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. Author manuscript; available in PMC: 2013 May 1.
Published in final edited form as: Biochim Biophys Acta. 2012 Apr 28;1824(11):1178–1195. doi: 10.1016/j.bbapap.2012.04.006

Table 1.

Structurally characterized AdoMet radical enzymes considered in this review

Enzyme Name Role Main Structural Features PDB Organism Ligands
Pyruvate Formate Lyase Activase (PFL-AE) Glycyl radical formation in PFL partial (β/α)6 TIM barrel
[4Fe-4S] cluster		 3C8F, 3CB8 [25]
3CAN (To be published)a 		Escherichia coli Bacteroides vulgatus ATCC 8482 AdoMet, peptide substrate
Lysine 2,3- aminomutase (2,3-LAM) β-lysyl antibiotic biosynthesis partial (β/α)6 TIM barrel
[4Fe-4S] cluster		 2A5H [36] Clostridium subterminale AdoSeMet, PLP, lysine
RimO S-methylthiolation of ribosomal-protein aspartate partial (β/α)6 TIM barrel
2 x [4Fe-4S] clusters* 		2QGQ [28] Thermotoga maritima
MiaB S-methylthiolation of tRNA nucleoside partial (β/α)6 TIM barrel
2 x [4Fe-4S] clusters		 Homology model [28] Thermotoga maritima
RlmN Radical-mediated methylation of ribosomal RNA partial (β/α)6 TIM barrel
[4Fe-4S] cluster		 3RF9, 3RFA [90] Escherichia coli AdoMet
TYW1 Wye-base biosynthesis partial (β/α)6 TIM barrel
2 x [4Fe-4S] cluster* 		2YX0 [37]
2Z2U [38]		 Pyrococcus horikoshii Methanocaldococcus jannaschii
MoaA Molybdenum cofactor biosynthesis partial (β/α)6 TIM barrel
2 x [4Fe-4S] clusters		 1TV7, 1TV8 [35]
2FB2,
2FB3 [13]		 Staphylococcus aureus AdoMet, 5′-GTP, Met, dAdoH
FeFe-hydrogenase maturase (HydE) Cofactor biosynthesis distorted (β/α)8 TIM barrel
[4Fe-4S] cluster
[2Fe-2S] cluster		 3CIW, 3CIX [14]
3IIX, 3IIZ[24]		 Thermotoga maritima AdoMet, AdoHCys, Met, dAdoH, thiocyanate
Coproporphyrinogen III oxidase (HemN) Heme biosynthesis partial (β/α)6TIM barrel
[4Fe-4S] cluster		 1OLT[93] Escherichia coli AdoMet
Biotin Synthase (BioB) Biotin synthesis full (β/α)8 TIM barrel
[4Fe-4S] cluster
[2Fe-2S] cluster		 1R30 [26] Escherichia coli AdoMet, DTB
ThiC Thiamine biosynthesis full (β/α)8 TIM barrel
[4Fe-4S] cluster* 		3EPM, 3EPN, 3EPO
[22]		 Caulobacter crescentus Imidazole ribonucleotide, HMP-P
*

Predicted from sequence alignments or spectroscopy

a

Structure of a deletion construct of PFL-AE, in which the N-terminal segment containing the cluster binding loop is removed.

Abbreviations:

dAdoH, 5′-deoxyadenosine

AdoHCys, adenosyl-L-homocysteine

AdoMet, adenosyl-L-methionine

AdoSeMet, Se-adenosyl-L-selenomethionine

DTB, dethiobiotin

HMP-P, 4-amino-5-hydroxymethyl-2-methylpyrimidine phosphate

PLP, pyridoxal phosphate