SMTL ID : 5ubo.1

Mical-oxidized Actin complex with Gelsolin Segment 1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.39 Å

Oligo State

hetero-1-1-mer

Ligands

3 x CA: CALCIUM ION(Non-functional Binders)(Non-covalent)

CA.1: 1 residues within 4Å: Ligands: ATP.2 No protein-ligand interaction detected (PLIP) CA.4: 4 residues within 4Å: Chain A: E.169 Chain B: D.85, G.90, A.92 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.85, B:D.85, B:G.90, B:A.92, H2O.5 CA.5: 4 residues within 4Å: Chain B: G.41, D.42, E.73, V.121 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.42, B:E.73, B:V.121, H2O.4, H2O.5

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

ATP.2: 21 residues within 4Å: Chain A: G.15, S.16, G.17, L.18, K.20, G.76, G.158, D.159, G.160, V.161, G.184, R.212, K.215, E.216, G.303, G.304, T.305, M.307, Y.308, K.338 Ligands: CA.1 22 PLIP interactions: 22 interactions with chain A Hydrogen bonds: A:S.16, A:G.17, A:L.18, A:G.158, A:D.159, A:D.159, A:G.160, A:V.161, A:V.161, A:K.215, A:E.216, A:E.216, A:G.304, A:T.305 Water bridges: A:K.20, A:K.20, A:R.212, A:E.216, A:K.338 Salt bridges: A:K.20, A:K.20 pi-Stacking: A:Y.308

1 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.3: 10 residues within 4Å: Chain A: Y.135, Y.145, G.170, Y.171, L.348, M.357, F.377 Chain B: I.79, V.82, Q.83 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:I.79, B:Q.83, A:L.348 Hydrogen bonds: A:Y.171

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Grintsevich, E.E. et al., Catastrophic depolymerization of actin filaments: structural and functional effects of Mical oxidation. Nat Commun (2017)

Release Date

2017-12-20

Peptides

Actin, alpha skeletal muscle: A
Gelsolin: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
S

Actin, alpha skeletal muscle

Gelsolin

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