SMTL ID : 4h2g.1

Human ecto-5'-nucleotidase (CD73): crystal form II (open) in complex with adenosine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

homo-dimer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: D.33, D.82, N.114, H.217, H.240 Ligands: ZN.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.82, A:H.217, A:H.240, H2O.72 ZN.2: 5 residues within 4Å: Chain A: D.33, H.35, D.82, S.517 Ligands: ZN.1 6 PLIP interactions: 3 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.33, A:H.35, A:D.82, H2O.4, H2O.18, H2O.72 ZN.6: 6 residues within 4Å: Chain B: D.33, D.82, N.114, H.217, H.240 Ligands: ZN.7 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.82, B:H.217, B:H.240, H2O.848 ZN.7: 5 residues within 4Å: Chain B: D.33, H.35, D.82, S.517 Ligands: ZN.6 6 PLIP interactions: 3 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.33, B:H.35, B:D.82, H2O.780, H2O.794, H2O.848

2 x ADN: ADENOSINE(Non-covalent)

ADN.3: 9 residues within 4Å: Chain A: R.351, N.387, G.389, G.390, R.392, F.414, G.444, F.497, D.503 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:R.351, A:N.387, A:R.392, A:R.392, A:G.444, A:D.503 Water bridges: A:R.351, A:R.351, A:D.503 pi-Stacking: A:F.414, A:F.414, A:F.497, A:F.497 ADN.8: 9 residues within 4Å: Chain B: R.351, N.387, G.389, G.390, R.392, F.414, G.444, F.497, D.503 13 PLIP interactions: 13 interactions with chain B Hydrogen bonds: B:R.351, B:N.387, B:R.392, B:R.392, B:G.444, B:D.503 Water bridges: B:R.351, B:R.351, B:D.503 pi-Stacking: B:F.414, B:F.414, B:F.497, B:F.497

2 x CA: CALCIUM ION(Non-covalent)

CA.4: 3 residues within 4Å: Chain A: N.210, D.234, G.295 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:N.210, A:D.234, A:G.295, H2O.26, H2O.506 CA.9: 3 residues within 4Å: Chain B: N.210, D.234, G.295 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:N.210, B:D.234, B:G.295, H2O.802, H2O.1282

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

CL.5: 4 residues within 4Å: Chain A: G.219, F.220, E.221, S.241 Ligand excluded by PLIP CL.10: 4 residues within 4Å: Chain B: G.219, F.220, E.221, S.241 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Knapp, K. et al., Crystal Structure of the Human Ecto-5'-Nucleotidase (CD73): Insights into the Regulation of Purinergic Signaling. Structure (2012)

Release Date

2012-11-28

Peptides

5'-nucleotidase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

5'-nucleotidase

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