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Magnesium in PDB 8aa0: Levan Utilisation Machinery (Utilisome) with Levan Fructo- Oligosaccharides Dp 8-12

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Levan Utilisation Machinery (Utilisome) with Levan Fructo- Oligosaccharides Dp 8-12 (pdb code 8aa0). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Levan Utilisation Machinery (Utilisome) with Levan Fructo- Oligosaccharides Dp 8-12, PDB code: 8aa0:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 8aa0

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Magnesium binding site 1 out of 4 in the Levan Utilisation Machinery (Utilisome) with Levan Fructo- Oligosaccharides Dp 8-12


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Levan Utilisation Machinery (Utilisome) with Levan Fructo- Oligosaccharides Dp 8-12 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg601

b:26.2
occ:1.00
OD1 B:ASN401 2.0 59.1 1.0
ND2 A:ASN664 2.1 73.5 1.0
O B:TYR273 2.2 57.8 1.0
OE1 B:GLU262 2.3 73.1 1.0
OE2 B:GLU262 2.6 73.2 1.0
CD B:GLU262 2.8 74.6 1.0
O B:SER399 2.8 51.9 1.0
CG A:ASN664 3.1 79.1 1.0
CG B:ASN401 3.1 56.6 1.0
C B:TYR273 3.4 50.2 1.0
OD1 A:ASN664 3.5 85.4 1.0
ND2 B:ASN401 3.6 61.7 1.0
N B:TYR273 3.7 39.1 1.0
C B:SER399 4.1 50.3 1.0
CA B:TYR273 4.1 32.4 1.0
N B:ASN401 4.1 48.0 1.0
CG B:GLU262 4.2 69.6 1.0
CB A:ASN664 4.2 76.0 1.0
CA A:ASN664 4.3 77.0 1.0
CB B:ASN401 4.3 45.5 1.0
N B:SER274 4.4 45.3 1.0
OE1 B:GLN272 4.5 61.0 1.0
CA B:ASN401 4.5 43.6 1.0
N A:ASN664 4.6 79.3 1.0
CB B:TYR273 4.6 40.9 1.0
CA B:SER274 4.7 43.2 1.0
C B:LEU400 4.7 56.5 1.0
CB B:SER399 4.7 56.3 1.0
C B:GLN272 4.7 50.3 1.0
CA B:GLN272 4.9 43.8 1.0
CB B:GLU262 4.9 64.5 1.0
CA B:SER399 4.9 44.9 1.0
CA B:LEU400 4.9 49.9 1.0
N B:LEU400 5.0 53.7 1.0

Magnesium binding site 2 out of 4 in 8aa0

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Magnesium binding site 2 out of 4 in the Levan Utilisation Machinery (Utilisome) with Levan Fructo- Oligosaccharides Dp 8-12


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Levan Utilisation Machinery (Utilisome) with Levan Fructo- Oligosaccharides Dp 8-12 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1101

b:79.4
occ:1.00
OD2 A:ASP848 2.1 87.5 1.0
OD1 A:ASN841 2.1 89.1 1.0
OD1 A:ASP839 2.2 94.2 1.0
OD1 A:ASP848 2.4 94.3 1.0
O A:VAL843 2.5 88.0 1.0
ND2 A:ASN841 2.5 83.2 1.0
CG A:ASP848 2.5 87.7 1.0
CG A:ASN841 2.6 86.8 1.0
OD1 A:ASP837 2.6 83.6 1.0
CG A:ASP839 3.0 91.3 1.0
OD2 A:ASP839 3.2 89.8 1.0
OD1 A:ASP845 3.5 95.0 1.0
CG A:ASP837 3.5 85.1 1.0
C A:VAL843 3.7 83.8 1.0
OD2 A:ASP837 3.9 90.3 1.0
CB A:ASP848 4.0 83.5 1.0
CB A:ASN841 4.0 82.7 1.0
N A:ASN841 4.3 83.9 1.0
CA A:ILE844 4.4 77.6 1.0
CB A:ASP839 4.4 87.8 1.0
N A:VAL843 4.5 84.1 1.0
N A:ASP839 4.5 85.1 1.0
N A:ILE844 4.5 76.7 1.0
CG A:ASP845 4.5 92.5 1.0
N A:ASP845 4.6 87.7 1.0
CA A:ASN841 4.7 81.3 1.0
CA A:VAL843 4.7 84.6 1.0
CB A:ASP837 4.8 82.8 1.0
CG1 A:VAL843 4.8 84.7 1.0
CA A:ASP848 4.8 84.4 1.0
CA A:ASP837 4.8 83.6 1.0
N A:HIS840 4.8 86.5 1.0
N A:ILE838 4.9 87.8 1.0
CA A:ASP839 4.9 86.2 1.0
N A:ASP848 4.9 86.7 1.0
CD1 A:ILE844 4.9 80.0 1.0
C A:ILE844 5.0 81.8 1.0
OD2 A:ASP845 5.0 94.4 1.0

