SMTL ID : 9qfo.1

Cryo-EM structure of the cofilactin filament pointed end

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-6-mer

Ligands

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

ADP.1: 17 residues within 4Å: Chain E: G.12, S.13, G.14, M.15, K.17, G.155, D.156, R.209, K.212, E.213, G.300, G.301, T.302, M.304, Y.305, K.335 Ligands: MG.2 12 PLIP interactions: 12 interactions with chain E Hydrogen bonds: E:S.13, E:G.14, E:M.15, E:D.156, E:D.156, E:K.212, E:E.213, E:E.213, E:G.301 Salt bridges: E:K.17, E:K.17 pi-Stacking: E:Y.305 ADP.3: 17 residues within 4Å: Chain F: G.12, S.13, G.14, M.15, K.17, G.155, D.156, R.209, K.212, E.213, G.300, G.301, T.302, M.304, Y.305, K.335 Ligands: MG.4 12 PLIP interactions: 12 interactions with chain F Hydrogen bonds: F:S.13, F:G.14, F:M.15, F:D.156, F:D.156, F:K.212, F:E.213, F:E.213, F:G.301 Salt bridges: F:K.17, F:K.17 pi-Stacking: F:Y.305 ADP.5: 18 residues within 4Å: Chain G: G.12, S.13, G.14, M.15, K.17, S.154, G.155, D.156, R.209, K.212, E.213, G.300, G.301, T.302, M.304, Y.305, K.335 Ligands: MG.6 14 PLIP interactions: 14 interactions with chain G Hydrogen bonds: G:S.13, G:S.13, G:G.14, G:M.15, G:D.156, G:D.156, G:K.212, G:E.213, G:E.213, G:G.301 Salt bridges: G:K.17, G:K.17, G:K.335 pi-Stacking: G:Y.305 ADP.7: 17 residues within 4Å: Chain H: G.12, S.13, G.14, M.15, K.17, G.155, D.156, R.209, K.212, E.213, G.300, G.301, T.302, M.304, Y.305, K.335 Ligands: MG.8 13 PLIP interactions: 13 interactions with chain H Hydrogen bonds: H:S.13, H:S.13, H:G.14, H:M.15, H:D.156, H:D.156, H:K.212, H:E.213, H:E.213, H:G.301 Salt bridges: H:K.17, H:K.17 pi-Stacking: H:Y.305 ADP.9: 17 residues within 4Å: Chain I: G.12, S.13, G.14, M.15, K.17, G.155, D.156, R.209, K.212, E.213, G.300, G.301, T.302, M.304, Y.305, K.335 Ligands: MG.10 13 PLIP interactions: 13 interactions with chain I Hydrogen bonds: I:S.13, I:S.13, I:G.14, I:M.15, I:D.156, I:D.156, I:K.212, I:E.213, I:E.213, I:G.301 Salt bridges: I:K.17, I:K.17 pi-Stacking: I:Y.305 ADP.11: 18 residues within 4Å: Chain J: G.12, S.13, G.14, M.15, K.17, S.154, G.155, D.156, R.209, K.212, E.213, G.300, G.301, T.302, M.304, Y.305, K.335 Ligands: MG.12 12 PLIP interactions: 12 interactions with chain J Hydrogen bonds: J:S.13, J:G.14, J:M.15, J:D.156, J:D.156, J:K.212, J:E.213, J:E.213, J:G.301 Salt bridges: J:K.17, J:K.17 pi-Stacking: J:Y.305

6 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain E: D.153 Ligands: ADP.1 No protein-ligand interaction detected (PLIP) MG.4: 2 residues within 4Å: Chain F: D.153 Ligands: ADP.3 No protein-ligand interaction detected (PLIP) MG.6: 2 residues within 4Å: Chain G: D.153 Ligands: ADP.5 No protein-ligand interaction detected (PLIP) MG.8: 3 residues within 4Å: Chain H: Q.136, D.153 Ligands: ADP.7 No protein-ligand interaction detected (PLIP) MG.10: 2 residues within 4Å: Chain I: D.153 Ligands: ADP.9 No protein-ligand interaction detected (PLIP) MG.12: 3 residues within 4Å: Chain J: Q.136, D.153 Ligands: ADP.11 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Oosterheert, W. et al., Choreography of rapid actin filament disassembly by coronin, cofilin and AIP1. To Be Published

Release Date

2025-10-08

Peptides

Cofilin-1: ABCD
Actin, cytoplasmic 1, N-terminally processed: EFGHIJ

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

B
H

C
I

D
J

E
A

F
B

G
C

H
D

I
E

J
F

Cofilin-1

Actin, cytoplasmic 1, N-terminally processed

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