SMTL ID : 5f0k.1 (4 other biounits)

Structure of VPS35 N terminal region

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.07 Å

Oligo State

monomer

Ligands

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

EDO.1: 9 residues within 4Å: Chain A: L.35, K.36, S.39, L.89, V.90, Y.92, A.93, G.94, L.102 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.35, A:L.89 EDO.2: 2 residues within 4Å: Chain A: A.325, Q.329 No protein-ligand interaction detected (PLIP) EDO.3: 7 residues within 4Å: Chain A: I.96, G.131, V.132, Q.133, H.134, R.137 Ligands: EDO.4 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.131, A:Q.133, A:H.134, A:R.137 EDO.4: 6 residues within 4Å: Chain A: R.46, N.95, I.96, I.97, P.98 Ligands: EDO.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.46, A:I.96, A:I.97 EDO.5: 7 residues within 4Å: Chain A: Q.283, N.284, V.285, N.286, D.333, M.334, P.335 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.286, A:D.333

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 2 residues within 4Å: Chain A: K.23, Y.68 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.23

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.7: 6 residues within 4Å: Chain A: N.29, K.30, L.31, M.32, D.33, K.82 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.31, A:M.32 Salt bridges: A:K.82

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lucas, M. et al., Structural Mechanism for Cargo Recognition by the Retromer Complex. Cell (2016)

Release Date

2016-12-07

Peptides

Vacuolar protein sorting-associated protein 35: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Vacuolar protein sorting-associated protein 35

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