SMTL ID : 5w3h.1

Yeast microtubule stabilized with epothilone

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-mer

Ligands

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

GTP.1: 19 residues within 4Å: Chain A: G.10, Q.11, A.12, Q.15, E.72, A.101, S.141, G.144, T.146, G.147, V.172, T.180, E.184, N.207, F.225, N.229 Chain B: L.246, K.252 Ligands: MG.2 17 PLIP interactions: 16 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Q.11, A:A.12, A:E.72, A:S.141, A:S.141, A:T.146, A:T.146, A:G.147, A:T.180, A:E.184, A:N.207, A:N.207, A:N.229, A:N.229 pi-Stacking: A:F.225, A:F.225 Salt bridges: B:K.252

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: Q.11, E.72 Ligands: GTP.1 No protein-ligand interaction detected (PLIP)

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

GDP.3: 17 residues within 4Å: Chain B: G.10, Q.11, C.12, Q.15, G.98, N.99, S.138, G.141, G.142, T.143, G.144, V.169, D.177, E.181, N.204, Y.222, N.226 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:Q.11, B:C.12, B:S.138, B:G.142, B:T.143, B:T.143, B:T.143, B:G.144, B:D.177, B:E.181, B:N.204, B:N.204, B:N.226, B:N.226

1 x EP: EPOTHILONE A(Non-covalent)

EP.4: 12 residues within 4Å: Chain B: C.211, L.215, L.217, D.224, L.228, P.272, L.273, T.274, A.275, I.276, Q.279, R.282 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:L.215, B:L.215, B:L.217, B:L.217, B:D.224, B:L.228, B:P.272, B:R.282 Hydrogen bonds: B:T.274, B:T.274

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Howes, S.C. et al., Structural differences between yeast and mammalian microtubules revealed by cryo-EM. J. Cell Biol. (2017)

Release Date

2017-07-19

Peptides

Tubulin alpha-1 chain: A
Tubulin beta chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Tubulin alpha-1 chain

Tubulin beta chain

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