SMTL ID : 1yhn.1

Structure basis of RILP recruitment by Rab7

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

hetero-2-2-mer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 6 residues within 4Å: Chain A: K.21, T.22, T.40, D.63, T.64 Ligands: GTP.2 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:T.22, A:T.40, A:D.63 MG.3: 6 residues within 4Å: Chain C: K.21, T.22, T.40, D.63, T.64 Ligands: GTP.4 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:T.22, C:T.40, C:D.63

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

GTP.2: 24 residues within 4Å: Chain A: S.17, G.18, V.19, G.20, K.21, T.22, S.23, F.33, S.34, N.35, Y.37, A.39, T.40, T.64, A.65, G.66, N.125, K.126, D.128, L.129, S.155, A.156, K.157 Ligands: MG.1 22 PLIP interactions: 22 interactions with chain A Hydrogen bonds: A:G.18, A:G.20, A:K.21, A:T.22, A:T.22, A:S.23, A:S.34, A:Y.37, A:Y.37, A:T.40, A:G.66, A:N.125, A:K.126, A:K.126, A:K.157 Water bridges: A:D.128, A:D.128 Salt bridges: A:K.21, A:K.21, A:D.128 pi-Stacking: A:F.33, A:F.33 GTP.4: 24 residues within 4Å: Chain C: S.17, G.18, V.19, G.20, K.21, T.22, S.23, F.33, S.34, N.35, Y.37, A.39, T.40, T.64, A.65, G.66, N.125, K.126, D.128, L.129, S.155, A.156, K.157 Ligands: MG.3 20 PLIP interactions: 20 interactions with chain C Hydrogen bonds: C:G.18, C:G.20, C:K.21, C:T.22, C:T.22, C:S.23, C:S.34, C:Y.37, C:T.40, C:G.66, C:N.125, C:K.126, C:K.126, C:K.157 Water bridges: C:D.128 Salt bridges: C:K.21, C:K.21, C:D.128 pi-Stacking: C:F.33, C:F.33

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wu, M. et al., Structural basis for recruitment of RILP by small GTPase Rab7. Embo J. (2005)

Release Date

2005-05-17

Peptides

Ras-related protein Rab-7: AC
Rab interacting lysosomal protein: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

B
B

D
B

Ras-related protein Rab-7

Rab interacting lysosomal protein

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