SMTL ID : 1sl5.1

Crystal Structure of DC-SIGN carbohydrate recognition domain complexed with LNFP III (Dextra L504).

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

1 x GAL- NAG- FUC- GAL: alpha-L-fucopyranose-(1-3)-[beta-D-galactopyranose-(1-4)]2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)-beta-D-galactopyranose

GAL-NAG-FUC-GAL.1: 11 residues within 4Å: Chain A: F.64, E.98, N.100, V.102, E.105, N.116, D.117, D.118, K.119, L.122 Ligands: CA.3 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.100, A:E.105, A:N.116, A:N.116, A:D.118 Water bridges: A:K.119, A:K.119, A:K.119, A:K.119, A:S.111, A:S.111, A:S.111, A:S.111, A:S.111, A:S.111

2 x CA: CALCIUM ION(Non-covalent)

CA.2: 5 residues within 4Å: Chain A: D.71, E.75, N.101, E.105, D.106 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.71, A:D.71, A:E.75, A:E.105, H2O.1 CA.3: 6 residues within 4Å: Chain A: E.98, N.100, E.105, N.116, D.117 Ligands: GAL-NAG-FUC-GAL.1 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.98, A:E.105, A:D.117, A:D.117

1 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 2 residues within 4Å: Chain A: E.75, D.106 6 PLIP interactions: 1 interactions with chain A, 5 Ligand-Water interactions Metal complexes: A:D.106, H2O.1, H2O.1, H2O.1, H2O.1, H2O.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Guo, Y. et al., Structural basis for distinct ligand-binding and targeting properties of the receptors DC-SIGN and DC-SIGNR. Nat.Struct.Mol.Biol. (2004)

Release Date

2004-06-15

Peptides

mDC-SIGN1B type I isoform: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

mDC-SIGN1B type I isoform

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