Table 4. Details of oxidation-binding modes for 2- or 3-fluorinated galactose.
Galactose | ||||||||||||||||
Productive 2-oxidation binding mode a | Competing binding mode | |||||||||||||||
Variant | H167A | V546C | H450G | H450G/V546C | H167A | V546C | H450G | H450G/V546C | ||||||||
Ligand | 3FGal | 3FGal | 3FGal | 3FGal | 2FGal | 2FGal | 2FGal | 2FGal | ||||||||
Oxidation site | – | C2 | C2 | C2 | C1 | C1 | C3 | C3 | ||||||||
Stereoisomer | – | β | β | β | β | β | αb | αb | ||||||||
Loop conformer | closed | semi-open | semi-open | semi-open | semi-open | semi-open | semi-open | semi-open | ||||||||
Sugar-protein interactions c | – | – | O1 | V546 O | O1 | V546 O | O1 | V546 O | O1 | H548 Nε2 | O1 | H548 Nε2 | O1 | D452 Oδ2 | O1 | D452 Oδ2 |
– | – | – | – | O1 | H548 Nε2 | – | – | O1 | N593 Nδ2 | O1 | N593 Nδ2 | O1 | T169 Oγ1 | O1 | T169 Oγ1 | |
– | – | O2 | H548 Nε2 | O2 | H548 Nε2 | O2 | H548 Nε2 | F2 | Q448 Nε2 | F2 | Q448 Nε2 | F2 | Q448 Nε2 | F2 | Q448 Nε2 | |
– | – | O2 | N593 Nδ2 | O2 | N593 Nδ2 | O2 | N593 Nδ2 | F2 | N593 Nδ2 | F2 | N593 Nδ2 | – | – | F2 | N593 Nδ2 | |
– | – | F3 | Q448 Nε2 | F3 | Q448 Nε2 | F3 | Q448 Nε2 | O3 | D452 Oδ2 | O3 | D452 Oδ2 | O3 | H548 Nε2 | O3 | H548 Nε2 | |
– | – | – | – | F3 | N593 Nδ2 | – | – | – | – | O3 | Q448 Nε2 | O3 | N593 Nδ2 | O3 | N593 Nδ2 | |
– | – | O4 | D452 Oδ2 | O4 | D452 Oδ2 | O4 | D452 Oδ2 | O4 | D452 Oδ2 | O4 | D452 Oδ2 | O4 | V546 O | O4 | V546 O | |
– | – | O4 | T169 Oγ1 | O4 | T169 Oγ1 | O4 | T169 Oγ1 | O6 | L545 O | O6 | L545 O | – | – | – | – | |
– | – | O6 | Y456 Oη | O6 | Y456 Oη | O6 | Y456 Oη | O6 | Y456 Oη | O6 | Y456 Oη | O6 | Y456 Oη | O6 | Y456 Oη |
The following three criteria are considered consistent with a productive binding mode: (i) The sugar is oriented for oxidation at C2; (ii) the substrate-binding loop is in the semi-open conformation; (iii) the side chain Oγ1 group of Thr169 is pointing away from the flavin N(5)/O(4) locus.
The ability of P2O variants to stabilize either the α- or β-anomer is uncorrelated to space group and crystal contacts, and depends solely on the new structural context provided by the mutation.
Italicized interactions represent interactions with the catalytic residues.