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Magnesium in PDB 6zy9: Cryo-Em Structure of Mlafedb in Complex with Amp-Pnp

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Cryo-Em Structure of Mlafedb in Complex with Amp-Pnp (pdb code 6zy9). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Cryo-Em Structure of Mlafedb in Complex with Amp-Pnp, PDB code: 6zy9:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 6zy9

Go back to Magnesium Binding Sites List in 6zy9
Magnesium binding site 1 out of 2 in the Cryo-Em Structure of Mlafedb in Complex with Amp-Pnp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryo-Em Structure of Mlafedb in Complex with Amp-Pnp within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg402

b:50.6
occ:1.00
OG1 F:THR48 2.3 50.3 1.0
N3B F:ANP401 2.5 58.2 1.0
O2G F:ANP401 2.7 58.2 1.0
PG F:ANP401 3.2 58.2 1.0
CB F:THR48 3.5 50.3 1.0
CG2 F:THR48 3.9 50.3 1.0
O1A F:ANP401 4.0 58.2 1.0
PB F:ANP401 4.1 58.2 1.0
O1G F:ANP401 4.1 58.2 1.0
OD1 F:ASP169 4.4 40.7 1.0
OE1 F:GLN92 4.4 37.1 1.0
O3G F:ANP401 4.4 58.2 1.0
O3A F:ANP401 4.6 58.2 1.0
O2B F:ANP401 4.7 58.2 1.0
CA F:THR48 4.7 50.3 1.0
N F:THR48 4.9 50.3 1.0
OD2 F:ASP169 4.9 40.7 1.0
PA F:ANP401 4.9 58.2 1.0
OE2 F:GLU170 5.0 40.2 1.0
CG F:ASP169 5.0 40.7 1.0

Magnesium binding site 2 out of 2 in 6zy9

Go back to Magnesium Binding Sites List in 6zy9
Magnesium binding site 2 out of 2 in the Cryo-Em Structure of Mlafedb in Complex with Amp-Pnp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Cryo-Em Structure of Mlafedb in Complex with Amp-Pnp within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Mg402

b:59.1
occ:1.00
OG1 G:THR48 2.2 47.7 1.0
N3B G:ANP401 2.4 59.0 1.0
O2G G:ANP401 3.4 59.0 1.0
CB G:THR48 3.4 47.7 1.0
PG G:ANP401 3.5 59.0 1.0
PB G:ANP401 3.7 59.0 1.0
CG2 G:THR48 3.8 47.7 1.0
O1A G:ANP401 4.0 59.0 1.0
O2B G:ANP401 4.1 59.0 1.0
O3A G:ANP401 4.1 59.0 1.0
OE1 G:GLN92 4.3 35.0 1.0
O1G G:ANP401 4.5 59.0 1.0
OE2 G:GLU170 4.6 36.3 1.0
CA G:THR48 4.6 47.7 1.0
O3G G:ANP401 4.6 59.0 1.0
PA G:ANP401 4.7 59.0 1.0
OD2 G:ASP169 4.7 37.0 1.0
N G:THR48 4.8 47.7 1.0
O1B G:ANP401 5.0 59.0 1.0

Reference:

X.Tang, S.Chang, W.Qiao, Q.Luo, Y.Chen, Z.Jia, J.Coleman, K.Zhang, T.Wang, Z.Zhang, C.Zhang, X.Zhu, X.Wei, C.Dong, X.Zhang, H.Dong. Structural Insights Into Outer Membrane Asymmetry Maintenance in Gram-Negative Bacteria By Mlafedb. Nat.Struct.Mol.Biol. 2020.
ISSN: ESSN 1545-9985
PubMed: 33199922
DOI: 10.1038/S41594-020-00532-Y
Page generated: Wed Oct 2 03:18:17 2024

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