SMTL ID : 8rhh.1

Microtubule-associated kinesin-1 tail complex bound to AMPPNP, two-headed state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-4-1-mer

Ligands

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

GDP.1: 14 residues within 4Å: Chain A: G.10, Q.11, C.12, Q.15, S.138, G.141, G.142, T.143, G.144, D.177, E.181, N.204, Y.222, N.226 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:Q.11, A:Q.11, A:C.12, A:S.138, A:G.142, A:T.143, A:T.143, A:T.143, A:G.144, A:D.177, A:E.181, A:N.204, A:N.226, A:N.226, A:N.226 pi-Stacking: A:Y.222 pi-Cation interactions: A:Y.222

1 x TA1: TAXOL(Non-covalent)

TA1.2: 11 residues within 4Å: Chain A: V.23, D.26, E.27, H.227, L.273, T.274, Q.279, P.358, R.359, G.360, L.361 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:V.23, A:D.26, A:H.227, A:Q.279, A:P.358 Hydrogen bonds: A:T.274, A:Q.279, A:R.359, A:R.359 pi-Cation interactions: A:K.19, A:H.227

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

ANP.3: 15 residues within 4Å: Chain B: R.14, P.17, Q.86, T.87, S.88, S.89, G.90, K.91, T.92, H.93, N.198, S.201, S.202, G.234 Ligands: MG.4 16 PLIP interactions: 16 interactions with chain B Hydrogen bonds: B:R.14, B:R.14, B:S.88, B:S.89, B:G.90, B:K.91, B:K.91, B:K.91, B:T.92, B:T.92, B:H.93, B:N.198, B:S.202, B:G.234 pi-Stacking: B:H.93, B:H.93 ANP.6: 12 residues within 4Å: Chain C: R.14, R.16, Q.86, T.87, S.88, S.89, G.90, K.91, T.92, H.93, S.202 Ligands: MG.5 11 PLIP interactions: 11 interactions with chain C Hydrogen bonds: C:R.14, C:R.14, C:Q.86, C:S.88, C:S.89, C:G.90, C:K.91, C:T.92, C:H.93, C:H.93 pi-Stacking: C:H.93

3 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 3 residues within 4Å: Chain B: T.92, S.202 Ligands: ANP.3 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:T.92, B:S.202 MG.5: 4 residues within 4Å: Chain C: K.91, T.92, S.202 Ligands: ANP.6 No protein-ligand interaction detected (PLIP) MG.8: 3 residues within 4Å: Chain D: Q.11, E.71 Ligands: GTP.7 2 PLIP interactions: 2 interactions with chain D Metal complexes: D:E.71, D:E.71

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

GTP.7: 22 residues within 4Å: Chain A: L.246, K.252 Chain D: G.10, Q.11, A.12, Q.15, E.71, D.98, A.99, A.100, N.101, S.140, G.143, G.144, T.145, G.146, I.171, E.183, N.206, Y.224, N.228 Ligands: MG.8 23 PLIP interactions: 20 interactions with chain D, 3 interactions with chain A Hydrogen bonds: D:Q.11, D:A.12, D:A.99, D:A.100, D:N.101, D:S.140, D:G.144, D:T.145, D:G.146, D:T.179, D:T.179, D:E.183, D:N.206, D:Y.224, D:N.228, D:N.228, D:N.228 pi-Stacking: D:Y.224, D:Y.224 pi-Cation interactions: D:Y.224 Salt bridges: A:K.252, A:K.252, A:K.252

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Atherton, J. et al., Microtubule association induces a Mg-free apo-like ADP pre-release conformation in kinesin-1 that is unaffected by its autoinhibitory tail. Biorxiv (2024)

Release Date

2024-11-20

Peptides

Tubulin beta chain: A
Kinesin-1 heavy chain: BCEF
Tubulin alpha-1B chain: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
K

C
L

E
T

F
t

D
A

Tubulin beta chain

Kinesin-1 heavy chain

Tubulin alpha-1B chain

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