SMTL ID : 2zej.1

Structure of the ROC domain from the Parkinson's disease-associated leucine-rich repeat kinase 2 reveals a dimeric GTPase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 2 residues within 4Å: Chain A: T.16 Ligands: GDP.2 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:T.16, H2O.2, H2O.3, H2O.3, H2O.3 MG.3: 2 residues within 4Å: Chain B: T.16 Ligands: GDP.4 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:T.16, H2O.3, H2O.3, H2O.3, H2O.5

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

GDP.2: 16 residues within 4Å: Chain A: N.10, T.11, G.12, S.13, G.14, K.15, T.16, T.17 Chain B: T.120, H.121, D.123, V.156, N.157, A.158, T.159 Ligands: MG.1 17 PLIP interactions: 11 interactions with chain A, 6 interactions with chain B Hydrogen bonds: A:G.12, A:S.13, A:G.14, A:K.15, A:T.16, A:T.16, A:T.17, A:T.17, B:H.121, B:N.157, B:A.158 Water bridges: A:K.15, A:T.16 Salt bridges: A:K.15, B:D.123 pi-Stacking: B:H.121, B:H.121 GDP.4: 16 residues within 4Å: Chain A: T.120, H.121, D.123, V.156, N.157, A.158, T.159 Chain B: N.10, T.11, G.12, S.13, G.14, K.15, T.16, T.17 Ligands: MG.3 20 PLIP interactions: 13 interactions with chain B, 7 interactions with chain A Hydrogen bonds: B:G.12, B:S.13, B:G.14, B:K.15, B:T.16, B:T.17, B:T.17, A:H.121, A:N.157, A:A.158 Water bridges: B:K.15, B:K.15, B:K.15, B:T.16, B:T.16 Salt bridges: B:K.15, A:D.123 pi-Stacking: A:H.121, A:H.121 pi-Cation interactions: A:H.121

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Deng, J. et al., Structure of the ROC domain from the Parkinson's disease-associated leucine-rich repeat kinase 2 reveals a dimeric GTPase. Proc.Natl.Acad.Sci.Usa (2008)

Release Date

2008-01-22

Peptides

Leucine-rich repeat kinase 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Leucine-rich repeat kinase 2