Magnesium in PDB 3jat: Cryo-Em Structure of Gmpcpp-Microtubule (14 Protofilaments) Decorated with Kinesin

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

Binding sites:

The binding sites of Magnesium atom in the Cryo-Em Structure of Gmpcpp-Microtubule (14 Protofilaments) Decorated with Kinesin (pdb code 3jat). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 12 binding sites of Magnesium where determined in the Cryo-Em Structure of Gmpcpp-Microtubule (14 Protofilaments) Decorated with Kinesin, PDB code: 3jat:
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 Cryo-Em Structure of Gmpcpp-Microtubule (14 Protofilaments) Decorated with Kinesin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryo-Em Structure of Gmpcpp-Microtubule (14 Protofilaments) Decorated with Kinesin within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg502 b:14.7 occ:1.00 O1B E:GTP501 1.9 15.7 1.0 O1G E:GTP501 2.2 15.9 1.0 PB E:GTP501 3.1 15.8 1.0 PG E:GTP501 3.3 15.9 1.0 O3B E:GTP501 3.6 15.8 1.0 OE1 E:GLU71 3.6 44.2 1.0 O2G E:GTP501 3.7 16.1 1.0 O3A E:GTP501 3.7 15.5 1.0 OE1 E:GLN11 3.7 16.1 1.0 CD E:GLU71 3.8 43.9 1.0 OE2 E:GLU71 3.8 44.7 1.0 CB E:GLN11 3.9 14.9 1.0 NZ G:LYS254 4.0 35.9 1.0 OD1 E:ASP69 4.3 22.4 1.0 O2B E:GTP501 4.4 15.8 1.0 O1A E:GTP501 4.4 15.2 1.0 N E:GLN11 4.4 14.3 1.0 CG E:GLU71 4.6 41.8 1.0 PA E:GTP501 4.6 15.2 1.0 O3G E:GTP501 4.6 16.1 1.0 CD E:GLN11 4.7 15.8 1.0 CA E:GLN11 4.7 14.6 1.0 CG E:GLN11 4.9 15.4 1.0

Magnesium binding site 2 out of 12 in the Cryo-Em Structure of Gmpcpp-Microtubule (14 Protofilaments) Decorated with Kinesin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Cryo-Em Structure of Gmpcpp-Microtubule (14 Protofilaments) Decorated with Kinesin within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg502 b:9.6 occ:1.00 O2B F:G2P501 2.1 11.1 1.0 O1G F:G2P501 2.6 11.2 1.0 PG F:G2P501 3.5 11.1 1.0 PB F:G2P501 3.6 11.1 1.0 O3G F:G2P501 3.7 11.2 1.0 O3B F:G2P501 3.8 11.1 1.0 OD1 F:ASP69 4.0 19.6 1.0 CB F:GLN11 4.1 12.4 1.0 OE2 F:GLU71 4.2 39.6 1.0 O2A F:G2P501 4.2 11.3 1.0 N F:GLN11 4.4 11.9 1.0 OD2 F:ASP69 4.4 19.5 1.0 C3A F:G2P501 4.5 11.2 1.0 OE1 F:GLN11 4.5 12.7 1.0 CD F:GLU71 4.6 38.8 1.0 CG F:ASP69 4.6 19.2 1.0 CG F:GLU71 4.7 36.2 1.0 O1B F:G2P501 4.7 11.2 1.0 OG1 F:THR145 4.7 14.5 1.0 CA F:GLN11 4.8 12.3 1.0 OE2 E:GLU254 4.8 37.7 1.0 CB F:GLU71 4.9 34.0 1.0 PA F:G2P501 4.9 11.3 1.0 CG2 F:THR74 4.9 43.9 1.0 O2G F:G2P501 4.9 11.2 1.0

