Magnesium in PDB 6e60: Bacteroides Ovatus Mixed-Linkage Glucan Utilization Locus (Mlgul) Sgbp-A

Protein crystallography data

The structure of Bacteroides Ovatus Mixed-Linkage Glucan Utilization Locus (Mlgul) Sgbp-A, PDB code: 6e60 was solved by K.Tamura, B.R.Gardill, H.Brumer, F.Van Petegem, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 37.25 / 1.50
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 47.279, 89.367, 120.941, 90.00, 90.00, 90.00
R / Rfree (%) 15.8 / 18.4

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Bacteroides Ovatus Mixed-Linkage Glucan Utilization Locus (Mlgul) Sgbp-A (pdb code 6e60). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Bacteroides Ovatus Mixed-Linkage Glucan Utilization Locus (Mlgul) Sgbp-A, PDB code: 6e60:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 6e60

Go back to Magnesium Binding Sites List in 6e60
Magnesium binding site 1 out of 2 in the Bacteroides Ovatus Mixed-Linkage Glucan Utilization Locus (Mlgul) Sgbp-A


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Bacteroides Ovatus Mixed-Linkage Glucan Utilization Locus (Mlgul) Sgbp-A within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg605

b:11.5
occ:1.00
OD1 A:ASP555 2.0 12.2 1.0
O A:ARG492 2.0 10.7 1.0
O A:HOH940 2.0 12.6 1.0
O A:HOH776 2.1 12.2 1.0
O A:HOH1023 2.1 12.1 1.0
O A:GLU557 2.1 18.3 1.0
CG A:ASP555 3.0 11.4 1.0
C A:ARG492 3.2 10.1 1.0
C A:GLU557 3.4 25.3 1.0
OD2 A:ASP555 3.4 11.5 1.0
CA A:ARG492 3.9 9.3 1.0
N A:GLU557 4.1 20.1 1.0
O A:HOH892 4.1 15.8 1.0
N A:ARG493 4.2 9.7 1.0
O A:HOH804 4.2 35.6 1.0
N A:ASN558 4.3 23.4 1.0
CA A:GLU557 4.3 26.4 1.0
CB A:ASP555 4.3 11.5 1.0
CA A:ASN558 4.4 30.4 1.0
O A:HOH767 4.4 25.0 1.0
CB A:ARG492 4.4 9.5 1.0
O A:ARG493 4.4 11.8 1.0
CA A:ARG493 4.5 9.2 1.0
O A:HOH1103 4.6 18.8 1.0
C A:ARG493 4.6 11.4 1.0
CA A:ASP555 4.6 11.3 1.0
C A:ASN558 4.6 32.0 1.0
C A:ASP555 4.6 13.2 1.0
N A:THR556 4.7 15.6 1.0
O A:HOH1276 4.7 16.9 1.0
CD2 A:LEU551 4.8 14.7 1.0
O A:VAL491 4.9 10.2 1.0
CB A:GLU557 4.9 32.2 1.0
N A:GLY495 4.9 11.4 1.0
OXT A:ASN558 5.0 32.9 1.0

Magnesium binding site 2 out of 2 in 6e60

Go back to Magnesium Binding Sites List in 6e60
Magnesium binding site 2 out of 2 in the Bacteroides Ovatus Mixed-Linkage Glucan Utilization Locus (Mlgul) Sgbp-A


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Bacteroides Ovatus Mixed-Linkage Glucan Utilization Locus (Mlgul) Sgbp-A within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg606

b:19.5
occ:1.00
O A:HOH918 1.8 13.4 1.0
O A:HOH703 2.2 19.3 1.0
O A:HOH778 2.2 15.4 1.0
O A:GLY543 2.2 16.3 1.0
C A:GLY543 3.2 15.8 1.0
CA A:GLY544 3.7 15.4 1.0
N A:GLY544 3.9 13.6 1.0
OE1 A:GLU540 4.1 19.7 1.0
CA A:GLY543 4.2 15.9 1.0
OE2 A:GLU540 4.3 19.7 1.0
CD A:GLU540 4.6 16.9 1.0
C A:GLY544 4.8 16.1 1.0

Reference:

K.Tamura, M.H.Foley, B.R.Gardill, G.Dejean, M.Schnizlein, C.M.E.Bahr, A.Louise Creagh, F.Van Petegem, N.M.Koropatkin, H.Brumer. Surface Glycan-Binding Proteins Are Essential For Cereal Beta-Glucan Utilization By the Human Gut Symbiont Bacteroides Ovatus. Cell.Mol.Life Sci. V. 76 4319 2019.
ISSN: ESSN 1420-9071
PubMed: 31062073
DOI: 10.1007/S00018-019-03115-3
Page generated: Mon Dec 14 22:37:57 2020

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