SMTL ID : 1yxq.1

Crystal structure of actin in complex with swinholide A

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.01 Å

Oligo State

homo-dimer

Ligands

3 x MG: MAGNESIUM ION(Non-functional Binders)(Non-covalent)

MG.1: 1 residues within 4Å: Ligands: ATP.3 No protein-ligand interaction detected (PLIP) MG.2: 1 residues within 4Å: Chain A: E.205 6 PLIP interactions: 1 interactions with chain A, 5 Ligand-Water interactions Metal complexes: A:E.205, H2O.1, H2O.1, H2O.1, H2O.1, H2O.1 MG.5: 2 residues within 4Å: Chain B: Q.137 Ligands: ATP.6 No protein-ligand interaction detected (PLIP)

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

ATP.3: 21 residues within 4Å: Chain A: G.13, S.14, G.15, L.16, K.18, G.74, G.156, D.157, G.158, G.182, R.183, R.210, K.213, E.214, G.301, G.302, T.303, M.305, Y.306, K.336 Ligands: MG.1 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:S.14, A:G.15, A:L.16, A:D.157, A:G.158, A:K.213, A:E.214, A:E.214, A:G.302, A:T.303 Water bridges: A:S.14, A:S.14, A:K.18, A:K.18, A:G.156, A:V.159 Salt bridges: A:K.18, A:K.18 pi-Stacking: A:Y.306 ATP.6: 23 residues within 4Å: Chain B: G.13, S.14, G.15, L.16, K.18, G.74, Q.137, G.156, D.157, G.158, V.159, G.182, R.183, R.210, K.213, E.214, G.301, G.302, T.303, M.305, Y.306, K.336 Ligands: MG.5 20 PLIP interactions: 20 interactions with chain B Hydrogen bonds: B:S.14, B:S.14, B:G.15, B:L.16, B:Q.137, B:G.156, B:D.157, B:D.157, B:D.157, B:G.158, B:V.159, B:V.159, B:K.213, B:E.214, B:G.302 Water bridges: B:K.18, B:K.18 Salt bridges: B:K.18, B:K.18 pi-Stacking: B:Y.306

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

EDO.4: 6 residues within 4Å: Chain A: A.144, S.145, P.332, E.334, S.338, I.341 1 PLIP interactions: 1 interactions with chain A Water bridges: A:S.338 EDO.8: 6 residues within 4Å: Chain B: A.144, S.145, I.330, P.332, E.334 Ligands: SWI.7 No protein-ligand interaction detected (PLIP)

1 x SWI: SWINHOLIDE A(Non-covalent)

SWI.7: 36 residues within 4Å: Chain A: G.23, D.24, D.25, Y.143, A.144, S.145, G.146, R.147, T.148, Y.169, I.341, S.344, I.345, L.346, S.348, L.349, T.351, M.355 Chain B: G.23, D.24, D.25, Y.133, Y.143, A.144, S.145, G.146, R.147, I.341, S.344, I.345, L.346, S.348, L.349, T.351, M.355 Ligands: EDO.8 19 PLIP interactions: 9 interactions with chain B, 10 interactions with chain A Hydrophobic interactions: B:Y.143, B:Y.143, B:I.341, B:I.345, B:I.345, A:Y.143, A:Y.143, A:Y.143, A:I.341, A:I.345, A:I.345, A:L.346 Hydrogen bonds: B:Y.143, B:S.145, B:G.146, A:G.146, A:R.147 Water bridges: B:R.147, A:R.147

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Klenchin, V.A. et al., Structural basis of swinholide a binding to actin. Chem.Biol. (2005)

Release Date

2005-05-17

Peptides

actin, alpha skeletal muscle: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

actin, alpha skeletal muscle

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