SMTL ID : 1oby.1

Crystal structure of the complex of PDZ2 of syntenin with a syndecan-4 peptide.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-dimer

Ligands

2 x ASN- GLU- PHE- TYR- ALA: SYNDECAN-4(Non-covalent)

ASN-GLU-PHE-TYR-ALA.1: 14 residues within 4Å: Chain A: H.17, V.18, G.19, F.20, I.21, F.22, K.23, V.31, D.60, A.64, L.67 Chain B: H.17, I.21, S.29 19 PLIP interactions: 3 interactions with chain B, 16 interactions with chain A Hydrophobic interactions: B:I.21, A:F.20, A:I.21, A:F.22, A:K.23, A:V.31, A:D.60, A:A.64, A:L.67 Hydrogen bonds: B:S.29, A:V.18, A:G.19, A:F.20, A:F.20, A:F.22, A:F.22 Salt bridges: B:H.17, A:H.17, A:K.23 ASN-GLU-PHE-TYR-ALA.2: 14 residues within 4Å: Chain A: H.17, I.21, S.29 Chain B: H.17, V.18, G.19, F.20, I.21, F.22, K.23, V.31, D.60, A.64, L.67 22 PLIP interactions: 4 interactions with chain A, 18 interactions with chain B Hydrophobic interactions: A:I.21, B:F.20, B:I.21, B:F.22, B:V.31, B:D.60, B:A.64, B:L.67 Hydrogen bonds: A:S.29, B:H.17, B:V.18, B:G.19, B:F.20, B:F.20, B:F.20, B:F.22, B:F.22 Water bridges: A:H.17, B:D.60 Salt bridges: A:H.17, B:H.17, B:K.23

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

SO4.3: 5 residues within 4Å: Chain A: P.5, R.6, L.42, H.45, M.79 3 PLIP interactions: 3 interactions with chain A Water bridges: A:P.5 Salt bridges: A:R.6, A:H.45 SO4.4: 4 residues within 4Å: Chain A: H.11, S.35, R.38, N.39 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.39 Water bridges: A:H.11, A:H.11, A:R.38, A:N.39 Salt bridges: A:H.11, A:R.38 SO4.5: 2 residues within 4Å: Chain B: N.24, K.26 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.24 Salt bridges: B:K.26

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kang, B.S. et al., Molecular Roots of Degenerate Specificity in Syntenin'S Pdz2 Domain: Reassessment of the Pdz Recognition Paradigm. Structure (2003)

Release Date

2003-07-11

Peptides

SYNTENIN 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

SYNTENIN 1

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