SMTL ID : 5nd2.1

Microtubule-bound MKLP2 motor domain in the presence of ADP

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: 15 residues within 4Å: Chain A: R.49, R.51, P.52, L.54, V.110, V.140, T.141, N.142, S.143, G.144, K.145, T.146, Y.147, T.152 Ligands: MG.2 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:V.110, A:N.142, A:S.143, A:G.144, A:K.145, A:T.146, A:Y.147 Salt bridges: A:K.145 pi-Stacking: A:Y.147, A:Y.147

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain A: T.146 Ligands: ADP.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:T.146 MG.4: 4 residues within 4Å: Chain B: Q.11, D.69, V.74 Ligands: GTP.3 No protein-ligand interaction detected (PLIP)

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

GTP.3: 21 residues within 4Å: Chain B: G.10, Q.11, A.12, Q.15, 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 Chain C: K.252 Ligands: MG.4 21 PLIP interactions: 18 interactions with chain B, 3 interactions with chain C Hydrogen bonds: B:G.10, B:Q.11, B:A.12, B:A.100, B:N.101, B:S.140, B:G.144, B:T.145, B:G.146, B:T.179, B:T.179, B:E.183, B:N.206, B:Y.224, B:N.228, B:N.228 pi-Stacking: B:Y.224, B:Y.224 Salt bridges: C:K.252, C:K.252, C:K.252

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

GDP.5: 18 residues within 4Å: Chain C: G.10, Q.11, C.12, Q.15, N.99, S.138, G.140, G.141, G.142, T.143, G.144, V.169, D.177, T.178, E.181, N.204, Y.222, N.226 18 PLIP interactions: 18 interactions with chain C Hydrogen bonds: C:Q.11, C:Q.11, C:C.12, C:S.138, C:G.142, C:T.143, C:T.143, C:T.143, C:T.143, C:G.144, C:D.177, C:E.181, C:N.204, C:N.226, C:N.226, C:N.226 pi-Stacking: C:Y.222, C:Y.222

1 x TA1: TAXOL(Non-covalent)

TA1.6: 21 residues within 4Å: Chain C: E.22, V.23, D.26, E.27, L.215, D.224, H.227, L.228, A.231, S.234, F.270, P.272, L.273, T.274, S.275, R.276, R.318, P.358, R.359, G.360, L.361 16 PLIP interactions: 16 interactions with chain C Hydrophobic interactions: C:V.23, C:V.23, C:D.26, C:H.227, C:L.228, C:A.231, C:F.270, C:R.276, C:R.276, C:P.358, C:L.361 Hydrogen bonds: C:T.274, C:P.358, C:G.360 Salt bridges: C:H.227 pi-Stacking: C:H.227

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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