Magnesium in PDB 9bp6: Structure of ALPHA1B and Betai/Ivb Microtubule Bound to Gmpcpp

The binding sites of Magnesium atom in the Structure of ALPHA1B and Betai/Ivb Microtubule Bound to Gmpcpp (pdb code 9bp6). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Structure of ALPHA1B and Betai/Ivb Microtubule Bound to Gmpcpp, PDB code: 9bp6:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Structure of ALPHA1B and Betai/Ivb Microtubule Bound to Gmpcpp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of ALPHA1B and Betai/Ivb Microtubule Bound to Gmpcpp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg502 b:113.2 occ:1.00 O1G A:GTP501 2.0 117.3 1.0 O2B A:GTP501 2.0 109.7 1.0 OD1 A:ASP98 2.4 148.1 1.0 O3B A:GTP501 2.6 106.6 1.0 PG A:GTP501 2.6 125.7 1.0 OD2 A:ASP98 2.7 142.7 1.0 PB A:GTP501 2.8 112.0 1.0 CG A:ASP98 2.9 144.5 1.0 O2G A:GTP501 3.1 123.0 1.0 O3A A:GTP501 3.7 110.5 1.0 NZ B:LYS252 3.9 98.7 1.0 OD1 A:ASP69 3.9 106.3 1.0 O1B A:GTP501 4.0 113.0 1.0 OG1 A:THR145 4.0 108.7 1.0 O3G A:GTP501 4.0 120.1 1.0 OE1 A:GLU71 4.2 132.4 1.0 CB A:ASP98 4.4 135.3 1.0 OD2 A:ASP69 4.5 109.7 1.0 CB A:THR145 4.5 101.7 1.0 CB A:GLU71 4.5 127.6 1.0 CG A:ASP69 4.6 105.6 1.0 N A:GLN11 4.8 86.5 1.0 CE B:LYS252 4.9 102.2 1.0 PA A:GTP501 4.9 116.7 1.0

Magnesium binding site 2 out of 4 in the Structure of ALPHA1B and Betai/Ivb Microtubule Bound to Gmpcpp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of ALPHA1B and Betai/Ivb Microtubule Bound to Gmpcpp within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg502 b:123.1 occ:1.00 O3G B:G2P501 2.0 121.3 1.0 O2B B:G2P501 2.1 123.8 1.0 PG B:G2P501 3.3 133.4 1.0 OE1 B:GLU69 3.3 134.6 1.0 PB B:G2P501 3.4 120.8 1.0 O2A B:G2P501 3.6 131.3 1.0 O3B B:G2P501 3.7 127.0 1.0 O2G B:G2P501 3.8 134.2 1.0 CB B:GLN11 4.1 102.6 1.0 N B:GLN11 4.1 102.3 1.0 C3A B:G2P501 4.1 119.8 1.0 OD1 B:ASP67 4.3 120.6 1.0 CD B:GLU69 4.3 134.7 1.0 OE1 B:GLN11 4.3 109.5 1.0 PA B:G2P501 4.3 130.6 1.0 O1G B:G2P501 4.5 131.9 1.0 OD2 B:ASP67 4.5 122.4 1.0 O1B B:G2P501 4.7 125.9 1.0 CA B:GLN11 4.7 104.9 1.0 CG B:ASP67 4.8 120.1 1.0 O1A B:G2P501 4.9 125.8 1.0 O B:GLY96 4.9 135.9 1.0 OG1 B:THR143 4.9 124.1 1.0 CB B:THR143 4.9 113.1 1.0 CA B:GLY10 5.0 96.7 1.0

Magnesium binding site 3 out of 4 in the Structure of ALPHA1B and Betai/Ivb Microtubule Bound to Gmpcpp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of ALPHA1B and Betai/Ivb Microtubule Bound to Gmpcpp within 5.0Å range: probe atom residue distance (Å) B Occ I:Mg502 b:107.0 occ:1.00 O1G I:GTP501 2.0 108.0 1.0 O2B I:GTP501 2.0 101.1 1.0 OE2 I:GLU71 2.2 126.9 1.0 PG I:GTP501 3.0 116.9 1.0 PB I:GTP501 3.0 97.6 1.0 O3B I:GTP501 3.1 98.8 1.0 CD I:GLU71 3.2 127.0 1.0 O2G I:GTP501 3.6 111.7 1.0 CG I:GLU71 3.6 123.9 1.0 OD1 I:ASP69 3.8 111.1 1.0 CB I:ASP98 3.8 121.5 1.0 OG1 I:THR145 3.9 115.3 1.0 NZ Q:LYS252 3.9 95.8 1.0 O1B I:GTP501 4.1 99.7 1.0 O3A I:GTP501 4.2 103.1 1.0 O3G I:GTP501 4.2 110.6 1.0 OD2 I:ASP69 4.3 104.4 1.0 OE1 I:GLU71 4.3 121.0 1.0 CB I:THR145 4.4 106.5 1.0 CG I:ASP69 4.5 108.5 1.0 OD2 I:ASP98 4.7 130.0 1.0 CG I:ASP98 4.8 128.4 1.0 CA I:ASP98 4.8 118.0 1.0 N I:GLN11 4.8 90.1 1.0 CB I:GLU71 4.9 120.0 1.0 CE Q:LYS252 4.9 99.6 1.0

Magnesium binding site 4 out of 4 in the Structure of ALPHA1B and Betai/Ivb Microtubule Bound to Gmpcpp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of ALPHA1B and Betai/Ivb Microtubule Bound to Gmpcpp within 5.0Å range: probe atom residue distance (Å) B Occ Q:Mg502 b:115.8 occ:1.00 O3G Q:G2P501 2.0 115.2 1.0 O2B Q:G2P501 2.0 116.6 1.0 OE2 Q:GLU69 2.0 134.2 1.0 CD Q:GLU69 3.2 133.6 1.0 PB Q:G2P501 3.2 117.9 1.0 PG Q:G2P501 3.3 122.2 1.0 O3B Q:G2P501 3.6 111.5 1.0 C3A Q:G2P501 4.0 110.7 1.0 N Q:GLN11 4.0 94.6 1.0 CG Q:GLU69 4.1 130.6 1.0 O2G Q:G2P501 4.1 120.4 1.0 OD2 Q:ASP67 4.1 116.3 1.0 OE1 Q:GLU69 4.1 131.2 1.0 CB Q:GLN11 4.1 92.2 1.0 OD1 Q:ASP67 4.1 116.7 1.0 O1G Q:G2P501 4.4 123.5 1.0 O2A Q:G2P501 4.4 117.3 1.0 O1B Q:G2P501 4.5 121.3 1.0 PA Q:G2P501 4.5 114.4 1.0 CG Q:ASP67 4.5 115.9 1.0 O1A Q:G2P501 4.6 117.7 1.0 OE1 Q:GLN11 4.6 105.8 1.0 CA Q:GLN11 4.7 91.2 1.0 CA Q:GLY10 4.8 93.5 1.0 O Q:GLY96 4.8 122.9 1.0 OG1 Q:THR143 4.9 126.4 1.0 C Q:GLY10 4.9 96.5 1.0

E.A.Zehr, A.Roll-Mecak. Cryo-Em Structures of Human Alpha 1B/ Beta I+ Beta Ivb Microtubules Shed Light on Isoform Specific Assembly Biorxiv 2023.
ISSN: ISSN 2692-8205
DOI: 10.1101/2023.12.01.569594