Magnesium in PDB 1nyk: Crystal Structure of the Rieske Protein From Thermus Thermophilus

The structure of Crystal Structure of the Rieske Protein From Thermus Thermophilus, PDB code: 1nyk was solved by L.M.Hunsicker-Wang, A.Heine, Y.Chen, E.P.Luna, T.Todaro, Y.M.Zhang, P.A.Williams, D.E.Mcree, J.Hirst, C.D.Stout, J.A.Fee, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	24.00 / 1.31
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	58.569, 78.267, 136.794, 90.00, 90.00, 90.00
R / Rfree (%)	15.7 / 21.2

The structure of Crystal Structure of the Rieske Protein From Thermus Thermophilus also contains other interesting chemical elements:

Iron

(Fe)

4 atoms

The binding sites of Magnesium atom in the Crystal Structure of the Rieske Protein From Thermus Thermophilus (pdb code 1nyk). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Crystal Structure of the Rieske Protein From Thermus Thermophilus, PDB code: 1nyk:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Crystal Structure of the Rieske Protein From Thermus Thermophilus


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 the Rieske Protein From Thermus Thermophilus within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1 b:41.8 occ:1.00 O A:HOH1218 2.0 47.4 1.0 O A:HOH1182 2.0 30.0 1.0 O A:HOH1279 2.1 30.0 1.0 O A:HOH1278 2.1 40.8 0.5 O A:HOH1262 2.2 48.5 1.0 O A:HOH1266 2.4 28.5 1.0 O A:HOH1345 3.4 39.5 1.0 O A:HOH1090 4.0 26.5 1.0 O A:HOH1250 4.2 31.0 0.5 O A:HOH1137 4.5 27.9 1.0 O A:HOH1076 4.8 34.8 1.0 O A:HOH1297 4.9 39.9 1.0

Magnesium binding site 2 out of 3 in the Crystal Structure of the Rieske Protein From Thermus Thermophilus


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 the Rieske Protein From Thermus Thermophilus within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg2 b:38.5 occ:1.00 O A:HOH1280 1.8 52.6 1.0 O A:HOH1259 1.8 37.9 1.0 O A:HOH1227 2.1 52.2 1.0 NE2 A:HIS162 2.1 25.2 1.0 O A:HOH1116 2.2 32.8 1.0 O A:HOH1273 2.3 48.2 1.0 CD2 A:HIS162 3.1 25.7 1.0 CE1 A:HIS162 3.1 25.8 1.0 O A:HOH1281 3.9 57.6 1.0 O A:GLU112 4.2 23.8 1.0 ND1 A:HIS162 4.2 24.4 1.0 CG A:HIS162 4.2 21.5 1.0 O A:HOH1162 4.3 37.7 1.0

Magnesium binding site 3 out of 3 in the Crystal Structure of the Rieske Protein From Thermus Thermophilus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of the Rieske Protein From Thermus Thermophilus within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3 b:52.9 occ:1.00 O A:HOH1234 2.0 40.8 0.5 O A:HOH1282 2.1 44.2 1.0 O A:HOH1201 2.2 40.5 1.0 O A:HOH1230 2.2 33.7 1.0 O A:HOH1283 2.6 36.9 1.0 O A:HOH1220 3.0 33.0 1.0 O A:HOH1058 4.1 25.0 1.0 O A:HOH1286 4.1 36.1 0.5 O A:HOH1027 4.3 20.1 1.0 CG A:GLU74 4.5 16.2 1.0 CA A:GLU74 4.6 16.2 1.0 O A:HOH1096 4.8 25.0 1.0 O A:GLU73 4.9 23.3 1.0 CB A:GLU74 4.9 17.6 1.0

L.M.Hunsicker-Wang, A.Heine, Y.Chen, E.P.Luna, T.Todaro, Y.M.Zhang, P.A.Williams, D.E.Mcree, J.Hirst, C.D.Stout, J.A.Fee. High Resolution Structure of the Soluble, Respiratory-Type Rieske Protein From Thermus Thermophilus: Analysis and Comparison Biochemistry V. 42 7303 2003.
ISSN: ISSN 0006-2960
PubMed: 12809486
DOI: 10.1021/BI0342719