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Magnesium in PDB 7ezt: The Structure and Functional Mechanism of Nucleotide Regulated Acetylhexosaminidase AM2136 From Akkermansia Muciniphila

Enzymatic activity of The Structure and Functional Mechanism of Nucleotide Regulated Acetylhexosaminidase AM2136 From Akkermansia Muciniphila

All present enzymatic activity of The Structure and Functional Mechanism of Nucleotide Regulated Acetylhexosaminidase AM2136 From Akkermansia Muciniphila:
3.2.1.52;

Protein crystallography data

The structure of The Structure and Functional Mechanism of Nucleotide Regulated Acetylhexosaminidase AM2136 From Akkermansia Muciniphila, PDB code: 7ezt was solved by R.Bao, C.C.Li, X.Y.Tang, Y.B.Zhu, Y.J.Song, N.L.Zhao, Q.Huang, X.Y.Mou, G.H.Luo, T.G.Liu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 26.44 / 2.81
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 96.2, 119.505, 161.931, 90, 103.4, 90
R / Rfree (%) 19.4 / 24.8

Magnesium Binding Sites:

The binding sites of Magnesium atom in the The Structure and Functional Mechanism of Nucleotide Regulated Acetylhexosaminidase AM2136 From Akkermansia Muciniphila (pdb code 7ezt). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the The Structure and Functional Mechanism of Nucleotide Regulated Acetylhexosaminidase AM2136 From Akkermansia Muciniphila, PDB code: 7ezt:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 7ezt

Go back to Magnesium Binding Sites List in 7ezt
Magnesium binding site 1 out of 4 in the The Structure and Functional Mechanism of Nucleotide Regulated Acetylhexosaminidase AM2136 From Akkermansia Muciniphila


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of The Structure and Functional Mechanism of Nucleotide Regulated Acetylhexosaminidase AM2136 From Akkermansia Muciniphila within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg801

b:22.7
occ:1.00
 OH A:TYR331 3.2 48.5 1.0
NZ A:LYS330 3.3 56.7 1.0
CE1 A:TYR327 3.7 42.4 1.0
NH2 A:ARG592 3.8 41.2 1.0
OH A:TYR327 3.9 40.3 1.0
NH1 A:ARG592 4.0 36.5 1.0
CZ A:TYR327 4.3 42.2 1.0
CZ A:TYR331 4.3 42.2 1.0
CZ A:ARG592 4.3 41.9 1.0
CE1 A:TYR331 4.5 43.0 1.0
CE A:LYS330 4.7 52.9 1.0
CD1 A:TYR327 4.8 36.8 1.0
CD A:LYS330 5.0 53.1 1.0

Magnesium binding site 2 out of 4 in 7ezt

Go back to Magnesium Binding Sites List in 7ezt
Magnesium binding site 2 out of 4 in the The Structure and Functional Mechanism of Nucleotide Regulated Acetylhexosaminidase AM2136 From Akkermansia Muciniphila


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of The Structure and Functional Mechanism of Nucleotide Regulated Acetylhexosaminidase AM2136 From Akkermansia Muciniphila within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg801

b:23.2
occ:1.00
 NZ B:LYS330 3.5 61.5 1.0
OH B:TYR327 3.7 37.4 1.0
OH B:TYR331 3.7 51.5 1.0
CE1 B:TYR327 3.7 37.8 1.0
NH2 B:ARG592 3.7 39.6 1.0
NH1 B:ARG592 3.8 37.3 1.0
CZ B:ARG592 4.2 43.7 1.0
CZ B:TYR327 4.2 40.5 1.0
CE B:LYS330 4.3 52.0 1.0
CE1 B:TYR331 4.7 48.5 1.0
CZ B:TYR331 4.7 48.0 1.0
CD1 B:TYR327 4.9 35.8 1.0
CB B:LEU145 5.0 45.4 1.0

Magnesium binding site 3 out of 4 in 7ezt

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Magnesium binding site 3 out of 4 in the The Structure and Functional Mechanism of Nucleotide Regulated Acetylhexosaminidase AM2136 From Akkermansia Muciniphila


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of The Structure and Functional Mechanism of Nucleotide Regulated Acetylhexosaminidase AM2136 From Akkermansia Muciniphila within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg801

b:29.4
occ:1.00
 OH C:TYR331 3.6 45.5 1.0
CE1 C:TYR327 3.9 46.2 1.0
NH2 C:ARG592 3.9 61.4 1.0
OH C:TYR327 4.1 49.4 1.0
NH1 C:ARG592 4.1 51.0 1.0
NZ C:LYS330 4.3 65.5 1.0
CZ C:TYR327 4.5 45.1 1.0
CZ C:ARG592 4.5 57.0 1.0
CZ C:TYR331 4.6 49.1 1.0
CE1 C:TYR331 4.6 53.8 1.0
CE C:LYS330 4.7 56.8 1.0
CB C:LEU145 4.8 68.1 1.0
CD1 C:TYR327 4.9 45.1 1.0

Magnesium binding site 4 out of 4 in 7ezt

Go back to Magnesium Binding Sites List in 7ezt
Magnesium binding site 4 out of 4 in the The Structure and Functional Mechanism of Nucleotide Regulated Acetylhexosaminidase AM2136 From Akkermansia Muciniphila


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of The Structure and Functional Mechanism of Nucleotide Regulated Acetylhexosaminidase AM2136 From Akkermansia Muciniphila within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg801

b:24.1
occ:1.00
 NZ D:LYS330 3.2 49.0 1.0
OH D:TYR331 3.4 45.7 1.0
NH2 D:ARG592 3.6 40.8 1.0
CE1 D:TYR327 3.8 34.8 1.0
OH D:TYR327 4.0 28.1 1.0
NH1 D:ARG592 4.0 38.9 1.0
CZ D:ARG592 4.2 34.1 1.0
CZ D:TYR327 4.4 41.2 1.0
CZ D:TYR331 4.4 41.1 1.0
CE1 D:TYR331 4.4 42.8 1.0
CE D:LYS330 4.4 49.7 1.0
CD1 D:TYR327 4.9 32.5 1.0

Reference:

R.Bao, C.C.Li, X.Y.Tang, Y.B.Zhu, Y.J.Song, N.L.Zhao, Q.Huang, X.Y.Mou, G.H.Luo, T.G.Liu. The Structure and Functional Mechanism of Nucleotide Regulated Acetylhexosaminidase AM2136 From Akkermansia Muciniphila. To Be Published.
Page generated: Wed Oct 2 21:05:33 2024

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