SMTL ID : 6naz.1

Crystal structure of DIRAS 2/3 chimera in complex with GDP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.08 Å

Oligo State

monomer

Ligands

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

GDP.1: 19 residues within 4Å: Chain A: A.15, G.16, G.17, V.18, G.19, K.20, S.21, S.22, F.32, E.34, S.35, Y.44, N.121, K.122, D.124, E.125, S.151, A.152, K.153 20 PLIP interactions: 20 interactions with chain A Hydrogen bonds: A:G.17, A:V.18, A:G.19, A:K.20, A:S.21, A:S.21, A:S.22, A:S.22, A:S.35, A:S.35, A:N.121, A:K.122, A:K.122, A:A.152, A:K.153 Salt bridges: A:K.20, A:E.34, A:D.124, A:E.125 pi-Stacking: A:F.32

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: A.140, R.141, C.145, A.146, F.147 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.140, A:F.147, A:F.147 GOL.3: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) GOL.4: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.5: 5 residues within 4Å: Chain A: S.87, T.89, K.122, E.125 Ligands: EDO.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.87, A:K.122 EDO.6: 2 residues within 4Å: Chain A: D.51, T.56 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.51 EDO.7: 4 residues within 4Å: Chain A: G.16, G.17, V.18 Ligands: EDO.5 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gilbert, Y.H. et al., Crystal structure of DIRAS 2/3 chimera in complex with GDP. To Be Published

Release Date

2019-12-18

Peptides

GTP-binding protein Di-Ras2,GTP-binding protein Di-Ras3,GTP-binding protein Di-Ras2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

GTP-binding protein Di-Ras2,GTP-binding protein Di-Ras3,GTP-binding protein Di-Ras2