SMTL ID : 9gwt.1

crystal structure of 23ME-00610 Fab in complex with human CD200R1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.89 Å

Oligo State

hetero-1-1-1-mer

Ligands

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 2 residues within 4Å: Chain C: S.210, N.215 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 2 residues within 4Å: Chain C: E.82, N.84 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.2: 7 residues within 4Å: Chain C: M.44, I.115, V.161, A.162, W.184, N.186, T.188 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:W.184

1 x NAG- NAG- BMA- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN-MAN-MAN.3: 12 residues within 4Å: Chain C: E.35, N.37, E.66, I.68, L.69, G.71, Q.72, P.73, S.74, Y.120, R.122, H.137 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:I.68 Hydrogen bonds: C:R.122, C:R.122

1 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN.4: 3 residues within 4Å: Chain C: P.73, T.89, N.90 No protein-ligand interaction detected (PLIP)

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 3 residues within 4Å: Chain B: L.11, R.18, T.20 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.18, B:R.18, B:T.20, B:T.20

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Melero, C. et al., CD200R1 immune checkpoint blockade by the first-in-human anti-CD200R1 antibody 23ME-00610: molecular mechanism and engineering of a surrogate antibody. Mabs (2024)

Release Date

2024-10-23

Peptides

23ME-00610 Fab (heavy): A
23ME-00610 Fab (light): B
Isoform 1 of Cell surface glycoprotein CD200 receptor 1: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

C
P

23ME-00610 Fab (heavy)

23ME-00610 Fab (light)

Isoform 1 of Cell surface glycoprotein CD200 receptor 1

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