SMTL ID : 8gt5.1

Crystal structure of human cardiac alpha actin Q137A mutant (ADP-Pi state) in complex with fragmin F1 domain

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

hetero-1-1-mer

Ligands

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

ADP.1: 19 residues within 4Å: Chain A: G.29, S.30, G.31, L.32, K.34, G.172, D.173, G.198, R.226, K.229, E.230, G.317, G.318, T.319, M.321, Y.322, K.352 Ligands: MG.2, PO4.3 26 PLIP interactions: 26 interactions with chain A Hydrogen bonds: A:S.30, A:G.31, A:L.32, A:L.32, A:D.173, A:D.173, A:D.173, A:G.174, A:K.229, A:E.230, A:G.318, A:T.319, A:K.352 Water bridges: A:K.34, A:T.202, A:R.226, A:E.230, A:E.230, A:E.230, A:E.230, A:M.321, A:Y.322, A:K.352 Salt bridges: A:K.34, A:K.34 pi-Stacking: A:Y.322

1 x MG: MAGNESIUM ION(Non-functional Binders)

MG.2: 2 residues within 4Å: Ligands: ADP.1, PO4.3 No protein-ligand interaction detected (PLIP)

3 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.3: 8 residues within 4Å: Chain A: S.30, G.90, G.172, D.173, G.174, V.175 Ligands: ADP.1, MG.2 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:S.30, A:G.172, A:G.174, A:V.175, A:V.175 Water bridges: A:D.170, A:D.170, A:H.177 PO4.4: 2 residues within 4Å: Chain A: R.55, H.56 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.55 Salt bridges: A:R.55, A:H.56 PO4.5: 1 residues within 4Å: Chain A: R.111 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.111, A:R.111 Salt bridges: A:R.111

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.6: 6 residues within 4Å: Chain A: Y.149, A.151, I.152, V.155, F.368, F.391 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:I.152 Water bridges: A:F.391, A:F.391, A:F.391, B:K.28 EDO.9: 5 residues within 4Å: Chain B: S.78, Y.80, D.92, L.141 Ligands: EDO.10 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.78, B:S.78 EDO.10: 4 residues within 4Å: Chain B: Y.80, D.92, R.137 Ligands: EDO.9 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.92, B:R.137 Water bridges: B:Y.127

2 x CA: CALCIUM ION(Non-covalent)

CA.7: 4 residues within 4Å: Chain A: E.183 Chain B: D.117, G.122, P.124 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.117, B:G.122, B:P.124, H2O.14, H2O.28 CA.8: 4 residues within 4Å: Chain B: G.71, D.72, E.105, V.154 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.72, B:E.105, B:V.154, H2O.26, H2O.27

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Iwasa, M. et al., Mutagenic analysis of actin reveals the mechanism of His161 flipping that triggers ATP hydrolysis. Front Cell Dev Biol (2023)

Release Date

2023-03-08

Peptides

Actin, alpha cardiac muscle 1: A
Actin-binding protein fragmin P: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Actin, alpha cardiac muscle 1

Actin-binding protein fragmin P

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