Atomistry » Magnesium » PDB 7c7a-7cje » 7cj5
Atomistry »
  Magnesium »
    PDB 7c7a-7cje »
      7cj5 »

Magnesium in PDB 7cj5: Crystal Structure of Homo Dimeric D-Allulose 3-Epimerase From Methylomonas Sp. in Complex with D-Fructose

Protein crystallography data

The structure of Crystal Structure of Homo Dimeric D-Allulose 3-Epimerase From Methylomonas Sp. in Complex with D-Fructose, PDB code: 7cj5 was solved by H.Yoshida, A.Yoshihara, S.Kamitori, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.94 / 1.80
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 45.42, 70.54, 140.22, 90, 90, 90
R / Rfree (%) 12.6 / 15.9

Other elements in 7cj5:

The structure of Crystal Structure of Homo Dimeric D-Allulose 3-Epimerase From Methylomonas Sp. in Complex with D-Fructose also contains other interesting chemical elements:

Manganese (Mn) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Homo Dimeric D-Allulose 3-Epimerase From Methylomonas Sp. in Complex with D-Fructose (pdb code 7cj5). 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 Homo Dimeric D-Allulose 3-Epimerase From Methylomonas Sp. in Complex with D-Fructose, PDB code: 7cj5:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 7cj5

Go back to Magnesium Binding Sites List in 7cj5
Magnesium binding site 1 out of 2 in the Crystal Structure of Homo Dimeric D-Allulose 3-Epimerase From Methylomonas Sp. in Complex with D-Fructose


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 Homo Dimeric D-Allulose 3-Epimerase From Methylomonas Sp. in Complex with D-Fructose within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg303

b:37.2
occ:1.00
O A:HOH459 2.0 28.7 1.0
O A:HOH549 2.1 38.0 1.0
O A:HOH402 2.2 38.0 1.0
OD1 A:ASP273 2.4 17.5 0.5
CG A:ASP273 3.2 17.3 0.5
OD2 A:ASP273 3.4 17.1 0.5
OD2 A:ASP270 3.9 27.3 1.0
CB A:ASP273 4.5 20.3 0.5
CB A:ASP273 4.6 17.2 0.5
CG A:ASP270 4.6 25.9 1.0
OD1 A:ASP273 4.8 25.8 0.5
N A:ASP273 4.8 17.0 1.0
CA A:ASP273 4.9 18.2 0.5
CA A:ASP273 4.9 17.2 0.5

Magnesium binding site 2 out of 2 in 7cj5

Go back to Magnesium Binding Sites List in 7cj5
Magnesium binding site 2 out of 2 in the Crystal Structure of Homo Dimeric D-Allulose 3-Epimerase From Methylomonas Sp. in Complex with D-Fructose


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 Homo Dimeric D-Allulose 3-Epimerase From Methylomonas Sp. in Complex with D-Fructose within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg303

b:29.9
occ:1.00
O B:ASN224 2.1 18.7 1.0
O A:HOH536 2.2 31.9 1.0
O B:HOH495 2.2 30.2 1.0
O A:HOH437 2.4 17.8 1.0
O A:HOH410 2.5 35.5 1.0
C B:ASN224 3.3 18.0 1.0
O A:ASN224 3.7 17.5 1.0
CA B:ASN224 3.9 17.3 1.0
N B:ASP226 4.0 19.2 1.0
CB B:ASN224 4.1 16.8 1.0
O B:HOH429 4.2 17.6 1.0
C B:VAL225 4.3 18.8 1.0
N B:VAL225 4.3 16.7 1.0
O A:HOH430 4.4 17.2 1.0
CB B:ASP226 4.4 21.8 1.0
CA B:VAL225 4.6 17.9 1.0
OD1 B:ASN190 4.6 16.1 1.0
CA B:ASP226 4.7 21.5 1.0
C A:ASN224 4.9 15.6 1.0
O B:VAL225 4.9 19.3 1.0
CB A:ASP226 4.9 17.7 1.0

Reference:

H.Yoshida, A.Yoshihara, S.Kato, S.Mochizuki, K.Akimitsu, K.Izumori, S.Kamitori. Crystal Structure of A Novel Homodimeric L-Ribulose 3-Epimerase From Methylomonus Sp. Febs Open Bio 2021.
ISSN: ESSN 2211-5463
PubMed: 33838083
DOI: 10.1002/2211-5463.13159
Page generated: Wed Oct 2 14:04:32 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy