Magnesium in PDB 7vp0: Crystal Structure of P Domain From Norovirus Gi.9 Capsid Protein.

The structure of Crystal Structure of P Domain From Norovirus Gi.9 Capsid Protein., PDB code: 7vp0 was solved by K.Katsura, N.Sakai, K.Hasegawa, T.Kimura-Someya, M.Shirouzu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.04 / 2.10
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	170.95, 103.55, 76.91, 90, 116.66, 90
R / Rfree (%)	23.7 / 26.9

The binding sites of Magnesium atom in the Crystal Structure of P Domain From Norovirus Gi.9 Capsid Protein. (pdb code 7vp0). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of P Domain From Norovirus Gi.9 Capsid Protein., PDB code: 7vp0:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of P Domain From Norovirus Gi.9 Capsid Protein.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of P Domain From Norovirus Gi.9 Capsid Protein. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg601 b:52.6 occ:1.00 O A:HOH813 2.0 51.8 1.0 O A:HOH816 2.3 42.7 1.0 O A:HOH851 2.3 57.8 1.0 O A:HOH795 2.4 48.7 1.0 OG A:SER322 2.8 52.7 1.0 O A:GLY281 3.4 40.0 1.0 O A:HOH729 3.5 50.4 1.0 CB A:SER322 3.6 48.0 1.0 O A:HOH847 3.6 44.6 1.0 CA A:SER322 4.0 51.7 1.0 O A:GLU321 4.1 52.0 1.0 O A:HOH740 4.2 36.6 1.0 CD A:PRO323 4.3 45.8 1.0 O A:HOH814 4.5 39.8 1.0 OE2 A:GLU321 4.6 61.8 1.0 C A:GLY281 4.6 37.5 1.0 O A:ALA419 4.7 58.9 1.0 OE1 A:GLU321 4.8 65.0 1.0 N A:SER322 4.9 52.8 1.0 C A:GLU321 4.9 51.5 1.0 CD A:GLU321 5.0 64.6 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of P Domain From Norovirus Gi.9 Capsid Protein.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of P Domain From Norovirus Gi.9 Capsid Protein. within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg601 b:50.0 occ:1.00 O B:HOH804 2.1 48.7 1.0 O B:HOH757 2.1 42.8 1.0 O B:HOH818 2.2 52.5 1.0 O B:HOH809 2.3 42.1 1.0 O B:HOH850 2.4 52.3 1.0 OG B:SER322 2.5 49.7 1.0 CB B:SER322 3.7 45.2 1.0 OE2 B:GLU321 3.7 65.8 1.0 OE1 B:GLU321 4.1 61.9 1.0 O B:GLU321 4.2 50.9 1.0 O B:GLY281 4.2 40.3 1.0 O B:HOH772 4.2 35.7 1.0 CD B:GLU321 4.3 64.6 1.0 CA B:SER322 4.3 51.2 1.0 O B:HOH806 4.4 39.5 1.0 O B:HOH851 4.6 46.3 1.0 C B:GLU321 4.8 52.8 1.0 N B:SER322 4.9 53.6 1.0

T.Kimura-Someya, M.Kato-Murayama, K.Katsura, N.Sakai, K.Murayama, K.Hanada, M.Shirouzu, Y.Someya. Lewis Fucose Is A Key Moiety For the Recognition of Histo-Blood Group Antigens By Gi.9 Norovirus, As Revealed By Structural Analysis. Febs Open Bio V. 12 560 2022.
ISSN: ESSN 2211-5463
PubMed: 35038379
DOI: 10.1002/2211-5463.13370