SMTL ID : 7pje.1 (1 other biounit)

Inhibiting parasite proliferation using a rationally designed anti-tubulin agent

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

hetero-1-1-1-mer

Ligands

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

GTP.1: 28 residues within 4Å: Chain A: G.10, Q.11, G.12, Q.15, V.16, D.69, D.98, A.99, A.100, N.101, S.140, G.142, G.143, G.144, T.145, G.146, I.171, P.173, V.177, S.178, E.183, N.206, Y.224, L.227, N.228, I.231 Chain B: K.252 Ligands: MG.2 28 PLIP interactions: 25 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:Q.11, A:Q.11, A:G.12, A:Q.15, A:A.99, A:A.100, A:N.101, A:S.140, A:G.143, A:G.144, A:T.145, A:T.145, A:G.146, A:N.206, A:N.206, A:N.228, A:N.228 Water bridges: A:G.13, A:D.98, A:V.141, A:S.147, A:S.147, A:Y.172, B:K.252, B:K.252 pi-Stacking: A:Y.224, A:Y.224 Salt bridges: B:K.252 GTP.3: 29 residues within 4Å: Chain B: G.10, Q.11, C.12, Q.15, I.16, G.96, A.97, G.98, N.99, N.100, S.138, G.140, G.141, G.142, T.143, G.144, S.145, V.169, P.171, V.175, S.176, E.181, N.204, L.207, Y.222, L.225, N.226, V.229 Ligands: MG.4 26 PLIP interactions: 26 interactions with chain B Hydrogen bonds: B:Q.11, B:C.12, B:Q.15, B:A.97, B:G.98, B:N.99, B:S.138, B:G.142, B:T.143, B:T.143, B:G.144, B:N.204, B:N.204, B:N.226, B:N.226 Water bridges: B:G.13, B:E.69, B:E.69, B:G.140, B:G.141, B:S.145, B:S.172, B:S.176, B:E.181 pi-Stacking: B:Y.222, B:Y.222

2 x MG: MAGNESIUM ION(Non-functional Binders)(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: Q.11, E.71, D.98 Chain B: K.252 Ligands: GTP.1 No protein-ligand interaction detected (PLIP) MG.4: 3 residues within 4Å: Chain B: Q.11, E.69 Ligands: GTP.3 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gaillard, N. et al., Inhibiting parasite proliferation using a rationally designed anti-tubulin agent. Embo Mol Med (2021)

Release Date

2021-09-22

Peptides

Tubulin alpha chain: A
Tubulin beta chain: B
Darpin D1: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
F

Tubulin alpha chain

Tubulin beta chain

Darpin D1

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