Magnesium in PDB 429d: Crystal Structure of A Leadzyme; Metal Binding and Implications For Catalysis

The structure of Crystal Structure of A Leadzyme; Metal Binding and Implications For Catalysis, PDB code: 429d was solved by J. E.Wedekind, D. B.Mckay, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	25.00 / 2.70
Space group	P 61 2 2
Cell size a, b, c (Å), α, β, γ (°)	60.400, 60.400, 133.100, 90.00, 90.00, 120.00
R / Rfree (%)	25.5 / 27.5

The binding sites of Magnesium atom in the Crystal Structure of A Leadzyme; Metal Binding and Implications For Catalysis (pdb code 429d). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of A Leadzyme; Metal Binding and Implications For Catalysis, PDB code: 429d:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of A Leadzyme; Metal Binding and Implications For Catalysis


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of A Leadzyme; Metal Binding and Implications For Catalysis within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg150 b:18.1 occ:1.00 O6 B:G43 3.9 16.6 1.0 O6 B:G42 4.1 15.6 1.0 OP1 A:A25 4.2 22.4 1.0 OP2 A:G26 4.2 22.6 1.0 O4 B:U41 4.5 19.9 1.0 N7 B:G42 4.6 14.2 1.0 N4 A:C27 4.6 19.6 1.0 C5' A:A25 4.7 18.1 1.0 O5' A:A25 4.8 18.9 1.0 C6 B:G43 4.9 15.2 1.0 OP1 A:G26 5.0 21.5 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of A Leadzyme; Metal Binding and Implications For Catalysis


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of A Leadzyme; Metal Binding and Implications For Catalysis within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg151 b:25.2 occ:1.00 O6 A:G19 3.8 21.8 1.0 N7 A:G19 3.8 21.9 1.0 O6 A:G20 4.3 24.2 1.0 O4 B:U47 4.4 29.9 1.0 C6 A:G19 4.4 21.2 1.0 C5 A:G19 4.5 20.8 1.0 N4 A:C18 4.5 13.9 1.0 C4 A:C18 4.8 14.2 1.0 C5 A:C18 4.8 13.6 1.0 N4 B:C48 4.9 16.2 1.0 C8 A:G19 4.9 21.5 1.0

J.E.Wedekind, D.B.Mckay. Crystal Structure of A Lead-Dependent Ribozyme Revealing Metal Binding Sites Relevant to Catalysis. Nat.Struct.Biol. V. 6 261 1999.
ISSN: ISSN 1072-8368
PubMed: 10074945
DOI: 10.1038/6700