SMTL ID : 7q25.1 (1 other biounit)

Crystal structure of Angiotensin-1 converting enzyme N-domain in complex with dual ACE/NEP inhibitor AD012

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

1 x NAG- NAG- BMA- FUC: 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-FUC.1: 6 residues within 4Å: Chain A: E.403, N.416, E.522, G.523, P.524, Q.527 1 PLIP interactions: 1 interactions with chain A Water bridges: A:E.522

1 x NAG- FUC: alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-FUC.2: 8 residues within 4Å: Chain A: E.161, V.477, T.478, R.479, N.480, T.482, H.483, L.603 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.478, A:T.478, A:T.482, A:T.482 Water bridges: A:T.478, A:T.478, A:R.479, A:N.480, A:N.480

1 x 8J9: (2~{S})-2-[[(2~{S})-1-[[(2~{S})-3-(4-hydroxyphenyl)-1-oxidanyl-1-oxidanylidene-propan-2-yl]amino]-1-oxidanylidene-hexan-2-yl]amino]-4-phenyl-butanoic acid(Non-covalent)

8J9.3: 22 residues within 4Å: Chain A: Q.259, H.331, A.332, S.333, T.358, H.361, E.362, H.365, E.389, D.393, K.432, F.435, K.489, F.490, H.491, T.496, Y.498, R.500, Y.501, F.505 Ligands: 1PE.6, ZN.14 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:T.358, A:H.361, A:F.435, A:F.490, A:T.496 Hydrogen bonds: A:Q.259, A:H.331, A:D.393, A:H.491, A:Y.498 Water bridges: A:E.431, A:K.489, A:K.489 Salt bridges: A:H.331, A:H.361, A:H.365, A:K.489, A:H.491 pi-Stacking: A:F.505

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

NAG.4: 7 residues within 4Å: Chain A: N.45, T.47, E.49, N.50, R.53, D.324, R.326 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.45, A:T.47, A:N.50, A:N.50

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.5: 5 residues within 4Å: Chain A: R.199, E.208, W.447, S.451, R.453 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:W.447 Hydrogen bonds: A:E.208 Water bridges: A:R.199, A:R.199, A:R.199, A:S.451 Salt bridges: A:R.199, A:R.453 ACT.11: 5 residues within 4Å: Chain A: E.513, D.566, Q.568, P.569, K.572 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Q.568 Hydrogen bonds: A:D.566 Salt bridges: A:K.572

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

1PE.6: 16 residues within 4Å: Chain A: V.36, S.333, A.334, W.335, Y.338, H.365, Y.369, Y.372, R.380, R.381, H.388, E.389, R.500 Ligands: 8J9.3, EDO.7, ZN.14 3 PLIP interactions: 3 interactions with chain A Water bridges: A:Y.338, A:G.382, A:R.500

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

EDO.7: 5 residues within 4Å: Chain A: W.201, R.381, P.385, R.500 Ligands: 1PE.6 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.381, A:R.500 Water bridges: A:R.500 EDO.8: 4 residues within 4Å: Chain A: R.96, D.189, G.190, F.191 No protein-ligand interaction detected (PLIP) EDO.12: 2 residues within 4Å: Chain A: Y.531, R.532 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.532 Water bridges: A:Y.531, A:R.532, A:R.532

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

PEG.9: 5 residues within 4Å: Chain A: R.295, V.296, E.299, I.408 Ligands: P33.13 No protein-ligand interaction detected (PLIP) PEG.10: 8 residues within 4Å: Chain A: F.33, A.37, W.40, A.41, F.337, N.339, D.342, R.344 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:A.37, A:D.342, A:R.344, A:R.344

1 x P33: 3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL(Non-covalent)

P33.13: 9 residues within 4Å: Chain A: Q.286, G.287, W.288, Q.289, T.291, H.292, R.295, V.296 Ligands: PEG.9 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.292 Water bridges: A:R.295

1 x ZN: ZINC ION(Non-covalent)

ZN.14: 6 residues within 4Å: Chain A: H.361, H.365, E.389, Y.501 Ligands: 8J9.3, 1PE.6 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.361, A:H.365, A:E.389

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

CL.15: 6 residues within 4Å: Chain A: W.201, Y.202, P.385, P.497, I.499, R.500 Ligand excluded by PLIP

1 x MG: MAGNESIUM ION(Non-covalent)

MG.16: 3 residues within 4Å: Chain A: E.262, N.263, D.354 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.262, A:D.354, H2O.7, H2O.11, H2O.12

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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