- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.30 Å
- Oligo State
- homo-trimer
- Ligands
- 3 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 3 x 74Z: N-[(furan-2-yl)methyl]-5,6,7,8-tetrahydro[1]benzothieno[2,3-d]pyrimidin-4-amine(Non-covalent)
74Z.2: 19 residues within 4Å:- Chain A: T.17, Q.18, Y.19, V.35, D.37, Y.82, T.84, P.117, F.118, L.120, F.123, V.126, Y.161, T.226, G.227, A.228, S.229
- Ligands: DMS.4, DMS.5
7 PLIP interactions:7 interactions with chain A- Hydrophobic interactions: A:V.35, A:Y.82, A:Y.82, A:V.126
- Hydrogen bonds: A:G.227
- pi-Stacking: A:F.123, A:F.123
74Z.12: 19 residues within 4Å:- Chain B: T.17, Q.18, Y.19, V.35, D.37, Y.82, T.84, P.117, F.118, L.120, F.123, V.126, Y.161, T.226, G.227, A.228, S.229
- Ligands: DMS.14, DMS.15
7 PLIP interactions:7 interactions with chain B- Hydrophobic interactions: B:V.35, B:Y.82, B:Y.82, B:V.126
- Hydrogen bonds: B:G.227
- pi-Stacking: B:F.123, B:F.123
74Z.22: 19 residues within 4Å:- Chain C: T.17, Q.18, Y.19, V.35, D.37, Y.82, T.84, P.117, F.118, L.120, F.123, V.126, Y.161, T.226, G.227, A.228, S.229
- Ligands: DMS.24, DMS.25
7 PLIP interactions:7 interactions with chain C- Hydrophobic interactions: C:V.35, C:Y.82, C:Y.82, C:V.126
- Hydrogen bonds: C:G.227
- pi-Stacking: C:F.123, C:F.123
- 18 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)
DMS.3: 5 residues within 4Å:- Chain A: E.154, V.156, D.327, R.329, N.330
Ligand excluded by PLIPDMS.4: 8 residues within 4Å:- Chain A: T.17, Q.18, S.229, Y.230
- Chain C: N.259, S.291
- Ligands: 74Z.2, DMS.5
Ligand excluded by PLIPDMS.5: 5 residues within 4Å:- Chain A: T.84, A.228, S.229
- Ligands: 74Z.2, DMS.4
Ligand excluded by PLIPDMS.6: 4 residues within 4Å:- Chain A: P.29, Q.30, T.31, K.61
Ligand excluded by PLIPDMS.7: 3 residues within 4Å:- Chain A: Y.14, E.122
- Chain C: Y.289
Ligand excluded by PLIPDMS.10: 3 residues within 4Å:- Chain A: V.9, I.10, E.22
Ligand excluded by PLIPDMS.13: 5 residues within 4Å:- Chain B: E.154, V.156, D.327, R.329, N.330
Ligand excluded by PLIPDMS.14: 8 residues within 4Å:- Chain A: N.259, S.291
- Chain B: T.17, Q.18, S.229, Y.230
- Ligands: 74Z.12, DMS.15
Ligand excluded by PLIPDMS.15: 5 residues within 4Å:- Chain B: T.84, A.228, S.229
- Ligands: 74Z.12, DMS.14
Ligand excluded by PLIPDMS.16: 4 residues within 4Å:- Chain B: P.29, Q.30, T.31, K.61
Ligand excluded by PLIPDMS.17: 3 residues within 4Å:- Chain A: Y.289
- Chain B: Y.14, E.122
Ligand excluded by PLIPDMS.20: 3 residues within 4Å:- Chain B: V.9, I.10, E.22
Ligand excluded by PLIPDMS.23: 5 residues within 4Å:- Chain C: E.154, V.156, D.327, R.329, N.330
Ligand excluded by PLIPDMS.24: 8 residues within 4Å:- Chain B: N.259, S.291
- Chain C: T.17, Q.18, S.229, Y.230
- Ligands: 74Z.22, DMS.25
Ligand excluded by PLIPDMS.25: 5 residues within 4Å:- Chain C: T.84, A.228, S.229
- Ligands: 74Z.22, DMS.24
Ligand excluded by PLIPDMS.26: 4 residues within 4Å:- Chain C: P.29, Q.30, T.31, K.61
Ligand excluded by PLIPDMS.27: 3 residues within 4Å:- Chain B: Y.289
- Chain C: Y.14, E.122
Ligand excluded by PLIPDMS.30: 3 residues within 4Å:- Chain C: V.9, I.10, E.22
Ligand excluded by PLIP- 3 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
PEG.8: 5 residues within 4Å:- Chain A: S.208, S.211, D.266, S.268, E.275
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:S.208, A:S.208, A:D.266, A:D.266, A:S.268
PEG.18: 5 residues within 4Å:- Chain B: S.208, S.211, D.266, S.268, E.275
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:S.208, B:S.208, B:D.266, B:D.266, B:S.268
PEG.28: 5 residues within 4Å:- Chain C: S.208, S.211, D.266, S.268, E.275
4 PLIP interactions:4 interactions with chain C- Hydrogen bonds: C:S.208, C:S.208, C:D.266, C:S.268
- 3 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)
1PE.9: 8 residues within 4Å:- Chain A: L.194, I.195, K.196, T.197, R.328, R.329, N.330, N.331
4 PLIP interactions:4 interactions with chain A- Water bridges: A:T.197, A:N.331, A:N.331, A:N.331
1PE.19: 8 residues within 4Å:- Chain B: L.194, I.195, K.196, T.197, R.328, R.329, N.330, N.331
4 PLIP interactions:4 interactions with chain B- Water bridges: B:T.197, B:N.331, B:N.331, B:N.331
1PE.29: 8 residues within 4Å:- Chain C: L.194, I.195, K.196, T.197, R.328, R.329, N.330, N.331
4 PLIP interactions:4 interactions with chain C- Water bridges: C:T.197, C:N.331, C:N.331, C:N.331
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Imaeda, Y. et al., Structure-based design of a new series of N-(piperidin-3-yl)pyrimidine-5-carboxamides as renin inhibitors. Bioorg.Med.Chem. (2016)
- Release Date
- 2016-11-02
- Peptides
- Renin: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.30 Å
- Oligo State
- homo-trimer
- Ligands
- 3 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 3 x 74Z: N-[(furan-2-yl)methyl]-5,6,7,8-tetrahydro[1]benzothieno[2,3-d]pyrimidin-4-amine(Non-covalent)
- 18 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)
- 3 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- 3 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Imaeda, Y. et al., Structure-based design of a new series of N-(piperidin-3-yl)pyrimidine-5-carboxamides as renin inhibitors. Bioorg.Med.Chem. (2016)
- Release Date
- 2016-11-02
- Peptides
- Renin: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
A