Magnesium in PDB 5gql: Crystal Structure of Wild Type Cypovirus Polyhedra

The structure of Crystal Structure of Wild Type Cypovirus Polyhedra, PDB code: 5gql was solved by S.Abe, H.Tabe, H.Ijiri, K.Yamashita, K.Hirata, H.Mori, T.Ueno, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	32.68 / 1.78
Space group	I 2 3
Cell size a, b, c (Å), α, β, γ (°)	103.328, 103.328, 103.328, 90.00, 90.00, 90.00
R / Rfree (%)	16.4 / 20.1

The structure of Crystal Structure of Wild Type Cypovirus Polyhedra also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Magnesium atom in the Crystal Structure of Wild Type Cypovirus Polyhedra (pdb code 5gql). 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 Wild Type Cypovirus Polyhedra, PDB code: 5gql:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of Wild Type Cypovirus Polyhedra


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 Wild Type Cypovirus Polyhedra within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg302 b:28.5 occ:1.00 O1A A:ATP305 2.0 26.4 1.0 O3G A:ATP305 2.1 25.7 1.0 O1B A:ATP305 2.1 23.1 1.0 PA A:ATP305 3.3 25.4 1.0 PB A:ATP305 3.3 24.2 1.0 PG A:ATP305 3.4 25.1 1.0 O3A A:ATP305 3.6 24.8 1.0 O3B A:ATP305 3.8 24.3 1.0 NZ A:LYS152 4.0 8.4 1.0 O2A A:ATP305 4.2 28.2 1.0 O1G A:ATP305 4.2 25.3 1.0 O2G A:ATP305 4.5 25.8 1.0 O5' A:ATP305 4.5 27.4 1.0 O2B A:ATP305 4.7 20.8 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of Wild Type Cypovirus Polyhedra


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 Wild Type Cypovirus Polyhedra within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg303 b:27.5 occ:1.00 O A:HOH519 2.1 25.6 1.0 O2B A:CTP304 2.2 24.8 1.0 O2A A:CTP304 2.3 25.0 1.0 O3G A:CTP304 2.4 22.9 1.0 PB A:CTP304 3.4 24.4 1.0 PA A:CTP304 3.4 24.9 1.0 PG A:CTP304 3.5 22.6 1.0 O3A A:CTP304 3.8 25.7 1.0 C5' A:CTP304 3.8 28.9 1.0 O3B A:CTP304 3.9 23.2 1.0 O5' A:CTP304 4.0 27.4 1.0 O2G A:CTP304 4.0 22.3 1.0 OG A:SER79 4.2 12.7 1.0 O3' A:CTP304 4.3 36.2 1.0 C3' A:CTP304 4.3 33.1 1.0 O A:HOH440 4.4 24.5 1.0 O1B A:CTP304 4.7 25.6 1.0 C4' A:CTP304 4.7 32.4 1.0 O1A A:CTP304 4.7 20.9 1.0 O1G A:CTP304 4.8 21.4 1.0

S.Abe, H.Tabe, H.Ijiri, K.Yamashita, K.Hirata, K.Atsumi, T.Shimoi, M.Akai, H.Mori, S.Kitagawa, T.Ueno. Crystal Engineering of Self-Assembled Porous Protein Materials in Living Cells Acs Nano V. 11 2410 2017.
ISSN: ESSN 1936-086X
PubMed: 28094987
DOI: 10.1021/ACSNANO.6B06099