The PDXB is a small subfamily that includes a group of bacterial enzymes found in ɣ-proteobacteria and Bacteroidetes, including biochemically studied PdxB from E. coli (PDXB_ECOLI). PdxB oxidizes 4-phospho-ᴅ-erythronate to 2-keto-3-hydroxy-4-phosphobutanoate and uses various 2-keto acids as cosubstrates, utilizing NAD as a cofactor. The reaction is the second step in the biosynthesis of pyridoxal phosphate — active form of vitamin B6. Uniquely for 2HADHs, PDXB family proteins have two consecutive proline residues within the βB-αD loop, which are spatially conserved in all the crystal structures of PDXB proteins. Another unique feature of PDXB is presence of a C-terminal dimerization domain.
Accession | Protein name | Subfamily | Organism | Kingdom | Kinetically characterized substrates | Highest efficiency substrate | Structures |
---|---|---|---|---|---|---|---|
acb:A1S_2637 | erythronate-4-phosphate dehydrogenase | PDXB | Acinetobacter baumannii ATCC 17978 | Bacteria | - | - - | |
PDXB_BACTN | erythronate-4-phosphate dehydrogenase | PDXB | Bacteroides thetaiotaomicron | Bacteria | - | - - | |
PDXB_ECOLI | pdxB; erythronate-4-phosphate dehydrogenase (EC:1.1.1.-) | PDXB | Escherichia coli K-12 MG1655 | Bacteria | alpha-ketoglutarate, pyruvate, 4-phospho-D-erythronate, oxaloacetate | 4-phospho-D-erythronate PMID:20831184 | |
A6TC06_KLEP7 | pdxB; erythronate-4-phosphate dehydrogenase | PDXB | Klebsiella pneumoniae subsp. pneumoniae MGH 78578 | Bacteria | - | - - | |
PDXB_LEGPH | erythronate-4-phosphate dehydrogenase (EC:1.1.1.-) | PDXB | Legionella pneumophila subsp. pneumophila Philadelphia 1 | Bacteria | - | - - | |
D4GJ89_PANAM | pdxB; PdxB | PDXB | Pantoea ananatis LMG 20103 | Bacteria | - | - - | |
PDXB_PSEAE | pdxB; erythronate-4-phosphate dehydrogenase | PDXB | Pseudomonas aeruginosa PAO1 | Bacteria | - | - - | 2O4C (NAD, tartaric acid) PMID:17217963 |
PDXB_SALTY | pdxB; erythronate-4-phosphate dehydrogenase (EC:1.1.1.-) | PDXB | Salmonella enterica subsp. enterica serovar Typhi CT18 | Bacteria | - | - - | 3OET (NAD) |
PDXB_SODGM | erythronate-4-phosphate dehydrogenase | PDXB | Sodalis glossinidius (Glossina spp.) | Bacteria | - | - - | |
PDXB_VIBCH | erythronate-4-phosphate dehydrogenase | PDXB | Vibrio cholerae O1 biovar El Tor N16961 | Bacteria | - | - - | 5DT9 (NAD) |
A0A0B6NWJ3_YERPE | pdxB; D-isomer specific 2-hydroxyacid dehydrogenase | PDXB | Yersinia pestis CO92 (biovar Orientalis) | Bacteria | - | - - |