Magnesium in PDB 9g0s: Xenopus Tropicalis Undecorated Microtubule - 14 Protofilament, 3-Start Helix

The binding sites of Magnesium atom in the Xenopus Tropicalis Undecorated Microtubule - 14 Protofilament, 3-Start Helix (pdb code 9g0s). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the Xenopus Tropicalis Undecorated Microtubule - 14 Protofilament, 3-Start Helix, PDB code: 9g0s:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in the Xenopus Tropicalis Undecorated Microtubule - 14 Protofilament, 3-Start Helix


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Xenopus Tropicalis Undecorated Microtubule - 14 Protofilament, 3-Start Helix within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg501 b:9.1 occ:1.00 OE1 a:GLU70 1.6 86.8 1.0 O1B a:GTP502 2.0 9.3 1.0 O1G a:GTP502 2.2 9.7 1.0 CD a:GLU70 2.3 86.8 1.0 OE2 a:GLU70 2.5 86.8 1.0 HB2 a:GLN11 2.5 84.9 1.0 OE1 a:GLN11 3.2 84.9 1.0 PB a:GTP502 3.2 9.3 1.0 PG a:GTP502 3.3 9.5 1.0 CB a:GLN11 3.4 84.9 1.0 H a:GLN11 3.4 84.9 1.0 HB3 a:GLN11 3.4 84.9 1.0 CG a:GLU70 3.6 86.8 1.0 HZ2 A:LYS252 3.6 80.0 1.0 OD2 a:ASP97 3.6 88.1 1.0 HG2 a:GLU70 3.7 86.8 1.0 O3B a:GTP502 3.7 9.4 1.0 O2G a:GTP502 3.7 9.7 1.0 O3A a:GTP502 3.9 9.2 1.0 N a:GLN11 4.0 84.9 1.0 OD1 a:ASP68 4.1 86.4 1.0 CD a:GLN11 4.1 84.9 1.0 HE3 A:LYS252 4.1 80.0 1.0 HG3 a:GLU70 4.2 86.8 1.0 HG21 a:VAL73 4.2 85.2 1.0 CA a:GLN11 4.2 84.9 1.0 HB3 a:GLU70 4.3 86.8 1.0 CG a:GLN11 4.3 84.9 1.0 CG a:ASP97 4.4 88.1 1.0 NZ A:LYS252 4.4 80.0 1.0 OD2 a:ASP68 4.4 86.4 1.0 OD1 a:ASP97 4.4 88.1 1.0 HE2 A:LYS252 4.4 80.0 1.0 O2B a:GTP502 4.5 9.2 1.0 HA a:GLN11 4.5 84.9 1.0 HB a:THR144 4.5 87.2 1.0 HG23 a:VAL73 4.5 85.2 1.0 CE A:LYS252 4.6 80.0 1.0 CB a:GLU70 4.6 86.8 1.0 O1A a:GTP502 4.6 9.0 1.0 O3G a:GTP502 4.7 9.7 1.0 CG a:ASP68 4.7 86.4 1.0 HG1 a:THR144 4.7 87.2 1.0 HZ3 A:LYS252 4.7 80.0 1.0 HA2 a:GLY10 4.8 86.2 1.0 PA a:GTP502 4.8 9.1 1.0 HG3 a:GLN11 4.8 84.9 1.0 CG2 a:VAL73 4.8 85.2 1.0 HB2 A:ASN247 5.0 79.3 1.0

Magnesium binding site 2 out of 6 in the Xenopus Tropicalis Undecorated Microtubule - 14 Protofilament, 3-Start Helix


