Magnesium in PDB 9f3r: 13PF E254Q Microtubule From Recombinant Human Tubulin Decorated with EB3

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>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Magnesium atom in the 13PF E254Q Microtubule From Recombinant Human Tubulin Decorated with EB3 (pdb code 9f3r). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 12 binding sites of Magnesium where determined in the 13PF E254Q Microtubule From Recombinant Human Tubulin Decorated with EB3, PDB code: 9f3r:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 12 in the 13PF E254Q Microtubule From Recombinant Human Tubulin Decorated with EB3


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of 13PF E254Q Microtubule From Recombinant Human Tubulin Decorated with EB3 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg502 b:31.7 occ:1.00 OE2 A:GLU71 2.0 31.2 1.0 O1B A:GTP501 2.0 28.3 1.0 O3B A:GTP501 2.2 28.3 1.0 OE1 A:GLU71 2.2 31.2 1.0 PB A:GTP501 2.3 28.3 1.0 CD A:GLU71 2.4 31.2 1.0 O2B A:GTP501 2.9 28.3 1.0 O3G A:GTP501 3.2 28.3 1.0 PG A:GTP501 3.2 28.3 1.0 O2G A:GTP501 3.8 28.3 1.0 O3A A:GTP501 3.9 28.3 1.0 CG A:GLU71 3.9 31.2 1.0 OE1 A:GLN11 4.3 22.2 1.0 NZ N:LYS252 4.4 31.5 1.0 CB A:ASP98 4.4 33.9 1.0 O1G A:GTP501 4.5 28.3 1.0 OD2 A:ASP98 4.5 33.9 1.0 CB A:GLU71 4.6 31.2 1.0 CB A:GLN11 4.7 22.2 1.0 CD N:LYS252 4.7 31.5 1.0 CG2 A:THR145 4.8 26.6 1.0 O1A A:GTP501 4.8 28.3 1.0 CG A:ASP98 5.0 33.9 1.0

Magnesium binding site 2 out of 12 in the 13PF E254Q Microtubule From Recombinant Human Tubulin Decorated with EB3


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of 13PF E254Q Microtubule From Recombinant Human Tubulin Decorated with EB3 within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg502 b:18.7 occ:1.00 OE2 B:GLU69 1.9 21.2 1.0 O3B B:GTP501 2.0 34.0 1.0 O2B B:GTP501 2.0 34.0 1.0 PB B:GTP501 2.2 34.0 1.0 O1B B:GTP501 2.7 34.0 1.0 CD B:GLU69 3.0 21.2 1.0 PG B:GTP501 3.4 34.0 1.0 CG B:GLU69 3.6 21.2 1.0 O3A B:GTP501 3.7 34.0 1.0 CG2 B:THR143 3.8 18.7 1.0 O3G B:GTP501 3.9 34.0 1.0 OE1 B:GLU69 4.0 21.2 1.0 O2G B:GTP501 4.0 34.0 1.0 OD2 B:ASP67 4.1 18.6 1.0 OD1 B:ASP67 4.2 18.6 1.0 O1G B:GTP501 4.5 34.0 1.0 CB B:GLU69 4.5 21.2 1.0 NE2 A:GLN254 4.5 25.1 1.0 CG B:ASP67 4.5 18.6 1.0 O1A B:GTP501 4.7 34.0 1.0 OE1 B:GLN11 4.7 15.1 1.0 CB B:GLN11 4.9 15.1 1.0 PA B:GTP501 4.9 34.0 1.0 N B:GLN11 4.9 15.1 1.0 CB B:THR143 5.0 18.7 1.0

Magnesium binding site 3 out of 12 in the 13PF E254Q Microtubule From Recombinant Human Tubulin Decorated with EB3


