Magnesium in PDB 5z41: Aquifex Aeolicus Mutl Endonuclease Domain with A Single Zinc Ion.

The structure of Aquifex Aeolicus Mutl Endonuclease Domain with A Single Zinc Ion., PDB code: 5z41 was solved by K.Fukui, T.Yano, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.75 / 1.70
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	68.697, 68.697, 36.642, 90.00, 90.00, 120.00
R / Rfree (%)	21.8 / 25.6

The structure of Aquifex Aeolicus Mutl Endonuclease Domain with A Single Zinc Ion. also contains other interesting chemical elements:

Zinc

(Zn)

1 atom

The binding sites of Magnesium atom in the Aquifex Aeolicus Mutl Endonuclease Domain with A Single Zinc Ion. (pdb code 5z41). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Aquifex Aeolicus Mutl Endonuclease Domain with A Single Zinc Ion., PDB code: 5z41:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Aquifex Aeolicus Mutl Endonuclease Domain with A Single Zinc Ion.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Aquifex Aeolicus Mutl Endonuclease Domain with A Single Zinc Ion. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg202 b:26.7 occ:1.00 N A:HIS77 3.0 21.5 1.0 CA A:ASN75 3.2 24.1 1.0 C A:ASN75 3.2 23.4 1.0 CB A:ASN75 3.2 27.5 1.0 MG A:MG203 3.3 46.1 1.0 CB A:HIS77 3.5 24.5 1.0 N A:VAL78 3.5 20.1 1.0 CD2 A:HIS77 3.6 29.2 1.0 N A:PRO76 3.6 22.9 1.0 O A:ASN75 3.6 23.5 1.0 CA A:HIS77 3.6 17.0 1.0 CG A:HIS77 3.8 28.7 1.0 ND2 A:ASN75 4.0 38.6 1.0 C A:HIS77 4.0 19.2 1.0 CD A:PRO76 4.1 28.1 1.0 C A:PRO76 4.1 22.0 1.0 CG A:ASN75 4.1 36.9 1.0 CG1 A:VAL78 4.2 25.8 1.0 O A:VAL78 4.3 22.5 1.0 CB A:VAL78 4.4 27.6 1.0 CA A:PRO76 4.4 22.5 1.0 CA A:VAL78 4.4 23.1 1.0 N A:ASN75 4.6 31.9 1.0 NH2 A:ARG35 4.8 26.2 1.0 C A:VAL78 4.8 18.5 1.0 NE2 A:HIS77 4.8 31.2 1.0 O A:GLU74 5.0 33.8 1.0

Magnesium binding site 2 out of 2 in the Aquifex Aeolicus Mutl Endonuclease Domain with A Single Zinc Ion.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Aquifex Aeolicus Mutl Endonuclease Domain with A Single Zinc Ion. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg203 b:46.1 occ:1.00 ND2 A:ASN75 2.9 38.6 1.0 O A:GLU74 3.2 33.8 1.0 MG A:MG202 3.3 26.7 1.0 CA A:ASN75 3.7 24.1 1.0 CG A:ASN75 3.9 36.9 1.0 CD2 A:HIS77 3.9 29.2 1.0 CB A:ASN75 4.1 27.5 1.0 C A:GLU74 4.2 34.7 1.0 CD A:PRO76 4.3 28.1 1.0 N A:ASN75 4.4 31.9 1.0 NE2 A:HIS77 4.6 31.2 1.0 C A:ASN75 4.7 23.4 1.0 N A:PRO76 4.8 22.9 1.0

K.Fukui, S.Baba, T.Kumasaka, T.Yano. Multiple Zinc Ions Maintain the Open Conformation of the Catalytic Site in the Dna Mismatch Repair Endonuclease Mutl From Aquifex Aeolicus Febs Lett. V. 592 1611 2018.
ISSN: ISSN 1873-3468
PubMed: 29645090
DOI: 10.1002/1873-3468.13050