Magnesium binding site 3 out of 12 in the Cryo-Em Structure of Gmpcpp-Microtubule (14 Protofilaments) Decorated with Kinesin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Cryo-Em Structure of Gmpcpp-Microtubule (14 Protofilaments) Decorated with Kinesin within 5.0Å range: probe atom residue distance (Å) B Occ J:Mg502 b:8.3 occ:1.00 O1B J:GTP501 1.9 8.9 1.0 O3G J:GTP501 1.9 8.9 1.0 PB J:GTP501 3.0 8.9 1.0 PG J:GTP501 3.1 8.9 1.0 O3B J:GTP501 3.5 8.9 1.0 O2G J:GTP501 3.5 9.0 1.0 O3A J:GTP501 3.6 8.9 1.0 OE1 J:GLU71 3.7 23.7 1.0 OE2 J:GLU71 3.8 23.8 1.0 CD J:GLU71 3.8 23.5 1.0 OE1 J:GLN11 3.8 8.3 1.0 NZ F:LYS254 3.8 24.3 1.0 CB J:GLN11 4.1 8.0 1.0 O2B J:GTP501 4.3 9.0 1.0 O1A J:GTP501 4.3 8.9 1.0 O1G J:GTP501 4.4 9.0 1.0 OD1 J:ASP69 4.4 12.9 1.0 PA J:GTP501 4.6 8.9 1.0 N J:GLN11 4.6 7.8 1.0 CG J:GLU71 4.6 22.4 1.0 CD J:GLN11 4.8 8.3 1.0 O F:ASN249 4.9 22.4 1.0 CA J:GLN11 4.9 7.9 1.0

Magnesium binding site 4 out of 12 in the Cryo-Em Structure of Gmpcpp-Microtubule (14 Protofilaments) Decorated with Kinesin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Cryo-Em Structure of Gmpcpp-Microtubule (14 Protofilaments) Decorated with Kinesin within 5.0Å range: probe atom residue distance (Å) B Occ G:Mg502 b:31.4 occ:1.00 O2B G:G2P501 2.3 33.3 1.0 O2G G:G2P501 2.5 33.7 1.0 PG G:G2P501 3.5 33.9 1.0 O1G G:G2P501 3.7 33.9 1.0 PB G:G2P501 3.7 33.2 1.0 O3B G:G2P501 3.9 33.4 1.0 CB G:GLN11 4.0 30.2 1.0 OE2 G:GLU71 4.1 91.7 1.0 OE1 G:GLN11 4.2 32.2 1.0 OD1 G:ASP69 4.3 40.1 1.0 O2A G:G2P501 4.4 32.5 1.0 CD G:GLU71 4.5 88.4 1.0 C3A G:G2P501 4.6 33.0 1.0 N G:GLN11 4.6 28.7 1.0 OD2 G:ASP69 4.7 40.6 1.0 CG G:GLU71 4.7 82.3 1.0 CA G:GLN11 4.8 29.7 1.0 CG2 G:THR74 4.9 80.6 1.0 O1B G:G2P501 4.9 33.3 1.0 O3G G:G2P501 4.9 34.2 1.0 CG G:ASP69 4.9 39.9 1.0 CB G:GLU71 4.9 76.5 1.0 CD G:GLN11 4.9 31.7 1.0

Magnesium binding site 5 out of 12 in the Cryo-Em Structure of Gmpcpp-Microtubule (14 Protofilaments) Decorated with Kinesin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Cryo-Em Structure of Gmpcpp-Microtubule (14 Protofilaments) Decorated with Kinesin within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg502 b:9.5 occ:1.00 O1B C:GTP501 1.9 10.2 1.0 O1G C:GTP501 2.2 10.3 1.0 PB C:GTP501 3.2 10.2 1.0 PG C:GTP501 3.3 10.3 1.0 OE1 C:GLU71 3.6 39.3 1.0 CD C:GLU71 3.7 39.0 1.0 O3B C:GTP501 3.7 10.2 1.0 O2G C:GTP501 3.7 10.4 1.0 OE2 C:GLU71 3.8 39.5 1.0 O3A C:GTP501 3.8 10.1 1.0 OE1 C:GLN11 3.9 14.1 1.0 CB C:GLN11 4.0 13.1 1.0 OD1 C:ASP69 4.1 22.4 1.0 NZ I:LYS254 4.2 31.3 1.0 N C:GLN11 4.4 12.8 1.0 O2B C:GTP501 4.4 10.3 1.0 CG C:GLU71 4.5 37.3 1.0 O1A C:GTP501 4.5 10.0 1.0 O3G C:GTP501 4.7 10.4 1.0 PA C:GTP501 4.7 10.0 1.0 CA C:GLN11 4.8 12.9 1.0 CD C:GLN11 4.8 13.9 1.0 OD2 C:ASP69 5.0 22.5 1.0 CG C:ASP69 5.0 22.3 1.0 OG1 C:THR145 5.0 15.8 1.0

