Metal Preferences of Zinc-Binding Motif on Metalloproteases

Table 1

The zinc coordination residues and the residues that fix the coordination with hydrogen bonds.

Zinc metalloprotease	Coordination residues	Residues that form the hydrogen bond with the coordination residues	PDB no.
(1) Thermolysin type	(HExxH- aan-E)	α-helix-aan-α-helix
Thermolysin	His^142, His^146 Glu^166	Asp^170-2.8 Å-His^142; Asn^165-2.8 Å-His^146	1KEI
Vibriolysin	His^345, His^349 Glu^369	Asp^373-2.8 Å-His^345; Asn^368-2.8 Å-His^349	3NQX
Staphylococcus aureus  metalloproteinase	His^144, His^148 Glu^168	Asn^167-2.8 Å-His^148; Asp^172-2.8 Å-His^144	1BQB
Zinc aminopeptidase	His^265, His^269 Glu^288	Phe^272(C=O)-2.9 Å-His^269	1Z1W
Leukotriene A4 hydrolase	His^295, His^299 Glu^318	Glu^325-2.8 Å-His^295; Gly^303(C=O)-2.6 Å-His^299	1SQM
Human thimet oligopeptidase	His^473, His^477 Glu^502	Glu^509-2.6 Å-His^473	1SQM
Human neutral endopeptidase  (Neprilysin)	His^583, His^587 Glu^646	Asp^650-2.9 Å-His^583; Asp^590-2.7 Å-His^587	1DMT
(2) Endopeptidase type		(HExxH-aan-E or D) α-helix-aan-random coil
Peptidyl-Lys metalloendopeptidase	His^117, His^121 Asp^130	Asp^154-2.7 Å-His^117; Thr^128(C=O)-2.8 Å-His^121	1GE6
(3) Carboxypeptidase A type		β-sheet-aan-random coil
Carboxypeptidase A	His^69, His^196 Glu^72	Asp^142-2.7 Å-His^69	1YME
Putative lysostaphin peptidase	His^232, His^311 Asp^236	Glu^315-2.6 Å-His^311; Gly^216(C=O)-2.8 Å-His^232	2GU1