SMTL ID : 4pzy.3 (2 other biounits)

Second-site screening of K-Ras in the presence of covalently attached first-site ligands

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.88 Å

Oligo State

monomer

Ligands

1 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)

GDP.1: 19 residues within 4Å: Chain A: A.12, V.13, G.14, V.15, G.16, K.17, S.18, A.19, F.29, D.31, Y.33, N.117, K.118, D.120, L.121, S.146, A.147, K.148 Ligands: MG.2 25 PLIP interactions: 25 interactions with chain A Hydrogen bonds: A:G.14, A:V.15, A:G.16, A:K.17, A:S.18, A:A.19, A:D.31, A:Y.33, A:N.117, A:K.118, A:K.118, A:A.147, A:K.148 Water bridges: A:K.17, A:S.18, A:S.18, A:S.18, A:D.31, A:Y.33, A:D.58, A:T.59 Salt bridges: A:K.17, A:D.120 pi-Stacking: A:F.29, A:F.29

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: S.18, D.58 Ligands: GDP.1 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:S.18, H2O.1, H2O.1, H2O.1, H2O.7

2 x 2XR: 2-CHLORO-1-(1H-INDOL-3-YL)ETHANONE(Non-covalent)(Covalent)

2XR.3: 9 residues within 4Å: Chain A: K.6, L.7, V.8, S.40, D.55, L.57, Y.72, T.75, G.76 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:K.6, A:V.8, A:L.57, A:Y.72, A:T.75 2XR.4: 2 residues within 4Å: Chain A: C.71, R.74 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sun, Q. et al., A method for the second-site screening of K-Ras in the presence of a covalently attached first-site ligand. J.Biomol.Nmr (2014)

Release Date

2014-09-10

Peptides

K-Ras: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

K-Ras

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