SMTL ID : 6e6g.1

KRAS G13D bound to GDP (K13GDP)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.93 Å

Oligo State

monomer

Ligands

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

GDP.1: 20 residues within 4Å: Chain A: A.11, D.13, V.14, G.15, K.16, S.17, A.18, F.28, V.29, D.30, Y.32, A.59, N.116, K.117, D.119, L.120, S.145, A.146, K.147 Ligands: NA.3 23 PLIP interactions: 23 interactions with chain A Hydrogen bonds: A:D.13, A:V.14, A:G.15, A:K.16, A:S.17, A:A.18, A:V.29, A:N.116, A:K.117, A:K.117, A:S.145, A:A.146, A:K.147 Water bridges: A:K.16, A:K.16, A:S.17, A:S.17, A:Y.32 Salt bridges: A:K.16, A:D.119 pi-Stacking: A:F.28, A:F.28 pi-Cation interactions: A:K.117

1 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: Q.22, L.23, N.26, K.42 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:Q.22, A:L.23, H2O.1, H2O.3, H2O.4

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

NA.3: 2 residues within 4Å: Chain A: D.13 Ligands: GDP.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.13, A:D.13 Water bridges: A:Y.32, A:Y.32

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Johnson, C.W. et al., Isoform-Specific Destabilization of the Active Site Reveals a Molecular Mechanism of Intrinsic Activation of KRas G13D. Cell Rep (2019)

Release Date

2019-07-31

Peptides

GTPase KRas: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

GTPase KRas

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