Manganese in PDB 7u5n: Cryo-Em Structure of Glutamine Synthetase

Enzymatic activity of Cryo-Em Structure of Glutamine Synthetase

All present enzymatic activity of Cryo-Em Structure of Glutamine Synthetase:
2.3.1.225; 6.3.1.2;

Manganese Binding Sites:

The binding sites of Manganese atom in the Cryo-Em Structure of Glutamine Synthetase (pdb code 7u5n). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 10 binding sites of Manganese where determined in the Cryo-Em Structure of Glutamine Synthetase, PDB code: 7u5n:
Jump to Manganese binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Manganese binding site 1 out of 10 in 7u5n

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Manganese binding site 1 out of 10 in the Cryo-Em Structure of Glutamine Synthetase


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Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Cryo-Em Structure of Glutamine Synthetase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn401

b:30.0
occ:1.00
 OE2 A:GLU338 2.9 114.2 1.0
ND1 A:HIS253 3.0 99.1 1.0
OE1 A:GLU134 3.3 83.7 1.0
NH1 A:ARG340 3.4 110.3 1.0
CG A:HIS253 3.4 99.1 1.0
CE1 A:HIS253 3.5 99.1 1.0
OE2 A:GLU134 3.6 83.7 1.0
CD A:GLU338 3.8 114.2 1.0
CD A:GLU134 3.8 83.7 1.0
OE1 A:GLU338 3.9 114.2 1.0
CB A:HIS253 3.9 99.1 1.0
CZ A:ARG340 3.9 110.3 1.0
NE A:ARG340 4.1 110.3 1.0
CD2 A:HIS253 4.1 99.1 1.0
NE2 A:HIS253 4.2 99.1 1.0
NH2 A:ARG340 4.8 110.3 1.0

Manganese binding site 2 out of 10 in 7u5n

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Manganese binding site 2 out of 10 in the Cryo-Em Structure of Glutamine Synthetase


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Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Cryo-Em Structure of Glutamine Synthetase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn401

b:30.0
occ:1.00
 OE2 B:GLU338 2.9 114.2 1.0
ND1 B:HIS253 3.0 99.1 1.0
OE1 B:GLU134 3.3 83.7 1.0
NH1 B:ARG340 3.4 110.3 1.0
CG B:HIS253 3.4 99.1 1.0
CE1 B:HIS253 3.5 99.1 1.0
OE2 B:GLU134 3.6 83.7 1.0
CD B:GLU338 3.8 114.2 1.0
CD B:GLU134 3.8 83.7 1.0
OE1 B:GLU338 3.9 114.2 1.0
CB B:HIS253 3.9 99.1 1.0
CZ B:ARG340 3.9 110.3 1.0
NE B:ARG340 4.1 110.3 1.0
CD2 B:HIS253 4.1 99.1 1.0
NE2 B:HIS253 4.2 99.1 1.0
NH2 B:ARG340 4.8 110.3 1.0

Manganese binding site 3 out of 10 in 7u5n

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Manganese binding site 3 out of 10 in the Cryo-Em Structure of Glutamine Synthetase


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Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Cryo-Em Structure of Glutamine Synthetase within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mn401

b:30.0
occ:1.00
 OE2 C:GLU338 2.9 114.2 1.0
ND1 C:HIS253 3.0 99.1 1.0
OE1 C:GLU134 3.3 83.7 1.0
NH1 C:ARG340 3.4 110.3 1.0
CG C:HIS253 3.4 99.1 1.0
CE1 C:HIS253 3.5 99.1 1.0
OE2 C:GLU134 3.6 83.7 1.0
CD C:GLU338 3.8 114.2 1.0
CD C:GLU134 3.8 83.7 1.0
OE1 C:GLU338 3.9 114.2 1.0
CB C:HIS253 3.9 99.1 1.0
CZ C:ARG340 3.9 110.3 1.0
NE C:ARG340 4.1 110.3 1.0
CD2 C:HIS253 4.1 99.1 1.0
NE2 C:HIS253 4.2 99.1 1.0
NH2 C:ARG340 4.8 110.3 1.0

Manganese binding site 4 out of 10 in 7u5n

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Manganese binding site 4 out of 10 in the Cryo-Em Structure of Glutamine Synthetase


