SMTL ID : 7aw6.1 (1 other biounit)

The extracellular region of CD33 with bound sialoside analogue P22

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

monomer

Ligands

4 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 4 residues within 4Å: Chain A: N.124, G.125, S.126, H.148 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.126 Water bridges: A:N.124, A:S.126 NAG.2: 5 residues within 4Å: Chain A: L.49, L.104, G.105, N.111, S.113 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.104, A:N.111, A:S.113 Water bridges: A:D.106 NAG.3: 2 residues within 4Å: Chain A: N.220, T.237 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.220, A:Q.239 NAG.4: 3 residues within 4Å: Chain A: N.171, P.200, I.209 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.171

1 x FVP: 2-aminoethyl 5-{[(4-cyclohexyl-1H-1,2,3-triazol-1-yl)acetyl]amino}-3,5,9-trideoxy-9-[(4-hydroxy-3,5-dimethylbenzene-1-carbonyl)amino]-D-glycero-alpha-D-galacto-non-2-ulopyranonosyl-(2->6)-beta-D-galactopyranosyl-(1->4)-beta-D-glucopyranoside(Non-covalent)

FVP.5: 11 residues within 4Å: Chain A: F.32, P.57, Y.61, S.79, F.128, R.130, K.137, Y.138, S.139, Y.140, K.141 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:P.57, A:F.128, A:K.141, A:K.141 Hydrogen bonds: A:S.79, A:S.79, A:K.137, A:S.139, A:S.139 Water bridges: A:K.137, A:K.137 Salt bridges: A:R.130

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bradshaw, W.J. et al., The extracellular region of CD33 with bound sialoside analogue P22. To Be Published

Release Date

2020-12-16

Peptides

Myeloid cell surface antigen CD33: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Myeloid cell surface antigen CD33

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