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Xenopus Tropicalis Undecorated Microtubule - 14 Protofilament, 3-Start Helix within 5.0Å range: probe atom residue distance (Å) B Occ b:Mg501 b:8.6 occ:1.00 OE1 b:GLU70 1.8 86.8 1.0 O1B b:GTP502 2.0 8.7 1.0 O1G b:GTP502 2.3 9.1 1.0 CD b:GLU70 2.3 86.8 1.0 OE2 b:GLU70 2.4 86.8 1.0 HB2 b:GLN11 2.5 84.9 1.0 OE1 b:GLN11 2.9 84.9 1.0 PB b:GTP502 3.3 8.7 1.0 CB b:GLN11 3.3 84.9 1.0 HB3 b:GLN11 3.3 84.9 1.0 PG b:GTP502 3.4 8.9 1.0 HZ2 B:LYS252 3.4 80.0 1.0 OD2 b:ASP97 3.6 88.1 1.0 H b:GLN11 3.6 84.9 1.0 O3B b:GTP502 3.7 8.8 1.0 CG b:GLU70 3.7 86.8 1.0 O2G b:GTP502 3.8 9.1 1.0 HE3 B:LYS252 3.8 80.0 1.0 CD b:GLN11 3.9 84.9 1.0 O3A b:GTP502 3.9 8.6 1.0 HG2 b:GLU70 3.9 86.8 1.0 NZ B:LYS252 4.2 80.0 1.0 CG b:GLN11 4.2 84.9 1.0 HG21 b:VAL73 4.2 85.2 1.0 N b:GLN11 4.2 84.9 1.0 HE2 B:LYS252 4.2 80.0 1.0 HG3 b:GLU70 4.3 86.8 1.0 CE B:LYS252 4.3 80.0 1.0 CA b:GLN11 4.3 84.9 1.0 HB3 b:GLU70 4.4 86.8 1.0 CG b:ASP97 4.4 88.1 1.0 OD1 b:ASP68 4.4 86.4 1.0 HZ3 B:LYS252 4.4 80.0 1.0 O2B b:GTP502 4.5 8.7 1.0 OD1 b:ASP97 4.5 88.1 1.0 HG23 b:VAL73 4.5 85.2 1.0 O1A b:GTP502 4.5 8.5 1.0 HA b:GLN11 4.6 84.9 1.0 OD2 b:ASP68 4.7 86.4 1.0 HB2 B:ASN247 4.7 79.3 1.0 CB b:GLU70 4.7 86.8 1.0 O3G b:GTP502 4.7 9.1 1.0 HG3 b:GLN11 4.7 84.9 1.0 PA b:GTP502 4.8 8.5 1.0 CG2 b:VAL73 4.8 85.2 1.0 HZ1 B:LYS252 4.8 80.0 1.0 HG2 b:GLN11 4.9 84.9 1.0 HB b:THR144 4.9 87.2 1.0 HD21 B:ASN247 4.9 79.3 1.0

Magnesium binding site 3 out of 6 in the Xenopus Tropicalis Undecorated Microtubule - 14 Protofilament, 3-Start Helix


