Magnesium in PDB 6zmd: Crystal Structure of Hype Covalently Tethered to Bip Bound to Amp-Pnp

All present enzymatic activity of Crystal Structure of Hype Covalently Tethered to Bip Bound to Amp-Pnp:
3.6.4.10;

The structure of Crystal Structure of Hype Covalently Tethered to Bip Bound to Amp-Pnp, PDB code: 6zmd was solved by J.Fauser, B.Gulen, C.Pett, C.Hedberg, A.Itzen, V.Pogenberg, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.73 / 2.64
Space group	P 41
Cell size a, b, c (Å), α, β, γ (°)	83.466, 83.466, 169.482, 90, 90, 90
R / Rfree (%)	19.2 / 23.5

The binding sites of Magnesium atom in the Crystal Structure of Hype Covalently Tethered to Bip Bound to Amp-Pnp (pdb code 6zmd). 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 Hype Covalently Tethered to Bip Bound to Amp-Pnp, PDB code: 6zmd:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of Hype Covalently Tethered to Bip Bound to Amp-Pnp


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 Hype Covalently Tethered to Bip Bound to Amp-Pnp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg603 b:44.5 occ:1.00 O A:TYR39 2.1 64.6 1.0 O A:HOH710 2.1 53.6 1.0 O A:HOH733 2.1 50.0 1.0 OD2 A:ASP34 2.2 61.0 1.0 O1B A:ANP601 2.4 49.7 1.0 O2A A:ANP601 2.7 46.0 1.0 C A:TYR39 3.2 53.8 1.0 CG A:ASP34 3.4 54.1 1.0 PB A:ANP601 3.6 50.4 1.0 CA A:GLY36 3.7 44.6 1.0 O A:HOH730 3.8 53.5 1.0 N3B A:ANP601 3.8 48.9 1.0 OD1 A:ASP34 4.0 59.0 1.0 N A:GLY36 4.0 41.6 1.0 CA A:TYR39 4.0 47.4 1.0 PA A:ANP601 4.0 43.4 1.0 CB A:TYR39 4.0 41.1 1.0 N A:SER40 4.1 49.6 1.0 O A:HOH737 4.2 48.1 1.0 N A:TYR39 4.3 47.4 1.0 CA A:SER40 4.3 46.2 1.0 O3A A:ANP601 4.3 48.8 1.0 O A:ASP34 4.6 44.6 1.0 O1A A:ANP601 4.6 46.1 1.0 CB A:ASP34 4.6 47.7 1.0 C A:GLY36 4.8 49.7 1.0 O2B A:ANP601 4.8 51.0 1.0 C A:SER40 4.8 44.7 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of Hype Covalently Tethered to Bip Bound to Amp-Pnp


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 Hype Covalently Tethered to Bip Bound to Amp-Pnp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg604 b:57.1 occ:1.00 O A:HOH701 2.1 60.5 1.0 O A:HOH721 2.1 58.2 1.0 O A:HOH716 2.1 60.1 1.0 OE1 A:GLU201 2.1 75.8 1.0 OD2 A:ASP224 2.2 83.2 1.0 OD1 A:ASP224 2.2 85.2 1.0 CG A:ASP224 2.4 77.9 1.0 O3G A:ANP601 2.5 42.6 1.0 CD A:GLU201 3.3 68.6 1.0 OE2 A:GLU201 3.8 73.5 1.0 CB A:ASP224 3.8 65.5 1.0 PG A:ANP601 3.9 46.4 1.0 O A:ASP224 4.0 61.3 1.0 O A:ALA229 4.1 55.4 1.0 C A:ASP224 4.1 57.3 1.0 N A:GLY226 4.2 46.4 1.0 O1G A:ANP601 4.4 50.6 1.0 C A:ALA229 4.4 50.8 1.0 CG A:GLU201 4.5 64.2 1.0 N3B A:ANP601 4.5 48.9 1.0 CB A:GLU201 4.5 61.7 1.0 CA A:ASP224 4.5 58.1 1.0 N A:LEU225 4.5 54.5 1.0 CA A:GLY226 4.6 44.7 1.0 CB A:ALA229 4.6 46.3 1.0 C A:LEU225 4.8 50.7 1.0 N A:PHE230 4.8 48.2 1.0 OD2 A:ASP231 4.9 53.9 1.0 CA A:LEU225 4.9 52.8 1.0 N A:ASP231 5.0 49.5 1.0

J.Fauser, B.Gulen, V.Pogenberg, C.Pett, D.Pourjafar-Dehkordi, C.Krisp, D.Hopfner, G.Konig, H.Schluter, M.J.Feige, M.Zacharias, C.Hedberg, A.Itzen. Structural Basis For Hype Mediated Ampylation of the Human HSP70 Chaperone Bip Nat Commun 2021.
ISSN: ESSN 2041-1723
DOI: 10.1038/S41467-021-22596-0