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Magnesium in PDB 2r25: Complex of YPD1 and SLN1-R1 with Bound MG2+ and BEF3-

Enzymatic activity of Complex of YPD1 and SLN1-R1 with Bound MG2+ and BEF3-

All present enzymatic activity of Complex of YPD1 and SLN1-R1 with Bound MG2+ and BEF3-:
2.7.13.3;

Protein crystallography data

The structure of Complex of YPD1 and SLN1-R1 with Bound MG2+ and BEF3-, PDB code: 2r25 was solved by D.M.Copeland, X.Zhao, A.S.Soares, A.H.West, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 17.75 / 1.70
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 52.013, 75.544, 98.392, 90.00, 90.00, 90.00
R / Rfree (%) 19.6 / 24

Other elements in 2r25:

The structure of Complex of YPD1 and SLN1-R1 with Bound MG2+ and BEF3- also contains other interesting chemical elements:

Fluorine (F) 3 atoms
Sodium (Na) 1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Complex of YPD1 and SLN1-R1 with Bound MG2+ and BEF3- (pdb code 2r25). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Complex of YPD1 and SLN1-R1 with Bound MG2+ and BEF3-, PDB code: 2r25:

Magnesium binding site 1 out of 1 in 2r25

Go back to Magnesium Binding Sites List in 2r25
Magnesium binding site 1 out of 1 in the Complex of YPD1 and SLN1-R1 with Bound MG2+ and BEF3-


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Complex of YPD1 and SLN1-R1 with Bound MG2+ and BEF3- within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg1

b:25.9
occ:1.00
F1 B:BEF2 2.0 26.6 1.0
O B:HOH159 2.0 26.8 1.0
OD2 B:ASP1095 2.1 28.0 1.0
OD2 B:ASP1144 2.1 28.9 1.0
O B:HOH160 2.1 27.9 1.0
O B:GLN1146 2.1 25.0 1.0
CG B:ASP1144 3.1 33.2 1.0
CG B:ASP1095 3.1 30.1 1.0
BE B:BEF2 3.2 28.5 1.0
C B:GLN1146 3.3 26.9 1.0
OD1 B:ASP1144 3.4 33.6 1.0
OD1 B:ASP1095 3.4 30.7 1.0
OE1 B:GLU1094 4.0 26.7 1.0
F3 B:BEF2 4.0 26.0 1.0
CG B:MET1147 4.1 28.0 1.0
CA B:GLN1146 4.1 26.5 1.0
O A:HOH184 4.2 29.0 1.0
CB B:GLN1146 4.3 29.0 1.0
N B:GLN1146 4.3 26.9 1.0
F2 B:BEF2 4.3 25.3 1.0
N B:MET1147 4.3 27.3 1.0
CB B:ASP1095 4.4 26.6 1.0
CB B:ASP1144 4.4 30.8 1.0
O B:HOH164 4.5 27.5 1.0
CA B:MET1147 4.5 29.6 1.0
N B:ASP1095 4.5 26.0 1.0
CD2 A:HIS64 4.6 23.0 1.0
CD B:GLU1094 4.8 25.0 1.0
CB B:MET1147 4.8 31.4 1.0
O B:HOH189 4.9 48.9 1.0
NZ B:LYS1195 4.9 23.7 1.0
CA B:ASP1095 4.9 24.7 1.0
O B:HOH186 4.9 39.7 1.0

Reference:

X.Zhao, D.M.Copeland, A.S.Soares, A.H.West. Crystal Structure of A Complex Between the Phosphorelay Protein YPD1 and the Response Regulator Domain of SLN1 Bound to A Phosphoryl Analog J.Mol.Biol. V. 375 1141 2008.
ISSN: ISSN 0022-2836
PubMed: 18076904
DOI: 10.1016/J.JMB.2007.11.045
Page generated: Mon Dec 14 07:37:53 2020

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