SMTL ID : 4caj.1 (1 other biounit)

Crystallographic structure of the mouse SIGN-R1 CRD domain in complex with sialic acid

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.19 Å

Oligo State

homo-dimer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: E.118, N.120, N.121, E.125, D.137 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.118, A:E.125, A:D.137, A:D.137, H2O.3 CA.13: 5 residues within 4Å: Chain B: E.118, N.120, E.125, D.137 Ligands: SIA.17 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:E.118, B:E.125, B:D.137, B:D.137

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

SO4.2: 4 residues within 4Å: Chain A: E.129, S.138, L.142, K.144 Ligand excluded by PLIP SO4.3: 2 residues within 4Å: Chain A: K.150, S.151 Ligand excluded by PLIP SO4.4: 2 residues within 4Å: Chain A: L.142, K.143 Ligand excluded by PLIP SO4.7: 2 residues within 4Å: Chain A: S.104, T.105 Ligand excluded by PLIP SO4.8: 2 residues within 4Å: Chain A: S.107, S.108 Ligand excluded by PLIP SO4.9: 4 residues within 4Å: Chain A: N.38, N.67, E.71, K.149 Ligand excluded by PLIP SO4.10: 4 residues within 4Å: Chain A: S.68, D.69, E.70, R.109 Ligand excluded by PLIP SO4.11: 7 residues within 4Å: Chain A: C.25, R.26, L.27, C.28 Chain B: F.42, K.44, K.82 Ligand excluded by PLIP SO4.12: 6 residues within 4Å: Chain A: K.44, K.82 Chain B: C.25, R.26, L.27, C.28 Ligand excluded by PLIP SO4.14: 5 residues within 4Å: Chain B: E.129, N.136, S.138, L.142, K.144 Ligand excluded by PLIP SO4.15: 3 residues within 4Å: Chain B: N.38, N.67, K.149 Ligand excluded by PLIP SO4.16: 2 residues within 4Å: Chain B: L.142, K.143 Ligand excluded by PLIP SO4.18: 2 residues within 4Å: Chain B: S.104, T.105 Ligand excluded by PLIP SO4.19: 2 residues within 4Å: Chain B: S.107, S.108 Ligand excluded by PLIP SO4.20: 3 residues within 4Å: Chain B: K.93, K.94, E.95 Ligand excluded by PLIP SO4.21: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP

2 x SIA: N-acetyl-alpha-neuraminic acid(Non-covalent)

SIA.5: 3 residues within 4Å: Chain A: N.120, N.121, I.122 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.120, A:N.121, A:I.122 SIA.17: 5 residues within 4Å: Chain B: E.118, N.120, N.121, E.125 Ligands: CA.13 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.120, B:N.121

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.6: 3 residues within 4Å: Chain A: R.26, P.29, W.30 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBj   PDBsum   CATH   PLIP

Citation

Silva-Martin, N. et al., Structural Basis for Selective Recognition of Endogenous and Microbial Polysaccharides by Macrophage Receptor Sign-R1. Structure (2014)

Release Date

2014-10-15

Peptides

CD209 ANTIGEN-LIKE PROTEIN B: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

CD209 ANTIGEN-LIKE PROTEIN B

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