ExplorEnz: EC 4.3.3.6

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4.3.3.6

Accepted name:

pyridoxal 5′-phosphate synthase (glutamine hydrolysing)

Reaction:

D-ribose 5-phosphate + D-glyceraldehyde 3-phosphate + L-glutamine = pyridoxal 5′-phosphate + L-glutamate + 3 H₂O + phosphate (overall reaction)
(1a) L-glutamine + H₂O = L-glutamate + NH₃
(1b) D-ribose 5-phosphate + D-glyceraldehyde 3-phosphate + NH₃ = pyridoxal 5′-phosphate + 4 H₂O + phosphate

Other name(s):

PdxST

Systematic name:

D-ribose 5-phosphate,D-glyceraldehyde 3-phosphate pyridoxal 5′-phosphate-lyase

Comments:

The ammonia is provided by the glutaminase subunit and channeled to the active site of the lyase subunit by a 100 Å tunnel. The enzyme can also use ribulose 5-phosphate and dihydroxyacetone phosphate. The enzyme complex is found in aerobic bacteria, archaea, fungi and plants.

Links to other databases:

BRENDA, EXPASY, KEGG, MetaCyc, PDB

References:

1.	Burns, K.E., Xiang, Y., Kinsland, C.L., McLafferty, F.W. and Begley, T.P. Reconstitution and biochemical characterization of a new pyridoxal-5′-phosphate biosynthetic pathway. J. Am. Chem. Soc. 127 (2005) 3682–3683. [DOI] [PMID: 15771487]
2.	Raschle, T., Amrhein, N. and Fitzpatrick, T.B. On the two components of pyridoxal 5′-phosphate synthase from Bacillus subtilis. J. Biol. Chem. 280 (2005) 32291–32300. [DOI] [PMID: 16030023]
3.	Strohmeier, M., Raschle, T., Mazurkiewicz, J., Rippe, K., Sinning, I., Fitzpatrick, T.B. and Tews, I. Structure of a bacterial pyridoxal 5′-phosphate synthase complex. Proc. Natl. Acad. Sci. USA 103 (2006) 19284–19289. [DOI] [PMID: 17159152]
4.	Raschle, T., Arigoni, D., Brunisholz, R., Rechsteiner, H., Amrhein, N. and Fitzpatrick, T.B. Reaction mechanism of pyridoxal 5′-phosphate synthase. Detection of an enzyme-bound chromophoric intermediate. J. Biol. Chem. 282 (2007) 6098–6105. [DOI] [PMID: 17189272]
5.	Hanes, J.W., Keresztes, I. and Begley, T.P. Trapping of a chromophoric intermediate in the Pdx1-catalyzed biosynthesis of pyridoxal 5′-phosphate. Angew. Chem. Int. Ed. Engl. 47 (2008) 2102–2105. [DOI] [PMID: 18260082]
6.	Hanes, J.W., Burns, K.E., Hilmey, D.G., Chatterjee, A., Dorrestein, P.C. and Begley, T.P. Mechanistic studies on pyridoxal phosphate synthase: the reaction pathway leading to a chromophoric intermediate. J. Am. Chem. Soc. 130 (2008) 3043–3052. [DOI] [PMID: 18271580]
7.	Hanes, J.W., Keresztes, I. and Begley, T.P. ¹³C NMR snapshots of the complex reaction coordinate of pyridoxal phosphate synthase. Nat. Chem. Biol. 4 (2008) 425–430. [DOI] [PMID: 18516049]
8.	Wallner, S., Neuwirth, M., Flicker, K., Tews, I. and Macheroux, P. Dissection of contributions from invariant amino acids to complex formation and catalysis in the heteromeric pyridoxal 5-phosphate synthase complex from Bacillus subtilis. Biochemistry 48 (2009) 1928–1935. [DOI] [PMID: 19152323]

[EC 4.3.3.6 created 2011]