SMTL ID : 8ds5.1

X-ray structure of the MK5890 Fab - CD27 antibody-antigen complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.93 Å

Oligo State

hetero-1-1-1-mer

Ligands

6 x CD: CADMIUM ION(Non-covalent)

CD.1: 3 residues within 4Å: Chain A: R.10, E.24, H.55 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.24, A:E.24, A:H.55 CD.2: 2 residues within 4Å: Chain A: H.60, E.62 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:H.60, A:E.62 CD.3: 3 residues within 4Å: Chain B: N.137, D.169 Chain C: H.167 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:H.167 CD.4: 1 residues within 4Å: Chain B: H.188 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:H.188 CD.6: 3 residues within 4Å: Chain B: D.166 Chain C: V.166, H.167 3 PLIP interactions: 2 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:V.166, C:H.167, H2O.11 CD.7: 2 residues within 4Å: Chain C: E.10, K.19 2 PLIP interactions: 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:E.10, H2O.10

1 x 2PE: NONAETHYLENE GLYCOL(Non-covalent)

2PE.5: 13 residues within 4Å: Chain B: A.9, T.10, Q.37, P.39, G.40, Y.86, Q.99, G.100, K.102 Chain C: Q.39, G.42, Q.43, G.44 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C Hydrogen bonds: B:G.40, C:G.44

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Guelen, L. et al., Preclinical characterization and clinical translation of pharmacodynamic markers for MK-5890: a human CD27 activating antibody for cancer immunotherapy. J Immunother Cancer (2022)

Release Date

2022-09-28

Peptides

CD27 antigen: A
MK-5890 Fab light chain: B
MK-5890 Fab heavy chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

CD27 antigen

MK-5890 Fab light chain

MK-5890 Fab heavy chain