SMTL ID : 7lwb.1

Crystal Structure of phospho-Rab8a with the RH2 domain (117-165) of RILPL2

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

hetero-2-2-mer

Ligands

2 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

GTP.1: 26 residues within 4Å: Chain A: D.19, S.20, G.21, V.22, G.23, K.24, T.25, C.26, F.36, N.37, S.38, T.39, F.40, S.42, T.43, T.67, A.68, G.69, N.124, K.125, D.127, V.128, S.154, A.155, K.156 Ligands: MG.2 25 PLIP interactions: 25 interactions with chain A Hydrogen bonds: A:G.21, A:V.22, A:G.23, A:K.24, A:T.25, A:C.26, A:N.37, A:T.43, A:T.67, A:G.69, A:N.124, A:K.125, A:K.125, A:A.155, A:K.156 Water bridges: A:T.25, A:I.41, A:T.43, A:D.66, A:L.70 Salt bridges: A:K.24, A:K.24, A:D.127 pi-Stacking: A:F.36, A:F.36 GTP.3: 26 residues within 4Å: Chain C: D.19, S.20, G.21, V.22, G.23, K.24, T.25, C.26, F.36, N.37, S.38, T.39, F.40, S.42, T.43, T.67, A.68, G.69, N.124, K.125, D.127, V.128, S.154, A.155, K.156 Ligands: MG.4 26 PLIP interactions: 26 interactions with chain C Hydrogen bonds: C:G.21, C:V.22, C:G.23, C:K.24, C:T.25, C:C.26, C:N.37, C:T.43, C:T.43, C:T.67, C:G.69, C:N.124, C:K.125, C:K.125, C:A.155, C:K.156 Water bridges: C:T.25, C:T.25, C:I.41, C:D.66, C:L.70 Salt bridges: C:K.24, C:K.24, C:D.127 pi-Stacking: C:F.36, C:F.36

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: T.25, T.43, D.66 Ligands: GTP.1 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:T.25, A:T.43, H2O.1, H2O.2 MG.4: 4 residues within 4Å: Chain C: T.25, T.43, D.66 Ligands: GTP.3 4 PLIP interactions: 2 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:T.25, C:T.43, H2O.4, H2O.4

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Waschbusch, D. et al., Dual arginine recognition of LRRK2 phosphorylated Rab GTPases. Biophys.J. (2021)

Release Date

2021-03-10

Peptides

Ras-related protein Rab-8A: AC
RILP-like protein 2: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

B
D

D
D

Ras-related protein Rab-8A

RILP-like protein 2

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