SMTL ID : 7jv9.2 (1 other biounit)

Human CD73 (ecto 5'-nucleotidase) in complex with compound 12

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: D.12, H.14, D.61, H.94 Ligands: ZN.2, VPG.5 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.12, A:H.14, A:D.61 ZN.2: 7 residues within 4Å: Chain A: D.12, D.61, N.93, H.196, H.219 Ligands: ZN.1, VPG.5 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.61, A:H.196, A:H.219

1 x CA: CALCIUM ION(Non-covalent)

CA.3: 3 residues within 4Å: Chain A: N.189, D.213, G.274 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:N.189, A:D.213, A:D.213, A:G.274

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

NAG.4: 4 residues within 4Å: Chain A: P.230, N.287, S.288, S.289 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.289

1 x VPG: 6-chloro-N-[(2-chlorophenyl)methyl]-1-[5-O-(phosphonomethyl)-beta-D-ribofuranosyl]-1H-pyrazolo[3,4-d]pyrimidin-4-amine(Non-covalent)

VPG.5: 21 residues within 4Å: Chain A: D.12, H.14, D.61, N.93, H.94, D.97, L.160, S.161, N.162, H.219, R.330, N.366, G.368, G.369, R.371, F.393, G.423, F.476, D.482 Ligands: ZN.1, ZN.2 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:N.162 Hydrogen bonds: A:H.94, A:R.330, A:R.330, A:N.366, A:G.368, A:R.371, A:R.371, A:G.423, A:D.482, A:D.482 pi-Stacking: A:F.393, A:F.393, A:F.476, A:F.476

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.6: 4 residues within 4Å: Chain A: H.79, N.82, E.110, K.112 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.82 Water bridges: A:H.79, A:H.79 Salt bridges: A:H.79, A:K.112

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Du, X. et al., Orally Bioavailable Small-Molecule CD73 Inhibitor (OP-5244) Reverses Immunosuppression through Blockade of Adenosine Production. J.Med.Chem. (2020)

Release Date

2020-09-23

Peptides

5'-nucleotidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

5'-nucleotidase

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