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Magnesium in PDB 5gtq: Luciferin-Regenerating Enzyme at Cryogenic Temperature

Protein crystallography data

The structure of Luciferin-Regenerating Enzyme at Cryogenic Temperature, PDB code: 5gtq was solved by K.Yamashita, T.Murai, M.Yamamoto, K.Gomi, N.Kajiyama, H.Kato, T.Nakatsu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 36.83 / 1.13
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 47.275, 76.696, 83.980, 90.00, 90.00, 90.00
R / Rfree (%) 11.9 / 13.9

Other elements in 5gtq:

The structure of Luciferin-Regenerating Enzyme at Cryogenic Temperature also contains other interesting chemical elements:

Mercury (Hg) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Luciferin-Regenerating Enzyme at Cryogenic Temperature (pdb code 5gtq). 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 Luciferin-Regenerating Enzyme at Cryogenic Temperature, PDB code: 5gtq:

Magnesium binding site 1 out of 1 in 5gtq

Go back to Magnesium Binding Sites List in 5gtq
Magnesium binding site 1 out of 1 in the Luciferin-Regenerating Enzyme at Cryogenic Temperature


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Luciferin-Regenerating Enzyme at Cryogenic Temperature within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg403

b:6.2
occ:1.00
OE1 A:GLU18 2.0 6.6 1.0
OD1 A:ASP212 2.0 6.7 1.0
O A:HOH566 2.0 6.7 1.0
OD1 A:ASN160 2.1 7.0 1.0
O A:HOH564 2.1 7.2 1.0
O A:HOH693 2.2 7.0 1.0
CD A:GLU18 3.0 5.7 1.0
CG A:ASN160 3.1 6.5 1.0
CG A:ASP212 3.2 6.3 1.0
OE2 A:GLU18 3.4 6.3 1.0
ND2 A:ASN160 3.5 7.1 1.0
OD2 A:ASP212 3.8 7.5 1.0
O A:HOH530 3.9 8.4 1.0
O4 A:MPD405 4.0 8.4 1.0
ND2 A:ASN110 4.0 7.3 1.0
O A:THR255 4.2 6.2 1.0
CG A:GLU18 4.2 6.6 1.0
N A:GLY213 4.2 6.2 1.0
OD2 A:ASP111 4.3 7.1 1.0
CB A:ASN160 4.4 6.9 1.0
O A:HOH660 4.4 21.0 1.0
CB A:ASP212 4.4 6.4 1.0
O A:HOH612 4.4 7.7 1.0
C A:ASP212 4.4 6.2 1.0
CB A:ASP111 4.5 6.2 1.0
CG A:ASP111 4.5 6.6 1.0
OD1 A:ASN110 4.6 8.2 1.0
CA A:ASP212 4.6 6.2 1.0
CG A:ASN110 4.7 7.0 1.0
CA A:GLY213 4.8 6.5 1.0
CA A:ASN160 4.8 6.2 1.0
O A:ASP212 5.0 6.5 1.0
O2 A:MPD405 5.0 10.5 1.0

Reference:

K.Yamashita, K.Yamashita, T.Murai, M.Yamamoto, K.Gomi, N.Kajiyama, H.Kato, T.Nakatsu. N/A N/A.
Page generated: Mon Dec 14 20:25:11 2020

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