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Xenopus Tropicalis Undecorated Microtubule - 14 Protofilament, 3-Start Helix within 5.0Å range: probe atom residue distance (Å) B Occ c:Mg501 b:10.3 occ:1.00 OE1 c:GLU70 1.6 86.8 1.0 O1B c:GTP502 2.0 10.6 1.0 CD c:GLU70 2.0 86.8 1.0 OE2 c:GLU70 2.1 86.8 1.0 O1G c:GTP502 2.3 10.9 1.0 HB2 c:GLN11 2.5 84.9 1.0 OE1 c:GLN11 2.8 84.9 1.0 PB c:GTP502 3.2 10.5 1.0 CB c:GLN11 3.4 84.9 1.0 PG c:GTP502 3.4 10.8 1.0 CG c:GLU70 3.4 86.8 1.0 HB3 c:GLN11 3.5 84.9 1.0 OD2 c:ASP97 3.5 88.1 1.0 HZ2 C:LYS252 3.6 80.0 1.0 HG2 c:GLU70 3.6 86.8 1.0 O3B c:GTP502 3.7 10.7 1.0 H c:GLN11 3.7 84.9 1.0 O2G c:GTP502 3.8 10.9 1.0 CD c:GLN11 3.8 84.9 1.0 HE3 C:LYS252 3.9 80.0 1.0 O3A c:GTP502 3.9 10.5 1.0 HG3 c:GLU70 3.9 86.8 1.0 HG21 c:VAL73 4.0 85.2 1.0 HB3 c:GLU70 4.2 86.8 1.0 CG c:GLN11 4.2 84.9 1.0 HG23 c:VAL73 4.2 85.2 1.0 N c:GLN11 4.3 84.9 1.0 HE2 C:LYS252 4.3 80.0 1.0 OD1 c:ASP68 4.3 86.4 1.0 NZ C:LYS252 4.3 80.0 1.0 CG c:ASP97 4.4 88.1 1.0 CA c:GLN11 4.4 84.9 1.0 CE C:LYS252 4.4 80.0 1.0 CB c:GLU70 4.4 86.8 1.0 OD2 c:ASP68 4.4 86.4 1.0 O2B c:GTP502 4.5 10.5 1.0 HB2 C:ASN247 4.5 79.3 1.0 O1A c:GTP502 4.5 10.4 1.0 OD1 c:ASP97 4.5 88.1 1.0 CG2 c:VAL73 4.6 85.2 1.0 HA c:GLN11 4.6 84.9 1.0 HZ3 C:LYS252 4.6 80.0 1.0 HG3 c:GLN11 4.6 84.9 1.0 HD21 C:ASN247 4.7 79.3 1.0 O3G c:GTP502 4.7 10.9 1.0 PA c:GTP502 4.7 10.4 1.0 HB2 c:GLU70 4.8 86.8 1.0 CG c:ASP68 4.8 86.4 1.0 HG2 c:GLN11 4.9 84.9 1.0 HG22 c:VAL73 4.9 85.2 1.0 NE2 c:GLN11 5.0 84.9 1.0

Magnesium binding site 4 out of 6 in the Xenopus Tropicalis Undecorated Microtubule - 14 Protofilament, 3-Start Helix


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Xenopus Tropicalis Undecorated Microtubule - 14 Protofilament, 3-Start Helix within 5.0Å range: probe atom residue distance (Å) B Occ d:Mg502 b:6.4 occ:1.00 OE1 d:GLU70 1.4 86.8 1.0 CD d:GLU70 2.0 86.8 1.0 O1B d:GTP501 2.0 6.7 1.0 OE2 d:GLU70 2.3 86.8 1.0 O1G d:GTP501 2.4 6.9 1.0 HB2 d:GLN11 2.5 84.9 1.0 OE1 d:GLN11 3.3 84.9 1.0 CG d:GLU70 3.3 86.8 1.0 PB d:GTP501 3.3 6.7 1.0 HG2 d:GLU70 3.4 86.8 1.0 CB d:GLN11 3.4 84.9 1.0 H d:GLN11 3.5 84.9 1.0 PG d:GTP501 3.5 6.8 1.0 OD2 d:ASP97 3.6 88.1 1.0 HB3 d:GLN11 3.6 84.9 1.0 OD1 d:ASP68 3.8 86.4 1.0 O3B d:GTP501 3.8 6.8 1.0 O2G d:GTP501 3.9 6.9 1.0 HG3 d:GLU70 3.9 86.8 1.0 HZ2 D:LYS252 3.9 80.0 1.0 HB3 d:GLU70 4.0 86.8 1.0 N d:GLN11 4.0 84.9 1.0 O3A d:GTP501 4.0 6.6 1.0 HG21 d:VAL73 4.1 85.2 1.0 OD2 d:ASP68 4.1 86.4 1.0 CD d:GLN11 4.2 84.9 1.0 CA d:GLN11 4.3 84.9 1.0 CB d:GLU70 4.3 86.8 1.0 HE3 D:LYS252 4.3 80.0 1.0 CG d:ASP97 4.3 88.1 1.0 HG23 d:VAL73 4.3 85.2 1.0 OD1 d:ASP97 4.4 88.1 1.0 CG d:GLN11 4.4 84.9 1.0 CG d:ASP68 4.4 86.4 1.0 HA d:GLN11 4.4 84.9 1.0 HB d:THR144 4.5 87.2 1.0 O2B d:GTP501 4.5 6.6 1.0 HE2 D:LYS252 4.6 80.0 1.0 HG1 d:THR144 4.6 87.2 1.0 NZ D:LYS252 4.6 80.0 1.0 CG2 d:VAL73 4.7 85.2 1.0 O1A d:GTP501 4.7 6.5 1.0 HA2 d:GLY10 4.7 86.2 1.0 CE D:LYS252 4.7 80.0 1.0 H d:GLU70 4.7 86.8 1.0 HB2 d:GLU70 4.8 86.8 1.0 O3G d:GTP501 4.8 6.9 1.0 HG3 d:GLN11 4.8 84.9 1.0 PA d:GTP501 4.9 6.5 1.0 OG1 d:THR144 4.9 87.2 1.0

