Magnesium in PDB 8utu: KIF1A[1-393] P305L Mutant Amp-Pnp Bound One and Two Heads Bound States Merged, in Complex with A Microtubule

The binding sites of Magnesium atom in the KIF1A[1-393] P305L Mutant Amp-Pnp Bound One and Two Heads Bound States Merged, in Complex with A Microtubule (pdb code 8utu). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the KIF1A[1-393] P305L Mutant Amp-Pnp Bound One and Two Heads Bound States Merged, in Complex with A Microtubule, PDB code: 8utu:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the KIF1A[1-393] P305L Mutant Amp-Pnp Bound One and Two Heads Bound States Merged, in Complex with A Microtubule


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of KIF1A[1-393] P305L Mutant Amp-Pnp Bound One and Two Heads Bound States Merged, in Complex with A Microtubule within 5.0Å range: probe atom residue distance (Å) B Occ K:Mg501 b:118.5 occ:1.00 O3G K:ANP502 2.2 127.8 1.0 OG K:SER104 2.2 124.6 1.0 OG K:SER215 2.3 113.8 1.0 O2B K:ANP502 2.7 130.8 1.0 CB K:SER104 3.2 124.8 1.0 CB K:SER215 3.4 113.9 1.0 OD2 K:ASP248 3.4 123.0 1.0 PG K:ANP502 3.7 130.1 1.0 OD1 K:ASP248 3.8 124.0 1.0 PB K:ANP502 4.0 131.4 1.0 CG K:ASP248 4.0 122.9 1.0 N3B K:ANP502 4.2 125.4 1.0 CA K:SER104 4.3 126.0 1.0 N K:SER104 4.4 125.7 1.0 N K:SER215 4.4 115.1 1.0 CA K:SER215 4.5 113.8 1.0 O2G K:ANP502 4.5 127.8 1.0 NH2 K:ARG203 4.6 116.5 1.0 O1G K:ANP502 4.6 129.8 1.0 O K:LEU249 4.7 117.2 1.0 O2A K:ANP502 4.8 128.1 1.0 NH1 K:ARG203 4.8 114.5 1.0 CZ K:ARG203 4.9 114.5 1.0 O1A K:ANP502 4.9 129.2 1.0 O1B K:ANP502 5.0 129.4 1.0

Magnesium binding site 2 out of 3 in the KIF1A[1-393] P305L Mutant Amp-Pnp Bound One and Two Heads Bound States Merged, in Complex with A Microtubule


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of KIF1A[1-393] P305L Mutant Amp-Pnp Bound One and Two Heads Bound States Merged, in Complex with A Microtubule within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg502 b:44.1 occ:1.00 O1G A:GTP501 2.0 62.9 1.0 O1B A:GTP501 2.1 61.5 1.0 OE2 A:GLU71 2.3 79.5 1.0 PG A:GTP501 3.3 62.8 1.0 PB A:GTP501 3.4 50.3 1.0 CD A:GLU71 3.5 79.7 1.0 O3B A:GTP501 3.7 62.0 1.0 NZ B:LYS252 4.0 62.3 1.0 NE2 A:GLN11 4.1 68.5 1.0 O3G A:GTP501 4.1 61.4 1.0 O3A A:GTP501 4.2 52.4 1.0 OE1 A:GLU71 4.3 79.6 1.0 CB A:GLN11 4.4 53.8 1.0 O2G A:GTP501 4.4 69.3 1.0 CG A:GLU71 4.4 75.1 1.0 OD2 A:ASP98 4.4 88.6 1.0 O2B A:GTP501 4.5 62.7 1.0 OD2 A:ASP69 4.7 79.7 1.0 O2A A:GTP501 4.8 62.6 1.0 OD1 A:ASP69 4.8 79.2 1.0 CB A:ASP98 4.9 75.8 1.0 N A:GLN11 4.9 56.6 1.0 CD A:GLN11 5.0 61.6 1.0

Magnesium binding site 3 out of 3 in the KIF1A[1-393] P305L Mutant Amp-Pnp Bound One and Two Heads Bound States Merged, in Complex with A Microtubule


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of KIF1A[1-393] P305L Mutant Amp-Pnp Bound One and Two Heads Bound States Merged, in Complex with A Microtubule within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg502 b:83.0 occ:1.00 O1B E:GTP501 2.0 69.3 1.0 O3B E:GTP501 2.0 56.9 1.0 O1G E:GTP501 2.1 72.6 1.0 PG E:GTP501 2.3 77.5 1.0 PB E:GTP501 2.4 66.7 1.0 OE1 E:GLU71 2.8 85.0 1.0 O2G E:GTP501 2.9 77.2 1.0 O2B E:GTP501 3.3 77.8 1.0 O3A E:GTP501 3.7 55.0 1.0 O3G E:GTP501 3.8 76.9 1.0 CD E:GLU71 3.8 90.0 1.0 CG E:GLU71 4.2 86.1 1.0 OG1 E:THR145 4.2 70.4 1.0 CB E:ASP98 4.5 81.1 1.0 OD1 E:ASP69 4.5 82.9 1.0 CB E:THR145 4.6 67.3 1.0 OD1 E:ASP98 4.7 85.3 1.0 OE2 E:GLU71 4.8 92.0 1.0

M.P.M.H.Benoit, L.Rao, A.B.Asenjo, A.Gennerich, H.Sosa. Cryo-Em of Human KIF1A Reveals Its Mechanism of Motility and the Effect of Its Pathogenic Variant P305L To Be Published.