SMTL ID : 5whb.1 (5 other biounits)

KRas G12V, bound to GDP and miniprotein 225-11(A30R)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.18 Å

Oligo State

hetero-1-2-mer

Ligands

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

GDP.1: 17 residues within 4Å: Chain A: A.15, V.16, G.17, V.18, G.19, K.20, S.21, A.22, F.32, N.120, K.121, D.123, L.124, S.149, A.150, K.151 Ligands: MG.2 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:G.17, A:V.18, A:G.19, A:K.20, A:S.21, A:A.22, A:N.120, A:K.121, A:K.121, A:S.149, A:A.150, A:K.151 Salt bridges: A:K.20, A:D.123 pi-Stacking: A:F.32, A:F.32

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: S.21, D.61 Ligands: GDP.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:S.21

4 x CA: CALCIUM ION(Non-covalent)

CA.3: 2 residues within 4Å: Chain A: E.67 Chain B: A.35 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Metal complexes: A:E.67, B:A.35 CA.4: 2 residues within 4Å: Chain A: E.67, Y.68 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.67, A:Y.68, H2O.2 CA.5: 1 residues within 4Å: Chain C: D.19 2 PLIP interactions: 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.19, H2O.3 CA.6: 2 residues within 4Å: Chain C: D.19, E.22 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:D.19, C:E.22

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

McGee, J.H. et al., Exceptionally high-affinity Ras binders that remodel its effector domain. J. Biol. Chem. (2018)

Release Date

2018-01-03

Peptides

GTPase KRas: A
Ras binder peptide: 225-11 (A30R): BC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

GTPase KRas

Ras binder peptide: 225-11 (A30R)

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