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of 13PF E254Q Microtubule From Recombinant Human Tubulin Decorated with EB3 within 5.0Å range: probe atom residue distance (Å) B Occ G:Mg502 b:10.3 occ:1.00 O1B G:GTP501 2.0 21.6 1.0 O3B G:GTP501 2.0 21.6 1.0 O3G G:GTP501 2.2 21.6 1.0 PB G:GTP501 2.3 21.6 1.0 PG G:GTP501 2.5 21.6 1.0 O2G G:GTP501 3.2 21.6 1.0 O2B G:GTP501 3.3 21.6 1.0 OE1 G:GLU71 3.6 27.1 1.0 O3A G:GTP501 3.7 21.6 1.0 O1G G:GTP501 3.8 21.6 1.0 CB G:ASP98 4.2 26.6 1.0 CG2 G:THR145 4.3 18.1 1.0 NZ B:LYS252 4.5 17.1 1.0 CD G:GLU71 4.6 27.1 1.0 OD1 G:ASP98 4.8 26.6 1.0 OD1 G:ASP69 4.8 21.9 1.0 CB G:GLU71 4.8 27.1 1.0 O1A G:GTP501 4.9 21.6 1.0 CB G:GLN11 4.9 12.8 1.0 OE1 G:GLN11 4.9 12.8 1.0 CG G:ASP98 5.0 26.6 1.0 PA G:GTP501 5.0 21.6 1.0 OD2 G:ASP69 5.0 21.9 1.0

Magnesium binding site 4 out of 12 in the 13PF E254Q Microtubule From Recombinant Human Tubulin Decorated with EB3


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of 13PF E254Q Microtubule From Recombinant Human Tubulin Decorated with EB3 within 5.0Å range: probe atom residue distance (Å) B Occ N:Mg502 b:44.6 occ:1.00 OE2 N:GLU69 1.9 44.3 1.0 O2B N:GTP501 2.0 41.6 1.0 PB N:GTP501 2.2 41.6 1.0 O1B N:GTP501 2.3 41.6 1.0 O3B N:GTP501 2.5 41.6 1.0 CD N:GLU69 3.2 44.3 1.0 OE1 N:GLN11 3.6 36.9 1.0 O3A N:GTP501 3.8 41.6 1.0 PG N:GTP501 3.9 41.6 1.0 OE1 N:GLU69 4.0 44.3 1.0 O3G N:GTP501 4.1 41.6 1.0 CG N:GLU69 4.1 44.3 1.0 CB N:GLN11 4.3 36.9 1.0 O1A N:GTP501 4.6 41.6 1.0 CG2 N:THR143 4.6 38.9 1.0 O2G N:GTP501 4.6 41.6 1.0 CD N:GLN11 4.7 36.9 1.0 PA N:GTP501 4.8 41.6 1.0 O1G N:GTP501 5.0 41.6 1.0 OD2 N:ASP67 5.0 41.1 1.0

Magnesium binding site 5 out of 12 in the 13PF E254Q Microtubule From Recombinant Human Tubulin Decorated with EB3


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of 13PF E254Q Microtubule From Recombinant Human Tubulin Decorated with EB3 within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg502 b:28.6 occ:1.00 O1B C:GTP501 1.9 25.4 1.0 O3B C:GTP501 2.0 25.4 1.0 PB C:GTP501 2.3 25.4 1.0 O3G C:GTP501 2.3 25.4 1.0 OE2 C:GLU71 2.5 27.8 1.0 PG C:GTP501 2.6 25.4 1.0 O2B C:GTP501 3.2 25.4 1.0 O2G C:GTP501 3.3 25.4 1.0 CD C:GLU71 3.4 27.8 1.0 O3A C:GTP501 3.7 25.4 1.0 O1G C:GTP501 3.9 25.4 1.0 CG C:GLU71 4.0 27.8 1.0 CB C:ASP98 4.1 29.9 1.0 OE1 C:GLU71 4.3 27.8 1.0 CG2 C:THR145 4.5 22.1 1.0 NZ P:LYS252 4.5 36.2 1.0 OD1 C:ASP98 4.6 29.9 1.0 O1A C:GTP501 4.8 25.4 1.0 CB C:GLU71 4.8 27.8 1.0 CG C:ASP98 4.9 29.9 1.0 OD1 C:ASP69 4.9 23.4 1.0 PA C:GTP501 4.9 25.4 1.0 CD P:LYS252 5.0 36.2 1.0

