SMTL ID : 6ghp.1

14-3-3sigma in complex with a TASK3 peptide stabilized by semi-synthetic natural product FC-NAc

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

2 x ARG- ARG- LYS- SEP- VAL: Potassium channel subfamily K member 9(Non-covalent)

ARG-ARG-LYS-SEP-VAL.1: 19 residues within 4Å: Chain A: K.54, R.61, R.65, K.127, R.134, Y.135, E.138, G.176, L.179, N.180, V.183, E.187, I.224, L.227, D.230, N.231, L.234, W.235 Ligands: EZ5.2 28 PLIP interactions: 28 interactions with chain A Hydrophobic interactions: A:L.179, A:L.227, A:D.230 Hydrogen bonds: A:R.61, A:R.134, A:Y.135, A:E.138, A:E.138, A:N.180, A:N.180, A:N.180, A:D.230, A:N.231, A:N.231 Water bridges: A:K.54, A:R.61, A:R.61, A:K.127, A:E.138, A:E.187, A:E.187 Salt bridges: A:K.54, A:K.54, A:R.61, A:K.127, A:R.134, A:E.187, A:E.187 ARG-ARG-LYS-SEP-VAL.6: 19 residues within 4Å: Chain B: K.54, R.61, R.65, K.127, R.134, Y.135, E.138, G.176, L.179, N.180, V.183, E.187, I.224, L.227, D.230, N.231, L.234, W.235 Ligands: EZ5.7 28 PLIP interactions: 28 interactions with chain B Hydrophobic interactions: B:L.179, B:L.227, B:D.230 Hydrogen bonds: B:R.61, B:R.134, B:Y.135, B:E.138, B:N.180, B:N.180, B:D.230, B:D.230, B:N.231, B:N.231 Water bridges: B:K.54, B:R.61, B:R.61, B:K.127, B:E.138, B:E.187, B:E.187, B:E.187 Salt bridges: B:K.54, B:K.54, B:R.61, B:K.127, B:R.134, B:E.187, B:E.187

2 x EZ5: ~{N}-[(2~{S})-2-[(1~{E},3~{R},4~{S},8~{R},9~{R},10~{R},11~{S},14~{S})-14-(methoxymethyl)-3,10-dimethyl-8-[(2~{S},3~{R},4~{S},5~{S},6~{R})-6-(2-methylbut-3-en-2-yloxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-4,9-bis(oxidanyl)-6-tricyclo[9.3.0.0^{3,7}]tetradeca-1,6-dienyl]propyl]ethanamide(Non-covalent)

EZ5.2: 18 residues within 4Å: Chain A: E.19, M.27, E.44, N.47, L.48, S.50, V.51, F.124, K.127, M.128, P.172, I.173, G.176, K.219, D.220, L.223, I.224 Ligands: ARG-ARG-LYS-SEP-VAL.1 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:E.44, A:L.48, A:F.124, A:I.173, A:K.219, A:L.223, A:I.224 Hydrogen bonds: A:K.127, A:D.220, A:D.220, A:D.220 Water bridges: A:N.47, A:N.47, A:N.47 EZ5.7: 18 residues within 4Å: Chain B: E.19, M.27, E.44, N.47, L.48, S.50, V.51, F.124, K.127, M.128, P.172, I.173, G.176, K.219, D.220, L.223, I.224 Ligands: ARG-ARG-LYS-SEP-VAL.6 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:E.44, B:L.48, B:F.124, B:I.173, B:K.219, B:L.223, B:I.224 Hydrogen bonds: B:K.127, B:D.220, B:D.220, B:D.220 Water bridges: B:N.47, B:N.47, B:N.47

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 6 residues within 4Å: Chain A: M.6, K.14, F.30 Chain B: E.88, Y.89, K.92 Ligand excluded by PLIP CL.8: 6 residues within 4Å: Chain A: E.88, Y.89, K.92 Chain B: M.6, K.14, F.30 Ligand excluded by PLIP

4 x NA: SODIUM ION(Non-functional Binders)

NA.4: 1 residues within 4Å: Chain A: E.193 No protein-ligand interaction detected (PLIP) NA.5: 2 residues within 4Å: Chain A: T.233, T.236 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.233 NA.9: 1 residues within 4Å: Chain B: E.193 No protein-ligand interaction detected (PLIP) NA.10: 2 residues within 4Å: Chain B: T.233, T.236 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.236 Water bridges: B:T.236

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Andrei, S.A. et al., Rationally Designed Semisynthetic Natural Product Analogues for Stabilization of 14-3-3 Protein-Protein Interactions. Angew. Chem. Int. Ed. Engl. (2018)

Release Date

2018-08-01

Peptides

14-3-3 protein sigma: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

14-3-3 protein sigma

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