Magnesium in PDB 6b4j: Crystal Structure of Human GLE1 Ctd-NUP42 Gbm-DDX19B(Amppnp) Complex

All present enzymatic activity of Crystal Structure of Human GLE1 Ctd-NUP42 Gbm-DDX19B(Amppnp) Complex:
3.6.4.13;

The structure of Crystal Structure of Human GLE1 Ctd-NUP42 Gbm-DDX19B(Amppnp) Complex, PDB code: 6b4j was solved by D.H.Lin, A.R.Correia, S.W.Cai, F.M.Huber, C.A.Jette, A.Hoelz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.43 / 3.40
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	87.940, 73.560, 145.860, 90.00, 95.07, 90.00
R / Rfree (%)	26.1 / 31.3

The binding sites of Magnesium atom in the Crystal Structure of Human GLE1 Ctd-NUP42 Gbm-DDX19B(Amppnp) Complex (pdb code 6b4j). 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 Human GLE1 Ctd-NUP42 Gbm-DDX19B(Amppnp) Complex, PDB code: 6b4j:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of Human GLE1 Ctd-NUP42 Gbm-DDX19B(Amppnp) Complex


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 Human GLE1 Ctd-NUP42 Gbm-DDX19B(Amppnp) Complex within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg503 b:86.1 occ:1.00 HZ3 E:LYS64 1.7 0.6 1.0 HZ1 E:LYS64 1.7 0.6 1.0 OG1 E:THR145 1.8 93.6 1.0 O2G E:ANP504 2.0 0.8 1.0 NZ E:LYS64 2.0 0.8 1.0 HOG2 E:ANP504 2.3 0.2 1.0 HZ2 E:LYS64 2.6 0.6 1.0 CB E:THR145 3.0 0.4 1.0 HE2 E:LYS64 3.1 0.1 1.0 CE E:LYS64 3.2 0.2 1.0 HB E:THR145 3.3 0.5 1.0 PG E:ANP504 3.3 0.5 1.0 OD2 E:ASP242 3.3 0.7 1.0 HG21 E:THR145 3.4 0.2 1.0 OE2 E:GLU243 3.6 0.2 1.0 N3B E:ANP504 3.7 98.8 1.0 CG2 E:THR145 3.7 95.2 1.0 HE3 E:LYS64 3.8 0.1 1.0 O1B E:ANP504 3.8 86.1 1.0 HG23 E:THR145 3.8 0.2 1.0 HNB1 E:ANP504 3.9 0.6 1.0 H E:THR145 4.0 0.7 1.0 HOA2 E:ANP504 4.0 0.0 1.0 OD1 E:ASP242 4.1 0.5 1.0 O1G E:ANP504 4.1 96.0 1.0 CG E:ASP242 4.1 0.5 1.0 HD2 E:LYS64 4.2 0.6 1.0 CA E:THR145 4.2 93.5 1.0 O2A E:ANP504 4.2 84.2 1.0 HG3 E:GLU243 4.2 0.4 1.0 CD E:LYS64 4.2 88.0 1.0 HA E:THR145 4.3 0.2 1.0 HD3 E:LYS64 4.3 0.6 1.0 N E:THR145 4.4 92.2 1.0 O3G E:ANP504 4.4 0.9 1.0 PB E:ANP504 4.5 87.6 1.0 HE2 E:PHE148 4.5 0.6 1.0 CD E:GLU243 4.5 0.7 1.0 HG2 E:GLU243 4.6 0.4 1.0 HG22 E:THR145 4.6 0.2 1.0 CG E:GLU243 4.7 0.9 1.0 OG1 E:THR178 4.7 91.0 1.0 HG1 E:THR178 4.8 0.1 1.0 O2B E:ANP504 4.8 95.3 1.0 HB2 E:LYS144 4.8 0.3 1.0 HOG3 E:ANP504 4.9 0.7 1.0 PA E:ANP504 5.0 84.5 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of Human GLE1 Ctd-NUP42 Gbm-DDX19B(Amppnp) Complex


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 Human GLE1 Ctd-NUP42 Gbm-DDX19B(Amppnp) Complex within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg503 b:76.8 occ:1.00 HOG2 F:ANP504 1.7 0.2 1.0 OG1 F:THR145 1.9 83.0 1.0 O2G F:ANP504 2.0 95.1 1.0 OD1 F:ASP242 2.9 1.0 1.0 HZ1 F:LYS64 2.9 0.6 1.0 HZ3 F:LYS64 3.2 0.6 1.0 CB F:THR145 3.2 91.9 1.0 H F:THR145 3.3 1.0 1.0 OD2 F:ASP242 3.3 0.3 1.0 HB2 F:LYS144 3.4 0.8 1.0 PG F:ANP504 3.4 88.2 1.0 NZ F:LYS64 3.5 0.7 1.0 CG F:ASP242 3.5 0.7 1.0 O1B F:ANP504 3.5 89.3 1.0 N F:THR145 3.6 94.2 1.0 HE2 F:LYS144 3.6 0.6 1.0 HA F:THR145 3.6 0.8 1.0 CA F:THR145 3.7 95.7 1.0 HE2 F:PHE148 3.7 0.9 1.0 HB F:THR145 3.8 0.2 1.0 O3G F:ANP504 3.8 0.5 1.0 HG3 F:GLU243 3.8 0.5 1.0 HG2 F:GLU243 3.9 0.5 1.0 HOG3 F:ANP504 3.9 0.6 1.0 HZ2 F:LYS64 4.0 0.6 1.0 N3B F:ANP504 4.0 81.2 1.0 HG23 F:THR145 4.1 0.1 1.0 O2B F:ANP504 4.1 98.9 1.0 CG2 F:THR145 4.2 90.9 1.0 CB F:LYS144 4.2 97.3 1.0 HB3 F:LYS144 4.2 0.8 1.0 CG F:GLU243 4.3 0.8 1.0 OE2 F:GLU243 4.3 0.5 1.0 HG21 F:THR145 4.3 0.1 1.0 HE2 F:LYS64 4.4 0.2 1.0 PB F:ANP504 4.4 83.1 1.0 C F:LYS144 4.4 97.1 1.0 O1G F:ANP504 4.5 94.1 1.0 CE F:LYS64 4.6 0.7 1.0 CE F:LYS144 4.6 0.0 1.0 CE2 F:PHE148 4.6 93.3 1.0 CD F:GLU243 4.8 0.2 1.0 HZ1 F:LYS144 4.8 0.6 1.0 HNB1 F:ANP504 4.8 97.4 1.0 H F:GLU243 4.8 0.8 1.0 HZ3 F:LYS144 4.8 0.6 1.0 O2A F:ANP504 4.8 0.3 1.0 HOA2 F:ANP504 4.9 1.0 1.0 CA F:LYS144 4.9 97.1 1.0 HOB2 F:ANP504 4.9 0.7 1.0 NZ F:LYS144 5.0 0.7 1.0 CB F:ASP242 5.0 0.0 1.0

D.H.Lin, A.R.Correia, S.W.Cai, F.M.Huber, C.A.Jette, A.Hoelz. Structural and Functional Analysis of Mrna Export Regulation By the Nuclear Pore Complex. Nat Commun V. 9 2319 2018.
ISSN: ESSN 2041-1723
PubMed: 29899397
DOI: 10.1038/S41467-018-04459-3