SMTL ID : 9azp.1

INF2 at the Barbed End of F-Actin with Incoming Profilin-Actin

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-7-2-1-mer

Ligands

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

ADP.1: 16 residues within 4Å: Chain A: G.9, S.10, G.11, L.12, K.14, G.152, D.153, R.206, K.209, E.210, G.298, T.299, M.301, Y.302, K.332 Ligands: MG.2 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:G.9, A:S.10, A:G.11, A:D.153, A:D.153, A:K.209, A:G.298, A:M.301, A:K.332 Salt bridges: A:K.14, A:K.14 pi-Stacking: A:Y.302 ADP.3: 16 residues within 4Å: Chain B: G.9, S.10, G.11, L.12, K.14, G.152, D.153, R.206, K.209, E.210, G.298, T.299, M.301, Y.302, K.332 Ligands: MG.4 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:S.10, B:G.11, B:D.153, B:D.153, B:K.209, B:G.298 Salt bridges: B:K.14, B:K.14 ADP.5: 17 residues within 4Å: Chain C: D.7, G.9, S.10, G.11, L.12, K.14, Q.133, G.152, D.153, K.209, E.210, G.298, T.299, M.301, Y.302, K.332 Ligands: MG.6 13 PLIP interactions: 13 interactions with chain C Hydrogen bonds: C:S.10, C:S.10, C:G.11, C:L.12, C:L.12, C:D.153, C:D.153, C:K.209, C:E.210, C:G.298, C:K.332 Salt bridges: C:K.14, C:K.14 ADP.7: 16 residues within 4Å: Chain D: D.7, G.9, S.10, G.11, L.12, K.14, G.152, D.153, K.209, E.210, G.298, T.299, M.301, Y.302, K.332 Ligands: MG.8 11 PLIP interactions: 11 interactions with chain D Hydrogen bonds: D:S.10, D:G.11, D:D.153, D:D.153, D:K.209, D:G.298, D:K.332, D:K.332 Salt bridges: D:K.14, D:K.14 pi-Stacking: D:Y.302 ADP.9: 18 residues within 4Å: Chain E: D.7, G.9, S.10, G.11, L.12, K.14, Q.133, G.152, D.153, R.206, K.209, E.210, G.298, T.299, M.301, Y.302, K.332 Ligands: MG.10 10 PLIP interactions: 10 interactions with chain E Hydrogen bonds: E:S.10, E:G.11, E:L.12, E:L.12, E:D.153, E:K.209, E:G.298, E:K.332 Salt bridges: E:K.14, E:K.14 ADP.11: 17 residues within 4Å: Chain F: G.9, S.10, G.11, L.12, K.14, G.152, D.153, R.206, K.209, E.210, G.297, G.298, T.299, M.301, Y.302, K.332 Ligands: MG.12 11 PLIP interactions: 11 interactions with chain F Hydrogen bonds: F:S.10, F:L.12, F:G.152, F:D.153, F:D.153, F:K.209, F:E.210, F:G.298, F:K.332 Salt bridges: F:K.14, F:K.14

7 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain A: G.152 Ligands: ADP.1 No protein-ligand interaction detected (PLIP) MG.4: 3 residues within 4Å: Chain B: G.152, D.153 Ligands: ADP.3 No protein-ligand interaction detected (PLIP) MG.6: 4 residues within 4Å: Chain C: D.7, Q.133, V.335 Ligands: ADP.5 No protein-ligand interaction detected (PLIP) MG.8: 2 residues within 4Å: Chain D: G.152 Ligands: ADP.7 No protein-ligand interaction detected (PLIP) MG.10: 4 residues within 4Å: Chain E: D.7, Q.133, V.335 Ligands: ADP.9 No protein-ligand interaction detected (PLIP) MG.12: 2 residues within 4Å: Chain F: K.14 Ligands: ADP.11 No protein-ligand interaction detected (PLIP) MG.14: 4 residues within 4Å: Chain I: D.7, G.9, K.14 Ligands: ATP.13 2 PLIP interactions: 2 interactions with chain I Metal complexes: I:D.7, I:D.7

1 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.13: 23 residues within 4Å: Chain I: D.7, G.9, S.10, G.11, L.12, K.14, Q.133, G.152, D.153, G.154, V.155, G.178, R.179, R.206, K.209, E.210, G.297, G.298, T.299, M.301, Y.302, K.332 Ligands: MG.14 17 PLIP interactions: 17 interactions with chain I Hydrogen bonds: I:S.10, I:S.10, I:G.11, I:L.12, I:Q.133, I:Q.133, I:G.152, I:D.153, I:D.153, I:G.154, I:V.155, I:K.209, I:E.210, I:G.298, I:K.332 Salt bridges: I:K.14, I:K.14

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Palmer, N.J. et al., Mechanisms of actin filament severing and elongation by formins. Nature (2024)

Release Date

2024-05-29

Peptides

Actin, alpha skeletal muscle: ABCDEFI
Inverted formin-2: GH
Profilin-1: J

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

I
I

G
G

H
H

J
J

Actin, alpha skeletal muscle

Inverted formin-2

Profilin-1

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