SMTL ID : 6u96.1

Actin phalloidin at BeFx state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-pentamer

Ligands

5 x EEP- ALA- ALO- CYS- HYP- ALA- TRP: PHALLOIDIN Derivative(Non-covalent)

EEP-ALA-ALO-CYS-HYP-ALA-TRP.1: 7 residues within 4Å: Chain A: R.198, G.199, Y.200, S.201 Chain B: E.74, L.112, P.114 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.200 Hydrogen bonds: A:G.199, A:G.199, A:S.201 EEP-ALA-ALO-CYS-HYP-ALA-TRP.2: 8 residues within 4Å: Chain B: T.196, R.198, G.199, Y.200, S.201 Chain D: E.74, L.112, P.114 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:Y.200 Hydrogen bonds: B:G.199, B:G.199, B:S.201 EEP-ALA-ALO-CYS-HYP-ALA-TRP.3: 8 residues within 4Å: Chain A: E.74, L.112, P.114 Chain C: T.196, R.198, G.199, Y.200, S.201 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:Y.200 Hydrogen bonds: C:G.199, C:G.199, C:S.201 EEP-ALA-ALO-CYS-HYP-ALA-TRP.4: 7 residues within 4Å: Chain C: E.74, L.112, P.114 Chain E: R.198, G.199, Y.200, S.201 3 PLIP interactions: 3 interactions with chain E Hydrophobic interactions: E:Y.200 Hydrogen bonds: E:G.199, E:G.199 EEP-ALA-ALO-CYS-HYP-ALA-TRP.5: 3 residues within 4Å: Chain E: E.74, L.112, P.114 No protein-ligand interaction detected (PLIP)

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

ADP.6: 12 residues within 4Å: Chain A: G.15, S.16, L.18, K.20, G.158, D.159, K.215, E.216, G.304, M.307, Y.308, K.338 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:L.18, A:D.159, A:D.159, A:K.215, A:E.216, A:G.304 Salt bridges: A:K.20, A:K.20 pi-Stacking: A:Y.308 ADP.7: 12 residues within 4Å: Chain B: G.15, S.16, L.18, K.20, G.158, D.159, K.215, E.216, G.304, M.307, Y.308, K.338 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:L.18, B:D.159, B:D.159, B:K.215, B:E.216, B:G.304 Salt bridges: B:K.20, B:K.20 pi-Stacking: B:Y.308 ADP.8: 12 residues within 4Å: Chain C: G.15, S.16, L.18, K.20, G.158, D.159, K.215, E.216, G.304, M.307, Y.308, K.338 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:L.18, C:D.159, C:D.159, C:K.215, C:E.216, C:G.304 Salt bridges: C:K.20, C:K.20 pi-Stacking: C:Y.308 ADP.9: 12 residues within 4Å: Chain D: G.15, S.16, L.18, K.20, G.158, D.159, K.215, E.216, G.304, M.307, Y.308, K.338 9 PLIP interactions: 9 interactions with chain D Hydrogen bonds: D:L.18, D:D.159, D:D.159, D:K.215, D:E.216, D:G.304 Salt bridges: D:K.20, D:K.20 pi-Stacking: D:Y.308 ADP.10: 12 residues within 4Å: Chain E: G.15, S.16, L.18, K.20, G.158, D.159, K.215, E.216, G.304, M.307, Y.308, K.338 9 PLIP interactions: 9 interactions with chain E Hydrogen bonds: E:L.18, E:D.159, E:D.159, E:K.215, E:E.216, E:G.304 Salt bridges: E:K.20, E:K.20 pi-Stacking: E:Y.308

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Das, S. et al., D-loop Dynamics and Near-Atomic-Resolution Cryo-EM Structure of Phalloidin-Bound F-Actin. Structure (2020)

Release Date

2020-05-13

Peptides

Actin, alpha skeletal muscle: ABCDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

Actin, alpha skeletal muscle

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