SMTL ID : 5jcz.3 (2 other biounits)

Rab11 bound to MyoVa-GTD

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.06 Å

Oligo State

hetero-1-1-mer

Ligands

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 8 residues within 4Å: Chain A: Y.236, G.239, A.240, T.285, L.286, P.288, L.289, M.361 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.286, A:L.289 EDO.2: 2 residues within 4Å: Chain A: K.323, N.326 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.323, A:N.326 Water bridges: A:K.250, A:K.250, A:K.323

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 5 residues within 4Å: Chain B: S.27, T.45, D.68 Ligands: GDP.4, BEF.5 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:S.27, B:T.45, H2O.10, H2O.10

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

GDP.4: 21 residues within 4Å: Chain B: D.21, S.22, G.23, V.24, G.25, K.26, S.27, N.28, F.38, N.39, L.40, S.42, K.43, N.126, K.127, D.129, S.156, A.157, L.158 Ligands: MG.3, BEF.5 22 PLIP interactions: 22 interactions with chain B Hydrogen bonds: B:G.23, B:V.24, B:G.25, B:K.26, B:S.27, B:N.28, B:N.28, B:N.39, B:S.42, B:S.42, B:S.42, B:N.126, B:K.127, B:K.127, B:A.157, B:L.158 Water bridges: B:S.27, B:K.43 Salt bridges: B:K.26, B:D.129 pi-Stacking: B:F.38, B:F.38

1 x BEF: BERYLLIUM TRIFLUORIDE ION(Non-covalent)

BEF.5: 9 residues within 4Å: Chain B: S.22, G.23, K.26, S.44, T.45, A.70, G.71 Ligands: MG.3, GDP.4 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pylypenko, O. et al., Coordinated recruitment of Spir actin nucleators and myosin V motors to Rab11 vesicle membranes. Elife (2016)

Release Date

2016-09-28

Peptides

Unconventional myosin-Va: A
Ras-related protein Rab-11A: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
I

Unconventional myosin-Va

Ras-related protein Rab-11A

Related Entries With Identical Sequence