SMTL ID : 7aln.1

Cryo-EM structure of the divergent actomyosin complex from Plasmodium falciparum Myosin A in the Rigor state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-5-1-mer

Ligands

5 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 16 residues within 4Å: Chain A: G.14, S.15, G.16, N.17, K.19, G.157, D.158, R.211, K.214, E.215, G.303, T.304, M.306, Y.307, K.337 Ligands: MG.2 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:S.15, A:G.16, A:N.17, A:N.17, A:D.158, A:D.158, A:E.215, A:G.303, A:K.337 Salt bridges: A:K.19, A:K.19 pi-Stacking: A:Y.307 ADP.4: 17 residues within 4Å: Chain B: D.12, G.14, S.15, G.16, N.17, K.19, G.157, D.158, R.211, K.214, E.215, G.303, T.304, M.306, Y.307, K.337 Ligands: MG.5 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:S.15, B:G.16, B:N.17, B:N.17, B:D.158, B:D.158, B:E.215, B:G.303, B:K.337 Salt bridges: B:K.19, B:K.19 pi-Stacking: B:Y.307 ADP.6: 17 residues within 4Å: Chain C: D.12, G.14, S.15, G.16, N.17, K.19, G.157, D.158, R.211, K.214, E.215, G.303, T.304, M.306, Y.307, K.337 Ligands: MG.7 12 PLIP interactions: 12 interactions with chain C Hydrogen bonds: C:S.15, C:G.16, C:N.17, C:N.17, C:D.158, C:D.158, C:G.303, C:K.337, C:K.337 Salt bridges: C:K.19, C:K.19 pi-Stacking: C:Y.307 ADP.9: 17 residues within 4Å: Chain D: D.12, G.14, S.15, G.16, N.17, K.19, G.157, D.158, R.211, K.214, E.215, G.303, T.304, M.306, Y.307, K.337 Ligands: MG.10 12 PLIP interactions: 12 interactions with chain D Hydrogen bonds: D:S.15, D:G.16, D:N.17, D:N.17, D:D.158, D:D.158, D:E.215, D:G.303, D:K.337 Salt bridges: D:K.19, D:K.19 pi-Stacking: D:Y.307 ADP.11: 16 residues within 4Å: Chain E: D.12, G.14, S.15, G.16, N.17, K.19, G.157, D.158, R.211, K.214, E.215, G.303, T.304, M.306, K.337 Ligands: MG.12 12 PLIP interactions: 12 interactions with chain E Hydrogen bonds: E:S.15, E:G.16, E:N.17, E:N.17, E:D.158, E:D.158, E:G.303, E:K.337, E:K.337 Salt bridges: E:K.19, E:K.19 pi-Stacking: E:Y.307

5 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: D.12, K.19, Q.138 Ligands: ADP.1 No protein-ligand interaction detected (PLIP) MG.5: 3 residues within 4Å: Chain B: Q.138, D.155 Ligands: ADP.4 No protein-ligand interaction detected (PLIP) MG.7: 3 residues within 4Å: Chain C: K.19, Q.138 Ligands: ADP.6 No protein-ligand interaction detected (PLIP) MG.10: 2 residues within 4Å: Chain D: Q.138 Ligands: ADP.9 No protein-ligand interaction detected (PLIP) MG.12: 2 residues within 4Å: Chain E: K.19 Ligands: ADP.11 No protein-ligand interaction detected (PLIP)

3 x 9UE: Jasplakinolide(Non-covalent)

9UE.3: 17 residues within 4Å: Chain A: H.195, G.198, Y.199, G.200, F.201, E.206, L.243, N.247, I.249 Chain B: V.288 Chain D: H.74, I.76, L.111, P.113, G.115, R.178, D.180 12 PLIP interactions: 7 interactions with chain A, 4 interactions with chain D, 1 interactions with chain B Hydrophobic interactions: A:Y.199, A:F.201, A:L.243, A:N.247, A:I.249, D:I.76, D:P.113, B:V.288 Hydrogen bonds: A:G.198, A:G.200, D:G.115, D:D.180 9UE.8: 17 residues within 4Å: Chain A: V.288 Chain C: H.195, G.198, Y.199, G.200, F.201, E.206, L.243, N.247, I.248, I.249 Chain E: H.74, I.76, L.111, P.113, R.178, D.180 13 PLIP interactions: 9 interactions with chain C, 3 interactions with chain E, 1 interactions with chain A Hydrophobic interactions: C:Y.199, C:Y.199, C:F.201, C:F.201, C:L.243, C:N.247, C:I.249, E:I.76, E:P.113, A:V.288 Hydrogen bonds: C:G.198, C:G.200, E:D.180 9UE.13: 17 residues within 4Å: Chain A: H.74, I.76, L.111, P.113, R.178, D.180 Chain D: V.288 Chain E: H.195, G.198, Y.199, G.200, F.201, E.206, L.243, N.247, I.248, I.249 12 PLIP interactions: 8 interactions with chain E, 3 interactions with chain A, 1 interactions with chain D Hydrophobic interactions: E:Y.199, E:Y.199, E:F.201, E:L.243, E:N.247, E:I.249, A:I.76, A:P.113, D:V.288 Hydrogen bonds: E:G.198, E:G.200, A:D.180

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Robert-Paganin, J. et al., The actomyosin interface contains an evolutionary conserved core and an ancillary interface involved in specificity. Nat Commun (2021)

Release Date

2021-04-28

Peptides

Actin-1: ABCDE
Myosin-A: F

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

Actin-1

Myosin-A