SMTL ID : 1obx.1

Crystal structure of the complex of PDZ2 of syntenin with an interleukin 5 receptor alpha peptide.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.35 Å

Oligo State

homo-dimer

Ligands

2 x ASP- SER- VAL- PHE: INTERLEUKIN 5 RECEPTOR ALPHA(Non-covalent)

ASP-SER-VAL-PHE.1: 15 residues within 4Å: Chain A: H.17, V.18, G.19, F.20, I.21, F.22, V.31, A.64, L.67 Chain B: H.17 Ligands: CO.2, ASP-SER-VAL-PHE.6, ASP-SER-VAL-PHE.6, ASP-SER-VAL-PHE.6, CO.7 16 PLIP interactions: 14 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:I.21, A:F.22, A:V.31, A:A.64, A:L.67, A:L.67 Hydrogen bonds: A:V.18, A:G.19, A:F.20, A:F.20, B:H.17 Water bridges: A:G.16, A:K.23 Salt bridges: A:H.17, A:K.23, B:H.17 ASP-SER-VAL-PHE.6: 15 residues within 4Å: Chain A: H.17 Chain B: H.17, V.18, G.19, F.20, I.21, F.22, V.31, A.64, L.67 Ligands: ASP-SER-VAL-PHE.1, ASP-SER-VAL-PHE.1, ASP-SER-VAL-PHE.1, CO.2, CO.7 16 PLIP interactions: 14 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:I.21, B:F.22, B:V.31, B:A.64, B:L.67, B:L.67 Hydrogen bonds: B:V.18, B:G.19, B:F.20, B:F.20, B:F.20, A:H.17 Water bridges: B:K.23 Salt bridges: B:H.17, B:K.23, A:H.17

4 x CO: COBALT (II) ION(Non-covalent)

CO.2: 3 residues within 4Å: Chain A: H.17 Ligands: ASP-SER-VAL-PHE.1, ASP-SER-VAL-PHE.6 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:H.17, H2O.5, H2O.5, H2O.11, H2O.11 CO.3: 1 residues within 4Å: Chain A: H.45 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.45, H2O.5, H2O.5 CO.7: 3 residues within 4Å: Chain B: H.17 Ligands: ASP-SER-VAL-PHE.1, ASP-SER-VAL-PHE.6 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:H.17, H2O.6, H2O.6, H2O.11, H2O.11 CO.8: 1 residues within 4Å: Chain B: H.45 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.45, H2O.11, H2O.11

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

SO4.4: 2 residues within 4Å: Chain A: K.59, Q.62 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.62, A:Q.62 Water bridges: A:K.59 Salt bridges: A:K.59 SO4.5: 3 residues within 4Å: Chain A: K.59, D.60, S.61 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.60, A:S.61 Water bridges: A:K.59, A:D.60, A:S.61 SO4.9: 2 residues within 4Å: Chain B: K.59, Q.62 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Q.62, B:Q.62 Water bridges: B:K.59 Salt bridges: B:K.59 SO4.10: 3 residues within 4Å: Chain B: K.59, D.60, S.61 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:D.60, B:S.61 Water bridges: B:K.59, B:D.60, B:D.60, B:S.61

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

2003-07-10

Peptides

SYNTENIN 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

SYNTENIN 1

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