Magnesium in PDB 8aa2: Inactive Levan Utilisation Machinery (Utilisome) in the Presence of Levan Fructo-Oligosaccharides Dp 15-25

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Inactive Levan Utilisation Machinery (Utilisome) in the Presence of Levan Fructo-Oligosaccharides Dp 15-25 (pdb code 8aa2). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Inactive Levan Utilisation Machinery (Utilisome) in the Presence of Levan Fructo-Oligosaccharides Dp 15-25, PDB code: 8aa2:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 8aa2

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Magnesium binding site 1 out of 4 in the Inactive Levan Utilisation Machinery (Utilisome) in the Presence of Levan Fructo-Oligosaccharides Dp 15-25


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Inactive Levan Utilisation Machinery (Utilisome) in the Presence of Levan Fructo-Oligosaccharides Dp 15-25 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg601

b:27.6
occ:1.00
 OD1 A:ASN664 2.0 59.4 1.0
OD1 B:ASN401 2.0 57.2 1.0
O B:TYR273 2.2 60.5 1.0
OE1 B:GLU262 2.3 71.6 1.0
OE2 B:GLU262 2.6 74.6 1.0
O B:SER399 2.7 55.0 1.0
CD B:GLU262 2.7 71.0 1.0
CG B:ASN401 3.1 55.5 1.0
CG A:ASN664 3.2 63.5 1.0
C B:TYR273 3.3 54.4 1.0
N B:TYR273 3.7 48.4 1.0
ND2 B:ASN401 3.7 57.3 1.0
ND2 A:ASN664 3.9 68.9 1.0
N B:ASN401 3.9 47.9 1.0
C B:SER399 3.9 49.5 1.0
CA B:TYR273 4.0 44.8 1.0
CG B:GLU262 4.2 62.6 1.0
CB B:ASN401 4.2 42.8 1.0
CB A:ASN664 4.3 56.3 1.0
CA B:ASN401 4.3 43.0 1.0
CA A:ASN664 4.3 59.7 1.0
C B:LEU400 4.4 53.8 1.0
N B:SER274 4.4 46.4 1.0
CB B:TYR273 4.5 45.8 1.0
N A:ASN664 4.6 58.5 1.0
C B:GLN272 4.6 52.1 1.0
CA B:LEU400 4.7 51.0 1.0
CA B:SER274 4.7 47.5 1.0
CB B:SER399 4.7 54.1 1.0
N B:LEU400 4.8 51.9 1.0
CA B:GLN272 4.8 44.4 1.0
CA B:SER399 4.9 45.3 1.0
OG B:SER399 5.0 61.5 1.0
CB B:GLU262 5.0 62.6 1.0

Magnesium binding site 2 out of 4 in 8aa2

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Magnesium binding site 2 out of 4 in the Inactive Levan Utilisation Machinery (Utilisome) in the Presence of Levan Fructo-Oligosaccharides Dp 15-25


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Inactive Levan Utilisation Machinery (Utilisome) in the Presence of Levan Fructo-Oligosaccharides Dp 15-25 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1101

b:61.3
occ:1.00
 OD1 A:ASN841 2.0 76.0 1.0
OD2 A:ASP848 2.0 73.9 1.0
OD1 A:ASP839 2.3 85.5 1.0
CG A:ASN841 2.5 72.2 1.0
OD1 A:ASP848 2.5 77.5 1.0
ND2 A:ASN841 2.5 69.9 1.0
CG A:ASP848 2.5 75.0 1.0
O A:VAL843 2.5 71.5 1.0
OD1 A:ASP837 2.8 69.9 1.0
CG A:ASP839 3.2 80.2 1.0
OD2 A:ASP839 3.4 76.9 1.0
OD1 A:ASP845 3.4 82.9 1.0
CG A:ASP837 3.5 72.8 1.0
OD2 A:ASP837 3.6 79.0 1.0
C A:VAL843 3.7 65.0 1.0
CB A:ASN841 3.9 66.2 1.0
CB A:ASP848 4.0 73.7 1.0
N A:ASN841 4.2 71.5 1.0
CG A:ASP845 4.3 80.7 1.0
CA A:ILE844 4.5 63.2 1.0
N A:VAL843 4.5 67.8 1.0
N A:ILE844 4.5 61.2 1.0
CA A:ASN841 4.5 71.0 1.0
N A:ASP839 4.5 76.1 1.0
CB A:ASP839 4.6 75.7 1.0
OD2 A:ASP845 4.6 78.9 1.0
N A:ASP845 4.6 70.1 1.0
CA A:ASP848 4.7 73.0 1.0
CB A:ASP837 4.7 69.3 1.0
N A:HIS840 4.7 75.1 1.0
N A:ASP848 4.7 75.4 1.0
CA A:VAL843 4.7 65.4 1.0
CA A:ASP837 4.8 68.3 1.0
CG1 A:VAL843 4.9 66.2 1.0
N A:ILE838 4.9 72.9 1.0
N A:GLY842 4.9 66.5 1.0
CA A:ASP839 4.9 75.3 1.0
C A:ILE844 5.0 61.9 1.0
CD1 A:ILE844 5.0 64.8 1.0
C A:ASP839 5.0 73.8 1.0
C A:ASN841 5.0 72.3 1.0

