SMTL ID : 4pzz.1

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

monomer

Ligands

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

GDP.1: 22 residues within 4Å: Chain A: A.12, V.13, G.14, V.15, G.16, K.17, S.18, A.19, F.29, V.30, D.31, E.32, Y.33, P.35, N.117, K.118, D.120, L.121, S.146, A.147, K.148 Ligands: MG.2 26 PLIP interactions: 26 interactions with chain A Hydrogen bonds: A:A.12, A:G.14, A:V.15, A:G.16, A:K.17, A:S.18, A:A.19, A:D.31, A:D.31, A:N.117, A:K.118, A:K.118, A:S.146, A:A.147, A:K.148 Water bridges: A:K.17, A:K.17, A:S.18, A:S.18, A:Y.33, A:Y.33, A:Y.33 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: 5 residues within 4Å: Chain A: K.17, S.18, Y.33, P.35 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.1

1 x 2XO: 1H-BENZIMIDAZOL-2-YLMETHANETHIOL(Non-covalent)

2XO.3: 9 residues within 4Å: Chain A: K.6, L.7, V.8, C.40, D.55, L.57, Y.72, T.75, G.76 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:K.6, A:V.8, A:Y.72, A:T.75

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
A

K-Ras

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