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SMTL ID : 8vso.1

Ternary structure of 14-3-3 sigma, BRAF phosphopeptide (pS365) and compound 78 (1124378)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-dimer

Ligands

2 x ASP- ARG- SER- SER- SEP- ALA- PRO- ASN- VAL: Serine/threonine-protein kinase B-raf phosphopeptide(Non-covalent)

ASP-ARG-SER-SER-SEP-ALA-PRO-ASN-VAL.1:

18 residues within 4Å:

Chain A: N.47, V.51, K.54, N.55, R.61, R.65, R.134, Y.135, L.179, N.180, V.183, Y.186, E.187, L.227, N.231, L.234, W.235
Ligands: WQN.5

21 PLIP interactions:

21 interactions with chain A

Hydrophobic interactions: A:L.227
Hydrogen bonds: A:N.47, A:V.51, A:N.55, A:R.65, A:N.180, A:E.187, A:N.231, A:N.231
Water bridges: A:K.54, A:K.54, A:R.61, A:R.61, A:R.61, A:R.65, A:N.180, A:N.180, A:N.180
Salt bridges: A:K.54, A:R.61, A:R.134

ASP-ARG-SER-SER-SEP-ALA-PRO-ASN-VAL.6:

18 residues within 4Å:

Chain B: N.47, V.51, K.54, N.55, R.61, R.65, R.134, Y.135, L.179, N.180, V.183, Y.186, E.187, L.227, N.231, L.234, W.235
Ligands: WQN.10

22 PLIP interactions:

22 interactions with chain B

Hydrophobic interactions: B:L.227
Hydrogen bonds: B:N.47, B:V.51, B:N.55, B:Y.135, B:N.180, B:E.187, B:E.187, B:N.231, B:N.231
Water bridges: B:K.54, B:K.54, B:R.61, B:R.61, B:R.61, B:R.65, B:N.180, B:N.180, B:N.180
Salt bridges: B:K.54, B:R.61, B:R.134

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

CL.2:	4 residues within 4Å: Chain A: E.88, Y.89, K.92 Chain B: K.14 Ligand excluded by PLIP
CL.7:	4 residues within 4Å: Chain A: K.14 Chain B: E.88, Y.89, K.92 Ligand excluded by PLIP

4 x MG: MAGNESIUM ION(Non-covalent)

MG.3:	1 residues within 4Å: Chain A: E.94 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.94, H₂O.2, H₂O.7
MG.4:	1 residues within 4Å: Chain A: E.193 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.193, H₂O.5
MG.8:	1 residues within 4Å: Chain B: E.94 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.94, H₂O.10, H₂O.15
MG.9:	1 residues within 4Å: Chain B: E.193 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.193, H₂O.13

2 x WQN: 1-[8-(4-bromophenyl)sulfonyl-5-oxa-2,8-diazaspiro[3.5]nonan-2-yl]-2-chloranyl-ethanone(Covalent)

WQN.5:	13 residues within 4Å: Chain A: C.43, R.46, N.47, S.50, E.120, F.124, K.127, P.172, I.173, I.224 Ligands: ASP-ARG-SER-SER-SEP-ALA-PRO-ASN-VAL.1, ASP-ARG-SER-SER-SEP-ALA-PRO-ASN-VAL.1, ASP-ARG-SER-SER-SEP-ALA-PRO-ASN-VAL.1 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.224 Hydrogen bonds: A:R.46, A:N.47 Water bridges: A:K.127
WQN.10:	13 residues within 4Å: Chain B: C.43, R.46, N.47, S.50, E.120, F.124, K.127, P.172, I.173, I.224 Ligands: ASP-ARG-SER-SER-SEP-ALA-PRO-ASN-VAL.6, ASP-ARG-SER-SER-SEP-ALA-PRO-ASN-VAL.6, ASP-ARG-SER-SER-SEP-ALA-PRO-ASN-VAL.6 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:I.224 Hydrogen bonds: B:R.46, B:N.47 Water bridges: B:K.127, B:D.131

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Vickery, H.R. et al., Ternary structure of 14-3-3 sigma, BRAF phosphopeptide (pS365) and compound 78 (1124378). To Be Published

Release Date

2025-03-19

Peptides

14-3-3 protein sigma: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
B

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

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NGLPV2D

14-3-3 protein sigma

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