SMTL ID : 4mrg.1

Crystal structure of the murine cd44 hyaluronan binding domain complex with a small molecule

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.69 Å

Oligo State

monomer

Ligands

1 x 24W: 1,2,3,4-tetrahydroisoquinolin-5-amine(Non-covalent)

24W.1: 8 residues within 4Å: Chain A: N.6, V.7, T.8, E.18, V.130, N.131, R.132 Ligands: GOL.4 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:N.6, A:R.132 Hydrogen bonds: A:V.7, A:E.18 pi-Cation interactions: A:R.132

1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.2: 7 residues within 4Å: Chain A: C.9, C.111, T.112, S.113, N.131, R.132, D.133 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.132, A:D.133 Salt bridges: A:D.133

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 7 residues within 4Å: Chain A: Y.23, C.58, Y.60, I.69, I.77, C.78, A.79 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.77, A:A.79 Water bridges: A:R.59 GOL.4: 3 residues within 4Å: Chain A: E.18, R.59 Ligands: 24W.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.59

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

SO4.5: 6 residues within 4Å: Chain A: R.10, F.15, F.37, S.39, N.102, V.114 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.39, A:N.102 Water bridges: A:R.10 Salt bridges: A:R.10

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, L.K. et al., Fragment-Based Identification of an Inducible Binding Site on Cell Surface Receptor CD44 for the Design of Protein-Carbohydrate Interaction Inhibitors. J.Med.Chem. (2014)

Release Date

2014-04-16

Peptides

CD44 antigen: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

CD44 antigen

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