SMTL ID : 9e2p.1

Complex of Human MIRO1 and TRAK1 Binding Site-2 (L570-R613)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-mer

Ligands

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

GTP.1: 18 residues within 4Å: Chain A: P.32, R.33, G.35, K.36, T.37, S.38, F.48, E.50, V.52, P.54, S.78, N.137, K.138, D.140, S.167, A.168, K.169 Ligands: MG.2 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:R.33, A:G.35, A:K.36, A:T.37, A:S.38, A:E.50, A:N.137, A:K.138, A:A.168, A:K.169 Salt bridges: A:R.33, A:R.33, A:R.33, A:K.36, A:K.36, A:D.140 pi-Stacking: A:F.48, A:F.48 pi-Cation interactions: A:K.138 GTP.3: 16 residues within 4Å: Chain A: V.445, K.446, N.447, C.448, G.449, K.450, S.451, G.452, L.462, Q.465, K.473, D.549, L.550, T.577, C.578, N.579 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:N.447, A:C.448, A:G.449, A:K.450, A:S.451, A:S.451, A:S.451, A:G.452, A:Q.465, A:D.549, A:T.577, A:C.578 Salt bridges: A:K.446, A:K.473 pi-Cation interactions: A:K.547 GTP.6: 18 residues within 4Å: Chain C: P.32, R.33, G.35, K.36, T.37, S.38, F.48, E.50, V.52, P.54, S.78, N.137, K.138, D.140, S.167, A.168, K.169 Ligands: MG.7 19 PLIP interactions: 19 interactions with chain C Hydrogen bonds: C:R.33, C:G.35, C:K.36, C:T.37, C:S.38, C:E.50, C:N.137, C:K.138, C:A.168, C:K.169 Salt bridges: C:R.33, C:R.33, C:R.33, C:K.36, C:K.36, C:D.140 pi-Stacking: C:F.48, C:F.48 pi-Cation interactions: C:K.138 GTP.8: 16 residues within 4Å: Chain C: V.445, K.446, N.447, C.448, G.449, K.450, S.451, G.452, L.462, Q.465, K.473, D.549, L.550, T.577, C.578, N.579 15 PLIP interactions: 15 interactions with chain C Hydrogen bonds: C:N.447, C:C.448, C:G.449, C:K.450, C:S.451, C:S.451, C:S.451, C:G.452, C:Q.465, C:D.549, C:T.577, C:C.578 Salt bridges: C:K.446, C:K.473 pi-Cation interactions: C:K.547

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: K.36, T.37, P.54 Ligands: GTP.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:T.37 MG.7: 4 residues within 4Å: Chain C: K.36, T.37, P.54 Ligands: GTP.6 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:T.37

4 x CA: CALCIUM ION(Non-covalent)

CA.4: 5 residues within 4Å: Chain A: D.216, D.218, D.220, T.222, E.227 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.216, A:D.218, A:D.220, A:D.220, A:T.222 CA.5: 5 residues within 4Å: Chain A: D.336, D.338, D.340, A.342, E.347 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.338, A:D.340, A:A.342, A:E.347, A:E.347 CA.9: 5 residues within 4Å: Chain C: D.216, D.218, D.220, T.222, E.227 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:D.216, C:D.218, C:D.220, C:D.220, C:T.222 CA.10: 5 residues within 4Å: Chain C: D.336, D.338, D.340, A.342, E.347 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:D.338, C:D.340, C:A.342, C:E.347, C:E.347

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ravitch, E.E. et al., Complex of Human MIRO1 and TRAK1 Binding Site-2 (L570-R613). To Be Published

Release Date

2025-07-09

Peptides

Mitochondrial Rho GTPase 1: AC
Trafficking kinesin protein 1: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

B
B

D
D

Mitochondrial Rho GTPase 1

Trafficking kinesin protein 1