Magnesium in PDB 8utn: KIF1A[1-393] Amp-Pnp Bound Two-Heads-Bound State in Complex with A Microtubule (Class T23L1)

The binding sites of Magnesium atom in the KIF1A[1-393] Amp-Pnp Bound Two-Heads-Bound State in Complex with A Microtubule (Class T23L1) (pdb code 8utn). 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 T23L1), PDB code: 8utn:
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 T23L1)


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 T23L1) within 5.0Å range: probe atom residue distance (Å) B Occ K:Mg501 b:90.1 occ:1.00 OG K:SER215 2.0 88.8 1.0 OG K:SER104 2.0 109.9 1.0 O1G K:ANP502 2.1 105.6 1.0 O2B K:ANP502 2.7 107.1 1.0 PG K:ANP502 3.1 103.2 1.0 CB K:SER215 3.1 85.2 1.0 N3B K:ANP502 3.1 104.6 1.0 CB K:SER104 3.3 108.9 1.0 PB K:ANP502 3.4 110.6 1.0 O3G K:ANP502 3.8 99.5 1.0 N K:SER215 3.8 85.9 1.0 CA K:SER215 4.1 83.7 1.0 O1B K:ANP502 4.1 104.4 1.0 N K:SER104 4.3 103.5 1.0 CA K:SER104 4.3 105.8 1.0 OD1 K:ASP248 4.3 97.0 1.0 O2G K:ANP502 4.4 103.1 1.0 OD2 K:ASP248 4.6 97.5 1.0 O K:THR213 4.7 93.2 1.0 O3A K:ANP502 4.8 107.3 1.0 O2A K:ANP502 4.8 95.7 1.0 CG K:ASP248 4.9 96.0 1.0 O1A K:ANP502 4.9 106.3 1.0 C K:SER214 4.9 94.4 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 T23L1)


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 T23L1) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg502 b:49.0 occ:1.00 O1G A:GTP501 1.9 61.6 1.0 O1B A:GTP501 2.0 75.8 1.0 OE1 A:GLU71 3.2 81.0 1.0 PG A:GTP501 3.2 70.6 1.0 PB A:GTP501 3.3 68.9 1.0 O3B A:GTP501 3.5 64.2 1.0 NE2 A:GLN11 3.9 68.6 1.0 O3G A:GTP501 4.2 76.0 1.0 O2G A:GTP501 4.2 76.8 1.0 O3A A:GTP501 4.2 61.3 1.0 CD A:GLU71 4.2 81.1 1.0 CB A:GLN11 4.2 62.5 1.0 O2B A:GTP501 4.3 72.1 1.0 OD2 A:ASP69 4.4 82.0 1.0 CB A:GLU71 4.4 73.5 1.0 OD2 A:ASP98 4.5 88.0 1.0 N A:GLN11 4.7 60.7 1.0 OD1 A:ASP69 4.8 77.7 1.0 CD A:GLN11 4.9 66.0 1.0 CB A:ASP98 4.9 78.3 1.0 CG A:GLU71 5.0 77.3 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 T23L1)


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 T23L1) within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg502 b:45.9 occ:1.00 O1B E:GTP501 2.0 64.4 1.0 OE1 E:GLU71 2.0 84.9 1.0 O1G E:GTP501 2.0 58.9 1.0 CD E:GLU71 3.1 84.5 1.0 PB E:GTP501 3.1 57.7 1.0 PG E:GTP501 3.2 68.2 1.0 O3B E:GTP501 3.4 56.8 1.0 O2B E:GTP501 3.8 71.2 1.0 OE2 E:GLU71 3.9 83.5 1.0 OE1 E:GLN11 3.9 64.8 1.0 CG E:GLU71 3.9 80.6 1.0 O3G E:GTP501 4.0 65.3 1.0 CB E:GLN11 4.3 56.7 1.0 O2G E:GTP501 4.3 72.7 1.0 O2A E:GTP501 4.4 60.1 1.0 O3A E:GTP501 4.4 51.8 1.0 NZ I:LYS252 4.5 59.6 1.0 OD1 E:ASP69 4.8 78.8 1.0 OD1 I:ASN247 4.8 69.5 1.0 N E:GLN11 4.8 52.3 1.0 CB E:GLU71 4.8 73.2 1.0 CD E:GLN11 4.8 60.1 1.0 OD2 E:ASP69 4.9 77.9 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 T23L1)


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 T23L1) within 5.0Å range: probe atom residue distance (Å) B Occ S:Mg502 b:104.2 occ:1.00 O1B S:GTP501 1.9 107.0 1.0 OE1 S:GLU71 2.0 114.6 1.0 O1G S:GTP501 2.0 108.4 1.0 PB S:GTP501 2.8 102.5 1.0 CD S:GLU71 2.9 115.0 1.0 O3B S:GTP501 3.0 98.5 1.0 PG S:GTP501 3.0 110.3 1.0 O2B S:GTP501 3.3 106.4 1.0 CG S:GLU71 3.7 113.9 1.0 OE2 S:GLU71 3.8 114.8 1.0 O3G S:GTP501 4.0 106.2 1.0 O2G S:GTP501 4.0 109.0 1.0 O3A S:GTP501 4.2 100.7 1.0 OD1 S:ASP69 4.3 111.1 1.0 OE1 S:GLN11 4.4 104.4 1.0 O2A S:GTP501 4.5 105.1 1.0 CB S:GLN11 4.6 103.4 1.0 CB S:GLU71 4.7 113.6 1.0 N S:GLN11 4.9 100.8 1.0 CB S:ASP98 4.9 115.0 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.