Magnesium binding site 6 out of 12 in the Cryo-Em Structure of Gmpcpp-Microtubule (14 Protofilaments) Decorated with Kinesin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Cryo-Em Structure of Gmpcpp-Microtubule (14 Protofilaments) Decorated with Kinesin within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg502 b:9.3 occ:1.00 O2B D:G2P501 1.9 10.6 1.0 O1G D:G2P501 2.6 10.9 1.0 PB D:G2P501 3.5 10.7 1.0 PG D:G2P501 3.6 10.8 1.0 O3G D:G2P501 3.8 10.9 1.0 O3B D:G2P501 3.8 10.7 1.0 CB D:GLN11 3.9 12.2 1.0 OD1 D:ASP69 4.0 20.2 1.0 O2A D:G2P501 4.2 10.5 1.0 OE2 D:GLU71 4.3 35.2 1.0 N D:GLN11 4.3 11.8 1.0 OE1 D:GLN11 4.4 12.5 1.0 OD2 D:ASP69 4.4 19.9 1.0 C3A D:G2P501 4.5 10.6 1.0 O1B D:G2P501 4.5 10.8 1.0 CD D:GLU71 4.6 34.4 1.0 CA D:GLN11 4.7 12.0 1.0 CG D:ASP69 4.7 19.7 1.0 CG D:GLU71 4.8 32.2 1.0 OE2 C:GLU254 4.8 34.4 1.0 CG2 D:THR74 4.8 40.9 1.0 OG1 D:THR145 4.9 11.6 1.0 PA D:G2P501 4.9 10.6 1.0 CB D:GLU71 4.9 30.4 1.0 O2G D:G2P501 5.0 10.9 1.0

Magnesium binding site 7 out of 12 in the Cryo-Em Structure of Gmpcpp-Microtubule (14 Protofilaments) Decorated with Kinesin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Cryo-Em Structure of Gmpcpp-Microtubule (14 Protofilaments) Decorated with Kinesin within 5.0Å range: probe atom residue distance (Å) B Occ L:Mg502 b:7.0 occ:1.00 O1B L:GTP501 1.9 7.7 1.0 O3G L:GTP501 2.1 7.7 1.0 PB L:GTP501 3.1 7.7 1.0 PG L:GTP501 3.2 7.7 1.0 O3B L:GTP501 3.6 7.7 1.0 OE1 L:GLU71 3.6 24.6 1.0 O2G L:GTP501 3.7 7.8 1.0 CD L:GLU71 3.7 24.3 1.0 OE2 L:GLU71 3.7 24.7 1.0 O3A L:GTP501 3.8 7.7 1.0 OE1 L:GLN11 3.8 9.2 1.0 NZ D:LYS254 4.0 23.5 1.0 CB L:GLN11 4.1 8.8 1.0 OD1 L:ASP69 4.3 15.1 1.0 O2B L:GTP501 4.4 7.7 1.0 O1A L:GTP501 4.5 7.8 1.0 CG L:GLU71 4.5 23.4 1.0 N L:GLN11 4.5 8.6 1.0 O1G L:GTP501 4.5 7.8 1.0 PA L:GTP501 4.7 7.8 1.0 CD L:GLN11 4.8 9.1 1.0 CA L:GLN11 4.9 8.6 1.0 O D:ASN249 5.0 20.8 1.0

Magnesium binding site 8 out of 12 in the Cryo-Em Structure of Gmpcpp-Microtubule (14 Protofilaments) Decorated with Kinesin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Cryo-Em Structure of Gmpcpp-Microtubule (14 Protofilaments) Decorated with Kinesin within 5.0Å range: probe atom residue distance (Å) B Occ I:Mg502 b:24.3 occ:1.00 O2B I:G2P501 2.2 26.1 1.0 O1G I:G2P501 2.4 27.1 1.0 PG I:G2P501 3.4 27.3 1.0 O2G I:G2P501 3.6 27.4 1.0 PB I:G2P501 3.6 26.1 1.0 O3B I:G2P501 3.8 26.6 1.0 OE2 I:GLU71 4.0 74.3 1.0 CB I:GLN11 4.1 25.9 1.0 OE1 I:GLN11 4.3 27.8 1.0 OD1 I:ASP69 4.3 35.7 1.0 O2A I:G2P501 4.4 24.6 1.0 CD I:GLU71 4.5 70.9 1.0 C3A I:G2P501 4.6 25.6 1.0 N I:GLN11 4.6 24.4 1.0 CG I:GLU71 4.7 65.1 1.0 O1B I:G2P501 4.7 26.2 1.0 OD2 I:ASP69 4.7 35.4 1.0 O3G I:G2P501 4.8 27.4 1.0 CA I:GLN11 4.9 25.0 1.0 CB I:GLU71 5.0 60.0 1.0 CG2 I:THR74 5.0 69.0 1.0 CG I:ASP69 5.0 35.1 1.0

