SMTL ID : 6d71.1

Crystal Structure of the Human Miro1 N-terminal GTPase bound to GTP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.72 Å

Oligo State

homo-dimer

Ligands

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

GTP.1: 19 residues within 4Å: Chain A: P.19, R.20, V.21, G.22, K.23, T.24, S.25, F.35, V.39, P.41, S.65, N.124, K.125, D.127, L.128, S.154, A.155, K.156 Ligands: MG.2 31 PLIP interactions: 31 interactions with chain A Hydrogen bonds: A:R.20, A:R.20, A:V.21, A:G.22, A:K.23, A:T.24, A:S.25, A:S.25, A:N.124, A:K.125, A:K.125, A:A.155, A:K.156 Water bridges: A:R.20, A:R.20, A:K.23, A:T.24, A:E.37, A:E.37, A:P.41, A:E.66, A:E.66, A:K.156, A:K.156, A:K.156, A:K.156 Salt bridges: A:K.23, A:K.23, A:D.127 pi-Stacking: A:F.35, A:F.35 GTP.3: 19 residues within 4Å: Chain B: P.19, R.20, V.21, G.22, K.23, T.24, S.25, F.35, V.39, P.41, S.65, N.124, K.125, D.127, L.128, S.154, A.155, K.156 Ligands: MG.4 27 PLIP interactions: 27 interactions with chain B Hydrogen bonds: B:E.18, B:R.20, B:V.21, B:G.22, B:K.23, B:T.24, B:S.25, B:S.25, B:N.124, B:K.125, B:K.125, B:A.155, B:K.156 Water bridges: B:K.23, B:T.24, B:S.25, B:E.37, B:E.37, B:P.41, B:E.66, B:E.66, B:A.67 Salt bridges: B:K.23, B:K.23, B:D.127 pi-Stacking: B:F.35, B:F.35

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: T.24, P.41, D.63 Ligands: GTP.1 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:T.24, A:P.41, H2O.3, H2O.3 MG.4: 3 residues within 4Å: Chain B: T.24, P.41 Ligands: GTP.3 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:T.24, B:P.41, H2O.10, H2O.10

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Smith, K.P. et al., Insight into human Miro1/2 domain organization based on the structure of its N-terminal GTPase. J.Struct.Biol. (2020)

Release Date

2019-10-09

Peptides

Mitochondrial Rho GTPase 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Mitochondrial Rho GTPase 1