SMTL ID : 5nd4.1

Microtubule-bound MKLP2 motor domain in the presence of ADP.AlFx

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-mer

Ligands

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

ADP.1: 12 residues within 4Å: Chain A: R.49, R.51, P.52, S.143, G.144, K.145, T.146, Y.147, N.353, Q.355 Ligands: MG.2, ALF.3 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:R.49, A:N.142, A:S.143, A:G.144, A:K.145, A:T.146, A:T.146, A:Y.147, A:N.353, A:Q.355 Salt bridges: A:K.145 pi-Stacking: A:Y.147, A:Y.147 pi-Cation interactions: A:R.51

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: K.145, T.146, S.357 Ligands: ADP.1, ALF.3 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:T.146, A:S.357 MG.5: 5 residues within 4Å: Chain B: Q.10, D.42, E.44 Chain C: K.251 Ligands: GTP.4 No protein-ligand interaction detected (PLIP)

1 x ALF: TETRAFLUOROALUMINATE ION(Non-covalent)

ALF.3: 11 residues within 4Å: Chain A: T.141, K.145, T.146, N.353, S.356, S.357, L.388, A.389, G.390 Ligands: ADP.1, MG.2 No protein-ligand interaction detected (PLIP)

1 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

GTP.4: 21 residues within 4Å: Chain B: G.9, Q.10, A.11, Q.14, A.72, A.73, N.74, G.115, G.116, G.117, T.118, I.144, T.152, E.156, N.179, Y.197, L.200, N.201 Chain C: L.245, K.251 Ligands: MG.5 20 PLIP interactions: 17 interactions with chain B, 3 interactions with chain C Hydrogen bonds: B:Q.10, B:A.11, B:Q.14, B:A.73, B:N.74, B:G.117, B:T.118, B:T.118, B:T.152, B:T.152, B:E.156, B:N.179, B:Y.197, B:Y.197, B:N.201 pi-Stacking: B:Y.197, B:Y.197 Salt bridges: C:K.251, C:K.251, C:K.251

1 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)

GDP.6: 17 residues within 4Å: Chain C: G.9, Q.10, C.11, Q.14, S.137, G.139, G.140, G.141, T.142, G.143, V.168, D.176, T.177, E.180, N.203, Y.221, N.225 18 PLIP interactions: 18 interactions with chain C Hydrogen bonds: C:Q.10, C:Q.10, C:C.11, C:S.137, C:G.141, C:T.142, C:T.142, C:T.142, C:T.142, C:G.143, C:D.176, C:E.180, C:Y.221, C:N.225, C:N.225, C:N.225 pi-Stacking: C:Y.221, C:Y.221

1 x TA1: TAXOL(Non-covalent)

TA1.7: 19 residues within 4Å: Chain C: E.21, V.22, D.25, E.26, D.223, H.226, L.227, A.230, S.233, F.269, P.271, L.272, T.273, S.274, R.275, R.317, P.357, R.358, L.360 15 PLIP interactions: 15 interactions with chain C Hydrophobic interactions: C:V.22, C:V.22, C:D.25, C:E.26, C:H.226, C:L.227, C:L.227, C:A.230, C:F.269, C:P.357, C:L.360 Hydrogen bonds: C:T.273, C:P.357 Salt bridges: C:H.226 pi-Stacking: C:H.226

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Atherton, J. et al., The divergent mitotic kinesin MKLP2 exhibits atypical structure and mechanochemistry. Elife (2017)

Release Date

2017-10-04

Peptides

Kinesin-like protein KIF20A: A
Tubulin alpha chain: B
Tubulin beta-2B chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
A

C
B

Kinesin-like protein KIF20A

Tubulin alpha chain

Tubulin beta-2B chain

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