SMTL ID : 6s8m.1

S. pombe microtubule decorated with Cut7 motor domain in the AMPPNP state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-mer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain A: K.171, T.172, D.333, L.334 Ligands: ANP.2 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:T.172

1 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.2: 16 residues within 4Å: Chain A: V.85, R.86, Q.166, T.167, G.168, T.169, G.170, K.171, T.172, Y.173, L.287, S.288, S.289, L.334, A.335 Ligands: MG.1 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:V.85, A:G.168, A:T.169, A:T.169, A:G.170, A:K.171, A:K.171, A:K.171, A:T.172, A:Y.173, A:S.289, A:S.289, A:G.336 pi-Stacking: A:Y.173, A:Y.173

1 x GDP: GUANOSINE-5'-DIPHOSPHATE(Covalent)

GDP.3: 17 residues within 4Å: Chain B: Q.11, C.12, Q.15, V.16, E.69, N.99, S.138, G.140, G.141, G.142, T.143, G.144, V.169, D.177, N.204, Y.222, N.226 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:Q.11, B:C.12, B:S.138, B:G.141, B:G.142, B:T.143, B:T.143, B:G.144, B:N.204, B:N.226, B:N.226, B:N.226

1 x EPB: 7,11-DIHYDROXY-8,8,10,12,16-PENTAMETHYL-3-[1-METHYL-2-(2-METHYL-THIAZOL-4-YL)VINYL]-4,17-DIOXABICYCLO[14.1.0]HEPTADECANE-5,9-DIONE(Non-covalent)

EPB.4: 6 residues within 4Å: Chain B: L.215, H.227, F.270, P.272, S.279, L.361 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:L.215, B:F.270

1 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Covalent)

GTP.5: 20 residues within 4Å: Chain B: K.252 Chain C: G.10, Q.11, A.12, I.16, D.73, D.102, S.104, S.144, G.147, G.148, T.149, G.150, V.175, T.183, E.187, N.210, Y.228, N.232, I.235 19 PLIP interactions: 17 interactions with chain C, 2 interactions with chain B Hydrogen bonds: C:Q.11, C:A.12, C:E.75, C:S.104, C:S.144, C:G.147, C:G.148, C:T.149, C:T.149, C:G.150, C:T.183, C:E.187, C:N.210, C:N.232, C:N.232, C:N.232 pi-Cation interactions: C:Y.228 Salt bridges: B:K.252, B:K.252

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

von Loeffelholz, O. et al., Cryo-EM Structure (4.5- angstrom ) of Yeast Kinesin-5-Microtubule Complex Reveals a Distinct Binding Footprint and Mechanism of Drug Resistance. J.Mol.Biol. (2019)

Release Date

2019-08-21

Peptides

Kinesin-like protein cut7: A
Tubulin beta chain: B
Tubulin alpha-1 chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
K

B
B

C
A

Kinesin-like protein cut7

Tubulin beta chain

Tubulin alpha-1 chain