Magnesium binding site 3 out of 4 in 8aa0

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Magnesium binding site 3 out of 4 in the Levan Utilisation Machinery (Utilisome) with Levan Fructo- Oligosaccharides Dp 8-12


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Levan Utilisation Machinery (Utilisome) with Levan Fructo- Oligosaccharides Dp 8-12 within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Mg601

b:26.2
occ:1.00
OD1 J:ASN401 2.0 59.1 1.0
ND2 I:ASN664 2.1 73.5 1.0
O J:TYR273 2.2 57.8 1.0
OE1 J:GLU262 2.3 73.1 1.0
OE2 J:GLU262 2.6 73.2 1.0
CD J:GLU262 2.8 74.6 1.0
O J:SER399 2.8 51.9 1.0
CG I:ASN664 3.0 79.1 1.0
CG J:ASN401 3.1 56.6 1.0
C J:TYR273 3.4 50.2 1.0
OD1 I:ASN664 3.5 85.4 1.0
ND2 J:ASN401 3.6 61.7 1.0
N J:TYR273 3.7 39.1 1.0
CA I:ASN664 4.0 77.0 1.0
C J:SER399 4.1 50.3 1.0
CB I:ASN664 4.1 76.0 1.0
CA J:TYR273 4.1 32.4 1.0
N J:ASN401 4.1 48.0 1.0
CG J:GLU262 4.2 69.6 1.0
N I:ASN664 4.2 79.3 1.0
CB J:ASN401 4.3 45.5 1.0
N J:SER274 4.4 45.3 1.0
OE1 J:GLN272 4.5 61.0 1.0
CA J:ASN401 4.5 43.6 1.0
CB J:TYR273 4.6 40.9 1.0
CA J:SER274 4.7 43.2 1.0
C J:LEU400 4.7 56.5 1.0
CB J:SER399 4.7 56.3 1.0
C J:GLN272 4.7 50.3 1.0
CA J:GLN272 4.9 43.8 1.0
CB J:GLU262 4.9 64.5 1.0
CA J:SER399 4.9 44.9 1.0
CA J:LEU400 4.9 49.9 1.0
N J:LEU400 5.0 53.7 1.0
OD2 I:ASP659 5.0 84.0 1.0

Magnesium binding site 4 out of 4 in 8aa0

Go back to Magnesium Binding Sites List in 8aa0
Magnesium binding site 4 out of 4 in the Levan Utilisation Machinery (Utilisome) with Levan Fructo- Oligosaccharides Dp 8-12


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Levan Utilisation Machinery (Utilisome) with Levan Fructo- Oligosaccharides Dp 8-12 within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Mg1101

b:79.4
occ:1.00
OD2 I:ASP848 2.1 87.5 1.0
OD1 I:ASN841 2.1 89.1 1.0
OD1 I:ASP839 2.2 94.2 1.0
OD1 I:ASP848 2.4 94.3 1.0
O I:VAL843 2.5 88.0 1.0
ND2 I:ASN841 2.5 83.2 1.0
CG I:ASP848 2.5 87.7 1.0
CG I:ASN841 2.6 86.8 1.0
OD1 I:ASP837 2.6 83.6 1.0
CG I:ASP839 3.0 91.3 1.0
OD2 I:ASP839 3.2 89.8 1.0
OD1 I:ASP845 3.5 95.0 1.0
CG I:ASP837 3.5 85.1 1.0
C I:VAL843 3.7 83.8 1.0
OD2 I:ASP837 3.9 90.3 1.0
CB I:ASP848 4.0 83.5 1.0
CB I:ASN841 4.0 82.7 1.0
N I:ASN841 4.3 83.9 1.0
CA I:ILE844 4.4 77.6 1.0
CB I:ASP839 4.4 87.8 1.0
N I:VAL843 4.5 84.1 1.0
N I:ASP839 4.5 85.1 1.0
N I:ILE844 4.5 76.7 1.0
CG I:ASP845 4.5 92.5 1.0
N I:ASP845 4.6 87.7 1.0
CA I:ASN841 4.7 81.3 1.0
CA I:VAL843 4.7 84.6 1.0
CB I:ASP837 4.8 82.8 1.0
CG1 I:VAL843 4.8 84.7 1.0
CA I:ASP848 4.8 84.4 1.0
CA I:ASP837 4.8 83.6 1.0
N I:HIS840 4.8 86.5 1.0
N I:ILE838 4.9 87.8 1.0
CA I:ASP839 4.9 86.2 1.0
N I:ASP848 4.9 86.7 1.0
CD1 I:ILE844 4.9 80.0 1.0
C I:ILE844 5.0 81.8 1.0
OD2 I:ASP845 5.0 94.4 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 Oct 3 18:00:45 2024

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