Magnesium in PDB 5eib: Crystal Structure of Cpap PN2-3 C-Terminal Loop-Helix in Complex with Darpin-Tubulin

The structure of Crystal Structure of Cpap PN2-3 C-Terminal Loop-Helix in Complex with Darpin-Tubulin, PDB code: 5eib was solved by H.Li, X.Zheng, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.35 / 2.10
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	73.856, 91.116, 83.310, 90.00, 96.97, 90.00
R / Rfree (%)	17.8 / 22.2

The binding sites of Magnesium atom in the Crystal Structure of Cpap PN2-3 C-Terminal Loop-Helix in Complex with Darpin-Tubulin (pdb code 5eib). 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 Cpap PN2-3 C-Terminal Loop-Helix in Complex with Darpin-Tubulin, PDB code: 5eib:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of Cpap PN2-3 C-Terminal Loop-Helix in Complex with Darpin-Tubulin


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 Cpap PN2-3 C-Terminal Loop-Helix in Complex with Darpin-Tubulin within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg502 b:25.0 occ:1.00 O2G C:GTP501 1.7 13.7 1.0 O C:HOH777 2.0 14.9 1.0 O C:HOH733 2.2 25.0 1.0 O1B C:GTP501 2.3 18.3 1.0 O C:HOH661 2.4 15.6 1.0 O C:HOH666 2.7 25.0 1.0 PG C:GTP501 2.9 19.0 1.0 PB C:GTP501 3.2 16.4 1.0 O3B C:GTP501 3.4 10.8 1.0 O1G C:GTP501 3.5 15.5 1.0 NZ D:LYS254 3.6 28.6 1.0 O3A C:GTP501 3.6 14.9 1.0 O3G C:GTP501 4.1 15.5 1.0 O C:HOH638 4.1 34.5 1.0 OD2 C:ASP98 4.3 28.8 1.0 CB C:GLN11 4.3 15.7 1.0 OD1 C:ASP69 4.3 15.4 1.0 O1A C:GTP501 4.4 20.0 1.0 OE1 C:GLU71 4.5 34.4 1.0 O2B C:GTP501 4.5 14.4 1.0 CB C:ASP98 4.5 17.6 1.0 OD2 C:ASP69 4.6 14.7 1.0 N C:GLN11 4.6 12.7 1.0 PA C:GTP501 4.6 20.0 1.0 CE D:LYS254 4.7 22.3 1.0 CG C:ASP98 4.7 26.3 1.0 CG C:ASP69 4.9 17.9 1.0 OE1 C:GLN11 5.0 29.8 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of Cpap PN2-3 C-Terminal Loop-Helix in Complex with Darpin-Tubulin


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 Cpap PN2-3 C-Terminal Loop-Helix in Complex with Darpin-Tubulin within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg502 b:32.8 occ:1.00 O2G D:GTP501 2.2 29.9 1.0 O D:HOH615 2.2 29.7 1.0 O D:HOH628 2.3 32.0 1.0 O D:HOH610 2.3 43.5 1.0 O1B D:GTP501 2.4 19.9 1.0 O D:HOH625 2.6 33.7 1.0 PG D:GTP501 3.3 33.4 1.0 PB D:GTP501 3.4 18.8 1.0 O3B D:GTP501 3.7 22.5 1.0 O1G D:GTP501 3.8 39.1 1.0 CB D:GLN11 3.9 21.0 1.0 O3A D:GTP501 3.9 23.4 1.0 O1A D:GTP501 3.9 22.0 1.0 O D:HOH767 4.0 46.3 1.0 O D:HOH626 4.0 39.6 1.0 N D:GLN11 4.2 20.3 1.0 OD2 D:ASP69 4.4 33.3 1.0 OE1 D:GLN11 4.4 36.1 1.0 PA D:GTP501 4.5 22.4 1.0 OE1 D:GLU71 4.5 52.1 1.0 O3G D:GTP501 4.6 30.8 1.0 CB D:GLU71 4.6 38.7 1.0 CA D:GLN11 4.6 24.9 1.0 OD1 D:ASP69 4.7 28.9 1.0 O2B D:GTP501 4.7 22.2 1.0

X.Zheng, A.Ramani, K.Soni, M.Gottardo, S.Zheng, L.Ming Gooi, W.Li, S.Feng, A.Mariappan, A.Wason, P.Widlund, A.Pozniakovsky, I.Poser, H.Deng, G.Ou, M.Riparbelli, C.Giuliano, A.A.Hyman, M.Sattler, J.Gopalakrishnan, H.Li. Molecular Basis For Cpap-Tubulin Interaction in Controlling Centriolar and Ciliary Length Nat Commun V. 7 11874 2016.
ISSN: ESSN 2041-1723
PubMed: 27306797
DOI: 10.1038/NCOMMS11874