SMTL ID : 3vye.3 (2 other biounits)

Human renin in complex with inhibitor 7

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-hexamer

Ligands

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

NAG.1: 3 residues within 4Å: Chain A: H.74, N.75, M.107 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.75 NAG.3: 3 residues within 4Å: Chain B: H.74, N.75, M.107 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.75 NAG.5: 3 residues within 4Å: Chain C: H.74, N.75, M.107 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.75 NAG.7: 3 residues within 4Å: Chain D: H.74, N.75, M.107 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.75 NAG.9: 3 residues within 4Å: Chain E: H.74, N.75, M.107 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.75 NAG.11: 3 residues within 4Å: Chain F: H.74, N.75, M.107 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:N.75

6 x VYE: (3S,5R)-5-[4-(2-chlorophenyl)-2,2-dimethyl-5-oxopiperazin-1-yl]-N-(3-methylbutyl)piperidine-3-carboxamide(Non-covalent)

VYE.2: 16 residues within 4Å: Chain A: Q.19, D.38, G.40, S.41, R.82, Y.83, S.84, T.85, P.118, F.119, F.124, V.127, I.137, D.226, G.228, A.229 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:Q.19, A:D.38, A:Y.83, A:Y.83, A:V.127, A:I.137 Hydrogen bonds: A:D.38, A:G.40, A:S.84, A:T.85 Salt bridges: A:D.38 pi-Stacking: A:F.124 pi-Cation interactions: A:Y.83 VYE.4: 15 residues within 4Å: Chain B: Q.19, V.36, D.38, G.40, S.41, Y.83, S.84, T.85, P.118, F.124, V.127, I.137, D.226, G.228, S.230 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:V.36, B:Y.83, B:Y.83, B:V.127, B:I.137 Hydrogen bonds: B:D.38, B:G.40, B:S.84, B:T.85 Salt bridges: B:D.38 VYE.6: 16 residues within 4Å: Chain C: Q.19, D.38, G.40, S.41, R.82, Y.83, S.84, T.85, P.118, F.119, F.124, V.127, I.137, D.226, G.228, A.229 13 PLIP interactions: 13 interactions with chain C Hydrophobic interactions: C:Q.19, C:D.38, C:Y.83, C:Y.83, C:V.127, C:I.137 Hydrogen bonds: C:D.38, C:G.40, C:S.84, C:T.85 Salt bridges: C:D.38 pi-Stacking: C:F.124 pi-Cation interactions: C:Y.83 VYE.8: 15 residues within 4Å: Chain D: Q.19, V.36, D.38, G.40, S.41, Y.83, S.84, T.85, P.118, F.124, V.127, I.137, D.226, G.228, S.230 9 PLIP interactions: 9 interactions with chain D Hydrophobic interactions: D:V.36, D:Y.83, D:Y.83, D:V.127, D:I.137 Hydrogen bonds: D:D.38, D:G.40, D:S.84 Salt bridges: D:D.38 VYE.10: 16 residues within 4Å: Chain E: Q.19, D.38, G.40, S.41, R.82, Y.83, S.84, T.85, P.118, F.119, F.124, V.127, I.137, D.226, G.228, A.229 13 PLIP interactions: 13 interactions with chain E Hydrophobic interactions: E:Q.19, E:D.38, E:Y.83, E:Y.83, E:V.127, E:I.137 Hydrogen bonds: E:D.38, E:G.40, E:S.84, E:T.85 Salt bridges: E:D.38 pi-Stacking: E:F.124 pi-Cation interactions: E:Y.83 VYE.12: 15 residues within 4Å: Chain F: Q.19, V.36, D.38, G.40, S.41, Y.83, S.84, T.85, P.118, F.124, V.127, I.137, D.226, G.228, S.230 9 PLIP interactions: 9 interactions with chain F Hydrophobic interactions: F:V.36, F:Y.83, F:Y.83, F:V.127, F:I.137 Hydrogen bonds: F:D.38, F:G.40, F:S.84 Salt bridges: F:D.38

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mori, Y. et al., Design and discovery of new (3S,5R)-5-[4-(2-chlorophenyl)-2,2-dimethyl-5-oxopiperazin-1-yl]piperidine-3-carboxamides as potent renin inhibitors. Bioorg.Med.Chem.Lett. (2012)

Release Date

2012-12-19

Peptides

Renin: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

E
A

F
B

Renin

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