SMTL ID : 8anr.1

Fucosylated alternate chirality linear peptide FHP30 bound to the fucose binding lectin LecB PA-IIL from Pseudomonas aeruginosa at 1.6 Angstrom resolution.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.62 Å

Oligo State

hetero-4-4-mer

Ligands

8 x CA: CALCIUM ION(Non-covalent)

CA.1: 6 residues within 4Å: Chain A: E.95, D.99, D.101, D.104 Ligands: CA.2, ZDC.3 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.95, A:E.95, A:D.99, A:D.101, A:D.104 CA.2: 7 residues within 4Å: Chain A: N.21, D.101, N.103, D.104 Chain C: G.114 Ligands: CA.1, ZDC.3 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain C Metal complexes: A:N.21, A:D.101, A:D.104, C:G.114 CA.4: 6 residues within 4Å: Chain C: E.95, D.99, D.101, D.104 Ligands: CA.5, ZDC.6 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:E.95, C:E.95, C:D.99, C:D.101, C:D.104 CA.5: 7 residues within 4Å: Chain A: G.114 Chain C: N.21, D.101, N.103, D.104 Ligands: CA.4, ZDC.6 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain A Metal complexes: C:N.21, C:D.101, C:D.104, A:G.114 CA.7: 6 residues within 4Å: Chain E: E.95, D.99, D.101, D.104 Ligands: CA.8, ZDC.9 5 PLIP interactions: 5 interactions with chain E Metal complexes: E:E.95, E:E.95, E:D.99, E:D.101, E:D.104 CA.8: 7 residues within 4Å: Chain E: N.21, D.101, N.103, D.104 Chain G: G.114 Ligands: CA.7, ZDC.9 4 PLIP interactions: 1 interactions with chain G, 3 interactions with chain E Metal complexes: G:G.114, E:N.21, E:D.101, E:D.104 CA.10: 6 residues within 4Å: Chain G: E.95, D.99, D.101, D.104 Ligands: CA.11, ZDC.12 5 PLIP interactions: 5 interactions with chain G Metal complexes: G:E.95, G:E.95, G:D.99, G:D.101, G:D.104 CA.11: 7 residues within 4Å: Chain E: G.114 Chain G: N.21, D.101, N.103, D.104 Ligands: CA.10, ZDC.12 4 PLIP interactions: 3 interactions with chain G, 1 interactions with chain E Metal complexes: G:N.21, G:D.101, G:D.104, E:G.114

4 x ZDC: 3,7-anhydro-2,8-dideoxy-L-glycero-D-gluco-octonic acid(Post Translational Modification)

ZDC.3: 14 residues within 4Å: Chain A: N.21, S.22, S.23, E.95, D.96, D.99, D.101, D.104 Chain B: K.1, K.2, L.4 Chain C: G.114 Ligands: CA.1, CA.2 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:S.23, A:D.99, A:D.104, C:G.114 Water bridges: A:S.22 ZDC.6: 14 residues within 4Å: Chain A: G.114 Chain C: N.21, S.22, S.23, E.95, D.96, D.99, D.101, D.104 Chain D: K.1, K.2, L.4 Ligands: CA.4, CA.5 5 PLIP interactions: 1 interactions with chain A, 4 interactions with chain C Hydrogen bonds: A:G.114, C:S.23, C:D.99, C:D.104 Water bridges: C:S.22 ZDC.9: 13 residues within 4Å: Chain E: N.21, S.22, S.23, E.95, D.96, D.99, D.101, D.104 Chain F: K.1, K.2 Chain G: G.114 Ligands: CA.7, CA.8 6 PLIP interactions: 5 interactions with chain E, 1 interactions with chain G Hydrogen bonds: E:S.23, E:D.99, E:D.104, E:D.104, G:G.114 Water bridges: E:S.22 ZDC.12: 13 residues within 4Å: Chain E: G.114 Chain G: N.21, S.22, S.23, E.95, D.96, D.99, D.101, D.104 Chain H: K.1, K.2 Ligands: CA.10, CA.11 6 PLIP interactions: 5 interactions with chain G, 1 interactions with chain E Hydrogen bonds: G:S.23, G:D.99, G:D.104, G:D.104, E:G.114 Water bridges: G:S.22

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Personne, H. et al., To Fold or Not to Fold: Diastereomeric Optimization of an alpha-Helical Antimicrobial Peptide. J.Med.Chem. (2023)

Release Date

2023-05-31

Peptides

Fucose-binding lectin PA-IIL: ACEG
Fucosylated mixed-chirality linear peptide FHP30: BDFH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

E
B

G
B

B
C

D
C

F
D

H
D

Fucose-binding lectin PA-IIL

Fucosylated mixed-chirality linear peptide FHP30

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