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Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of Cryo-Em Structure of Glutamine Synthetase within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mn401

b:30.0
occ:1.00
 OE2 D:GLU338 2.9 114.2 1.0
ND1 D:HIS253 3.0 99.1 1.0
OE1 D:GLU134 3.3 83.7 1.0
NH1 D:ARG340 3.4 110.3 1.0
CG D:HIS253 3.4 99.1 1.0
CE1 D:HIS253 3.5 99.1 1.0
OE2 D:GLU134 3.6 83.7 1.0
CD D:GLU338 3.8 114.2 1.0
CD D:GLU134 3.8 83.7 1.0
OE1 D:GLU338 3.9 114.2 1.0
CB D:HIS253 3.9 99.1 1.0
CZ D:ARG340 3.9 110.3 1.0
NE D:ARG340 4.1 110.3 1.0
CD2 D:HIS253 4.1 99.1 1.0
NE2 D:HIS253 4.2 99.1 1.0
NH2 D:ARG340 4.8 110.3 1.0

Manganese binding site 5 out of 10 in 7u5n

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Manganese binding site 5 out of 10 in the Cryo-Em Structure of Glutamine Synthetase


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Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 5 of Cryo-Em Structure of Glutamine Synthetase within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mn401

b:30.0
occ:1.00
 OE2 E:GLU338 2.9 114.2 1.0
ND1 E:HIS253 3.0 99.1 1.0
OE1 E:GLU134 3.3 83.7 1.0
NH1 E:ARG340 3.4 110.3 1.0
CG E:HIS253 3.4 99.1 1.0
CE1 E:HIS253 3.5 99.1 1.0
OE2 E:GLU134 3.6 83.7 1.0
CD E:GLU338 3.8 114.2 1.0
CD E:GLU134 3.8 83.7 1.0
OE1 E:GLU338 3.9 114.2 1.0
CB E:HIS253 3.9 99.1 1.0
CZ E:ARG340 3.9 110.3 1.0
NE E:ARG340 4.1 110.3 1.0
CD2 E:HIS253 4.1 99.1 1.0
NE2 E:HIS253 4.2 99.1 1.0
NH2 E:ARG340 4.8 110.3 1.0

Manganese binding site 6 out of 10 in 7u5n

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Manganese binding site 6 out of 10 in the Cryo-Em Structure of Glutamine Synthetase


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Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 6 of Cryo-Em Structure of Glutamine Synthetase within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mn401

b:30.0
occ:1.00
 OE2 F:GLU338 2.9 114.2 1.0
ND1 F:HIS253 3.0 99.1 1.0
OE1 F:GLU134 3.3 83.7 1.0
NH1 F:ARG340 3.4 110.3 1.0
CG F:HIS253 3.4 99.1 1.0
CE1 F:HIS253 3.5 99.1 1.0
OE2 F:GLU134 3.6 83.7 1.0
CD F:GLU338 3.8 114.2 1.0
CD F:GLU134 3.8 83.7 1.0
OE1 F:GLU338 3.9 114.2 1.0
CB F:HIS253 3.9 99.1 1.0
CZ F:ARG340 3.9 110.3 1.0
NE F:ARG340 4.1 110.3 1.0
CD2 F:HIS253 4.1 99.1 1.0
NE2 F:HIS253 4.2 99.1 1.0
NH2 F:ARG340 4.8 110.3 1.0

Manganese binding site 7 out of 10 in 7u5n

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Manganese binding site 7 out of 10 in the Cryo-Em Structure of Glutamine Synthetase


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Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 7 of Cryo-Em Structure of Glutamine Synthetase within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Mn401

b:30.0
occ:1.00
 OE2 G:GLU338 2.9 114.2 1.0
ND1 G:HIS253 3.0 99.1 1.0
OE1 G:GLU134 3.3 83.7 1.0
NH1 G:ARG340 3.4 110.3 1.0
CG G:HIS253 3.4 99.1 1.0
CE1 G:HIS253 3.5 99.1 1.0
OE2 G:GLU134 3.6 83.7 1.0
CD G:GLU338 3.8 114.2 1.0
CD G:GLU134 3.8 83.7 1.0
OE1 G:GLU338 3.9 114.2 1.0
CB G:HIS253 3.9 99.1 1.0
CZ G:ARG340 3.9 110.3 1.0
NE G:ARG340 4.1 110.3 1.0
CD2 G:HIS253 4.1 99.1 1.0
NE2 G:HIS253 4.2 99.1 1.0
NH2 G:ARG340 4.8 110.3 1.0

