SMTL ID : 7q29.1

Crystal structure of Angiotensin-1 converting enzyme C-domain in complex with dual ACE/NEP inhibitor AD013

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

1 x NAG- NAG- BMA- MAN- FUC: alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-FUC.1: 9 residues within 4Å: Chain A: S.9, V.12, E.13, N.73, T.75, I.76, L.361, P.362, L.365 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.12, A:E.13 Hydrogen bonds: A:E.13, A:E.13

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

NAG.2: 7 residues within 4Å: Chain A: N.36, T.38, E.40, T.41, I.44, D.310, R.312 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.36, A:T.38 Water bridges: A:R.312

5 x BO3: BORIC ACID(Non-covalent)

BO3.3: 4 residues within 4Å: Chain A: F.257, D.404, I.408, W.566 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.404 Water bridges: A:W.566 BO3.4: 8 residues within 4Å: Chain A: D.85, E.87, A.171, A.172, N.175, Y.177, A.180, S.183 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.87, A:E.87, A:E.87, A:A.171, A:N.175 Water bridges: A:A.172 BO3.5: 10 residues within 4Å: Chain A: Y.251, S.262, P.388, L.397, E.400, H.406, N.409, F.410, K.413 Ligands: 1PE.10 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Y.251, A:E.400 Water bridges: A:Y.251, A:E.400, A:E.400, A:H.406 BO3.6: 6 residues within 4Å: Chain A: E.126, C.316, H.317, A.318, V.344 Ligands: 8JV.8 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.126, A:A.318 Water bridges: A:E.126 BO3.12: 5 residues within 4Å: Chain A: Q.430, R.434, L.452, K.455, Y.456 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.430, A:R.434, A:K.455

1 x IMD: IMIDAZOLE(Non-covalent)

IMD.7: 8 residues within 4Å: Chain A: E.147, D.151, R.155, V.463, P.464, R.465, T.466, D.469 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.466, A:D.469

1 x 8JV: (2~{S},5~{R})-5-(4-methylphenyl)-1-[2-[[(2~{S})-1-oxidanyl-1-oxidanylidene-4-phenyl-butan-2-yl]amino]ethanoyl]pyrrolidine-2-carboxylic acid(Non-covalent)

8JV.8: 24 residues within 4Å: Chain A: Q.245, H.317, A.318, S.319, E.340, V.343, V.344, H.347, E.348, H.351, E.375, D.379, F.421, K.475, F.476, H.477, V.482, Y.484, R.486, Y.487, F.491 Ligands: BO3.6, PEG.9, ZN.14 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:V.343, A:V.344, A:F.421, A:F.476, A:V.482, A:V.482, A:Y.487 Hydrogen bonds: A:Q.245, A:H.317, A:E.348, A:H.477, A:Y.484, A:Y.484, A:Y.487 Water bridges: A:K.475, A:K.475 Salt bridges: A:H.317, A:H.347, A:H.351, A:K.475, A:H.477 pi-Stacking: A:H.347

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.9: 9 residues within 4Å: Chain A: N.30, S.319, A.320, W.321, H.351, F.355, E.375, R.486 Ligands: 8JV.8 4 PLIP interactions: 4 interactions with chain A Water bridges: A:N.30, A:N.30, A:A.320, A:D.322

1 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.10: 17 residues within 4Å: Chain A: S.248, N.249, Y.251, S.262, D.264, T.265, T.266, L.339, V.343, S.386, L.391, L.397, F.410, K.413, M.414, D.417 Ligands: BO3.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.413 Water bridges: A:D.417, A:D.417

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.11: 7 residues within 4Å: Chain A: Y.33, I.37, T.38, T.39, S.42, L.104, T.108 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.108 EDO.13: 6 residues within 4Å: Chain A: P.206, L.209, N.210, L.564, R.568, L.578 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.210, A:R.568, A:R.568

1 x ZN: ZINC ION(Non-covalent)

ZN.14: 5 residues within 4Å: Chain A: H.347, H.351, E.375, Y.487 Ligands: 8JV.8 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.347, A:H.351, A:E.375

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

CL.15: 6 residues within 4Å: Chain A: W.146, R.150, W.449, W.450, R.453, D.471 Ligand excluded by PLIP CL.16: 6 residues within 4Å: Chain A: M.187, Y.188, P.371, P.483, I.485, R.486 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Arendse, L.B. et al., Probing the Requirements for Dual Angiotensin-Converting Enzyme C-Domain Selective/Neprilysin Inhibition. J.Med.Chem. (2022)

Release Date

2022-02-16

Peptides

Angiotensin-converting enzyme: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Angiotensin-converting enzyme

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