Magnesium binding site 9 out of 12 in the Cryo-Em Structure of Gmpcpp-Microtubule (14 Protofilaments) Decorated with Kinesin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Cryo-Em Structure of Gmpcpp-Microtubule (14 Protofilaments) Decorated with Kinesin within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg502 b:12.8 occ:1.00 O1B A:GTP501 1.9 13.7 1.0 O1G A:GTP501 2.1 13.9 1.0 PB A:GTP501 3.1 13.8 1.0 PG A:GTP501 3.2 13.8 1.0 O3B A:GTP501 3.6 13.7 1.0 O2G A:GTP501 3.6 14.0 1.0 OE1 A:GLU71 3.7 40.0 1.0 O3A A:GTP501 3.7 13.6 1.0 CD A:GLU71 3.8 39.6 1.0 OE2 A:GLU71 3.8 40.6 1.0 OE1 A:GLN11 3.9 15.0 1.0 NZ H:LYS254 3.9 34.4 1.0 CB A:GLN11 4.1 14.1 1.0 OD1 A:ASP69 4.3 22.1 1.0 O2B A:GTP501 4.4 13.8 1.0 O1A A:GTP501 4.4 13.3 1.0 O3G A:GTP501 4.5 14.0 1.0 N A:GLN11 4.5 13.7 1.0 CG A:GLU71 4.6 37.9 1.0 PA A:GTP501 4.6 13.4 1.0 CD A:GLN11 4.9 14.8 1.0 CA A:GLN11 4.9 13.8 1.0 O H:ASN249 5.0 34.5 1.0

Magnesium binding site 10 out of 12 in the Cryo-Em Structure of Gmpcpp-Microtubule (14 Protofilaments) Decorated with Kinesin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Cryo-Em Structure of Gmpcpp-Microtubule (14 Protofilaments) Decorated with Kinesin within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg502 b:9.6 occ:1.00 O2B B:G2P501 2.0 10.8 1.0 O1G B:G2P501 2.6 10.9 1.0 PB B:G2P501 3.5 10.7 1.0 PG B:G2P501 3.5 10.9 1.0 O3G B:G2P501 3.7 11.0 1.0 O3B B:G2P501 3.8 10.8 1.0 CB B:GLN11 4.0 11.3 1.0 OD1 B:ASP69 4.1 20.1 1.0 O2A B:G2P501 4.1 10.7 1.0 OE2 B:GLU71 4.3 36.7 1.0 N B:GLN11 4.3 11.0 1.0 OE1 B:GLN11 4.4 11.4 1.0 OD2 B:ASP69 4.5 20.0 1.0 C3A B:G2P501 4.5 10.7 1.0 O1B B:G2P501 4.6 10.8 1.0 CD B:GLU71 4.7 36.0 1.0 CA B:GLN11 4.7 11.1 1.0 CG B:ASP69 4.7 19.7 1.0 OG1 B:THR145 4.8 13.4 1.0 CG B:GLU71 4.8 33.8 1.0 OE2 A:GLU254 4.8 33.1 1.0 PA B:G2P501 4.8 10.8 1.0 CG2 B:THR74 4.9 40.4 1.0 O2G B:G2P501 4.9 11.0 1.0 CB B:GLU71 5.0 31.8 1.0

R.Zhang, G.M.Alushin, A.Brown, E.Nogales. Mechanistic Origin of Microtubule Dynamic Instability and Its Modulation By Eb Proteins. Cell(Cambridge,Mass.) V. 162 849 2015.
ISSN: ISSN 0092-8674
PubMed: 26234155
DOI: 10.1016/J.CELL.2015.07.012