SMTL ID : 4nyj.1

Approach for Targeting Ras with Small Molecules that Activate SOS-Mediated Nucleotide Exchange

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.85 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: S.17, T.35, D.57 Ligands: GNP.2 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:S.17, A:T.35, H2O.1, H2O.1

1 x GNP: PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER(Non-covalent)

GNP.2: 26 residues within 4Å: Chain A: G.12, G.13, V.14, G.15, K.16, S.17, A.18, F.28, V.29, D.30, E.31, Y.32, P.34, T.35, T.58, A.59, G.60, Q.61, N.116, K.117, D.119, L.120, S.145, A.146, K.147 Ligands: MG.1 26 PLIP interactions: 26 interactions with chain A Hydrogen bonds: A:G.13, A:V.14, A:G.15, A:K.16, A:K.16, A:K.16, A:K.16, A:S.17, A:S.17, A:A.18, A:V.29, A:Y.32, A:T.35, A:T.58, A:G.60, A:N.116, A:K.117, A:K.117, A:A.146, A:K.147 Water bridges: A:D.33, A:T.35, A:Q.61 Salt bridges: A:D.119 pi-Stacking: A:F.28, A:F.28

1 x 2PZ: N-[1-(1H-indol-3-ylmethyl)piperidin-4-yl]glycinamide(Non-covalent)

2PZ.3: 6 residues within 4Å: Chain C: M.313, N.314, Y.319, D.322, F.325, E.337 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:M.313 Hydrogen bonds: C:M.313 pi-Stacking: C:Y.319

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Burns, M.C. et al., Approach for targeting Ras with small molecules that activate SOS-mediated nucleotide exchange. Proc.Natl.Acad.Sci.USA (2014)

Release Date

2014-03-12

Peptides

GTPase HRas: A
GTPase HRas: B
Son of sevenless homolog 1: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
Q

B
R

C
S

GTPase HRas

GTPase HRas

Son of sevenless homolog 1

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