Magnesium binding site 6 out of 12 in the 13PF E254Q Microtubule From Recombinant Human Tubulin Decorated with EB3


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of 13PF E254Q Microtubule From Recombinant Human Tubulin Decorated with EB3 within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg502 b:27.1 occ:1.00 O1B D:GTP501 1.9 23.2 1.0 OE2 D:GLU69 2.1 29.9 1.0 PB D:GTP501 2.4 23.2 1.0 O2B D:GTP501 2.6 23.2 1.0 O3B D:GTP501 2.6 23.2 1.0 CD D:GLU69 3.2 29.9 1.0 O3G D:GTP501 3.4 23.2 1.0 PG D:GTP501 3.6 23.2 1.0 OE1 D:GLU69 3.9 29.9 1.0 OE1 D:GLN11 3.9 21.3 1.0 O3A D:GTP501 4.0 23.2 1.0 CG D:GLU69 4.2 29.9 1.0 CB D:GLN11 4.4 21.3 1.0 O2G D:GTP501 4.4 23.2 1.0 NE2 C:GLN254 4.5 18.6 1.0 CB D:GLU69 4.6 29.9 1.0 OD1 D:ASP67 4.7 27.2 1.0 OD2 D:ASP67 4.7 27.2 1.0 O1G D:GTP501 4.8 23.2 1.0 CG2 D:THR143 4.8 24.3 1.0 O1A D:GTP501 4.8 23.2 1.0 CD D:GLN11 5.0 21.3 1.0 O C:ASN249 5.0 13.7 1.0

Magnesium binding site 7 out of 12 in the 13PF E254Q Microtubule From Recombinant Human Tubulin Decorated with EB3


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of 13PF E254Q Microtubule From Recombinant Human Tubulin Decorated with EB3 within 5.0Å range: probe atom residue distance (Å) B Occ I:Mg502 b:10.2 occ:1.00 O1B I:GTP501 1.9 29.3 1.0 O3G I:GTP501 2.0 29.3 1.0 O3B I:GTP501 2.0 29.3 1.0 PG I:GTP501 2.4 29.3 1.0 PB I:GTP501 2.4 29.3 1.0 O2G I:GTP501 3.1 29.3 1.0 O2B I:GTP501 3.4 29.3 1.0 O3A I:GTP501 3.6 29.3 1.0 O1G I:GTP501 3.7 29.3 1.0 OE1 I:GLU71 3.9 27.3 1.0 CB I:ASP98 4.0 27.6 1.0 CG2 I:THR145 4.4 20.0 1.0 CD I:GLU71 4.5 27.3 1.0 OD1 I:ASP98 4.5 27.6 1.0 NZ D:LYS252 4.6 22.4 1.0 CG I:GLU71 4.7 27.3 1.0 CG I:ASP98 4.8 27.6 1.0 OD1 I:ASP69 4.8 22.0 1.0 CB I:GLN11 4.9 12.2 1.0 OD2 I:ASP69 5.0 22.0 1.0

Magnesium binding site 8 out of 12 in the 13PF E254Q Microtubule From Recombinant Human Tubulin Decorated with EB3


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of 13PF E254Q Microtubule From Recombinant Human Tubulin Decorated with EB3 within 5.0Å range: probe atom residue distance (Å) B Occ P:Mg502 b:45.9 occ:1.00 O1B P:GTP501 2.0 45.2 1.0 OE2 P:GLU69 2.1 48.9 1.0 PB P:GTP501 2.3 45.2 1.0 O2B P:GTP501 2.5 45.2 1.0 O3B P:GTP501 2.6 45.2 1.0 CD P:GLU69 3.2 48.9 1.0 O3G P:GTP501 3.5 45.2 1.0 PG P:GTP501 3.6 45.2 1.0 OE1 P:GLN11 3.9 41.8 1.0 OE1 P:GLU69 3.9 48.9 1.0 O3A P:GTP501 3.9 45.2 1.0 CG P:GLU69 4.2 48.9 1.0 CB P:GLN11 4.4 41.8 1.0 O2G P:GTP501 4.5 45.2 1.0 O1G P:GTP501 4.8 45.2 1.0 O1A P:GTP501 4.8 45.2 1.0 CG2 P:THR143 4.9 43.0 1.0 CD P:GLN11 4.9 41.8 1.0