Magnesium binding site 5 out of 6 in the Xenopus Tropicalis Undecorated Microtubule - 14 Protofilament, 3-Start Helix


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Xenopus Tropicalis Undecorated Microtubule - 14 Protofilament, 3-Start Helix within 5.0Å range: probe atom residue distance (Å) B Occ e:Mg502 b:6.1 occ:1.00 OE1 e:GLU70 1.5 86.8 1.0 CD e:GLU70 2.0 86.8 1.0 O1B e:GTP501 2.0 6.3 1.0 OE2 e:GLU70 2.2 86.8 1.0 O1G e:GTP501 2.4 6.5 1.0 HB2 e:GLN11 2.5 84.9 1.0 OE1 e:GLN11 3.0 84.9 1.0 CB e:GLN11 3.4 84.9 1.0 PB e:GTP501 3.4 6.3 1.0 CG e:GLU70 3.4 86.8 1.0 HB3 e:GLN11 3.5 84.9 1.0 OD2 e:ASP97 3.5 88.1 1.0 HG2 e:GLU70 3.6 86.8 1.0 PG e:GTP501 3.6 6.5 1.0 H e:GLN11 3.6 84.9 1.0 HZ2 E:LYS252 3.7 80.0 1.0 O3B e:GTP501 3.9 6.4 1.0 O2G e:GTP501 3.9 6.6 1.0 HG3 e:GLU70 4.0 86.8 1.0 CD e:GLN11 4.0 84.9 1.0 HE3 E:LYS252 4.0 80.0 1.0 HG21 e:VAL73 4.1 85.2 1.0 O3A e:GTP501 4.1 6.3 1.0 OD1 e:ASP68 4.1 86.4 1.0 HB3 e:GLU70 4.1 86.8 1.0 N e:GLN11 4.1 84.9 1.0 CG e:GLN11 4.3 84.9 1.0 CA e:GLN11 4.3 84.9 1.0 CG e:ASP97 4.3 88.1 1.0 HG23 e:VAL73 4.3 85.2 1.0 OD2 e:ASP68 4.3 86.4 1.0 CB e:GLU70 4.4 86.8 1.0 HE2 E:LYS252 4.4 80.0 1.0 OD1 e:ASP97 4.4 88.1 1.0 NZ E:LYS252 4.4 80.0 1.0 CE E:LYS252 4.5 80.0 1.0 HA e:GLN11 4.5 84.9 1.0 O2B e:GTP501 4.5 6.3 1.0 CG2 e:VAL73 4.6 85.2 1.0 CG e:ASP68 4.7 86.4 1.0 O1A e:GTP501 4.7 6.2 1.0 HB e:THR144 4.7 87.2 1.0 HG3 e:GLN11 4.7 84.9 1.0 HB2 E:ASN247 4.8 79.3 1.0 HZ3 E:LYS252 4.8 80.0 1.0 HB2 e:GLU70 4.8 86.8 1.0 O3G e:GTP501 4.9 6.5 1.0 HG1 e:THR144 4.9 87.2 1.0 HD21 E:ASN247 4.9 79.3 1.0 PA e:GTP501 4.9 6.2 1.0 HA2 e:GLY10 5.0 86.2 1.0 H e:GLU70 5.0 86.8 1.0 HG2 e:GLN11 5.0 84.9 1.0

