Magnesium in PDB 7yix: The Cryo-Em Structure of Human Tissue Nonspecific Alkaline Phosphatase and Single-Chain Fragment Variable (Scfv) Complex.

All present enzymatic activity of The Cryo-Em Structure of Human Tissue Nonspecific Alkaline Phosphatase and Single-Chain Fragment Variable (Scfv) Complex.:
3.1.3.1; 3.9.1.1;

The structure of The Cryo-Em Structure of Human Tissue Nonspecific Alkaline Phosphatase and Single-Chain Fragment Variable (Scfv) Complex. also contains other interesting chemical elements:

Zinc	(Zn)	4 atoms
Calcium	(Ca)	2 atoms

The binding sites of Magnesium atom in the The Cryo-Em Structure of Human Tissue Nonspecific Alkaline Phosphatase and Single-Chain Fragment Variable (Scfv) Complex. (pdb code 7yix). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the The Cryo-Em Structure of Human Tissue Nonspecific Alkaline Phosphatase and Single-Chain Fragment Variable (Scfv) Complex., PDB code: 7yix:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the The Cryo-Em Structure of Human Tissue Nonspecific Alkaline Phosphatase and Single-Chain Fragment Variable (Scfv) Complex.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of The Cryo-Em Structure of Human Tissue Nonspecific Alkaline Phosphatase and Single-Chain Fragment Variable (Scfv) Complex. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg603 b:53.3 occ:1.00 OD2 A:ASP60 2.2 56.0 1.0 OE2 A:GLU332 3.0 54.1 1.0 OG1 A:THR173 3.1 52.2 1.0 ND1 A:HIS171 3.3 56.9 1.0 CG A:ASP60 3.4 56.0 1.0 CE1 A:HIS171 3.6 56.9 1.0 CB A:THR173 3.9 52.2 1.0 OD1 A:ASP60 4.1 56.0 1.0 CD A:GLU332 4.2 54.1 1.0 CB A:ASP60 4.4 56.0 1.0 CG A:HIS171 4.5 56.9 1.0 N A:THR173 4.5 52.2 1.0 OE1 A:GLU332 4.6 54.1 1.0 O A:GLY334 4.7 53.0 1.0 NE2 A:HIS171 4.7 56.9 1.0 OG A:SER110 4.7 55.9 1.0 CA A:THR173 4.8 52.2 1.0 CE1 A:HIS338 4.9 53.2 1.0 CG2 A:THR173 4.9 52.2 1.0 CA A:GLY334 4.9 53.0 1.0 OG1 A:THR167 4.9 57.7 1.0

Magnesium binding site 2 out of 2 in the The Cryo-Em Structure of Human Tissue Nonspecific Alkaline Phosphatase and Single-Chain Fragment Variable (Scfv) Complex.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of The Cryo-Em Structure of Human Tissue Nonspecific Alkaline Phosphatase and Single-Chain Fragment Variable (Scfv) Complex. within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg603 b:53.1 occ:1.00 OD2 B:ASP60 2.1 55.8 1.0 OG1 B:THR173 2.8 51.4 1.0 CD2 B:HIS171 3.2 55.2 1.0 CG B:ASP60 3.3 55.8 1.0 OE2 B:GLU332 3.5 53.6 1.0 NE2 B:HIS171 3.6 55.2 1.0 CB B:THR173 3.8 51.4 1.0 OD1 B:ASP60 4.0 55.8 1.0 CG B:HIS171 4.3 55.2 1.0 CB B:ASP60 4.4 55.8 1.0 CD B:GLU332 4.4 53.6 1.0 N B:THR173 4.5 51.4 1.0 O B:GLY334 4.7 52.3 1.0 OE1 B:GLU332 4.7 53.6 1.0 CA B:GLY334 4.8 52.3 1.0 CA B:THR173 4.8 51.4 1.0 CG2 B:THR173 4.8 51.4 1.0 OG B:SER110 4.9 56.7 1.0 OG1 B:THR167 4.9 57.0 1.0 CE1 B:HIS338 4.9 52.6 1.0 CE1 B:HIS171 4.9 55.2 1.0

Y.Yu, K.Rong, D.Yao, Q.Zhang, X.Cao, B.Rao, Y.Xia, Y.Lu, Y.Shen, Y.Yao, H.Xu, P.Ma, Y.Cao, A.Qin. The Structural Pathology For Hypophosphatasia Caused By Malfunctional Tissue Non-Specific Alkaline Phosphatase. Nat Commun V. 14 4048 2023.
ISSN: ESSN 2041-1723
PubMed: 37422472
DOI: 10.1038/S41467-023-39833-3