Magnesium binding site 9 out of 12 in the 13PF E254Q Microtubule From Recombinant Human Tubulin Decorated with EB3


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of 13PF E254Q Microtubule From Recombinant Human Tubulin Decorated with EB3 within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg502 b:34.3 occ:1.00 O1B E:GTP501 2.0 33.8 1.0 OE1 E:GLU71 2.1 35.8 1.0 O3B E:GTP501 2.2 33.8 1.0 PB E:GTP501 2.4 33.8 1.0 O3G E:GTP501 2.6 33.8 1.0 PG E:GTP501 2.8 33.8 1.0 O2B E:GTP501 3.1 33.8 1.0 CD E:GLU71 3.1 35.8 1.0 O2G E:GTP501 3.5 33.8 1.0 OE2 E:GLU71 3.7 35.8 1.0 O3A E:GTP501 3.8 33.8 1.0 O1G E:GTP501 4.2 33.8 1.0 CG E:GLU71 4.2 35.8 1.0 CB E:ASP98 4.3 37.4 1.0 CG2 E:THR145 4.5 28.7 1.0 OE1 E:GLN11 4.6 26.6 1.0 CB E:GLN11 4.6 26.6 1.0 O1A E:GTP501 4.8 33.8 1.0 OD2 E:ASP98 4.8 37.4 1.0 NZ R:LYS252 4.9 30.8 1.0 OD1 E:ASP69 4.9 32.1 1.0 N E:GLN11 4.9 26.6 1.0 PA E:GTP501 5.0 33.8 1.0

Magnesium binding site 10 out of 12 in the 13PF E254Q Microtubule From Recombinant Human Tubulin Decorated with EB3


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of 13PF E254Q Microtubule From Recombinant Human Tubulin Decorated with EB3 within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg502 b:14.7 occ:1.00 O1B F:GTP501 1.9 35.5 1.0 OE2 F:GLU69 2.0 21.0 1.0 PB F:GTP501 2.3 35.5 1.0 O3B F:GTP501 2.5 35.5 1.0 O2B F:GTP501 2.6 35.5 1.0 CD F:GLU69 3.1 21.0 1.0 O3G F:GTP501 3.5 35.5 1.0 PG F:GTP501 3.5 35.5 1.0 O3A F:GTP501 3.9 35.5 1.0 OE1 F:GLU69 3.9 21.0 1.0 CG F:GLU69 4.0 21.0 1.0 OE1 F:GLN11 4.2 13.7 1.0 O2G F:GTP501 4.3 35.5 1.0 OD2 F:ASP67 4.3 18.5 1.0 NE2 E:GLN254 4.4 25.7 1.0 CB F:GLN11 4.5 13.7 1.0 OD1 F:ASP67 4.6 18.5 1.0 CG2 F:THR143 4.7 17.0 1.0 O1G F:GTP501 4.7 35.5 1.0 O1A F:GTP501 4.8 35.5 1.0 CG F:ASP67 4.9 18.5 1.0 O E:ASN249 5.0 23.2 1.0 CB F:GLU69 5.0 21.0 1.0

J.Estevez-Gallego, T.B.Blum, F.Ruhnow, M.Gili, S.Speroni, R.Garcia-Castellanos, M.O.Steinmetz, T.Surrey. Hydrolysis-Deficient Mosaic Microtubules As Faithful Mimics of the Gtp Cap. Nat Commun V. 16 2396 2025.
ISSN: ESSN 2041-1723
PubMed: 40064882
DOI: 10.1038/S41467-025-57555-6