Magnesium binding site 3 out of 4 in 8aa2

Go back to Magnesium Binding Sites List in 8aa2
Magnesium binding site 3 out of 4 in the Inactive Levan Utilisation Machinery (Utilisome) in the Presence of Levan Fructo-Oligosaccharides Dp 15-25


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Inactive Levan Utilisation Machinery (Utilisome) in the Presence of Levan Fructo-Oligosaccharides Dp 15-25 within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Mg601

b:27.6
occ:1.00
 OD1 J:ASN401 2.0 57.2 1.0
OD1 I:ASN664 2.0 59.4 1.0
O J:TYR273 2.2 60.5 1.0
OE1 J:GLU262 2.3 71.6 1.0
OE2 J:GLU262 2.6 74.6 1.0
O J:SER399 2.7 55.0 1.0
CD J:GLU262 2.7 71.0 1.0
CG J:ASN401 3.1 55.5 1.0
CG I:ASN664 3.2 63.5 1.0
C J:TYR273 3.3 54.4 1.0
N J:TYR273 3.7 48.4 1.0
ND2 J:ASN401 3.7 57.3 1.0
ND2 I:ASN664 3.9 68.9 1.0
N J:ASN401 3.9 47.9 1.0
C J:SER399 3.9 49.5 1.0
CA J:TYR273 4.0 44.8 1.0
CB J:ASN401 4.2 42.8 1.0
CG J:GLU262 4.2 62.6 1.0
CA J:ASN401 4.3 43.0 1.0
CB I:ASN664 4.3 56.3 1.0
CA I:ASN664 4.4 59.7 1.0
C J:LEU400 4.4 53.8 1.0
N J:SER274 4.4 46.4 1.0
CB J:TYR273 4.5 45.8 1.0
C J:GLN272 4.6 52.1 1.0
N I:ASN664 4.6 58.5 1.0
CA J:LEU400 4.7 51.0 1.0
CA J:SER274 4.7 47.5 1.0
CB J:SER399 4.7 54.1 1.0
N J:LEU400 4.8 51.9 1.0
CA J:GLN272 4.8 44.4 1.0
CA J:SER399 4.9 45.3 1.0
OG J:SER399 5.0 61.5 1.0
CB J:GLU262 5.0 62.6 1.0

Magnesium binding site 4 out of 4 in 8aa2

Go back to Magnesium Binding Sites List in 8aa2
Magnesium binding site 4 out of 4 in the Inactive Levan Utilisation Machinery (Utilisome) in the Presence of Levan Fructo-Oligosaccharides Dp 15-25


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Inactive Levan Utilisation Machinery (Utilisome) in the Presence of Levan Fructo-Oligosaccharides Dp 15-25 within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Mg1101

b:61.3
occ:1.00
 OD1 I:ASN841 2.0 76.0 1.0
OD2 I:ASP848 2.0 73.9 1.0
OD1 I:ASP839 2.3 85.5 1.0
CG I:ASN841 2.5 72.2 1.0
OD1 I:ASP848 2.5 77.5 1.0
ND2 I:ASN841 2.5 69.9 1.0
CG I:ASP848 2.5 75.0 1.0
O I:VAL843 2.5 71.5 1.0
OD1 I:ASP837 2.8 69.9 1.0
CG I:ASP839 3.2 80.2 1.0
OD2 I:ASP839 3.4 76.9 1.0
OD1 I:ASP845 3.4 82.9 1.0
CG I:ASP837 3.5 72.8 1.0
OD2 I:ASP837 3.6 79.0 1.0
C I:VAL843 3.7 65.0 1.0
CB I:ASN841 3.9 66.2 1.0
CB I:ASP848 4.0 73.7 1.0
N I:ASN841 4.2 71.5 1.0
CG I:ASP845 4.3 80.7 1.0
CA I:ILE844 4.5 63.2 1.0
N I:VAL843 4.5 67.8 1.0
N I:ILE844 4.5 61.2 1.0
CA I:ASN841 4.5 71.0 1.0
N I:ASP839 4.5 76.1 1.0
CB I:ASP839 4.6 75.7 1.0
OD2 I:ASP845 4.6 78.9 1.0
N I:ASP845 4.6 70.1 1.0
CA I:ASP848 4.7 73.0 1.0
CB I:ASP837 4.7 69.3 1.0
N I:HIS840 4.7 75.1 1.0
N I:ASP848 4.7 75.4 1.0
CA I:VAL843 4.7 65.4 1.0
CA I:ASP837 4.8 68.3 1.0
CG1 I:VAL843 4.9 66.2 1.0
N I:ILE838 4.9 72.9 1.0
N I:GLY842 4.9 66.5 1.0
CA I:ASP839 4.9 75.3 1.0
C I:ILE844 5.0 61.9 1.0
CD1 I:ILE844 5.0 64.8 1.0
C I:ASP839 5.0 73.8 1.0
C I:ASN841 5.0 72.3 1.0

Reference:

J.B.R.White, A.Silale, M.Feasy, T.Heunis, Y.Zhu, H.Zheng, A.Gajbhiye, S.Firbank, A.Basle, M.Trost, D.N.Bolam, B.Van Den Berg, N.A.Ranson. Outer Membrane Utilisomes Mediate Glycan Uptake in Gut Bacteroidetes Nature 2023.
ISSN: ESSN 1476-4687
DOI: 10.1038/S41586-023-06146-W
Page generated: Thu Jul 27 22:21:35 2023

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