Magnesium binding site 6 out of 6 in the Xenopus Tropicalis Undecorated Microtubule - 14 Protofilament, 3-Start Helix


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Xenopus Tropicalis Undecorated Microtubule - 14 Protofilament, 3-Start Helix within 5.0Å range: probe atom residue distance (Å) B Occ f:Mg502 b:7.4 occ:1.00 OE1 f:GLU70 1.4 86.8 1.0 CD f:GLU70 1.8 86.8 1.0 OE2 f:GLU70 1.9 86.8 1.0 O1B f:GTP501 2.0 7.7 1.0 O1G f:GTP501 2.5 7.9 1.0 HB2 f:GLN11 2.5 84.9 1.0 OE1 f:GLN11 2.8 84.9 1.0 CG f:GLU70 3.2 86.8 1.0 PB f:GTP501 3.4 7.7 1.0 CB f:GLN11 3.4 84.9 1.0 HG2 f:GLU70 3.4 86.8 1.0 OD2 f:ASP97 3.5 88.1 1.0 HB3 f:GLN11 3.6 84.9 1.0 PG f:GTP501 3.6 7.8 1.0 HG3 f:GLU70 3.7 86.8 1.0 H f:GLN11 3.8 84.9 1.0 CD f:GLN11 3.8 84.9 1.0 HZ2 F:LYS252 3.8 80.0 1.0 HG21 f:VAL73 3.8 85.2 1.0 O3B f:GTP501 3.9 7.7 1.0 O2G f:GTP501 3.9 7.9 1.0 HB3 f:GLU70 4.0 86.8 1.0 HE3 F:LYS252 4.0 80.0 1.0 HG23 f:VAL73 4.0 85.2 1.0 O3A f:GTP501 4.1 7.7 1.0 OD1 f:ASP68 4.2 86.4 1.0 CG f:GLN11 4.2 84.9 1.0 CB f:GLU70 4.2 86.8 1.0 OD2 f:ASP68 4.3 86.4 1.0 N f:GLN11 4.3 84.9 1.0 CG f:ASP97 4.3 88.1 1.0 CA f:GLN11 4.4 84.9 1.0 CG2 f:VAL73 4.4 85.2 1.0 HE2 F:LYS252 4.4 80.0 1.0 HB2 F:ASN247 4.5 79.3 1.0 CE F:LYS252 4.5 80.0 1.0 NZ F:LYS252 4.5 80.0 1.0 OD1 f:ASP97 4.5 88.1 1.0 HA f:GLN11 4.5 84.9 1.0 O2B f:GTP501 4.5 7.7 1.0 HD21 F:ASN247 4.6 79.3 1.0 HB2 f:GLU70 4.6 86.8 1.0 HG3 f:GLN11 4.6 84.9 1.0 O1A f:GTP501 4.7 7.6 1.0 CG f:ASP68 4.7 86.4 1.0 HG22 f:VAL73 4.8 85.2 1.0 HZ3 F:LYS252 4.8 80.0 1.0 PA f:GTP501 4.9 7.6 1.0 O3G f:GTP501 4.9 7.9 1.0 H f:GLU70 4.9 86.8 1.0 HG2 f:GLN11 4.9 84.9 1.0 NE2 f:GLN11 5.0 84.9 1.0

L.A.Troman, E.De Gaulejac, C.A.Moores, S.Reber. Mechanistic Basis of Temperature Adaptation in Microtubule Dynamics Across Frog Species Current Biology V. 35 1 2025.
DOI: 10.1016/J.CUB.2024.12.022