Magnesium in PDB 7mo4: Crystal Structure of the ZNF3 of Nucleoporin NUP153 in Complex with Ran-Gdp, Resolution 2.4 Angstrom

The structure of Crystal Structure of the ZNF3 of Nucleoporin NUP153 in Complex with Ran-Gdp, Resolution 2.4 Angstrom, PDB code: 7mo4 was solved by C.J.Bley, S.Nie, G.W.Mobbs, S.Petrovic, A.T.Gres, X.Liu, S.Mukherjee, S.Harvey, F.M.Huber, D.H.Lin, B.Brown, A.W.Tang, E.J.Rundlet, A.R.Correia, S.Chen, S.G.Regmi, T.A.Stevens, C.A.Jette, M.Dasso, A.Patke, A.F.Palazzo, A.A.Kossiakoff, A.Hoelz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.44 / 2.40
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	67.66, 61.24, 69.75, 90, 104.04, 90
R / Rfree (%)	21.4 / 23.7

The structure of Crystal Structure of the ZNF3 of Nucleoporin NUP153 in Complex with Ran-Gdp, Resolution 2.4 Angstrom also contains other interesting chemical elements:

Zinc

(Zn)

2 atoms

The binding sites of Magnesium atom in the Crystal Structure of the ZNF3 of Nucleoporin NUP153 in Complex with Ran-Gdp, Resolution 2.4 Angstrom (pdb code 7mo4). 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 the ZNF3 of Nucleoporin NUP153 in Complex with Ran-Gdp, Resolution 2.4 Angstrom, PDB code: 7mo4:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of the ZNF3 of Nucleoporin NUP153 in Complex with Ran-Gdp, Resolution 2.4 Angstrom


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 the ZNF3 of Nucleoporin NUP153 in Complex with Ran-Gdp, Resolution 2.4 Angstrom within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg302 b:61.5 occ:1.00 O2B A:GDP301 2.0 63.1 1.0 O A:HOH501 2.0 62.5 1.0 O A:HOH503 2.0 59.2 1.0 O A:HOH502 2.0 60.7 1.0 OG1 A:THR24 2.1 62.9 1.0 O A:HOH505 2.2 62.1 1.0 HB A:THR24 3.2 75.9 1.0 PB A:GDP301 3.2 55.0 1.0 CB A:THR24 3.2 61.7 1.0 O1B A:GDP301 3.4 64.4 1.0 H A:THR24 3.5 69.7 1.0 O1A A:GDP301 3.8 60.5 1.0 O A:THR66 4.0 62.7 1.0 N A:THR24 4.0 56.5 1.0 HG21 A:THR24 4.1 75.6 1.0 HB2 A:LYS23 4.1 77.6 1.0 O3B A:GDP301 4.1 63.9 1.0 CA A:THR24 4.2 61.9 1.0 OD2 A:ASP65 4.2 61.1 1.0 OE2 A:GLU70 4.2 66.6 1.0 OG1 A:THR66 4.2 64.5 1.0 CG2 A:THR24 4.3 61.4 1.0 HG1 A:THR66 4.3 79.3 1.0 OD1 A:ASP65 4.3 62.2 1.0 O3A A:GDP301 4.4 66.3 1.0 H A:GLY68 4.4 80.0 1.0 HA2 A:GLY68 4.5 82.6 1.0 HA A:THR24 4.5 76.2 1.0 PA A:GDP301 4.5 60.6 1.0 HZ3 A:LYS23 4.5 80.6 1.0 O A:HOH511 4.6 62.4 1.0 HE2 A:LYS23 4.6 80.2 1.0 CG A:ASP65 4.7 62.0 1.0 HZ1 A:LYS23 4.7 80.6 1.0 O2A A:GDP301 4.7 65.5 1.0 O A:HOH518 4.7 62.5 1.0 N A:GLY68 4.7 65.0 1.0 HG23 A:THR24 4.8 75.6 1.0 C A:THR66 4.8 63.7 1.0 H A:THR66 5.0 78.1 1.0 HG22 A:THR24 5.0 75.6 1.0 NZ A:LYS23 5.0 65.6 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of the ZNF3 of Nucleoporin NUP153 in Complex with Ran-Gdp, Resolution 2.4 Angstrom


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 the ZNF3 of Nucleoporin NUP153 in Complex with Ran-Gdp, Resolution 2.4 Angstrom within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg302 b:97.3 occ:1.00 O1B C:GDP301 2.0 96.5 1.0 OG1 C:THR24 2.1 98.5 1.0 O C:HOH501 2.1 104.3 1.0 O C:HOH505 2.1 107.8 1.0 O C:HOH503 2.1 104.4 1.0 O C:HOH502 2.2 116.8 1.0 HB C:THR24 3.1 117.2 1.0 CB C:THR24 3.2 96.1 1.0 PB C:GDP301 3.2 95.4 1.0 O2B C:GDP301 3.4 91.9 1.0 H C:THR24 3.4 115.5 1.0 O1A C:GDP301 3.9 93.8 1.0 O C:THR66 4.0 120.3 1.0 N C:THR24 4.0 94.6 1.0 HG21 C:THR24 4.0 114.1 1.0 OD2 C:ASP65 4.0 104.5 1.0 O3B C:GDP301 4.1 88.0 1.0 CA C:THR24 4.2 93.1 1.0 HB2 C:LYS23 4.2 120.0 1.0 CG2 C:THR24 4.2 93.5 1.0 O3A C:GDP301 4.4 93.2 1.0 OE2 C:GLU70 4.4 125.7 1.0 OD1 C:ASP65 4.4 104.4 1.0 OG1 C:THR66 4.4 125.0 1.0 HA C:THR24 4.5 113.6 1.0 HZ3 C:LYS23 4.5 129.5 1.0 HE2 C:LYS23 4.5 128.6 1.0 HZ1 C:LYS23 4.5 129.5 1.0 PA C:GDP301 4.6 89.3 1.0 CG C:ASP65 4.6 104.3 1.0 H C:GLY68 4.6 161.3 1.0 HG23 C:THR24 4.7 114.1 1.0 HG1 C:THR66 4.7 151.8 1.0 O2A C:GDP301 4.8 83.0 1.0 C C:THR66 4.8 123.6 1.0 HA2 C:GLY68 4.8 159.5 1.0 N C:GLY68 4.9 132.8 1.0 NZ C:LYS23 4.9 106.3 1.0 HG22 C:THR24 4.9 114.1 1.0 HA C:ALA67 4.9 160.3 1.0

C.J.Bley, S.Nie, G.W.Mobbs, S.Petrovic, A.T.Gres, X.Liu, S.Mukherjee, S.Harvey, F.M.Huber, D.H.Lin, B.Brown, A.W.Tang, E.J.Rundlet, A.R.Correia, S.Chen, S.G.Regmi, T.A.Stevens, C.A.Jette, M.Dasso, A.Patke, A.F.Palazzo, A.A.Kossiakoff, A.Hoelz. Architecture of the Cytoplasmic Face of the Nuclear Pore. Science V. 376 M9129 2022.
ISSN: ESSN 1095-9203
PubMed: 35679405
DOI: 10.1126/SCIENCE.ABM9129