Magnesium in PDB 8uto: KIF1A[1-393] Amp-Pnp Bound Two-Heads-Bound State in Complex with A Microtubule - Class T2L1

The binding sites of Magnesium atom in the KIF1A[1-393] Amp-Pnp Bound Two-Heads-Bound State in Complex with A Microtubule - Class T2L1 (pdb code 8uto). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the KIF1A[1-393] Amp-Pnp Bound Two-Heads-Bound State in Complex with A Microtubule - Class T2L1, PDB code: 8uto:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the KIF1A[1-393] Amp-Pnp Bound Two-Heads-Bound State in Complex with A Microtubule - Class T2L1


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] Amp-Pnp Bound Two-Heads-Bound State in Complex with A Microtubule - Class T2L1 within 5.0Å range: probe atom residue distance (Å) B Occ K:Mg501 b:107.4 occ:1.00 O1G K:ANP502 1.9 121.6 1.0 O2B K:ANP502 2.5 122.7 1.0 CB K:SER215 3.1 92.9 1.0 PG K:ANP502 3.3 119.9 1.0 CB K:SER104 3.5 121.7 1.0 O3G K:ANP502 3.8 119.2 1.0 PB K:ANP502 3.9 128.0 1.0 OD2 K:ASP248 3.9 107.0 1.0 OG K:SER215 4.0 97.3 1.0 N K:SER104 4.2 111.1 1.0 OD1 K:ASP248 4.2 103.9 1.0 CA K:SER215 4.2 95.0 1.0 N3B K:ANP502 4.3 117.8 1.0 N K:SER215 4.3 97.4 1.0 CA K:SER104 4.3 119.6 1.0 O1B K:ANP502 4.4 121.7 1.0 O2G K:ANP502 4.4 115.6 1.0 NH1 K:ARG203 4.5 103.8 1.0 OG K:SER104 4.5 120.1 1.0 CG K:ASP248 4.5 104.9 1.0 NH2 K:ARG203 4.6 102.9 1.0 O K:THR213 4.9 112.8 1.0 CZ K:ARG203 4.9 99.7 1.0 CB K:LYS103 5.0 114.0 1.0

Magnesium binding site 2 out of 4 in the KIF1A[1-393] Amp-Pnp Bound Two-Heads-Bound State in Complex with A Microtubule - Class T2L1


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] Amp-Pnp Bound Two-Heads-Bound State in Complex with A Microtubule - Class T2L1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg502 b:65.2 occ:1.00 O1B A:GTP501 2.0 84.7 1.0 O1G A:GTP501 2.0 78.8 1.0 OE2 A:GLU71 2.0 97.7 1.0 PG A:GTP501 3.0 86.3 1.0 CD A:GLU71 3.0 96.6 1.0 PB A:GTP501 3.1 71.7 1.0 O3B A:GTP501 3.2 73.4 1.0 CG A:GLU71 3.5 95.1 1.0 O2G A:GTP501 3.6 91.4 1.0 OE1 A:GLU71 4.1 91.8 1.0 O2B A:GTP501 4.1 82.2 1.0 O3A A:GTP501 4.1 69.7 1.0 OD2 A:ASP69 4.2 94.0 1.0 O3G A:GTP501 4.3 88.2 1.0 OD2 A:ASP98 4.4 96.7 1.0 CB A:GLU71 4.5 92.7 1.0 CB A:ASP98 4.5 89.8 1.0 OE1 A:GLN11 4.5 85.4 1.0 CB A:GLN11 4.7 74.7 1.0 OD1 A:ASP69 4.8 94.7 1.0 OG1 A:THR145 4.9 88.7 1.0 CG A:ASP98 4.9 97.5 1.0 N A:GLN11 4.9 73.1 1.0 CG A:ASP69 4.9 93.0 1.0

Magnesium binding site 3 out of 4 in the KIF1A[1-393] Amp-Pnp Bound Two-Heads-Bound State in Complex with A Microtubule - Class T2L1


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] Amp-Pnp Bound Two-Heads-Bound State in Complex with A Microtubule - Class T2L1 within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg502 b:70.9 occ:1.00 O1B E:GTP501 1.9 78.5 1.0 O1G E:GTP501 2.0 79.4 1.0 OE1 E:GLU71 2.0 97.1 1.0 PB E:GTP501 3.0 69.2 1.0 PG E:GTP501 3.0 87.3 1.0 CD E:GLU71 3.0 97.5 1.0 O3B E:GTP501 3.0 70.7 1.0 CG E:GLU71 3.7 97.0 1.0 O2G E:GTP501 3.8 92.9 1.0 O2B E:GTP501 3.8 79.8 1.0 OE2 E:GLU71 3.9 97.0 1.0 OD1 E:ASP69 4.1 99.9 1.0 O3G E:GTP501 4.2 81.1 1.0 O3A E:GTP501 4.2 71.9 1.0 OD2 E:ASP69 4.3 98.3 1.0 OE1 E:GLN11 4.6 81.1 1.0 CB E:GLN11 4.6 75.2 1.0 OD2 E:ASP98 4.6 98.2 1.0 CG E:ASP69 4.7 97.8 1.0 CB E:GLU71 4.7 93.5 1.0 N E:GLN11 4.8 74.9 1.0 OG1 E:THR145 4.8 81.4 1.0 CB E:ASP98 4.8 89.6 1.0 O2A E:GTP501 4.9 75.4 1.0

Magnesium binding site 4 out of 4 in the KIF1A[1-393] Amp-Pnp Bound Two-Heads-Bound State in Complex with A Microtubule - Class T2L1


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of KIF1A[1-393] Amp-Pnp Bound Two-Heads-Bound State in Complex with A Microtubule - Class T2L1 within 5.0Å range: probe atom residue distance (Å) B Occ S:Mg502 b:120.7 occ:1.00 O1B S:GTP501 2.0 125.2 1.0 O1G S:GTP501 2.0 125.0 1.0 O3B S:GTP501 2.1 120.2 1.0 OE1 S:GLU71 2.2 125.1 1.0 PB S:GTP501 2.4 124.4 1.0 PG S:GTP501 2.4 129.9 1.0 O2B S:GTP501 3.1 122.5 1.0 CD S:GLU71 3.1 128.7 1.0 O2G S:GTP501 3.2 127.6 1.0 OG1 S:THR145 3.6 119.5 1.0 O3G S:GTP501 3.8 123.0 1.0 CG S:GLU71 3.8 127.4 1.0 O3A S:GTP501 3.8 123.1 1.0 OE2 S:GLU71 4.0 130.0 1.0 OD1 S:ASP69 4.2 122.1 1.0 CB S:THR145 4.5 116.4 1.0 OD2 S:ASP69 4.7 125.7 1.0 CB S:ASP98 4.7 123.5 1.0 O2A S:GTP501 4.8 120.6 1.0 N S:GLN11 4.8 115.1 1.0 CB S:GLN11 4.8 117.5 1.0 CB S:GLU71 4.8 125.5 1.0 CG S:ASP69 4.9 123.7 1.0 OE1 S:GLN11 5.0 119.6 1.0 PA S:GTP501 5.0 123.5 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.