SMTL ID : 9gbp.2 (1 other biounit)

Human Angiotensin-1 converting enzyme N-domain in complex with a diprolyl inhibitor- SG3

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x 01: (2S)-1-[(2S)-2-[[(1S)-1-[(2S)-1-(4-aminophenyl)carbonylpyrrolidin-2-yl]-2-oxidanyl-2-oxidanylidene-ethyl]amino]propanoyl]pyrrolidine-2-carboxylic acid

01.1: 19 residues within 4Å: Chain A: Q.259, H.331, A.332, S.333, A.334, H.361, E.362, H.365, Y.369, R.381, E.389, K.489, F.490, H.491, T.496, Y.498, Y.501 Ligands: PG4.8, ZN.11 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:F.490, A:T.496, A:Y.501 Hydrogen bonds: A:Q.259, A:A.332, A:A.334, A:R.381 Salt bridges: A:H.331, A:H.361, A:H.365, A:K.489, A:H.491

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

PEG.2: 1 residues within 4Å: Chain A: R.295 1 PLIP interactions: 1 interactions with chain A Water bridges: A:R.295 PEG.3: 4 residues within 4Å: Chain A: V.296, E.299, I.408 Ligands: PG4.4 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:I.408

3 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.4: 5 residues within 4Å: Chain A: Q.286, G.287, W.288, H.292 Ligands: PEG.3 No protein-ligand interaction detected (PLIP) PG4.8: 8 residues within 4Å: Chain A: D.43, V.329, A.334, W.335, F.490, N.494 Ligands: 01.1, EDO.9 2 PLIP interactions: 2 interactions with chain A Water bridges: A:S.333, A:D.336 PG4.10: 6 residues within 4Å: Chain A: Q.444, G.448, T.454, D.462, Y.465, L.466 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.444, A:T.454 Water bridges: A:V.449

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

EDO.5: 6 residues within 4Å: Chain A: R.199, S.204, P.205, T.206, F.207, E.208 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:P.205, A:F.207, A:E.208 Water bridges: A:D.209 EDO.6: 4 residues within 4Å: Chain A: Y.338, V.377, S.378, R.381 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.381, A:R.381 EDO.9: 3 residues within 4Å: Chain A: D.43, W.335 Ligands: PG4.8 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.43

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

ACT.7: 4 residues within 4Å: Chain A: R.199, E.208, W.447, S.451 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:W.447 Hydrogen bonds: A:W.447 Water bridges: A:R.199, A:R.199, A:R.199, A:S.451 Salt bridges: A:R.199

1 x ZN: ZINC ION(Non-covalent)

ZN.11: 4 residues within 4Å: Chain A: H.361, H.365, E.389 Ligands: 01.1 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.12: 6 residues within 4Å: Chain A: W.201, Y.202, P.385, P.497, I.499, R.500 Ligand excluded by PLIP

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

NAG.13: 3 residues within 4Å: Chain A: N.480, T.482, H.483 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.482 Water bridges: A:N.480 NAG.14: 3 residues within 4Å: Chain A: N.416, P.524, Q.527 No protein-ligand interaction detected (PLIP) NAG.15: 4 residues within 4Å: Chain A: N.45, T.47, E.49, N.50 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.50

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.2, H2O.9, H2O.12

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gregory, K.S. et al., Molecular basis of human angiotensin-1 converting enzyme inhibition by a series of diprolyl-derived compounds. Febs J. (2025)

Release Date

2025-01-22

Peptides

Angiotensin-converting enzyme, soluble form: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Angiotensin-converting enzyme, soluble form

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