SMTL ID : 7whf.2 (1 other biounit)

Heimdallarchaeota gelsolin (2DGel) bound to rabbit actin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

hetero-1-1-mer

Ligands

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

ATP.1: 22 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.185, R.212, K.215, E.216, G.303, G.304, T.305, M.307, Y.308, K.338 Ligands: CA.2 25 PLIP interactions: 25 interactions with chain A Hydrogen bonds: A:S.16, A:S.16, A:G.17, A:L.18, A:G.158, A:D.159, A:D.159, A:D.159, A:G.160, A:V.161, A:V.161, A:K.215, A:E.216, A:G.304, A:K.338 Water bridges: A:K.20, A:K.20, A:D.156, A:D.156, A:V.161, A:Y.308, A:K.338 Salt bridges: A:K.20, A:K.20 pi-Stacking: A:Y.308

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

CA.2: 1 residues within 4Å: Ligands: ATP.1 No protein-ligand interaction detected (PLIP) CA.5: 5 residues within 4Å: Chain B: G.24, D.25, D.60, D.104, T.105 6 PLIP interactions: 5 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:G.24, B:D.25, B:D.60, B:D.104, B:T.105, H2O.9 CA.6: 3 residues within 4Å: Chain B: D.190, R.195, P.197 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.190, B:R.195, B:P.197 CA.7: 4 residues within 4Å: Chain A: E.169 Chain B: D.72, Q.76, I.78 5 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: A:E.169, B:D.72, B:Q.76, B:I.78, H2O.9 CA.8: 4 residues within 4Å: Chain B: D.120, Y.121, D.222, K.224 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.120, B:Y.121, B:D.222, B:K.224 CA.9: 7 residues within 4Å: Chain B: D.128, D.130, D.133, S.135, D.138, D.139 Ligands: CA.10 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.128, B:D.130, B:S.135, B:D.138, B:D.139 CA.10: 4 residues within 4Å: Chain B: D.133, D.138, D.139 Ligands: CA.9 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.133, B:D.138, B:D.139, B:D.139, H2O.7 CA.11: 4 residues within 4Å: Chain B: E.155, D.156, Q.175, E.178 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.155, B:D.156, B:E.178, H2O.9, H2O.10 CA.12: 4 residues within 4Å: Chain A: D.294 Chain B: D.79, I.80, D.81 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.79, B:D.81, H2O.3

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 4 residues within 4Å: Chain A: Y.220, L.238, R.256 Ligands: GOL.4 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.256, A:R.256 GOL.4: 8 residues within 4Å: Chain A: K.240, R.256 Chain B: D.165, Y.167, Y.200, G.210, F.214 Ligands: GOL.3 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:D.165, B:G.210, A:K.240, A:K.240, A:R.256

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Akil, C. et al., Structural and biochemical evidence for the emergence of a calcium-regulated actin cytoskeleton prior to eukaryogenesis. Commun Biol (2022)

Release Date

2022-09-21

Peptides

Actin, alpha skeletal muscle: A
Heimdallarchaeota Gelsolin domain-containing protein 2DGel: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

Actin, alpha skeletal muscle

Heimdallarchaeota Gelsolin domain-containing protein 2DGel

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