SMTL ID : 5v6t.2 (1 other biounit)

The Plexin D1 intracellular region in complex with GIPC1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.19 Å

Oligo State

hetero-2-2-mer

Ligands

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

SO4.1: 3 residues within 4Å: Chain A: S.511, E.512, Q.513 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.511, A:S.511, A:E.512, A:Q.513 SO4.2: 2 residues within 4Å: Chain A: N.140, K.142 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.140 Salt bridges: A:K.142 SO4.3: 4 residues within 4Å: Chain A: K.246, R.283, D.284, L.285 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.284, A:L.285 Salt bridges: A:K.246 SO4.4: 2 residues within 4Å: Chain A: K.216, R.218 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.216, A:R.218 SO4.5: 1 residues within 4Å: Chain A: R.524 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.524 SO4.6: 3 residues within 4Å: Chain B: S.511, E.512, Q.513 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.511, B:S.511, B:E.512, B:Q.513 SO4.7: 2 residues within 4Å: Chain B: N.140, K.142 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.140 Salt bridges: B:K.142 SO4.8: 4 residues within 4Å: Chain B: K.246, R.283, D.284, L.285 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.284, B:L.285 Salt bridges: B:K.246 SO4.9: 2 residues within 4Å: Chain B: K.216, R.218 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:K.216, B:R.218 SO4.10: 1 residues within 4Å: Chain B: R.524 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.524 SO4.11: 2 residues within 4Å: Chain C: E.94, R.156 1 PLIP interactions: 1 interactions with chain C Salt bridges: C:R.156 SO4.12: 4 residues within 4Å: Chain C: F.90, G.157, R.158, T.159 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:T.159 Salt bridges: C:R.158 SO4.13: 2 residues within 4Å: Chain D: E.94, R.156 1 PLIP interactions: 1 interactions with chain D Salt bridges: D:R.156 SO4.14: 4 residues within 4Å: Chain D: F.90, G.157, R.158, T.159 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:T.159, D:T.159 Salt bridges: D:R.158

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shang, G. et al., Structure analyses reveal a regulated oligomerization mechanism of the PlexinD1/GIPC/myosin VI complex. Elife (2017)

Release Date

2017-05-31

Peptides

Plexin-D1: AB
PDZ domain-containing protein GIPC1: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
B

D
B

Plexin-D1

PDZ domain-containing protein GIPC1

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