SMTL ID : 8ac7.1 (1 other biounit)

Structure of Pseudomonas aeruginosa aminopeptidase, PaAP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

monomer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 8 residues within 4Å: Chain A: H.270, D.282, N.283, E.314, E.315, D.343 Ligands: ZN.2, ACT.13 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.270, A:D.282, A:D.343, A:D.343 ZN.2: 6 residues within 4Å: Chain A: D.282, E.315, Y.440, H.441 Ligands: ZN.1, ACT.13 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:D.282, A:E.315, A:E.315, A:H.441, ACT.13 ZN.3: 4 residues within 4Å: Chain A: D.356, D.358, S.360, E.374 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.356, A:D.358, A:S.360, A:E.374, H2O.2, H2O.2 ZN.4: 4 residues within 4Å: Chain A: R.384, E.456, D.460 Ligands: ACT.8 5 PLIP interactions: 3 interactions with chain A, 1 Ligand-Ligand interactions, 1 Ligand-Water interactions Metal complexes: A:E.456, A:D.460, A:D.460, ACT.8, H2O.16

3 x NA: SODIUM ION(Non-functional Binders)

NA.5: 1 residues within 4Å: Chain A: E.209 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.209 NA.6: 2 residues within 4Å: Chain A: H.506, D.507 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.506 NA.7: 3 residues within 4Å: Chain A: D.137, E.151, D.154 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.147, A:T.147, A:E.151

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

ACT.8: 5 residues within 4Å: Chain A: R.384, E.456, I.457, D.460 Ligands: ZN.4 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.384 ACT.9: 4 residues within 4Å: Chain A: S.27, T.28, L.301, L.471 No protein-ligand interaction detected (PLIP) ACT.10: 6 residues within 4Å: Chain A: A.80, G.81, Y.82, T.256, R.257, A.298 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:Y.82, A:A.298 Hydrogen bonds: A:R.257, A:A.298 Water bridges: A:R.258, A:R.258, A:R.258, A:A.300 ACT.11: 7 residues within 4Å: Chain A: F.350, N.352, Q.386, D.453, A.454, I.457, H.458 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.350, A:I.457 Hydrogen bonds: A:N.352, A:Q.386 ACT.12: 3 residues within 4Å: Chain A: E.125, R.244, K.246 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:R.244, A:K.246 Water bridges: A:R.244 Salt bridges: A:R.244 ACT.13: 9 residues within 4Å: Chain A: H.270, D.282, E.314, E.315, D.343, Y.440, H.441 Ligands: ZN.1, ZN.2 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:H.270, A:H.441

1 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.14: 3 residues within 4Å: Chain A: D.223, V.226, A.227 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:D.223, A:V.226 Hydrogen bonds: A:D.223, A:D.223

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Harding, C.J. et al., An anti-biofilm cyclic peptide targets a secreted aminopeptidase from P. aeruginosa. Nat.Chem.Biol. (2023)

Release Date

2023-07-12

Peptides

Keratinase KP1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Keratinase KP1

Related Entries With Identical Sequence