Manganese binding site 8 out of 10 in 7u5n

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Manganese binding site 8 out of 10 in the Cryo-Em Structure of Glutamine Synthetase


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Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 8 of Cryo-Em Structure of Glutamine Synthetase within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Mn401

b:30.0
occ:1.00
 OE2 H:GLU338 2.9 114.2 1.0
ND1 H:HIS253 3.0 99.1 1.0
OE1 H:GLU134 3.3 83.7 1.0
NH1 H:ARG340 3.4 110.3 1.0
CG H:HIS253 3.4 99.1 1.0
CE1 H:HIS253 3.5 99.1 1.0
OE2 H:GLU134 3.6 83.7 1.0
CD H:GLU338 3.8 114.2 1.0
CD H:GLU134 3.8 83.7 1.0
OE1 H:GLU338 3.9 114.2 1.0
CB H:HIS253 3.9 99.1 1.0
CZ H:ARG340 3.9 110.3 1.0
NE H:ARG340 4.1 110.3 1.0
CD2 H:HIS253 4.1 99.1 1.0
NE2 H:HIS253 4.2 99.1 1.0
NH2 H:ARG340 4.8 110.3 1.0

Manganese binding site 9 out of 10 in 7u5n

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Manganese binding site 9 out of 10 in the Cryo-Em Structure of Glutamine Synthetase


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Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 9 of Cryo-Em Structure of Glutamine Synthetase within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Mn401

b:30.0
occ:1.00
 OE2 I:GLU338 2.9 114.2 1.0
ND1 I:HIS253 3.0 99.1 1.0
OE1 I:GLU134 3.3 83.7 1.0
NH1 I:ARG340 3.4 110.3 1.0
CG I:HIS253 3.4 99.1 1.0
CE1 I:HIS253 3.5 99.1 1.0
OE2 I:GLU134 3.6 83.7 1.0
CD I:GLU338 3.8 114.2 1.0
CD I:GLU134 3.8 83.7 1.0
OE1 I:GLU338 3.9 114.2 1.0
CB I:HIS253 3.9 99.1 1.0
CZ I:ARG340 3.9 110.3 1.0
NE I:ARG340 4.1 110.3 1.0
CD2 I:HIS253 4.1 99.1 1.0
NE2 I:HIS253 4.2 99.1 1.0
NH2 I:ARG340 4.8 110.3 1.0

Manganese binding site 10 out of 10 in 7u5n

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Manganese binding site 10 out of 10 in the Cryo-Em Structure of Glutamine Synthetase


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 10 of Cryo-Em Structure of Glutamine Synthetase within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Mn401

b:30.0
occ:1.00
 OE2 J:GLU338 2.9 114.2 1.0
ND1 J:HIS253 3.0 99.1 1.0
OE1 J:GLU134 3.3 83.7 1.0
NH1 J:ARG340 3.4 110.3 1.0
CG J:HIS253 3.4 99.1 1.0
CE1 J:HIS253 3.5 99.1 1.0
OE2 J:GLU134 3.6 83.7 1.0
CD J:GLU338 3.8 114.2 1.0
CD J:GLU134 3.8 83.7 1.0
OE1 J:GLU338 3.9 114.2 1.0
CB J:HIS253 3.9 99.1 1.0
CZ J:ARG340 3.9 110.3 1.0
NE J:ARG340 4.1 110.3 1.0
CD2 J:HIS253 4.1 99.1 1.0
NE2 J:HIS253 4.2 99.1 1.0
NH2 J:ARG340 4.8 110.3 1.0

Reference:

C.E.Morgan, M.Miyagi, M.Golczak, E.W.Yu. Towards Structural-Omics of the Bovine Retinal Pigment Epithelium Cell Rep 2022.
ISSN: ESSN 2211-1247
DOI: 10.1016/J.CELREP.2022.111876
Page generated: Fri Apr 7 12:29:11 2023

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