SMTL ID : 2x2r.1

Crystal structure of human kinesin Eg5 in complex with (R)-2-amino-3-((4-chlorophenyl)diphenylmethylthio)propanoic acid

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-trimer

Ligands

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

ADP.1: 13 residues within 4Å: Chain A: R.24, R.26, P.27, Q.106, T.107, G.108, T.109, G.110, K.111, T.112, F.113, E.118 Ligands: MG.3 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:R.24, A:G.108, A:T.109, A:G.110, A:K.111, A:T.112, A:F.113, A:E.118 Water bridges: A:R.24, A:R.24, A:N.29, A:T.107, A:K.111, A:T.112 Salt bridges: A:K.111 pi-Stacking: A:F.113, A:F.113 ADP.4: 13 residues within 4Å: Chain B: R.24, R.26, P.27, Q.106, T.107, G.108, T.109, G.110, K.111, T.112, F.113, E.118 Ligands: MG.6 18 PLIP interactions: 18 interactions with chain B Hydrogen bonds: B:R.24, B:G.108, B:T.109, B:G.110, B:K.111, B:T.112, B:F.113, B:E.118 Water bridges: B:R.24, B:R.24, B:R.26, B:N.29, B:T.107, B:K.111, B:T.112 Salt bridges: B:K.111 pi-Stacking: B:F.113, B:F.113 ADP.7: 13 residues within 4Å: Chain C: R.24, R.26, P.27, Q.106, T.107, G.108, T.109, G.110, K.111, T.112, F.113, E.118 Ligands: MG.9 18 PLIP interactions: 18 interactions with chain C Hydrogen bonds: C:R.24, C:G.108, C:T.109, C:T.109, C:G.110, C:K.111, C:T.112, C:T.112, C:F.113, C:E.118 Water bridges: C:R.24, C:N.29, C:T.107, C:K.111, C:E.118 Salt bridges: C:K.111 pi-Stacking: C:F.113, C:F.113

3 x X2O: (2R)-2-AMINO-3-[(2R)-2-METHYL-1,1-DIPHENYL-BUTYL]SULFANYL-PROPANOIC ACID(Non-covalent)

X2O.2: 13 residues within 4Å: Chain A: T.112, E.116, G.117, E.118, R.119, A.133, I.136, P.137, Y.211, L.214, E.215, A.218, R.221 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:E.116, A:R.119, A:A.133, A:I.136, A:P.137, A:P.137, A:L.214, A:L.214, A:L.214 Hydrogen bonds: A:E.116, A:E.116 Water bridges: A:R.221 Salt bridges: A:R.221 X2O.5: 13 residues within 4Å: Chain B: T.112, E.116, G.117, E.118, R.119, A.133, I.136, P.137, Y.211, L.214, E.215, A.218, R.221 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:E.116, B:E.116, B:A.133, B:I.136, B:P.137, B:L.214, B:L.214 Hydrogen bonds: B:E.116 Water bridges: B:R.221, B:R.221 Salt bridges: B:R.221 X2O.8: 14 residues within 4Å: Chain C: T.112, E.116, G.117, E.118, R.119, W.127, A.133, I.136, P.137, Y.211, L.214, E.215, A.218, R.221 14 PLIP interactions: 14 interactions with chain C Hydrophobic interactions: C:E.116, C:R.119, C:W.127, C:A.133, C:I.136, C:P.137, C:L.214, C:L.214, C:L.214 Hydrogen bonds: C:E.116, C:E.116 Water bridges: C:R.221, C:R.221 Salt bridges: C:R.221

3 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 2 residues within 4Å: Chain A: T.112 Ligands: ADP.1 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:T.112, H2O.4, H2O.9, H2O.11, H2O.11 MG.6: 2 residues within 4Å: Chain B: T.112 Ligands: ADP.4 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:T.112, H2O.15, H2O.20, H2O.22, H2O.22 MG.9: 2 residues within 4Å: Chain C: T.112 Ligands: ADP.7 5 PLIP interactions: 1 interactions with chain C, 4 Ligand-Water interactions Metal complexes: C:T.112, H2O.27, H2O.28, H2O.29, H2O.29

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kaan, H.Y.K. et al., Structure-Activity Relationship and Multidrug Resistance Study of New S-Trityl-L-Cysteine Derivatives as Inhibitors of Eg5. J.Med.Chem. (2011)

Release Date

2011-01-26

Peptides

KINESIN-LIKE PROTEIN KIF11: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

KINESIN-LIKE PROTEIN KIF11

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