SMTL ID : 6tiw.1

Human kinesin-5 motor domain in the GSK state bound to microtubules (Conformation 2)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-mer

Ligands

1 x MZK: 6-[4-(trifluoromethyl)phenyl]-3,4-dihydro-1~{H}-quinolin-2-one(Non-covalent)

MZK.1: 12 residues within 4Å: Chain A: Y.126, Q.128, S.291, L.314, G.318, I.321, T.322, E.367, S.370, E.373, Y.374, R.377 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Y.126, A:Y.126, A:L.314, A:Y.374 pi-Stacking: A:Y.374

2 x G2P: PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER(Non-covalent)

G2P.2: 19 residues within 4Å: Chain B: G.10, Q.11, C.12, L.68, G.98, N.99, S.138, G.141, G.142, T.143, G.144, V.169, E.181, N.204, L.207, Y.222, L.225, N.226 Ligands: MG.3 20 PLIP interactions: 20 interactions with chain B Hydrogen bonds: B:Q.11, B:Q.11, B:C.12, B:G.98, B:N.99, B:S.138, B:G.142, B:T.143, B:T.143, B:G.144, B:E.181, B:E.181, B:N.204, B:N.204, B:Y.222, B:N.226, B:N.226 pi-Stacking: B:Y.222, B:Y.222 pi-Cation interactions: B:Y.222 G2P.4: 22 residues within 4Å: Chain C: G.10, Q.11, A.12, Q.15, E.71, D.98, A.99, A.100, N.101, S.140, G.142, G.143, G.144, T.145, G.146, I.171, T.179, E.183, N.206, Y.224, N.228 Ligands: MG.5 17 PLIP interactions: 17 interactions with chain C Hydrogen bonds: C:Q.11, C:A.12, C:Q.15, C:N.101, C:S.140, C:G.144, C:T.145, C:T.145, C:T.145, C:G.146, C:T.179, C:E.183, C:N.206, C:Y.224, C:N.228, C:N.228 pi-Stacking: C:Y.224

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 3 residues within 4Å: Chain B: Q.11, L.68 Ligands: G2P.2 No protein-ligand interaction detected (PLIP) MG.5: 4 residues within 4Å: Chain C: Q.11, E.71, D.98 Ligands: G2P.4 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:E.71

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pena, A. et al., Structure of Microtubule-Trapped Human Kinesin-5 and Its Mechanism of Inhibition Revealed Using Cryoelectron Microscopy. Structure (2020)

Release Date

2020-03-04

Peptides

Kinesin-like protein KIF11: A
Tubulin beta chain: B
Tubulin alpha-1B chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
K

B
B

C
A

Kinesin-like protein KIF11

Tubulin beta chain

Tubulin alpha-1B chain

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