SMTL ID : 7bti.1

Phalloidin bound F-actin complex

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-pentamer

Ligands

3 x HYP- ALA- TRP- G5G- ALA- ALO- CYS: Phalloidin(Non-covalent)

HYP-ALA-TRP-G5G-ALA-ALO-CYS.1: 15 residues within 4Å: Chain C: T.196, G.199, Y.200, S.201, F.202, E.207, Q.248 Chain D: E.74, H.75, I.77, T.79, L.112, P.114, R.179 Chain E: I.289 9 PLIP interactions: 3 interactions with chain D, 5 interactions with chain C, 1 interactions with chain E Hydrophobic interactions: D:E.74, D:T.79, D:P.114, C:T.196, C:Y.200, C:F.202, E:I.289 Hydrogen bonds: C:G.199, C:Q.248 HYP-ALA-TRP-G5G-ALA-ALO-CYS.2: 13 residues within 4Å: Chain A: T.196, R.198, G.199, Y.200, S.201, E.207, Q.248 Chain B: E.74, I.77, L.112, P.114, R.179 Chain C: I.289 8 PLIP interactions: 3 interactions with chain B, 4 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: B:E.74, B:I.77, B:P.114, A:T.196, C:I.289 Hydrogen bonds: A:G.199, A:G.199, A:Q.248 HYP-ALA-TRP-G5G-ALA-ALO-CYS.3: 14 residues within 4Å: Chain B: T.196, G.199, Y.200, S.201, F.202, E.207, Q.248 Chain C: E.74, H.75, I.77, T.79, P.114, R.179 Chain D: I.289 10 PLIP interactions: 4 interactions with chain C, 1 interactions with chain D, 5 interactions with chain B Hydrophobic interactions: C:E.74, C:T.79, C:P.114, D:I.289, B:T.196, B:Y.200, B:F.202 Hydrogen bonds: C:H.75, B:G.199, B:Q.248

5 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 3 residues within 4Å: Chain A: Q.139, D.156 Ligands: ADP.5 No protein-ligand interaction detected (PLIP) MG.6: 3 residues within 4Å: Chain B: Q.139, D.156 Ligands: ADP.7 No protein-ligand interaction detected (PLIP) MG.8: 2 residues within 4Å: Chain C: Q.139 Ligands: ADP.9 No protein-ligand interaction detected (PLIP) MG.10: 3 residues within 4Å: Chain D: Q.139, D.156 Ligands: ADP.11 No protein-ligand interaction detected (PLIP) MG.12: 3 residues within 4Å: Chain E: Q.139, D.156 Ligands: ADP.13 No protein-ligand interaction detected (PLIP)

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

ADP.5: 16 residues within 4Å: Chain A: G.15, S.16, G.17, L.18, K.20, G.158, D.159, G.184, E.216, G.303, G.304, T.305, M.307, Y.308, K.338 Ligands: MG.4 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:S.16, A:G.17, A:D.159, A:D.159, A:E.216, A:G.304 Salt bridges: A:K.20, A:K.20 pi-Stacking: A:Y.308 ADP.7: 18 residues within 4Å: Chain B: G.15, S.16, G.17, L.18, K.20, Q.139, G.158, D.159, G.184, K.215, E.216, G.303, G.304, T.305, M.307, Y.308, K.338 Ligands: MG.6 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:S.16, B:G.17, B:L.18, B:Q.139, B:D.159, B:G.184, B:K.215, B:G.304 Salt bridges: B:K.20, B:K.20 ADP.9: 18 residues within 4Å: Chain C: G.15, S.16, G.17, L.18, K.20, S.157, G.158, D.159, G.184, K.215, E.216, G.303, G.304, T.305, M.307, Y.308, K.338 Ligands: MG.8 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:S.16, C:G.17, C:D.159, C:G.184, C:K.215, C:G.304, C:T.305 Salt bridges: C:K.20, C:K.20 ADP.11: 18 residues within 4Å: Chain D: G.15, S.16, G.17, L.18, K.20, S.157, G.158, D.159, G.184, R.212, K.215, E.216, G.303, G.304, T.305, Y.308, K.338 Ligands: MG.10 9 PLIP interactions: 9 interactions with chain D Hydrogen bonds: D:S.16, D:G.17, D:D.159, D:G.184, D:K.215, D:E.216, D:G.304 Salt bridges: D:K.20, D:K.20 ADP.13: 19 residues within 4Å: Chain E: G.15, S.16, G.17, L.18, K.20, S.157, G.158, D.159, G.184, R.212, K.215, E.216, G.303, G.304, T.305, M.307, Y.308, K.338 Ligands: MG.12 10 PLIP interactions: 10 interactions with chain E Hydrogen bonds: E:S.16, E:G.17, E:L.18, E:D.159, E:K.215, E:G.304, E:M.307 Salt bridges: E:K.20, E:K.20 pi-Stacking: E:Y.308

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kumari, A. et al., Structural insights into actin filament recognition by commonly used cellular actin markers. Embo J. (2020)

Release Date

2020-05-20

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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