Magnesium in PDB 3dco: Drosophila Nod (3DC4) and Bovine Tubulin (1JFF) Docked Into the 11- Angstrom Cryo-Em Map of Nucleotide-Free Nod Complexed to the Microtubule

The structure of Drosophila Nod (3DC4) and Bovine Tubulin (1JFF) Docked Into the 11- Angstrom Cryo-Em Map of Nucleotide-Free Nod Complexed to the Microtubule also contains other interesting chemical elements:

Zinc

(Zn)

1 atom

The binding sites of Magnesium atom in the Drosophila Nod (3DC4) and Bovine Tubulin (1JFF) Docked Into the 11- Angstrom Cryo-Em Map of Nucleotide-Free Nod Complexed to the Microtubule (pdb code 3dco). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Drosophila Nod (3DC4) and Bovine Tubulin (1JFF) Docked Into the 11- Angstrom Cryo-Em Map of Nucleotide-Free Nod Complexed to the Microtubule, PDB code: 3dco:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Drosophila Nod (3DC4) and Bovine Tubulin (1JFF) Docked Into the 11- Angstrom Cryo-Em Map of Nucleotide-Free Nod Complexed to the Microtubule


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Drosophila Nod (3DC4) and Bovine Tubulin (1JFF) Docked Into the 11- Angstrom Cryo-Em Map of Nucleotide-Free Nod Complexed to the Microtubule within 5.0Å range: probe atom residue distance (Å) B Occ N:Mg402 b:33.8 occ:1.00 OG N:SER94 2.2 18.3 1.0 O2B N:ADP401 2.3 21.9 1.0 CB N:SER94 3.3 17.7 1.0 PB N:ADP401 3.5 21.6 1.0 O3B N:ADP401 3.6 19.4 1.0 OD1 N:ASP226 3.9 22.8 1.0 N N:SER94 4.0 16.8 1.0 O2A N:ADP401 4.1 28.0 1.0 OD2 N:ASP226 4.2 22.6 1.0 CA N:SER94 4.2 17.5 1.0 O1B N:ADP401 4.3 20.9 1.0 CG N:ASP226 4.5 20.9 1.0 O3A N:ADP401 4.7 24.1 1.0 O1A N:ADP401 4.7 25.8 1.0 PA N:ADP401 4.8 26.1 1.0 CB N:LYS93 4.9 16.4 1.0 CE N:LYS93 5.0 20.2 1.0

Magnesium binding site 2 out of 2 in the Drosophila Nod (3DC4) and Bovine Tubulin (1JFF) Docked Into the 11- Angstrom Cryo-Em Map of Nucleotide-Free Nod Complexed to the Microtubule


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Drosophila Nod (3DC4) and Bovine Tubulin (1JFF) Docked Into the 11- Angstrom Cryo-Em Map of Nucleotide-Free Nod Complexed to the Microtubule within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg501 b:18.6 occ:1.00 O1G B:GTP500 2.4 28.7 1.0 CB A:GLN11 3.1 23.6 1.0 O1B B:GTP500 3.2 41.2 1.0 OE2 A:GLU71 3.3 47.9 1.0 PG B:GTP500 3.7 30.0 1.0 O3B B:GTP500 3.7 35.2 1.0 N A:GLN11 3.8 25.1 1.0 OD2 A:ASP69 3.8 33.2 1.0 PB B:GTP500 3.8 41.4 1.0 OD1 A:ASP69 3.9 31.7 1.0 CA A:GLN11 3.9 23.8 1.0 O3A B:GTP500 4.1 39.2 1.0 CG A:GLN11 4.2 24.7 1.0 CD A:GLN11 4.2 29.2 1.0 CG A:ASP69 4.3 34.8 1.0 CB A:GLU71 4.3 46.4 1.0 CG2 A:VAL74 4.3 61.8 1.0 CD A:GLU71 4.4 48.7 1.0 OE1 A:GLN11 4.4 33.8 1.0 O2A B:GTP500 4.4 44.5 1.0 O2G B:GTP500 4.5 35.0 1.0 CB A:ALA99 4.6 35.5 1.0 NE2 A:GLN11 4.7 29.5 1.0 PA B:GTP500 4.8 41.3 1.0 O3G B:GTP500 4.9 32.1 1.0 CG A:GLU71 5.0 49.1 1.0 OD1 B:ASN249 5.0 37.8 1.0 C A:GLY10 5.0 28.3 1.0

J.C.Cochran, C.V.Sindelar, N.K.Mulko, K.A.Collins, S.E.Kong, R.S.Hawley, F.J.Kull. Atpase Cycle of the Nonmotile Kinesin Nod Allows Microtubule End Tracking and Drives Chromosome Movement. Cell(Cambridge,Mass.) V. 136 110 2009.
ISSN: ISSN 0092-8674
PubMed: 19135893
DOI: 10.1016/J.CELL.2008.11.048