enzymes that recognize specific short palindromic nucleotide sequences on DNA and cleave the DNA strand at or near that specific site, often producing 'sticky ends'. They are essential tools in recombinant DNA technology for cutting out a gene of interest and opening up a vector at a matching site so the two can be joined. DNA polymerase synthesises new DNA strands, …

Restriction enzymes cut DNA at specific recognition sequences.

Restriction endonucleases are bacterial enzymes (part of their restriction-modification defence system against phage DNA) that recognise a specific, usually palindromic, short nucleotide sequence (e.g. EcoRI recognises GAATTC) and cleave the DNA backbone at or near that site, generating either sticky or blunt ends. This sequence-specific cutting is what makes restriction enzymes indispensable tools for constructing recombinant DNA. The …