Met repressor sandbox (Beasley): Difference between revisions
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The second major contact region is the N terminus of the B helix. The N terminus interacts strongly with the 5' phosphate of G10', and the N terminus of the other B helix interacts strongly with the 5' phosphate of G2. <ref name="Phillips"/> Hydrogen bonds form from the main-chain amides of <scene name='Met_repressor_(Beasley)/Asn_and_ser/1'>Asn 53 and Ser 54</scene> of the two B helixes, and the side chain hydroxyl groups of the respective phosphates. | The second major contact region is the N terminus of the B helix. The N terminus interacts strongly with the 5' phosphate of G10', and the N terminus of the other B helix interacts strongly with the 5' phosphate of G2. <ref name="Phillips"/> Hydrogen bonds form from the main-chain amides of <scene name='Met_repressor_(Beasley)/Asn_and_ser/1'>Asn 53 and Ser 54</scene> of the two B helixes, and the side chain hydroxyl groups of the respective phosphates. | ||
The third major region of direct interaction is the <scene name='Met_repressor_(Beasley)/Loops/2'>flexible loop, residues 12-20</scene>. <ref name="Phillips"/> The main-chain amides of Gly 15 and Lys 17 interact directly with the phosphate of T8'. The side chain hydroxyl of Ser 18 makes a water-mediated contact. The phosphate of T8' is directly across from the phosphate interacting with the B helix of the adjacent repressor. The other subunit of the repressor makes similar contacts to the phosphate of T0, but these are more extensive. | The third major region of direct interaction is the <scene name='Met_repressor_(Beasley)/Loops/2'>flexible loop, residues 12-20</scene>. <ref name="Phillips"/> The main-chain amides of Gly 15 and Lys 17 interact directly with the phosphate of T8' and T0. The side chain hydroxyl of Ser 18 makes a water-mediated contact. The phosphate of T8' is directly across from the phosphate interacting with the B helix of the adjacent repressor. The other subunit of the repressor makes similar contacts to the phosphate of T0, but these are more extensive. | ||
The total repressor-operator complex has 8 direct hydrogen bonds from the two dimers to base pairs and 38 hydrogen bonds to phosphates. <ref name="Phillips"/> | The total repressor-operator complex has 8 direct hydrogen bonds from the two dimers to base pairs and 38 hydrogen bonds to phosphates. <ref name="Phillips"/> | ||