SMTL ID : 8qfx.1 (3 other biounits)

Human Angiotensin-1 converting enzyme N-domain in complex with the lactotripeptide IPP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

1 x ILE- PRO- PRO: ILE-PRO-PRO(Non-covalent)

ILE-PRO-PRO.1: 16 residues within 4Å: Chain A: Q.259, H.331, A.332, T.358, H.361, E.362, H.365, E.389, F.435, K.489, H.491, Y.498, Y.501 Ligands: ZN.4, PGE.7, PGE.11 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:A.332, A:T.358, A:F.435, A:Y.501 Hydrogen bonds: A:Q.259, A:E.362, A:Y.501 Salt bridges: A:H.331, A:K.489, A:H.491

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

NAG-FUC.2: 5 residues within 4Å: Chain A: E.403, N.416, P.524, Q.527 Ligands: NAG.20 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.527 Water bridges: A:Q.527, A:Q.527 NAG-FUC.3: 5 residues within 4Å: Chain A: T.478, N.480, T.482, H.483 Ligands: NAG.22 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:T.478 Water bridges: A:N.480, A:N.480

1 x ZN: ZINC ION(Non-covalent)

ZN.4: 6 residues within 4Å: Chain A: H.361, E.362, H.365, E.389 Ligands: ILE-PRO-PRO.1, ILE-PRO-PRO.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.5: 5 residues within 4Å: Chain A: Y.202, P.385, P.497, I.499, R.500 Ligand excluded by PLIP

1 x MG: MAGNESIUM ION(Non-covalent)

MG.6: 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.5, H2O.17, H2O.18

2 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.7: 10 residues within 4Å: Chain A: Y.338, H.365, R.380, R.381, H.388, E.389, R.500 Ligands: ILE-PRO-PRO.1, PEG.12, EDO.16 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.338, A:Y.338, A:Y.369, A:E.389 Water bridges: A:R.500 PGE.11: 6 residues within 4Å: Chain A: S.333, A.334, W.335, N.494, T.496 Ligands: ILE-PRO-PRO.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.495

1 x 12P: DODECAETHYLENE GLYCOL(Non-covalent)

12P.8: 8 residues within 4Å: Chain A: Q.286, G.287, W.288, H.292, R.295, V.296, E.299, I.408 No protein-ligand interaction detected (PLIP)

1 x XPE: 3,6,9,12,15,18,21,24,27-NONAOXANONACOSANE-1,29-DIOL(Non-covalent)

XPE.9: 9 residues within 4Å: Chain A: F.228, R.231, A.232, R.235, M.267, V.268, V.269, P.270, N.588 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.235, A:R.235, A:R.235 Water bridges: A:R.236

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

PEG.10: 4 residues within 4Å: Chain A: F.271, E.419, W.580, Q.584 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.418, A:T.418, A:E.419, A:Q.584, A:Q.584 PEG.12: 4 residues within 4Å: Chain A: W.201, R.381, P.385 Ligands: PGE.7 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.381 PEG.15: 3 residues within 4Å: Chain A: F.33, D.342, R.344 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.342, A:R.344, A:R.344 PEG.17: 3 residues within 4Å: Chain A: D.189, G.190, F.191 No protein-ligand interaction detected (PLIP)

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

EDO.13: 3 residues within 4Å: Chain A: Q.6, P.7, A.67 1 PLIP interactions: 1 interactions with chain A Water bridges: A:A.67 EDO.14: 4 residues within 4Å: Chain A: G.8, Q.9, F.10, K.71 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:F.10, A:F.10 EDO.16: 5 residues within 4Å: Chain A: Y.338, V.377, R.380, R.381 Ligands: PGE.7 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.338, A:R.380, A:R.381 EDO.18: 3 residues within 4Å: Chain A: R.120, I.121, P.170 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.120 EDO.19: 3 residues within 4Å: Chain A: R.199, E.208, W.447 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.199, A:R.199, A:E.208, A:W.447 Water bridges: A:G.448

4 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)(Non-functional Binders)(Post Translational Modification)

NAG.20: 5 residues within 4Å: Chain A: E.522, P.524 Ligands: NAG-FUC.2, NAG-FUC.2, BMA.21 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:P.524 Water bridges: A:E.522 NAG.22: 2 residues within 4Å: Ligands: NAG-FUC.3, NAG-FUC.3 No protein-ligand interaction detected (PLIP) NAG.23: 6 residues within 4Å: Chain A: N.45, T.47, E.49, N.50, R.326 Ligands: NAG.24 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.45, A:N.50 Water bridges: A:T.47, A:A.48, A:R.326 NAG.24: 1 residues within 4Å: Ligands: NAG.23 No protein-ligand interaction detected (PLIP)

1 x BMA: beta-D-mannopyranose(Non-covalent)

BMA.21: 2 residues within 4Å: Chain A: E.522 Ligands: NAG.20 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gregory, K.S. et al., Structural insights into the inhibitory mechanism of angiotensin-I-converting enzyme by the lactotripeptides IPP and VPP. Febs Lett. (2024)

Release Date

2023-11-22

Peptides

Angiotensin-converting enzyme, soluble form: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Angiotensin-converting enzyme, soluble form

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