SMTL ID : 5zo8.1 (1 other biounit)

Eg5 motor domain in complex with STLC-type inhibitor PVEI0021 (P21 type)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

monomer

Ligands

1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 13 residues within 4Å: Chain A: R.15, R.17, P.18, Q.97, T.98, G.99, T.100, G.101, K.102, T.103, F.104, E.109 Ligands: MG.2 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:R.15, A:G.99, A:T.100, A:T.100, A:G.101, A:K.102, A:T.103, A:T.103, A:F.104, A:E.109 Water bridges: A:T.98, A:K.102, A:E.109, A:S.223 Salt bridges: A:K.102 pi-Stacking: A:F.104, A:F.104

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain A: T.103 Ligands: ADP.1 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:T.103, H2O.1, H2O.1, H2O.1, H2O.2

1 x 4C5: (2R)-2-azanyl-3-[(4-methoxyphenyl)-diphenyl-methyl]sulfanyl-propanoic acid(Non-covalent)

4C5.3: 15 residues within 4Å: Chain A: T.103, E.107, G.108, E.109, R.110, W.118, A.124, I.127, P.128, L.151, Y.202, L.205, E.206, A.209, R.212 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:E.107, A:R.110, A:A.124, A:P.128, A:Y.202, A:L.205, A:E.206 Hydrogen bonds: A:E.107, A:E.107, A:G.108 Salt bridges: A:R.212

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 1 residues within 4Å: Chain A: R.24 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.24 SO4.5: 4 residues within 4Å: Chain A: N.156, E.158, R.172 Ligands: NA.6 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.156, A:R.172 Water bridges: A:E.158, A:E.158

1 x NA: SODIUM ION(Non-functional Binders)

NA.6: 2 residues within 4Å: Chain A: E.158 Ligands: SO4.5 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yokoyama, H. et al., Structural and Thermodynamic Basis of the Enhanced Interaction between Kinesin Spindle Protein Eg5 and STLC-type Inhibitors. Acs Omega (2018)

Release Date

2018-10-10

Peptides

Kinesin-like protein KIF11: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Kinesin-like protein KIF11

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