SMTL ID : 7ftc.3 (3 other biounits)

SDCBP PanDDA analysis group deposition -- The PDZ domans of SDCBP in complex with Z1509711879

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.87 Å

Oligo State

monomer

Ligands

1 x YFR: 6-bromo-7-hydroxy-2,2-dimethyl-2H,4H-1,3-benzodioxin-4-one(Non-covalent)

YFR.1: 5 residues within 4Å: Chain A: H.105, G.107, F.108, I.109, V.119 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.105 Salt bridges: A:H.105 pi-Stacking: A:H.105 Halogen bonds: A:F.108

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

EDO.2: 7 residues within 4Å: Chain A: R.50, G.140, Q.141, N.142, D.189, H.190, T.191 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.142, A:D.189 Water bridges: A:R.50, A:E.137 EDO.3: 5 residues within 4Å: Chain A: I.29, D.30, F.170, I.171, H.174 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.30, A:H.174 EDO.4: 3 residues within 4Å: Chain A: P.91, F.92, P.168 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.91 Water bridges: A:R.94

1 x GLY: GLYCINE(Non-covalent)

GLY.5: 5 residues within 4Å: Chain A: K.27, S.28, S.67, S.68, R.178 9 PLIP interactions: 7 interactions with chain A, 2 Ligand-Ligand interactions Hydrogen bonds: A:S.68, G.5, G.5 Water bridges: A:K.27, A:K.27, A:D.69, A:R.178 Salt bridges: A:K.27, A:R.178

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bradshaw, W.J. et al., SDCBP PanDDA analysis group deposition. To Be Published

Release Date

2023-02-15

Peptides

Syntenin-1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Syntenin-1

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