- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.05 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x CA: CALCIUM ION(Non-covalent)
- 4 x ZN: ZINC ION(Non-covalent)
ZN.2: 7 residues within 4Å:- Chain A: D.33, D.82, N.114, H.115, H.217, H.240
- Ligands: ZN.3
4 PLIP interactions:3 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:D.82, A:H.217, A:H.240, H2O.2
ZN.3: 8 residues within 4Å:- Chain A: D.33, H.35, D.82, H.115, H.217, H.240, S.517
- Ligands: ZN.2
5 PLIP interactions:3 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:D.33, A:H.35, A:D.82, H2O.2, H2O.2
ZN.16: 7 residues within 4Å:- Chain B: D.33, D.82, N.114, H.115, H.217, H.240
- Ligands: ZN.17
4 PLIP interactions:3 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:D.82, B:H.217, B:H.240, H2O.28
ZN.17: 8 residues within 4Å:- Chain B: D.33, H.35, D.82, H.115, H.217, H.240, S.517
- Ligands: ZN.16
5 PLIP interactions:3 interactions with chain B, 2 Ligand-Water interactions- Metal complexes: B:D.33, B:H.35, B:D.82, H2O.28, H2O.28
- 16 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)
DMS.4: 7 residues within 4Å:- Chain A: F.62, V.65, Q.66, R.69, A.104, L.105, R.106
Ligand excluded by PLIPDMS.6: 3 residues within 4Å:- Chain A: P.146, S.149, Q.150
Ligand excluded by PLIPDMS.7: 4 residues within 4Å:- Chain A: Y.331, Q.334, E.335, L.336
Ligand excluded by PLIPDMS.8: 6 residues within 4Å:- Chain A: N.242, Y.278, A.279, F.280, N.496, N.500
Ligand excluded by PLIPDMS.9: 9 residues within 4Å:- Chain A: R.37, D.44, S.45, S.46, F.280, F.414, G.415, G.416, N.496
Ligand excluded by PLIPDMS.11: 6 residues within 4Å:- Chain A: M.532, V.534, I.535, Y.536, P.537
- Chain B: N.367
Ligand excluded by PLIPDMS.13: 10 residues within 4Å:- Chain A: I.141, S.142, A.143, I.151, S.152, G.153, L.154, Y.155, L.156, P.157
Ligand excluded by PLIPDMS.14: 9 residues within 4Å:- Chain A: E.540, G.541, R.542, K.544
- Chain B: H.453, E.540, G.541, K.544
- Ligands: DMS.28
Ligand excluded by PLIPDMS.18: 7 residues within 4Å:- Chain B: F.62, V.65, Q.66, R.69, A.104, L.105, R.106
Ligand excluded by PLIPDMS.20: 3 residues within 4Å:- Chain B: P.146, S.149, Q.150
Ligand excluded by PLIPDMS.21: 4 residues within 4Å:- Chain B: Y.331, Q.334, E.335, L.336
Ligand excluded by PLIPDMS.22: 6 residues within 4Å:- Chain B: N.242, Y.278, A.279, F.280, N.496, N.500
Ligand excluded by PLIPDMS.23: 9 residues within 4Å:- Chain B: R.37, D.44, S.45, S.46, F.280, F.414, G.415, G.416, N.496
Ligand excluded by PLIPDMS.25: 6 residues within 4Å:- Chain A: N.367
- Chain B: M.532, V.534, I.535, Y.536, P.537
Ligand excluded by PLIPDMS.27: 10 residues within 4Å:- Chain B: I.141, S.142, A.143, I.151, S.152, G.153, L.154, Y.155, L.156, P.157
Ligand excluded by PLIPDMS.28: 9 residues within 4Å:- Chain A: H.453, E.540, G.541, K.544
- Chain B: E.540, G.541, R.542, K.544
- Ligands: DMS.14
Ligand excluded by PLIP- 6 x GOL: GLYCEROL(Non-functional Binders)
GOL.5: 11 residues within 4Å:- Chain A: Q.85, F.90, D.118, N.119, N.183, N.368, R.371, D.519, N.523, V.524, T.527
9 PLIP interactions:9 interactions with chain A- Hydrogen bonds: A:Q.85, A:N.119, A:N.183, A:N.368, A:D.519, A:D.519
- Water bridges: A:R.371, A:R.371, A:N.523
GOL.10: 4 residues within 4Å:- Chain A: Y.93, K.323, W.324, K.327
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:K.323
GOL.12: 6 residues within 4Å:- Chain A: V.75, L.76, D.108, P.162, V.163, G.164
6 PLIP interactions:6 interactions with chain A- Hydrogen bonds: A:V.75, A:P.162, A:G.164
- Water bridges: A:R.69, A:V.75, A:P.162
GOL.19: 11 residues within 4Å:- Chain B: Q.85, F.90, D.118, N.119, N.183, N.368, R.371, D.519, N.523, V.524, T.527
9 PLIP interactions:9 interactions with chain B- Hydrogen bonds: B:Q.85, B:N.119, B:N.183, B:N.368, B:D.519, B:D.519
- Water bridges: B:R.371, B:R.371, B:N.523
GOL.24: 4 residues within 4Å:- Chain B: Y.93, K.323, W.324, K.327
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:K.323
GOL.26: 6 residues within 4Å:- Chain B: V.75, L.76, D.108, P.162, V.163, G.164
6 PLIP interactions:6 interactions with chain B- Hydrogen bonds: B:V.75, B:P.162, B:G.164
- Water bridges: B:R.69, B:V.75, B:P.162
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Bhattarai, S. et al., 2-Substituted alpha , beta-Methylene-ADP Derivatives: Potent Competitive Ecto-5'-nucleotidase (CD73) Inhibitors with Variable Binding Modes. J.Med.Chem. (2020)
- Release Date
- 2020-02-19
- Peptides
- 5'-nucleotidase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
PB
P
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.05 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x CA: CALCIUM ION(Non-covalent)
- 4 x ZN: ZINC ION(Non-covalent)
- 16 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)
- 6 x GOL: GLYCEROL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Bhattarai, S. et al., 2-Substituted alpha , beta-Methylene-ADP Derivatives: Potent Competitive Ecto-5'-nucleotidase (CD73) Inhibitors with Variable Binding Modes. J.Med.Chem. (2020)
- Release Date
- 2020-02-19
- Peptides
- 5'-nucleotidase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
PB
P