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Magnesium in PDB 1ebh: Octahedral Coordination at the High Affinity Metal Site in Enolase; Crystallographic Analysis of the Mg++-Enzyme From Yeast at 1.9 Angstroms Resolution

Enzymatic activity of Octahedral Coordination at the High Affinity Metal Site in Enolase; Crystallographic Analysis of the Mg++-Enzyme From Yeast at 1.9 Angstroms Resolution

All present enzymatic activity of Octahedral Coordination at the High Affinity Metal Site in Enolase; Crystallographic Analysis of the Mg++-Enzyme From Yeast at 1.9 Angstroms Resolution:
4.2.1.11;

Protein crystallography data

The structure of Octahedral Coordination at the High Affinity Metal Site in Enolase; Crystallographic Analysis of the Mg++-Enzyme From Yeast at 1.9 Angstroms Resolution, PDB code: 1ebh was solved by J.E.Wedekind, G.H.Reed, I.Rayment, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 1.90
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 72.500, 73.200, 89.100, 90.00, 104.40, 90.00
R / Rfree (%) n/a / n/a

Other elements in 1ebh:

The structure of Octahedral Coordination at the High Affinity Metal Site in Enolase; Crystallographic Analysis of the Mg++-Enzyme From Yeast at 1.9 Angstroms Resolution also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Octahedral Coordination at the High Affinity Metal Site in Enolase; Crystallographic Analysis of the Mg++-Enzyme From Yeast at 1.9 Angstroms Resolution (pdb code 1ebh). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Octahedral Coordination at the High Affinity Metal Site in Enolase; Crystallographic Analysis of the Mg++-Enzyme From Yeast at 1.9 Angstroms Resolution, PDB code: 1ebh:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 1ebh

Go back to Magnesium Binding Sites List in 1ebh
Magnesium binding site 1 out of 2 in the Octahedral Coordination at the High Affinity Metal Site in Enolase; Crystallographic Analysis of the Mg++-Enzyme From Yeast at 1.9 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Octahedral Coordination at the High Affinity Metal Site in Enolase; Crystallographic Analysis of the Mg++-Enzyme From Yeast at 1.9 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg438

b:13.5
occ:1.00
 O A:HOH439 1.9 14.2 1.0
OE2 A:GLU295 2.1 16.7 1.0
OD2 A:ASP246 2.1 14.3 1.0
OD2 A:ASP320 2.1 13.1 1.0
O A:HOH441 2.2 26.1 1.0
O A:HOH440 2.4 18.0 1.0
CG A:ASP246 3.0 15.1 1.0
CD A:GLU295 3.1 15.7 1.0
CG A:ASP320 3.1 10.7 1.0
OD1 A:ASP246 3.3 13.7 1.0
CB A:ASP320 3.6 7.6 1.0
CG A:GLU295 3.8 18.5 1.0
OD2 A:ASP296 4.0 20.0 1.0
OE1 A:GLU295 4.0 16.9 1.0
O A:HOH479 4.1 28.5 1.0
NZ A:LYS396 4.1 12.6 1.0
OE2 A:GLU168 4.3 13.5 1.0
CB A:ASP246 4.3 16.3 1.0
OD1 A:ASP320 4.3 13.4 1.0
O A:HOH534 4.4 39.9 1.0
NE2 A:GLN167 4.5 19.3 1.0
O A:HOH464 4.5 53.6 1.0
CD2 A:LEU343 4.6 14.7 1.0
O A:HOH487 4.7 21.7 1.0
CG A:ASP296 4.9 25.0 1.0
CD A:GLU168 4.9 18.5 1.0
NZ A:LYS345 5.0 10.9 1.0

Magnesium binding site 2 out of 2 in 1ebh

Go back to Magnesium Binding Sites List in 1ebh
Magnesium binding site 2 out of 2 in the Octahedral Coordination at the High Affinity Metal Site in Enolase; Crystallographic Analysis of the Mg++-Enzyme From Yeast at 1.9 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Octahedral Coordination at the High Affinity Metal Site in Enolase; Crystallographic Analysis of the Mg++-Enzyme From Yeast at 1.9 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg438

b:13.0
occ:1.00
 O B:HOH439 2.0 16.8 1.0
OD2 B:ASP320 2.0 10.6 1.0
OE2 B:GLU295 2.0 11.9 1.0
O B:HOH440 2.1 20.4 1.0
OD2 B:ASP246 2.2 14.9 1.0
O B:HOH441 2.3 23.6 1.0
CG B:ASP320 3.1 11.9 1.0
CG B:ASP246 3.1 23.9 1.0
CD B:GLU295 3.2 15.7 1.0
CB B:ASP320 3.5 13.2 1.0
OD1 B:ASP246 3.5 14.8 1.0
O B:HOH640 3.9 33.1 1.0
CG B:GLU295 3.9 14.3 1.0
OE1 B:GLU295 4.0 12.2 1.0
NZ B:LYS396 4.1 9.5 1.0
O B:HOH479 4.1 42.1 1.0
OD1 B:ASP320 4.2 9.5 1.0
OD2 B:ASP296 4.2 15.4 1.0
OE2 B:GLU168 4.3 14.9 1.0
CB B:ASP246 4.3 13.9 1.0
NE2 B:GLN167 4.4 22.3 1.0
CD2 B:LEU343 4.6 18.6 1.0
O B:HOH442 4.6 28.5 1.0
CD B:GLU168 4.8 12.2 1.0
NZ B:LYS345 4.9 11.9 1.0
OE1 B:GLU168 4.9 14.7 1.0
CG B:ASP296 5.0 13.1 1.0

Reference:

J.E.Wedekind, G.H.Reed, I.Rayment. Octahedral Coordination at the High-Affinity Metal Site in Enolase: Crystallographic Analysis of the Mgii--Enzyme Complex From Yeast at 1.9 A Resolution. Biochemistry V. 34 4325 1995.
ISSN: ISSN 0006-2960
PubMed: 7703246
DOI: 10.1021/BI00013A022
Page generated: Mon Dec 14 05:51:45 2020

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