SMTL ID : 8blv.2 (1 other biounit)

The PDZ domains of human SDCBP with a bound SDC4 C-terminal peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

1 x ALA- PRO- THR- ASN- GLU- PHE- TYR- ALA: Syndecan-4(Non-covalent)

ALA-PRO-THR-ASN-GLU-PHE-TYR-ALA.1: 12 residues within 4Å: Chain A: H.105, V.106, G.107, F.108, I.109, F.110, K.111, T.116, V.119, D.148, L.155 Ligands: EDO.4 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:H.105, A:F.108, A:I.109, A:F.110, A:F.110, A:V.119, A:D.148, A:L.155 Hydrogen bonds: A:V.106, A:G.107, A:F.108, A:F.108, A:F.110, A:F.110, A:K.111 Water bridges: A:D.101, A:D.101, A:T.116, A:T.116 Salt bridges: A:H.105 pi-Stacking: A:H.105

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

SO4.2: 4 residues within 4Å: Chain A: H.99, S.123, R.126, N.127 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.127 Water bridges: A:R.126 Salt bridges: A:H.99, A:R.126

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

EDO.3: 5 residues within 4Å: Chain A: N.139, S.158, G.159, T.160, V.161 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.159, A:V.161 Water bridges: A:N.139, A:T.160 EDO.4: 4 residues within 4Å: Chain A: D.101, T.103, H.105 Ligands: ALA-PRO-THR-ASN-GLU-PHE-TYR-ALA.1 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:T.103, A:H.105 Water bridges: A:D.101, A:D.101, A:D.101, A:D.101, A:D.101

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bradshaw, W.J. et al., The PDZ domains of human SDCBP with a bound SDC4 C-terminal peptide. To Be Published

Release Date

2022-12-21

Peptides

Syntenin-1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Syntenin-1

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